Multiz Alignments of 100 Vertebrates
 

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Alignment block 1 of 211 in window, 81843492 - 81843602, 111 bps 
B D                     Human  aa----a-t--gcaaga-----g---cca----------tgatcagtcatggcgacact-g---caggcg
B D                     Chimp  aa----aat--gcaaga-----g---cca----------tgatcagtcatggcgacact-g---caggcg
B D                   Gorilla  aa----aat--gcaaga-----g---ccg----------tgatcagtcatggcgacact-g---caggcg
B D                 Orangutan  aa----aat--gcaaga-----g---cca----------tgatcagtcatggcaacact-g---caggtg
B D                    Gibbon  aa----aat--gcaaga-----g---cca----------tgatcagtcatggcaacact-g---cacatg
B D                    Rhesus  aa----aat--gcaaga-----g---cca----------tgatcagtcatggcaacact-g---cacgcg
B D       Crab-eating macaque  aa----aat--gcaaga-----g---cca----------tgatcagtcatggcaacact-g---cacgcg
B D                    Baboon  aa----aat--gcaaga-----g---cca----------tgatcagtcatggcaacact-g---cacgcg
B D              Green monkey  aa----aat--gcaaga-----g---cca----------tgatcagtcatggcaacact-g---cacgcg
B D                  Marmoset  aa----aat--gcaaga-----g---cca----------tgttcagtcatggcaacact-g---catgcg
B D           Squirrel monkey  aa----aat--gcaaga-----g---cca----------cgttcagtcacggcaacact-g---cacgcg
B D                  Bushbaby  gg----gat--g-aaga-----g---cca----------tgctca-ttgtggcaatgctgg---catgag
           Chinese tree shrew  ga----aat--gcagga-----------c----------tgccccaccgcggcagccctgg---cacgag
B D                  Squirrel  ga----att--ttaaga-----a---cca----------tgctcagtcatggccacactgg---cacaac
       Lesser Egyptian jerboa  aa----att--gcaaaa-----g---cca----------tgct--accatggcaatactgg---cacaag
                 Prairie vole  aa----tct--acaaaa-----g---cca----------tgct--gccacggcaacactag---tgcaag
B D           Chinese hamster  aa----act--acaaaa-----g---cca----------tgct--gccgtggcaacactag---tacaag
               Golden hamster  aa----attaaaaaaaa-----g---cca----------tgct--gccgtggcaacactag---cacaac
B D                     Mouse  aa----act--ac-aaa-----g---cca----------tgct--accatggcaacactag---gacaag
B D                       Rat  aa----act--acaaaa-----g---cca----------tgct--gtcatggcaacactag---tacaag
B D            Naked mole-rat  aa----act--gcaaga-----g---cca----------tgctc-gccctggccacactgg---cacgag
B D                Guinea pig  aa----aat--gcaaga-----g---cca----------tgctc-accccgggcacactgg---cac-tg
                   Chinchilla  aa----aat--gcaaga-----g---cca----------tgctc-atcctggccacactgg---cacaca
             Brush-tailed rat  aa----aat--gcaaga-----g---cca----------tgctc-atcctggccacactgg---catgag
B D                      Pika  ---------------------------------------------acctggggcaca------------g
B D                       Pig  -------at--gcagga-----g---cca----------tattcagtcatggcaacactggcctcaggtg
B D                    Alpaca  ac----gaa--gcagga-----g---cct----------cactctgcccaggcaacactg----caggat
               Bactrian camel  aa----gaa--tcagga-----g---cct----------cgctctccccaggcaacactg----caggat
B D                   Dolphin  ac----gat--gcagga-----g---cca----------cgctccaccatggcaacaccg----catgag
                 Killer whale  ac----gat--gcagga-----g---cca----------cgctccaccatggcaacaccg----catgag
             Tibetan antelope  ac----gat--gcagga-----g---cca----------cgctccaccatggcaataccg----catgag
B D                       Cow  at----gat--gcagga-----g---cca----------cgctccaccatggcaataccg----catgag
B D                     Sheep  ac----gat--gcagga-----g---cca----------cgctccaccatggcaataccg----catgag
                Domestic goat  ac----gat--gcagga-----g---cca----------cgctccaccaaggcaataccg----catgag
B D                     Horse  ac----tat--gcaaga-----g---cca----------cgctcagtcaaggcaacactgg---cgcgag
B D          White rhinoceros  g------ag--gcaaga-----g---cca----------cactcagtcatgg---cactgg---tgtgag
B D                       Cat  ac----acc--gggaga-----a---cca----------cgctcagccatggcaacaccgg---catgtg
B D                       Dog  ac----aat--gtgaga-----c---cca----------tgctcagtcacggcaacaccgg---caccag
B D                   Ferret   ac----aac--acgaga-----c---cca----------cgctccgtcac-gcgttaccag---caggag
B D                     Panda  ac----aac--atgaga-----c---cca----------tgctccgtcatagcgacaccaa---tgggag
               Pacific walrus  ac----aac--atgaga-----g---cca----------cactccgtcacggcgacaccgg---cacgag
                 Weddell seal  ac----aac--gtgaga-----c---cca----------cgctccgtcacggcgacaccgg---catgag
             Black flying-fox  ac----gct--gcggga-----g---cca----------cactcggtcacagcaacatggg---tgtgag
B D                   Megabat  ac----gct--gcggga-----g---cca----------cactcggtcacagcaacatggg---tgtgag
                Big brown bat  gc----agc--atagga-----a---cct----------tg--cagtccccgcaacac------tgccag
         David's myotis (bat)  gc----agc--gtggga-----a---cct----------tg---agtcccggcaacac------tgccag
B D                  Microbat  gc----agc--gtggga-----a---cct----------ca--cagtcccggcaacac------tgccag
B D                  Hedgehog  gc----ag-----gaga-----g---ctc----------tgtccagacacacccacacca----cactag
B D                  Elephant  aa----aat--g--aaa-----g---cca----------tgct--gttgtggccacactgg---cacgag
          Cape elephant shrew  aa----aat--a-taga-----a---ccc----------tgctcagtcatggctggactgg---cccaag
B D                   Manatee  aa----aac--aaaaga-----g---cca----------cgctcgcttgtggccacactgg---cacaag
             Cape golden mole  aa----aat--g-aaga-----g---ccg----------tgctttgttgtgaccacactgg---caggag
B D                    Tenrec  ag----aac--a-aaaa-----g---cct----------agctcagttggggccatactgg---cccgag
                     Aardvark  aa----aac--gaaaga-----g---cca----------cactcagccgtggccacactgg---cacgag
B D                 Armadillo  ag----aag--g-caag-----g---ccg----------ccgtcaggca-ggccgacctgg----ggaag
B D                   Opossum  a------at--acaagg-----------a----------cattcagccatgctaacactgg---tatgaa
B D           Tasmanian devil  a------at--acaagg-----------a----------cattcagccataataacactgg---tgtgaa
B D                  Platypus  g------at--ccaagg-----gtcaccc----------cgtttatccacattaacactgg---tgagga
  D               Rock pigeon  acgcag----------g-----g---aaa----------catctgcccg-----------g---tgccca
  D              Saker falcon  aagcagagg--ggaaag-----g---aaa----------catctggcca-----------g---catgaa
  D          Peregrine falcon  aagcagagg--ggaaag-----g---aaa----------catctggcca-----------g---catgaa
  D       Collared flycatcher  aaggagaag--ggaaag-----g---aaa----------cgtctggctg-----------g---catgaa
  D    White-throated sparrow  aaggagaag--ggaaag-----g---aaa----------cgtctggcta-----------g---catgaa
B D       Medium ground finch  aaggagaag--ggaaag-----g---aaa----------cgtctggcta-----------g---catgaa
           Tibetan ground jay  aaggagaag--ggaaag-----g---aaa----------catccagcta-----------g---catgaa
B D                Budgerigar  aagcagaag--ggaaag-----g---aaa----------catctggcca-----------g---catgaa
  D                    Parrot  aagcagaag--ggaaag-----g---aaa----------catctggcca-----------g---cacgaa
  D             Scarlet macaw  aagcagaag--ggaaag-----g---aaa----------catctggcca-----------g---catgaa
  D              Mallard duck  aagtacagg--gaaaag-------------------------ctggcct-----------a---catgaa
B D                   Chicken  aagcagaag--ggaaaggaaatg---aaa----------tgtctagcga-----------g---catgaa
B D                    Turkey  aagcagaag--ggaaaggaaatg---aaa----------tgtctagcga-----------g---catgaa
B D        American alligator  aagcaagtg--gggctg-----c---ctc----------gctagcccca-----------a---cagtga
  D           Green seaturtle  aagggaaag--gcaaat-----g---aga----------cctttagccat-gcaatgat-g---tgttaa
  D            Painted turtle  aagcaaaag--gcaaat-----g---aga----------ccttcagccat-ataataat-g---tgttaa
  D  Chinese softshell turtle  aagggatca--gccagg-----g---acacgtcgcccacccgccaccccc-aagagact-g---catttg
B D                    Lizard  aaggggaag--caagac-----t---atg----------cagt-----------------g---agttaa
B D                     Shrew  ======================================================================
             Star-nosed mole  ======================================================================
      Yellowbelly pufferfish  ----------------------------------------------------------------------
B D                      Fugu  ----------------------------------------------------------------------
B D               Stickleback  ======================================================================
         Pundamilia nyererei  ======================================================================
                 Zebra mbuna  ======================================================================
       Burton's mouthbreeder  ======================================================================
         Princess of Burundi  ======================================================================
B D                    Medaka  ======================================================================
B D                Coelacanth  ======================================================================
                 Spotted gar  ======================================================================
B D                   Wallaby  ======================================================================
          Southern platyfish  ======================================================================
    Mexican tetra (cavefish)  ======================================================================
B D                 Zebrafish  ======================================================================
B D              Nile tilapia  ======================================================================
B D                 Tetraodon  ======================================================================
B D              Atlantic cod  ======================================================================
B D               Zebra finch  ======================================================================
B D             X. tropicalis  ======================================================================

                        Human  -gt----a----c-t-gagt--gacc--atgt----------ccag----tc--------cg--------
                        Chimp  -gt----a----c-t-gagt--gacc--atgt----------ccag----tc--------cg--------
                      Gorilla  -gt----a----c-t-gagt--gacc--atgt----------ccag----tc--------cg--------
                    Orangutan  -gt----g----c-t-gagt--gacc--gtgt----------ccag----tc--------tg--------
                       Gibbon  -gt----g----c-t-gagt--gacc--gtgt----------ccag----tc--------tg--------
                       Rhesus  -gt----g----c-t-gagt--gacc--gtgt----------ccag----tc--------tg--------
          Crab-eating macaque  -gt----g----c-t-gagt--gacc--gtgt----------ccag----tc--------tg--------
                       Baboon  -gt----g----c-t-gagt--gacc--gtgt----------ccag----tc--------tg--------
                 Green monkey  -gt----g----c-t-gagt--gacc--gtgt----------ccag----tc--------tg--------
                     Marmoset  -gt----g----c-t-gact--gact--gtgt----------ccag----cc--------tg--------
              Squirrel monkey  -gt----g----c-t-cact--ggcc--gtgt----------ccag----cc--------tg--------
                     Bushbaby  -gg----g----c-a-gagc--gact--atgt----------ccag----ac--------tg--------
           Chinese tree shrew  -gt----g----g-a-tggt--ggct--gcgt----------ccgg----cc--------tg--------
                     Squirrel  -at----gcatgg-a-gagc--gacc--gt------------atcc----ag--------tg--------
       Lesser Egyptian jerboa  -gt----g----g-a-gagt--gacc--atgt----------ccag----tc--------ca--------
                 Prairie vole  -gtaggca----g-a-gagt--gact--gtg-----------tcca----ca--------ca--------
              Chinese hamster  -gt----a----g-a-gagt--gact--at------------ccaa----cc--------ca--------
               Golden hamster  -gt----a----g-a-gagt--gact--at------------ccaa----ct--------ca--------
                        Mouse  -gt----g----g-a-gagt--gacc--ac------------a-ga----cc--------ca--------
                          Rat  -gt----ggagag-a-gaga--gagc--at------------acga----cc--------ca--------
               Naked mole-rat  -gt----ggatgg-gagagt--ggcc--gtgt----------cccg----cc--------tg--------
                   Guinea pig  -at----gaatgg-g-gagt--ggtc--atgt----------ccag----gc--------ta--------
                   Chinchilla  -gt----aaatgg-g-gagagtggct--gtgt----------ccag----cc--------tg--------
             Brush-tailed rat  -gt----gaatgg-g-gagtg-ggct--gtgt----------ccag----cc--------tg--------
                         Pika  -gt---------g-g-gagg--gact--gtgg----------ccag----cc--------tg--------
                          Pig  -ac----a------g---tg--accc---tgt----------ccag-----c--------ag--------
                       Alpaca  -gt----g------a---gg--ggcc---cgc----------ccag----cc--------ca--------
               Bactrian camel  -gt----g------a---gg--ggcc---cgc----------ccag----cc--------ca--------
                      Dolphin  -gt----g------a---gg--gacc---tgt----------ccag----ac--------cg--------
                 Killer whale  -gt----g------a---gg--gacc---tgt----------ccag----ac--------cg--------
             Tibetan antelope  -gt----g------a---gg--gacc---cgt----------ccag----cc--------tt--------
                          Cow  -gt----g------a---gg--gacc---cgt----------ccag----cc--------tt--------
                        Sheep  -gt----g------a---gg--gacc---cgt----------ccag----cc--------tt--------
                Domestic goat  -gt----g------a---gg--gacc---cgt----------ccag----cc--------tt--------
                        Horse  -ct----g------a-gagt--gacc---cat----------ccag----cc--------tg--------
             White rhinoceros  -gt----g------a-aagt--gact---cat----------ccag----cc--------tggcagcctc
                          Cat  -ga----g------a-gtgg-----c---tgt----------ccag----gc--------cg--------
                          Dog  -gt----g------g-gagg--gacc---cgt----------ccag----cc--------cg--------
                      Ferret   -ag----g------a-gagg--gacc---cgg----------ccgg----cc--------tg--------
                        Panda  -gt----g------a-gagg--gacc---cgt----------ccag----cc--------cg--------
               Pacific walrus  -gt----g------a-gagg--gagc---cgt----------ccag----cc--------tg--------
                 Weddell seal  -gt----g------a-gagg--gacc---cct----------ccag----cc--------tg--------
             Black flying-fox  -gg----g------g---gt--gacc---cgt----------ccag----ca--------tg--------
                      Megabat  -gg----g------g---gt--gacc---cgt----------ccgg----ca--------tg--------
                Big brown bat  -gt----g------a---gg--gacc-----a----------tcag----cc--------tg--------
         David's myotis (bat)  -gt----g------a---gt--gact-----g----------tcag----cc--------tg--------
                     Microbat  -gt----g------a---gt--gacc-----g----------tcag----cc--------tg--------
                     Hedgehog  -gt----g------a-gagg--gacc---ctg----------tcca----tc--------ct--------
                     Elephant  -gt----g----g-a-gagt--ggct--gtgc----------ccag----cc--------tg--------
          Cape elephant shrew  -ga----g--------acat--agcc--acgg----------ctag----gc--------ca--------
                      Manatee  -gt----g----g-a-cagt--gtcc--gtgc----------ccag----cc--------tg--------
             Cape golden mole  -gt----g--------gtgt--ggcc--gggc----------ccag----cc--------tg--------
                       Tenrec  -gt----g--------aag---------aagg----------ccag----cc--------ca--------
                     Aardvark  -gc----a----g-a-gagt--ggct--gtgc----------ccag----cc--------tg--------
                    Armadillo  -gt----g----g-g-gagt--ggct--gcac----------cctg------------------------
                      Opossum  -gg----g------a-aagg--gtccttgcat----------ttag----ct--------ta--------
              Tasmanian devil  -gg----g--------gaga--gtccttgcat----------ttag----ct--------ta--------
                     Platypus  -gg----g----g-a-gagt--ccct--------------------------------------------
                  Rock pigeon  -ga----g----a-a-gcgc--ccgc--aca----------gccct----gc--------tg--------
                 Saker falcon  --a----g----a-a-gcac--cttc--atatacagcctccaccag----gg--------tg--------
             Peregrine falcon  --a----g----a-a-gcac--cttc--atatacagcctccaccag----gg--------tg--------
          Collared flycatcher  -ga----g----a-a-gcac--cttc--acatacacctttccccag----ga--------ag--------
       White-throated sparrow  -ga----g----a-a-gcac--cttc--acatacacctttccccag----ga--------ag--------
          Medium ground finch  -ga----g----a-a-gcac--cttc--acatacacctttccccag----ga--------ag--------
           Tibetan ground jay  -ga----g----a-a-gcac--cttc--acatacacctttccccag----ga--------ag--------
                   Budgerigar  -ga----g----a-a-gcac--ctgc--atatagacctctcaccag----gc--------tg--------
                       Parrot  -ga----g----a-a-gcac--ctgc--acatacacctctcaccag----gc--------tg--------
                Scarlet macaw  -ga----g----a-a-gcac--ctgc--atatacacccctcactag----gc--------tg--------
                 Mallard duck  -ga----g----a-a-gcac--cttc--ataaccaccttccaccaggactga--------tg--------
                      Chicken  -ga----g----a-a-gcac--cttc--acatccacctttcaccaggactga--------tg--------
                       Turkey  -ga----g----a-a-gcac--cctc--acatccacctttcaccaggactga--------tg--------
           American alligator  -gg----a----a-a-ctcc--cccc--acat-----------tag----ga--------gg--------
              Green seaturtle  agg----g----g-a-acat--ctgc--ccactcccctgcccctgg----ga----cccctg--------
               Painted turtle  agg----g----gaa-acat--cggc--ccactccctcgcccctgg----ga----cccctg--------
     Chinese softshell turtle  tgt----g----c-----------cc--ccgcccccatgcactgaa----gg----gtggca--------
                       Lizard  -ga----g----g-a----------c--ttaccccaccccgctcat----gcattttccttt--------
                        Shrew  ======================================================================
              Star-nosed mole  ======================================================================
       Yellowbelly pufferfish  ----------------------------------------------------------------------
                         Fugu  ----------------------------------------------------------------------
                  Stickleback  ======================================================================
          Pundamilia nyererei  ======================================================================
                  Zebra mbuna  ======================================================================
        Burton's mouthbreeder  ======================================================================
          Princess of Burundi  ======================================================================
                       Medaka  ======================================================================
                   Coelacanth  ======================================================================
                  Spotted gar  ======================================================================
                      Wallaby  ======================================================================
           Southern platyfish  ======================================================================
     Mexican tetra (cavefish)  ======================================================================
                    Zebrafish  ======================================================================
                 Nile tilapia  ======================================================================
                    Tetraodon  ======================================================================
                 Atlantic cod  ======================================================================
                  Zebra finch  ======================================================================
                X. tropicalis  ======================================================================

                        Human  g--c-tc------cgtccc---------------------tccc-acacg---ggggacaag-------c
                        Chimp  g--c-tc------cgtccc---------------------tccc-acaca---ggggacaag-------c
                      Gorilla  g--c-tc------cgtccc---------------------tccc-acaca---ggggacaag-------c
                    Orangutan  g--c-tc------agtccc---------------------tccc-acacg---ggggacaag-------c
                       Gibbon  g--c-tc------cgtccc---------------------tccc-acacg---ggggacaag-------c
                       Rhesus  g--c-tc------catccc---------------------tccc-gcacg---ggggacaag-------c
          Crab-eating macaque  g--c-tc------catccc---------------------tcct-gcacg---ggggacaag-------c
                       Baboon  g--c-tc------tgtccc---------------------tccc-gcacg---ggggacaag-------c
                 Green monkey  g--c-tc------cgtccc---------------------tccc-gcacg---ggggacaag-------c
                     Marmoset  g--c-tc------catccc---------------------tccc-acaca---ggggacaag-------t
              Squirrel monkey  g--c-tc------catccc---------------------tccc-acac-----gggacaag-------c
                     Bushbaby  g--c-ct------catccc---------------------tccctgcaca---gtggacagg-------t
           Chinese tree shrew  g--c-cc------tgctcc---------------------tccc-ctac----ggggacaca-------a
                     Squirrel  g--a-tc------tgtccc---------------------tccc--caca---cagggcaca-------g
       Lesser Egyptian jerboa  g--a-tc------ca-ccc---------------------tccc--caca---cagggcaga-------g
                 Prairie vole  g--g-tc------catcgc----------------------tcc--caca---gagggcagg-------a
              Chinese hamster  g--a-tc------caccac---------------------ttcc--taca---tagggcagg-------a
               Golden hamster  g--a-cc------caccac---------------------ttcc--taca---cagggcagg-------a
                        Mouse  g--a-gc------ca-cac---------------------ttcc--tacc---cagggcagg-------a
                          Rat  g--a-ac------catcgc---------------------ctcc--tgcg---cagggcagg-------a
               Naked mole-rat  g--a-tc------cacccc---------------------tccccagaca---ggagacagg-------a
                   Guinea pig  g--a-tc------catccc---------------------tcct--gaca---ggagacaga-------a
                   Chinchilla  g--a-tc------catccc---------------------tccc--aaca---g-gtacagg-------a
             Brush-tailed rat  g--a-tc------cacccc---------------------tcct--aaca---gaaggtggg-------a
                         Pika  g--c-tc------cacc-------------------------cc--ca------ggggcagg-------g
                          Pig  g--a-tt------ggtctt---------------------atcc--c-ta---gag----gg-------g
                       Alpaca  g--t-ccccacaggggacc---------------------ccca--caca---ggggacagg-------a
               Bactrian camel  a--t-ccccacaggggacc---------------------ccca--caca---ggggacagg-------a
                      Dolphin  g--c-ct------ggtcct---------------------gccc--cacac-gggggacagg-------a
                 Killer whale  g--c-ct------ggtcct---------------------gccc--cacac-aggggacagg-------a
             Tibetan antelope  g--c-ct------ggttct---------------------gccc--caca---gagggcagg-------a
                          Cow  g--c-ct------ggttct---------------------gccc--caca---gagggcagg-------a
                        Sheep  g--c-ct------ggttct---------------------gccc--caca---gagggcagg-------a
                Domestic goat  g--c-ct------ggttct---------------------gccc--caca---gagggcagg-------a
                        Horse  g--c-tt------ggtccc---------------------tccc--ca-gc-aggggacacg-------a
             White rhinoceros  g--c-tt------ggtccc---------------------tccc--ca-gg-cggggacatg-------a
                          Cat  g--c-cg------ggcccc---------------------tccc--cgagc-aggggacagg-------a
                          Dog  g--c-cc------agcccc---------------------tccc--cacac-aggggacagg-------a
                      Ferret   g--c-cc------ggcgcc---------------------t-cc--cacac-aggggacagg-------a
                        Panda  g--c-cc------ggcccc---------------------tccc--cacgc-aggggacagg-------a
               Pacific walrus  g--c-cc------ggcccc---------------------tccc--catgc-aggggacagg-------a
                 Weddell seal  g--c-cc------ggcccc---------------------gccc--cacgc-aggggacagg-------a
             Black flying-fox  g--c-tt------gggccc---------------------tttc--cacac-agggcacatc-------g
                      Megabat  g--c-tt------gggccc---------------------tttc--cacac-agggcacatc-------g
                Big brown bat  g--c-cc-----------------------------------cc--cgcac-aggggacacc-------t
         David's myotis (bat)  g--c-cc------g----c---------------------cgcc--cccac-aggggacgcc-------t
                     Microbat  g--c-cc------g----c---------------------cgcc--cccac-aggggacgcc-------t
                     Hedgehog  g--c-cc------tgtccc---------------------tctc--tgcac-agacaacagg-------a
                     Elephant  g--g-ct------gttcctg--------------------tccc--catgt-tgggtatgga-------c
          Cape elephant shrew  g--g-ct------g-tcccg--------------------tccc--caca--ggggaacagg-------t
                      Manatee  g--g-tg------g--------------------------ttcc--catgt-cggggacaga-------c
             Cape golden mole  a--g-ct------gctcctg--------------------tccc--ctgg--gggggatggaggtggagt
                       Tenrec  g--g-ct------gtccctg--------------------gccc--tggg--gggagaagga-------c
                     Aardvark  g--g-ct------gcttccg--------------------cccc--tctg---ggggacggg-------c
                    Armadillo  ---g-cg------ggtcccc--------------------ttcc--caggc-agggagcagg--------
                      Opossum  g--tggt------tgctcc---------------------tccc--caaactgaggaatggt-------t
              Tasmanian devil  g--tggt------tgctcc---------------------tccc--cagattgaggaatggt-------c
                     Platypus  g--g-tt------tatccc---------------------ggcc---------gggggcggg-------g
                  Rock pigeon  c--c-tg------cagcccgcgcccgctc-----------gccc-------------gaggc-------c
                 Saker falcon  atgc-ct------aggcttactgcctctt-----------cccc--tgcatatactgaaggc-------t
             Peregrine falcon  atgc-ct------aggcttactgcctctt-----------cccc--tgcatatactgaaggc-------t
          Collared flycatcher  c--c-at------cagccctctgcc-----------------cc--tacatatactgaaggc-------c
       White-throated sparrow  c--c-at------cagccttctgcc-----------------cc--cacatctgctgaaggc-------c
          Medium ground finch  c--c-at------cagccttctgcc-----------------cc--cacatgtactgaaggc-------c
           Tibetan ground jay  c--c-at------cagccctctgct-----------------cc--tacatatactgaaggc-------c
                   Budgerigar  c--c-at------cagcctactgcctctt------------gcc--tacctacactgaaggc-------c
                       Parrot  c--c-at------gagcttactgcctctt------------gcc--tacctacacggaaggc-------c
                Scarlet macaw  c--c-at------gagcctactgcctctt------------gcc--tacctacactgaaggc-------c
                 Mallard duck  c--a-gt------cagcctaatccttctt-----------ccct--tacagatgaagg------------
                      Chicken  c--a-gt------cagcctattgcctctt-----------cccc--tacatactttga------------
                       Turkey  c--a-gt------cagcctattgcctctt-----------cccc--tacatactttga------------
           American alligator  c--ctgc------tagcttggtggtccca-------------ca--cacacacacacaaaac-------a
              Green seaturtle  a--a-gt------caggttagtggttttc-------------ct--cccacagaaggatggc--------
               Painted turtle  a--a-gt------cagggtagtggttttc-------------cc--cacactgaaggatggc--------
     Chinese softshell turtle  a--t-gc------cagg-cagagg-----------------------acctgaggggggggc--------
                       Lizard  c--c-ct------gggcactatggtggtcaacttaggactggcc--ttgatgttggaatggc-------c
                        Shrew  ======================================================================
              Star-nosed mole  ======================================================================
       Yellowbelly pufferfish  ----------------------------------------------------------------------
                         Fugu  ----------------------------------------------------------------------
                  Stickleback  ======================================================================
          Pundamilia nyererei  ======================================================================
                  Zebra mbuna  ======================================================================
        Burton's mouthbreeder  ======================================================================
          Princess of Burundi  ======================================================================
                       Medaka  ======================================================================
                   Coelacanth  ======================================================================
                  Spotted gar  ======================================================================
                      Wallaby  ======================================================================
           Southern platyfish  ======================================================================
     Mexican tetra (cavefish)  ======================================================================
                    Zebrafish  ======================================================================
                 Nile tilapia  ======================================================================
                    Tetraodon  ======================================================================
                 Atlantic cod  ======================================================================
                  Zebra finch  ======================================================================
                X. tropicalis  ======================================================================

                        Human  ---ttctccgagg-aggcct
                        Chimp  ---ttctccgagg-aggcct
                      Gorilla  ---ttctccgagg-aggcct
                    Orangutan  ---ttctccaagg-aggcct
                       Gibbon  ---ttctccgagg-aggcct
                       Rhesus  ---ttctccaaag-aagcct
          Crab-eating macaque  ---ttctccaaag-aagcct
                       Baboon  ---ttctccaaag-aagcct
                 Green monkey  ---ttctccaaag-aagcct
                     Marmoset  ---gtctccaagg-aggcct
              Squirrel monkey  ---gtctccaagg-aggcct
                     Bushbaby  ---gtttccaagg-aggcct
           Chinese tree shrew  ---gtctccaggg-aggccg
                     Squirrel  -gggtcttcaggg-aggctt
       Lesser Egyptian jerboa  ----gtctcaagg-aggccc
                 Prairie vole  ----gtctcaggg-aggcct
              Chinese hamster  aggcgtttcgggg-cggcct
               Golden hamster  aggagttctgggg-aggcct
                        Mouse  agaaggctcaggg-aggtct
                          Rat  aggggtctcaggg-aggtct
               Naked mole-rat  ---ggctccaggg-aggcct
                   Guinea pig  ---gactgcaggg-aggcct
                   Chinchilla  ---gactccaggg-aggcct
             Brush-tailed rat  ---gactccaggg-aggcct
                         Pika  ----gctccaggg-aggcgt
                          Pig  ---gtctccaggg-ggaccc
                       Alpaca  ---gtctccaggg-aggccc
               Bactrian camel  ---gtctccaggg-aggccc
                      Dolphin  ---gtc-ccaggg-aggcct
                 Killer whale  ---gtc-ccaggg-aggcct
             Tibetan antelope  ---gtc-ccaggg-aggcct
                          Cow  ---gtc-ccaggg-aggcct
                        Sheep  ---gtc-ccaggg-aggcct
                Domestic goat  ---gtc-ccaggg-aggcct
                        Horse  ---gtctcctggg-aggccc
             White rhinoceros  ---gtctccaggg-aggccc
                          Cat  ---gtctccgggg-agccac
                          Dog  ---gtctccaggg-aggccc
                      Ferret   ---gtctccaggg-aggccc
                        Panda  ---gtctccaggg-aggccc
               Pacific walrus  ---gtctccaggg-aggccc
                 Weddell seal  ---gtctccaggg-agg---
             Black flying-fox  ---gtctccaggg-tgaccc
                      Megabat  ---gtctccaggg-tggccc
                Big brown bat  ---gtctccaggg-cggccc
         David's myotis (bat)  ---gtctccaggg-cggccc
                     Microbat  ---gtctccaggg-cggc--
                     Hedgehog  ---gtctccaggg-aggccc
                     Elephant  ------tcccagg-aggccc
          Cape elephant shrew  ------tccccgg--ggcct
                      Manatee  ------tcccagggaggccc
             Cape golden mole  ------tccaggg-ag----
                       Tenrec  ------cccaggg-aggct-
                     Aardvark  ------tcccagg--ggcc-
                    Armadillo  --------------aggccc
                      Opossum  ---gattccaggg-aggact
              Tasmanian devil  ---aattctagag-aggact
                     Platypus  ---gggatgagcg-gggggc
                  Rock pigeon  ---gagtggaggg-a-----
                 Saker falcon  ---gattccaggg-aagaac
             Peregrine falcon  ---gattccaggg-aagaac
          Collared flycatcher  ---agccccaggg-aag---
       White-throated sparrow  ---agctccaggg-aagaac
          Medium ground finch  ---agctccaggg-aagaac
           Tibetan ground jay  ---agccccaggg-aagaac
                   Budgerigar  ---aattccaggg-aagagc
                       Parrot  ---aactccaggg-aagagc
                Scarlet macaw  ---aattccaggg-aagagc
                 Mallard duck  -----ctccaggg-aagaac
                      Chicken  -----ttccaggg-aagaac
                       Turkey  -----ttccaggg-aagaac
           American alligator  ---agtgacaaag-cccagc
              Green seaturtle  ---aattccaggg-aagaag
               Painted turtle  ---aattccaggg-aagaac
     Chinese softshell turtle  ---gcttctctgg-gcccac
                       Lizard  -----cctcaaac-gagaac
                        Shrew  ====================
              Star-nosed mole  ====================
       Yellowbelly pufferfish  --------------------
                         Fugu  --------------------
                  Stickleback  ====================
          Pundamilia nyererei  ====================
                  Zebra mbuna  ====================
        Burton's mouthbreeder  ====================
          Princess of Burundi  ====================
                       Medaka  ====================
                   Coelacanth  ====================
                  Spotted gar  ====================
                      Wallaby  ====================
           Southern platyfish  ====================
     Mexican tetra (cavefish)  ====================
                    Zebrafish  ====================
                 Nile tilapia  ====================
                    Tetraodon  ====================
                 Atlantic cod  ====================
                  Zebra finch  ====================
                X. tropicalis  ====================

Inserts between block 1 and 2 in window
  D Chinese softshell turtle 126bp
B D                   Lizard 7bp

Alignment block 2 of 211 in window, 81843603 - 81843659, 57 bps 
B D                     Human  ggcca-agg-------tgga-acaaata------c-----cctgatgt-cgaaaaat---gtct-aaaa-
B D                     Chimp  ggcca-agg-------tgga-acaaata------c-----cctgatgt-cgaaaaat---gtct-aaaa-
B D                   Gorilla  ggcca-agg-------tgga-acaaata------c-----cctgatgt-cgaaaaat---gtct-aaaa-
B D                 Orangutan  ggcca-agg-------tgga-acaaata------c-----cctgatgt-cgaaaaat---gtct-aaaa-
B D                    Gibbon  ggcca-agg-------tgga-acaaata------c-----cctgatgt-cgaaaaat---gtct-aaaa-
B D                    Rhesus  ggcca-agg-------tgga-acaaata------c-----cctgatgt-cgaaaaat---gtct-aaaa-
B D       Crab-eating macaque  ggcca-agg-------tgga-acaaata------c-----cctgatgt-cgaaaaat---gtct-aaaa-
B D                    Baboon  gccca-agg-------tgga-acaaata------c-----cctgatgt-cgaaaaat---gtct-aaaa-
B D              Green monkey  gacca-agg-------tgga-acaaata------c-----cctgatgt-cgaaaaat---gtct-aaaa-
B D                  Marmoset  ggcca-agg-------tgga-acaaata------c-----cctgatgt-cgaaaaac---gtct-aaaa-
B D           Squirrel monkey  ggcca-atg-------tgga-acaaata------c-----cctgatgt-cgaaaaac---gtct-aaaa-
B D                  Bushbaby  ggcca-agg-------tgga-acaaaca------c-----cctgatgt-cagaaaat---gtct-aaaa-
           Chinese tree shrew  gg-----------------------ata------c-----cctgatgt-tgagaact---gtct-agga-
B D                  Squirrel  ggcca-agg-------tgga-gcaaata------c-----cctgatgt-cgaaaaat---gtct-aaaa-
       Lesser Egyptian jerboa  a-gcagcgg-------tgga-acaaata------c-----cctgatgt-cgaaaaat---gtct-caa--
                 Prairie vole  t-cca-cgg-------tgga-acaggtg------------------------------------------
B D           Chinese hamster  t-cca-ctg-------tgga-acaagcg------t-----ctcgatgt-caaaagct---gtct-aaaag
               Golden hamster  t-cca-cag-------tgga-acaagtg------t-----ctcgatgt-caaaagct---gtct-caaag
B D                     Mouse  g-cca-tgg-------tgaa-acaagta------g-----ctggacat-gaagacat---gtct-aaaag
B D                       Rat  g--cg-tgg-------tgga-acaagta------c-----ctcgacat-ggagacat---gtca-ggaag
B D            Naked mole-rat  ggcca-cgg-------caga-acaaata------c-----cctgacat-cgaaaaat---atct-caaa-
B D                Guinea pig  ggcca-acg-------caga-acaaata------c-----cctgacac-tgagaagt---atct-caaa-
                   Chinchilla  ggcca-agg-------caga-acaaata------c-----cctgacat-tgaaaagc---atct-caaa-
             Brush-tailed rat  ggcca-agg-------caga-acaaata------c-----cctgacat-tgaaaact---atct-caaa-
B D                      Pika  g--------------------acaagtg------t-----ccggacat-aggaaaat---gcct-gaaa-
B D                       Pig  -acca-agt-------tgga-atgaaca------c-----ctgaaggt-tcaaaagt---gtct-aaaa-
B D                    Alpaca  ggcca-agg-------tgga-acagaca------g-----cctgatgt-ccaaaaat---gtct-aaaa-
               Bactrian camel  ggcca-agg-------tgga-aaagaca------g-----cctgatgt-ccaaaaat---gtct-aaaa-
B D                   Dolphin  ggcca-agg-------tgga-acagacg------c-----cctgactt-ccaaaaac---atct-aaaa-
                 Killer whale  ggcca-agg-------tgga-acagacg------c-----cctgactt-ccaaaaac---atct-aaaa-
             Tibetan antelope  ggcca-agg-------tgga-gcacaca------c-----cctgacgt-ccaaaaat---gtct-aaaa-
B D                       Cow  ggcca-agg-------tgga-gcacaca------c-----cctgacgt-ccaaaaat---gtct-aaaa-
B D                     Sheep  ggcca-agg-------tgga-gcacaca------c-----cctgacgt-ccaaaaat---gtct-aaaa-
                Domestic goat  ggcca-agg-------tgga-gcacaca------c-----cctgacgt-ccaaaaat---gtct-aaaa-
B D                     Horse  agcca-agg-------tgga-acagaca------c-----cctgacgt-ccaaaaat---gtct-aaaa-
B D          White rhinoceros  gacca-agg-------tgga-acaggca------c-----cctgacgt-ccaaaaat---gtct-caaa-
B D                       Cat  ggcca-gag-------tgga-acagaca------c-----cctgacgt-ccaaaaat---gtct-aaaa-
B D                       Dog  ggcca-gag-------tgga-acagaca------c-----cctgacgt-ccaaaaat---gtct-caaa-
B D                   Ferret   ggcca-cag-------tggg-aca----------c-----cctgacgt-ccaaaaat---gtct-caaa-
B D                     Panda  ggcca-cag-------tgga-acagaca------c-----cctgacgt-ccagaaat---gtct-caaa-
               Pacific walrus  ggcca-cag-------tggg-acagaca------c-----cctgacgt-ccaaaaat---gtct-caaa-
                 Weddell seal  ----------------------------------c-----cctgacgt-ccaaaaat---gtct-caaa-
             Black flying-fox  gacca-agg-------tgagcagaga--------c-----cccgatgt-ccaaaaat---gtcc-aaga-
B D                   Megabat  gacca-agg-------tgagcagaga--------c-----cccgatgt-ccaaaaat---gtcc-aaga-
                Big brown bat  ggcca-ggg-------tggg-accga--------a-----cccgccgt-cccaaaat---gcct-aaaa-
         David's myotis (bat)  ggcca-ggg-------tgcg-accga--------a-----cccgatgt-cccaaaat---gcct-aaaa-
B D                  Microbat  ---------------------accga--------a-----cccgatgt-cccaaaat---gcct-aaaa-
B D                  Hedgehog  agcca-agg-------tggaaacagaca------c-----cctgatat-ccagaaa----gtct--aaa-
B D                  Elephant  agcca-agg---------ag-aaacaca------c-----cctgacac-cgaaaaac---gttt-aatg-
          Cape elephant shrew  ggcca-ggg-------------gacaca------t-----cctgacac-caaaacat---gttt-aggg-
B D                   Manatee  ggccg-agg---------ag-aaacaca------c-----cctgacac-cggaaaac---gtgt-aaca-
             Cape golden mole  ---------------------aaacacg------c-----cctgacgc-ccacacgt---gtct-agga-
B D                    Tenrec  ---------------------ggccacgcagagac-----cctgacac-cga-aaac---gccc-agcg-
                     Aardvark  -----------------------acacc------c-----cccaccag-cag-aaac---gttt-agca-
B D                 Armadillo  ggcaa-ggc-------caca-acccaca------c-----cctgacgt-cca-gaac---gccc-acaa-
B D                   Opossum  agcta-aaa-------ggtg-agtgaca------ttgctatttgacac-cctgacatgtagttg-aaat-
B D           Tasmanian devil  agcta-aaa-------ggtg-agcgaca------ctgccatccgacactcttgacat---gttg-aatt-
B D                  Platypus  ttccg-ggg-------aaga-gcggatt------a---------aggt----gagcc---tgcc-ggga-
  D               Rock pigeon  --gcg-ggg-------agca-gcgcggg------c-----c----------------------c-agaa-
  D              Saker falcon  -agca-gag-------tcca-ttaagga------c-----cctgccag------------gtgc-agaa-
  D          Peregrine falcon  -agca-gag-------tcca-ttaagga------c-----cctgccag------------gtgc-agaa-
  D       Collared flycatcher  -------------------------gga------c-----cctgccag------------gtgc-agaa-
  D    White-throated sparrow  -agct-gac-------acca-ttaagga------c-----cctgccag------------gtgc-agaa-
B D       Medium ground finch  -agct-gac-------acca-ttaagga------c-----cctgccag------------gtgc-agaa-
           Tibetan ground jay  -agct-gac-------acta-ttaagga------c-----cctgccag------------gtgc-agaa-
B D                Budgerigar  -tgct-gag-------agca-ttaagga------c-----cctgccag------------gtgc-agaa-
  D                    Parrot  -tgct-gag-------agca-ttaagga------c-----cctgtcag------------gtgc-agaa-
  D             Scarlet macaw  -tgct-gag-------agca-ttaagga------c-----cctgtcag------------gtgc-agaa-
  D              Mallard duck  -agct-gag-------acca-ataagga------a-----cctgccag------------gtggtaaaa-
B D                   Chicken  -agct-gag-------acaa-atgagaa------c-----cctgacag------------gtgg-agaa-
B D                    Turkey  -agct-gag-------acaa-gtaagaa------c-----cctgacag------------gtgg-agaa-
B D        American alligator  -tg-t-gac-------agtg-gtcaggg------c-----cctgctgg------------gttg-a----
  D           Green seaturtle  -agct-gag---ac--aata-gttaggg------c-----tctgccag------------gtgg-agag-
  D            Painted turtle  -agct-gagacaac--aatg-gttaggg------c-----actgccag------------gtgg-agag-
B D                    Lizard  -agct-gag---acagaata-accaaga------c-----cctgctgg------------gcca-acag-
B D                     Shrew  ======================================================================
             Star-nosed mole  ======================================================================
      Yellowbelly pufferfish  ----------------------------------------------------------------------
B D                      Fugu  ----------------------------------------------------------------------
B D               Stickleback  ======================================================================
         Pundamilia nyererei  ======================================================================
                 Zebra mbuna  ======================================================================
       Burton's mouthbreeder  ======================================================================
         Princess of Burundi  ======================================================================
B D                    Medaka  ======================================================================
B D                Coelacanth  ======================================================================
                 Spotted gar  ======================================================================
B D                   Wallaby  ======================================================================
          Southern platyfish  ======================================================================
    Mexican tetra (cavefish)  ======================================================================
B D                 Zebrafish  ======================================================================
B D              Nile tilapia  ======================================================================
B D                 Tetraodon  ======================================================================
B D              Atlantic cod  ======================================================================
  D  Chinese softshell turtle  ======================================================================
B D               Zebra finch  ======================================================================
B D             X. tropicalis  ======================================================================

                        Human  -------atc----ccacagacgg
                        Chimp  -------atc----ccacaaacgg
                      Gorilla  -------atc----ccacaaatgg
                    Orangutan  -------atc----ccacaaatgg
                       Gibbon  -------atc----ccacaaatgg
                       Rhesus  -------atc----ccacaaatgg
          Crab-eating macaque  -------atc----ccacaaatgg
                       Baboon  -------atc----ccacaaatgg
                 Green monkey  -------atc----ccacaaatgg
                     Marmoset  -------atc----ccacaaatgg
              Squirrel monkey  -------atc----ccacaaatgg
                     Bushbaby  -------atc----ccacagatgg
           Chinese tree shrew  -------gtc----c--cagaggg
                     Squirrel  -------gtc----tcacagatg-
       Lesser Egyptian jerboa  -------gtc----ccacagatgg
                 Prairie vole  ----------------aaagatga
              Chinese hamster  atgcaatgtc----tcacagatga
               Golden hamster  atgcaatgtc----tcacaaatga
                        Mouse  atgaaatgcc----tcacagatga
                          Rat  atgaaacatc----tcacagacga
               Naked mole-rat  -------gtc----ccacagatgc
                   Guinea pig  -------gtc----ccacggatgt
                   Chinchilla  -------gtc----ccacagatgg
             Brush-tailed rat  -------gct----ccacggatga
                         Pika  -------atc----ccacaggtgg
                          Pig  -------atc----tcacagatgg
                       Alpaca  -------atc----ccacaggtgg
               Bactrian camel  -------atc----ccacagatac
                      Dolphin  -------atc----ccacagatgg
                 Killer whale  -------atc----ccacagatgg
             Tibetan antelope  -------atc----ccacagacgg
                          Cow  -------atc----ccacagacgg
                        Sheep  -------atc----ccacagacgg
                Domestic goat  -------atc----ccacagacgg
                        Horse  -------atc----ccacagatgg
             White rhinoceros  -------atc----ccacagatgg
                          Cat  -------atc----ccaccgatgg
                          Dog  -------atc----ccacaaatgg
                      Ferret   -------atc----ccacaaatgg
                        Panda  -------atc----ccacaaatgg
               Pacific walrus  -------atc----ccacaaatgg
                 Weddell seal  -------atc----ccacagatgg
             Black flying-fox  -------atc----ccacagatgg
                      Megabat  -------atc----tcacagatgg
                Big brown bat  -------atc----ccacagacga
         David's myotis (bat)  -------atc----tcacagacaa
                     Microbat  -------atc----tcacagacga
                     Hedgehog  -------atc----ccacagatgg
                     Elephant  -------atc----ccacaggcgg
          Cape elephant shrew  -------atc----ccacaactgg
                      Manatee  -------atc----ccacagggag
             Cape golden mole  -------atc----ccacaggca-
                       Tenrec  -------accctgtccacaggcag
                     Aardvark  -------atc--------------
                    Armadillo  -------acc----ccacaggagg
                      Opossum  -------atc--------aaatgt
              Tasmanian devil  -------atc--------aaatat
                     Platypus  -------acc----cgacagagga
                  Rock pigeon  -------atc--agctacagg-tt
                 Saker falcon  -------atc--aactatgggctt
             Peregrine falcon  -------atc--aactatgggctt
          Collared flycatcher  -------atc--aattaggggctt
       White-throated sparrow  -------atc--aattaggggctt
          Medium ground finch  -------atc--aattaggggctt
           Tibetan ground jay  -------atc--aattaagggctt
                   Budgerigar  -------atc--agctgcaggctg
                       Parrot  -------atc--agctacaggctg
                Scarlet macaw  -------atc--agctacaggctg
                 Mallard duck  -------atc--agctacaggctt
                      Chicken  -------at-----ctacaggc--
                       Turkey  -------at-----ctacagac--
           American alligator  ---------c--aactatgaactt
              Green seaturtle  ---------t--agttatggcctt
               Painted turtle  ---------t--agttatggcctt
                       Lizard  ---------c--agctcatgac--
                        Shrew  ========================
              Star-nosed mole  ========================
       Yellowbelly pufferfish  ------------------------
                         Fugu  ------------------------
                  Stickleback  ========================
          Pundamilia nyererei  ========================
                  Zebra mbuna  ========================
        Burton's mouthbreeder  ========================
          Princess of Burundi  ========================
                       Medaka  ========================
                   Coelacanth  ========================
                  Spotted gar  ========================
                      Wallaby  ========================
           Southern platyfish  ========================
     Mexican tetra (cavefish)  ========================
                    Zebrafish  ========================
                 Nile tilapia  ========================
                    Tetraodon  ========================
                 Atlantic cod  ========================
     Chinese softshell turtle  ========================
                  Zebra finch  ========================
                X. tropicalis  ========================

Inserts between block 2 and 3 in window
               Big brown bat 8bp
        David's myotis (bat) 7bp
B D                 Microbat 40bp
B D                 Elephant 5bp
B D                  Manatee 5bp
            Cape golden mole 5bp
B D                   Tenrec 5bp
                    Aardvark 1bp
B D                Armadillo 5bp
B D                  Opossum 1bp
B D          Tasmanian devil 21bp

Alignment block 3 of 211 in window, 81843660 - 81843663, 4 bps 
B D                     Human  a---a-------------t-t
B D                     Chimp  a---a-------------t-t
B D                   Gorilla  a---a-------------t-t
B D                 Orangutan  a---a-------------t-t
B D                    Gibbon  a---a-------------t-t
B D                    Rhesus  a---a-------------t-t
B D       Crab-eating macaque  a---a-------------t-t
B D                    Baboon  a---a-------------t-t
B D              Green monkey  a---a-------------t-t
B D                  Marmoset  a---a-------------t-t
B D           Squirrel monkey  a---a-------------t-t
B D                  Bushbaby  aatta-------------t-t
           Chinese tree shrew  a---a-------------tct
       Lesser Egyptian jerboa  a---a-------------t-t
                 Prairie vole  c---a-------------t-t
B D           Chinese hamster  a---a-------------t-t
               Golden hamster  a---a-------------t-t
B D                     Mouse  a---a-------------t-g
B D                       Rat  a---a-------------t-c
B D            Naked mole-rat  a---attgt---------t-t
B D                Guinea pig  a---atcat---------t-t
                   Chinchilla  a---attgt---------t-t
             Brush-tailed rat  a---atcgt---------t-t
B D                      Pika  a---gtt-----------t-c
B D                       Pig  a---a-------------c-t
B D                    Alpaca  a---a-------------t-a
               Bactrian camel  a---a-------------t-a
B D                   Dolphin  a---a--tt---------t-t
                 Killer whale  a---a-ttt---------t-t
             Tibetan antelope  a---a-------------t-t
B D                       Cow  a---a-------------t-t
B D                     Sheep  a---a-------------t-t
                Domestic goat  a---a-------------t-t
B D                     Horse  a---a--tt---------t-t
B D          White rhinoceros  a---a---t---------t-t
B D                       Cat  c---a-------------t-g
B D                       Dog  a---a-------------t-t
B D                   Ferret   a---a-------------t-t
B D                     Panda  a---a-------------t-t
               Pacific walrus  a---a-------------t-t
                 Weddell seal  a---a-------------t-t
             Black flying-fox  a---a---a---------t-t
B D                   Megabat  a---a---a---------t-t
B D                  Hedgehog  a---a-------------t-t
B D                   Opossum  ------------------t-t
B D           Tasmanian devil  --------gattttttttt-t
B D                  Platypus  ----------------ggc-t
  D               Rock pigeon  ---------------tagt--
  D              Saker falcon  ---------------tagt--
  D          Peregrine falcon  ---------------tagt--
  D       Collared flycatcher  ---------------tagt--
  D    White-throated sparrow  ---------------tagt--
B D       Medium ground finch  ---------------tagt--
           Tibetan ground jay  ---------------tagt--
B D                Budgerigar  ---------------tagt--
  D                    Parrot  ---------------tagt--
  D             Scarlet macaw  ---------------tagt--
  D              Mallard duck  ---------------tagt--
B D                   Chicken  ------------------t--
B D                    Turkey  ------------------t--
B D        American alligator  ---------------cagg--
  D           Green seaturtle  ---------------taga--
  D            Painted turtle  ---------------taga--
B D                    Lizard  ------------------a--
B D                    Tenrec  =====================
B D                  Elephant  =====================
         Cape elephant shrew  ---------------------
B D                     Shrew  =====================
        David's myotis (bat)  =====================
             Star-nosed mole  =====================
B D                  Squirrel  ---------------------
B D                 Armadillo  =====================
B D                   Manatee  =====================
B D                  Microbat  =====================
               Big brown bat  =====================
            Cape golden mole  =====================
      Yellowbelly pufferfish  ---------------------
B D                      Fugu  ---------------------
                    Aardvark  =====================
B D               Stickleback  =====================
         Pundamilia nyererei  =====================
                 Zebra mbuna  =====================
       Burton's mouthbreeder  =====================
         Princess of Burundi  =====================
B D                    Medaka  =====================
B D                Coelacanth  =====================
                 Spotted gar  =====================
B D                   Wallaby  =====================
          Southern platyfish  =====================
    Mexican tetra (cavefish)  =====================
B D                 Zebrafish  =====================
B D              Nile tilapia  =====================
B D                 Tetraodon  =====================
B D              Atlantic cod  =====================
  D  Chinese softshell turtle  =====================
B D               Zebra finch  =====================
B D             X. tropicalis  =====================

Inserts between block 3 and 4 in window
B D                  Opossum 2bp
B D          Tasmanian devil 2bp
B D                 Platypus 1bp

Alignment block 4 of 211 in window, 81843664 - 81843666, 3 bps 
B D                     Human  -tt---c
B D                     Chimp  -tt---c
B D                   Gorilla  -tt---c
B D                 Orangutan  -tt---c
B D                    Gibbon  -tt---c
B D                    Rhesus  -tt---c
B D       Crab-eating macaque  -tt---c
B D                    Baboon  -tt---c
B D              Green monkey  -tt---c
B D                  Marmoset  -tt---c
B D           Squirrel monkey  -tt---c
B D                  Bushbaby  -tt---a
           Chinese tree shrew  -tt---t
B D                  Squirrel  ------g
       Lesser Egyptian jerboa  -ttctca
                 Prairie vole  -tg---a
B D           Chinese hamster  -tg---a
               Golden hamster  -tg---a
B D                     Mouse  -cg---a
B D                       Rat  -tg---a
B D            Naked mole-rat  -ta---a
B D                Guinea pig  -ta---a
                   Chinchilla  -tt---a
             Brush-tailed rat  -ta---a
B D                      Pika  -ca---t
B D                       Pig  -ct---c
B D                    Alpaca  -tt---t
               Bactrian camel  -tt---t
B D                   Dolphin  -tt---t
                 Killer whale  -tt---t
             Tibetan antelope  -tt---t
B D                       Cow  -tt---t
B D                     Sheep  -tt---c
                Domestic goat  -tt---c
B D                     Horse  -tt---t
B D          White rhinoceros  -tt---t
B D                       Cat  -tt---c
B D                       Dog  -tt---t
B D                   Ferret   -tc---t
B D                     Panda  -tt---t
               Pacific walrus  -tt---t
                 Weddell seal  -tt---t
             Black flying-fox  -tt---t
B D                   Megabat  -tt---t
B D                  Hedgehog  -tt---c
B D                     Shrew  -tt---c
B D                  Elephant  -ct----
B D                   Manatee  -ct----
             Cape golden mole  -ct----
B D                    Tenrec  -ct----
                     Aardvark  -ct----
B D                 Armadillo  -tt----
B D                   Opossum  -tt---a
B D           Tasmanian devil  -tt---t
B D                  Platypus  -tt---c
  D               Rock pigeon  tgg----
  D              Saker falcon  ttt----
  D          Peregrine falcon  ttt----
  D       Collared flycatcher  ttc----
  D    White-throated sparrow  ttt----
B D       Medium ground finch  ttt----
           Tibetan ground jay  ttt----
B D                Budgerigar  ttt----
  D                    Parrot  tct----
  D             Scarlet macaw  ctt----
  D              Mallard duck  ttt----
B D                   Chicken  ttt----
B D                    Turkey  ttt----
B D        American alligator  ttt----
  D           Green seaturtle  tct----
  D            Painted turtle  ttt----
B D                    Lizard  ttt----
         Cape elephant shrew  -------
        David's myotis (bat)  =======
             Star-nosed mole  =======
B D                  Microbat  =======
               Big brown bat  =======
      Yellowbelly pufferfish  -------
B D                      Fugu  -------
B D               Stickleback  =======
         Pundamilia nyererei  =======
                 Zebra mbuna  =======
       Burton's mouthbreeder  =======
         Princess of Burundi  =======
B D                    Medaka  =======
B D                Coelacanth  =======
                 Spotted gar  =======
B D                   Wallaby  =======
          Southern platyfish  =======
    Mexican tetra (cavefish)  =======
B D                 Zebrafish  =======
B D              Nile tilapia  =======
B D                 Tetraodon  =======
B D              Atlantic cod  =======
  D  Chinese softshell turtle  =======
B D               Zebra finch  =======
B D             X. tropicalis  =======

Inserts between block 4 and 5 in window
B D                   Alpaca 4bp
              Bactrian camel 4bp
B D                  Dolphin 4bp
                Killer whale 4bp
            Tibetan antelope 4bp
B D                      Cow 4bp
B D                    Sheep 4bp
               Domestic goat 4bp
B D                    Horse 3bp
B D         White rhinoceros 3bp
B D                      Cat 3bp
B D                      Dog 3bp
B D                  Ferret  3bp
B D                    Panda 3bp
              Pacific walrus 3bp
                Weddell seal 3bp
            Black flying-fox 3bp
B D                  Megabat 3bp
B D                 Hedgehog 2bp
B D                    Shrew 2bp
B D                 Elephant 4bp
B D                  Manatee 4bp
            Cape golden mole 4bp
B D                   Tenrec 3bp
                    Aardvark 4bp
B D                Armadillo 4bp
B D                  Opossum 4bp
B D          Tasmanian devil 4bp
B D                 Platypus 2bp

Alignment block 5 of 211 in window, 81843667 - 81843691, 25 bps 
B D                     Human  ---aa---aaa----ga----gga---------ga----------------aa-cctccc--gcggg
B D                     Chimp  ---aa---aaa----ga----gga---------ga----------------aa-cctccc--gcggg
B D                   Gorilla  ---aa---aaa----ga----gga---------ga----------------aa-cctccc--gcagg
B D                 Orangutan  ---aa---aga----ga----gca---------ga----------------aa-cctccc--acagg
B D                    Gibbon  ---aa---aaa----ga----gca---------ga----------------aa-cctccc--acagg
B D                    Rhesus  ---aa---aga----ga----gca---------ga----------------aa-cctccc--gcagg
B D       Crab-eating macaque  ---aa---aga----ga----gcg---------ga----------------aa-cctccc--gcagg
B D                    Baboon  ---aa---aga----ga----gca---------ga----------------aa-cctccc--gcagg
B D              Green monkey  ---aa---aga----ga----gca---------ga----------------aa-cctccc--gcagg
B D                  Marmoset  ---aa---aga----aa----aca---------ga----------------aa-cctccc--gcagg
B D           Squirrel monkey  ---aa---aga----ga----gca---------ga----------------aa-cctccc--gcagg
B D                  Bushbaby  ---ag---tga----ta----gta---------ga----------------ga-cttctctagcagg
           Chinese tree shrew  ---ta---agc----gattgtgta---------gg----------------tc-tctcta--ccaca
B D                  Squirrel  ---ag-----------a----gca---------ca----------------ga-cctctccaacagg
       Lesser Egyptian jerboa  ---ag---tga----ta----gta---------ta----------------ac-cctctctaacagg
                 Prairie vole  ---ag---cgg----ca----gca---------ta----------------aa-cctctctaacagg
B D           Chinese hamster  ---ag---caa----ta----tca---------ta----------------aa-cctctctaacagg
               Golden hamster  ---ag---cag----ta----tca---------ta----------------aa-cctctctgacagg
B D                     Mouse  ---ag---tgg----ta----gca---------ta----------------aa-cctctctaacagg
B D                       Rat  ---ag---tga----ta----gca---------ta----------------aa-cctctctaacagg
B D            Naked mole-rat  ---ag---tga----ta----gta---------ca----------------aa-tctctctaacagg
B D                Guinea pig  ---ag---ggc----ca----gta---------ca----------------ga-tctctctaacagg
                   Chinchilla  ---ag---gga----ca----gta---------ta----------------aa-tctctctaatcgg
             Brush-tailed rat  ---ag---gga----ta----gta---------ta----------------aa-tctctctaatagg
B D                      Pika  ---gg---tga----ta----cca---------cc----------------ga---gccccgatggg
B D                    Alpaca  ---ag---tga----ca----gta---------ta----------------ac-ccta----acagc
               Bactrian camel  ---ag---tga----ca----gta---------ta----------------ac-ccta----acagc
B D                   Dolphin  ---ag---tga----ta----gta---------ta----------------aa-ctta----acagg
                 Killer whale  ---ag---tga----ta----gta---------ta----------------aa-ccta----acagg
             Tibetan antelope  ---ag---tga----ta----gta---------ta----------------aa-ccta----acagg
B D                       Cow  ---ag---tga----ta----gta---------ta----------------aa-ccta----acagg
B D                     Sheep  ---ag---tga----ta----gta---------ta----------------aa-ccta----acagg
                Domestic goat  ---ag---tga----ta----gta---------ta----------------aa-ccta----acagg
B D                     Horse  ---ag---tga----t----------------------------------------------acggg
B D          White rhinoceros  ---ag---tga----t----------------------------------------------acagg
B D                       Cat  ---ag---tga----ca----gta---------ta----------------aa-ccta----acagg
B D                       Dog  ---ag---tga----ga----gta---------ta----------------aa-ccta----acagg
B D                   Ferret   ---ag---tga----ta----cta---------ta----------------aacccta----acagg
B D                     Panda  ---ag---tg-------------a---------ta----------------aa-ccta----acagg
               Pacific walrus  ---ag---tga----ta----gta---------ta----------------aa-ccta----atagg
                 Weddell seal  ---ag---tga----ta----gta---------ta----------------aa-ccta----acagg
             Black flying-fox  ---ag---tga----ta----gta---------ta----------------aa-ccta----acggg
B D                   Megabat  ---ag---cga----ta----gta---------ta----------------aa-ccta----acggg
                Big brown bat  ---ag---tga----tg----gca---------tag---------------aa-ccta----acagg
         David's myotis (bat)  ---ag---tga----tc----gca---------tag--------------caa-ccta----acagg
B D                  Hedgehog  ---aa-agtga----ta----gca---------ta----------------aa-ccta----actag
B D                     Shrew  ---aa---cga----gg----ggt---------ta----------------gc-tctg----atggg
B D                  Elephant  ---ag---c-a----tg----gcg---------ta----------------aa-cctct---gcagg
          Cape elephant shrew  ----------------------------------------------------g-ctcct---ggaag
B D                   Manatee  ---ag---caa----tg----gca---------ta----------------aa-cctct---acagg
             Cape golden mole  ---ag---c-------a----gtg---------tg----------------ac-ggcca---gtgtg
B D                    Tenrec  ----------------g----gcg---------gg----------------gc-gcccc---acggg
                     Aardvark  ---ac---cga----cg----gta---------ca----------------aa-cctct---acagg
B D                 Armadillo  ---ag---caa----tg----gca---------ta----------------aa-cctct---gacag
B D                   Opossum  ---ag---gga----tg----aca---------cg----------------aa-ccttt---gtagg
B D           Tasmanian devil  ---ag---gga----tg----aca---------ag----------------aa-ttttc---atggg
B D                  Platypus  ---ga---aaa----aa----gca---------taccgacacaccggcgacca-cctgcg--actcg
  D               Rock pigeon  gaaag---gaa----ga----agg--------aaa----------------ga-gctttc--tggga
  D              Saker falcon  caaag---aaa----aa----agg-----ggtggg----------------ga-gctttc--ttgga
  D          Peregrine falcon  caaag---aaa----aa----agg-----ggtggg----------------ga-gctttc--ttgga
  D       Collared flycatcher  aaaag---aaa----aa----gag------aaaaa----------------aa-gctgtc--ttgga
  D    White-throated sparrow  aaaag---aaa----aa----gag-----aaaaaa----------------aa-gctgtc---tgga
B D       Medium ground finch  aaaag---aaa----aa----gagagaaaaaaaaa----------------aa-gctgtc---tgga
           Tibetan ground jay  gaaag---aaa----aa----gag------aaaaa----------------aa-gctgtc--ttgga
B D                Budgerigar  aaaag---aaacaagag----gaa--aggaaaaaa----------------aa-gctttc--ctggg
  D                    Parrot  aaaag---aaaca--ag----gaa--gaaaaaaaa----------------ca-gttttc--ttggg
  D             Scarlet macaw  aaaag---aaaca--ag----gaa-ctaaaaaaaa----------------ca-gttttc--ttggg
  D              Mallard duck  caaag-----a----ta----aaa------ggaaa----------------aa-gctttc--ttgga
B D                   Chicken  caaag---aaa----aa----gaa------agaaa----------------aa-gctttc--ttgga
B D                    Turkey  caaagagaaaa----aa----aaa------aaaaa----------------aa-gctttc--ttgga
B D        American alligator  gaagg---aga----aa----agc---------tt----------------aa-gcttcc--ctggg
  D           Green seaturtle  agaag---aga----aa----aaa---------ct----------------aa-gcttgt--ctagg
  D            Painted turtle  cgaag---aga----ga----aaa---------ct----------------aa-gctttc--ctagg
B D                    Lizard  cagca---agt----gt----gac---------ta----------------aa-gtttga----agg
             Star-nosed mole  ===================================================================
B D                  Microbat  ===================================================================
      Yellowbelly pufferfish  -------------------------------------------------------------------
B D                      Fugu  -------------------------------------------------------------------
B D               Stickleback  ===================================================================
         Pundamilia nyererei  ===================================================================
                 Zebra mbuna  ===================================================================
       Burton's mouthbreeder  ===================================================================
         Princess of Burundi  ===================================================================
B D                    Medaka  ===================================================================
B D                Coelacanth  ===================================================================
                 Spotted gar  ===================================================================
B D                   Wallaby  ===================================================================
          Southern platyfish  ===================================================================
    Mexican tetra (cavefish)  ===================================================================
B D                 Zebrafish  ===================================================================
B D              Nile tilapia  ===================================================================
B D                 Tetraodon  ===================================================================
B D              Atlantic cod  ===================================================================
  D  Chinese softshell turtle  ===================================================================
B D               Zebra finch  ===================================================================
B D             X. tropicalis  ===================================================================

Inserts between block 5 and 6 in window
B D                    Shrew 6bp
B D                   Tenrec 66bp
                    Aardvark 2bp
B D                Armadillo 3bp
B D                 Platypus 12bp

Alignment block 6 of 211 in window, 81843692 - 81843696, 5 bps 
B D                     Human  agg--ga--
B D                     Chimp  agg--ga--
B D                   Gorilla  agg--ga--
B D                 Orangutan  agg--ga--
B D                    Gibbon  agg--ga--
B D                    Rhesus  agg--ga--
B D       Crab-eating macaque  agg--ga--
B D                    Baboon  agg--ga--
B D              Green monkey  agg--ga--
B D                  Marmoset  agg--ga--
B D           Squirrel monkey  agg--ga--
B D                  Bushbaby  aag--g---
           Chinese tree shrew  aag--gg--
B D                  Squirrel  aa----a--
       Lesser Egyptian jerboa  aaa--ga--
                 Prairie vole  aa----g--
B D           Chinese hamster  aa----a--
               Golden hamster  aa----a--
B D                     Mouse  aa----a--
B D                       Rat  aa----a--
B D            Naked mole-rat  aga--ga--
B D                Guinea pig  aaa--ga--
                   Chinchilla  aaa--ga--
             Brush-tailed rat  aaa--ga--
B D                      Pika  gg----a--
B D                    Alpaca  aat--aa--
               Bactrian camel  aat--aa--
B D                   Dolphin  aat--ga--
                 Killer whale  aat--ga--
             Tibetan antelope  aatgaga--
B D                       Cow  aatgaga--
B D                     Sheep  aatgaga--
                Domestic goat  aatgaga--
B D                     Horse  aag--ga--
B D          White rhinoceros  aag--gt--
B D                       Cat  aag--ga--
B D                       Dog  aag--ga--
B D                   Ferret   aag--ga--
B D                     Panda  aag--ga--
               Pacific walrus  aag--ga--
                 Weddell seal  aag--ga--
             Black flying-fox  aag--ga--
B D                   Megabat  agg--ga--
                Big brown bat  ca-------
         David's myotis (bat)  ca-------
B D                  Hedgehog  aaa--ga--
B D                     Shrew  ggg--gg--
B D                  Elephant  ------a--
          Cape elephant shrew  ------g--
B D                   Manatee  ------a--
B D                 Armadillo  ------g--
B D                   Opossum  ----aga--
B D           Tasmanian devil  ----aga--
B D                  Platypus  aat--ga--
  D               Rock pigeon  ----aggcg
  D              Saker falcon  ----agatc
  D          Peregrine falcon  ----agatc
  D       Collared flycatcher  ----agatg
  D    White-throated sparrow  ----agatg
B D       Medium ground finch  ----agatg
           Tibetan ground jay  ----agatg
B D                Budgerigar  ----agatg
  D                    Parrot  ----agatg
  D             Scarlet macaw  ----agatg
  D              Mallard duck  ----aggta
B D                   Chicken  ----agata
B D                    Turkey  ----aggta
B D        American alligator  ----ggagg
  D           Green seaturtle  ----aggca
  D            Painted turtle  ----agaca
B D                    Lizard  ----agacg
B D                    Tenrec  =========
             Star-nosed mole  =========
B D                  Microbat  =========
            Cape golden mole  ---------
      Yellowbelly pufferfish  ---------
B D                      Fugu  ---------
                    Aardvark  =========
B D               Stickleback  =========
         Pundamilia nyererei  =========
                 Zebra mbuna  =========
       Burton's mouthbreeder  =========
         Princess of Burundi  =========
B D                    Medaka  =========
B D                Coelacanth  =========
                 Spotted gar  =========
B D                   Wallaby  =========
          Southern platyfish  =========
    Mexican tetra (cavefish)  =========
B D                 Zebrafish  =========
B D              Nile tilapia  =========
B D                 Tetraodon  =========
B D              Atlantic cod  =========
  D  Chinese softshell turtle  =========
B D               Zebra finch  =========
B D             X. tropicalis  =========

Inserts between block 6 and 7 in window
B D                   Alpaca 6bp
              Bactrian camel 6bp
B D                  Dolphin 6bp
                Killer whale 6bp
            Tibetan antelope 6bp
B D                      Cow 6bp
B D                    Sheep 6bp
               Domestic goat 6bp
B D                    Horse 6bp
B D         White rhinoceros 6bp
B D                      Cat 6bp
B D                      Dog 6bp
B D                  Ferret  6bp
B D                    Panda 6bp
              Pacific walrus 6bp
                Weddell seal 6bp
            Black flying-fox 6bp
B D                  Megabat 6bp
               Big brown bat 9bp
        David's myotis (bat) 9bp
B D                 Hedgehog 6bp
B D                    Shrew 6bp
B D                 Elephant 4bp
         Cape elephant shrew 4bp
B D                  Manatee 4bp
B D                Armadillo 4bp
B D                  Opossum 2bp
B D          Tasmanian devil 2bp
  D              Rock pigeon 2bp
  D             Saker falcon 2bp
  D         Peregrine falcon 2bp
  D      Collared flycatcher 2bp
  D   White-throated sparrow 2bp
B D      Medium ground finch 2bp
          Tibetan ground jay 2bp
B D               Budgerigar 2bp
  D                   Parrot 2bp
  D            Scarlet macaw 2bp
  D             Mallard duck 2bp
B D                  Chicken 2bp
B D                   Turkey 2bp
B D       American alligator 2bp
  D          Green seaturtle 2bp
  D           Painted turtle 2bp
B D                   Lizard 2bp

Alignment block 7 of 211 in window, 81843697 - 81843722, 26 bps 
B D                     Human  ggca---------gc---g--agactcc-------g-aacacg--gta-gc-----------------
B D                     Chimp  ggca---------gc---g--agactcc-------g-aacact--cta-gc-----------------
B D                   Gorilla  ggca---------gc---g--agactcc-------g-aacact--cta-gc-----------------
B D                 Orangutan  ggca---------gc---g--agactcc-------g-aacact--cta-gc-----------------
B D                    Gibbon  ggca---------gc---g--agactcc-------g-aacact--cta-gc-----------------
B D                    Rhesus  ggca---------gc---g--agactct-------g-aacact--cca-gc-----------------
B D       Crab-eating macaque  ggca---------gc---g--agactct-------g-aacact--cca-gc-----------------
B D                    Baboon  ggca---------gc---g--agactct-------g-aacact--cta-gc-----------------
B D              Green monkey  ggca---------gc---g--agacgct-------g-aacact--cta-gc-----------------
B D                  Marmoset  ggca---------gc---g--agactct-------g-aacact--caa-gc-----------------
B D           Squirrel monkey  ggca---------gc---g--attctct-------g-aacact--caa-gc-----------------
B D                  Bushbaby  gacattgccagt-gt---g--agattct-------gaaacatt--tta-gc-----------------
           Chinese tree shrew  gacgttaccagc-gt---g--agattcc-------aaaatgtt--tta-gc-----------------
B D                  Squirrel  gggattgccagt-gt---g--agatccc-------a-aacatt--tta-gc-----------------
       Lesser Egyptian jerboa  gacatcaccagt-gt---g--aaatccc---------aacatt--tta-gc-----------------
                 Prairie vole  gatattaccagt-gt---g--agatcccc------a-aatatt--tta-gt-----------------
B D           Chinese hamster  gacattaccagt-gt---g--agaccccc------a-aatatt--tta-gc-----------------
               Golden hamster  gacattaccagt-gt---g--agaccccc------a-aatatt--tta-gt-----------------
B D                     Mouse  gacattaccagt-gtgagg--agatcccc------a-aacatt--tta-gc-----------------
B D                       Rat  gacattaccagt-gt---g--aaatcccc------a-aatatg--gta-gc-----------------
B D            Naked mole-rat  g--attaccagt-gt---g--agatccc-------a-aacatt--tta-gc-----------------
B D                Guinea pig  gacattaccagt-gt---g--agatctc-------a-aacatt--tta-gc-----------------
                   Chinchilla  gacattaccagt-gt---g--aaatccc-------a-aacatt--tta-gc-----------------
             Brush-tailed rat  gacattaccagt-gt---g--agatccc-------a-aacatt--tta-gc-----------------
B D                      Pika  ggcc---ccaac-gt---g--agattctc------a-aacatt--tta-gg-----------------
B D                    Alpaca  ------gccagc-gt---g--agatttca------a-aacatt--tca-gt-----------------
               Bactrian camel  ------gccagc-at---g--agatttca------a-aacgtt--tca-gc-----------------
B D                   Dolphin  ------gccagc-at---g--agattcca------a-aacatt--tta-gc-----------------
                 Killer whale  ------gccagc-at---g--agattcca------a-aacatt--tta-gc-----------------
             Tibetan antelope  ------gccagc-gt---g--agattcca------a-aacatt--tta-gc-----------------
B D                       Cow  ------gccagc-gt---g--agagtcca------a-aacatt--tta-gc-----------------
B D                     Sheep  ------gccagc-gt---g--agattcca------a-aacatt--tta-gc-----------------
                Domestic goat  ------gccagc-gt---g--agattcca------a-aacatt--tta-gc-----------------
B D                     Horse  ------gccagc-at---g--agattcca------a-aacact--tca-gc-----------------
B D          White rhinoceros  ------gccagc-ct---g--agattcca------a-aacatt--tca-gc-----------------
B D                       Cat  ------acctgc-cc---g--agattcca------a-gacatt--tta-ac-----------------
B D                       Dog  ------acgggc-at---g--agatccca------a-gacatt--tta-ac-----------------
B D                   Ferret   ------acctgc-at---g--agattcag------a-gacatt--tta-ac-----------------
B D                     Panda  ------acctgc-at---g--agattcca------a-gacatt--tta-ac-----------------
               Pacific walrus  ------acctgt-at---g--agattcca------a-gacatt--tta-ac-----------------
                 Weddell seal  ------acctgc-at---g--agattcca------a-gacatt--tta-ac-----------------
             Black flying-fox  ------gcca-c-gt---g--agattcgc------a-aacatt--ttt-gg-----------------
B D                   Megabat  ------gcca-c-gt---g--agattcgc------a-aacatt--ttt-gg-----------------
                Big brown bat  ------gccagc-gt---g--agattcca------a-aacatt--tta-gc-----------------
         David's myotis (bat)  ------gccagc-gt---g--agattcca------a-aacatt--tca-gc-----------------
B D                  Microbat  ------ggcagc-gt---g--agattcca------a-aacatt--tta-gc-----------------
B D                  Hedgehog  ------gccagt-at---g--agatcctg------a--atatcatctgtgt-----------------
B D                     Shrew  ------gcca---ag---g--aga---------------------ctg-gc-----------------
B D                  Elephant  -gcgctgcctgc-gt---g--ggatcccc------a-aacatt--tca-ga-----------------
          Cape elephant shrew  -gcatcctctgc-gt---g--ggagatcc------a-aac----------------------------
B D                   Manatee  -gcatcgcccac-gt---g--ggattgcc------a-aacatt--tca-gc-----------------
             Cape golden mole  ---------------------agatcccc------a-gacact--gca-ga-----------------
                     Aardvark  -gggccaccagc-gt-------gattccc------a-aacgtt--cca-ga-----------------
B D                 Armadillo  -gcatttccagc-ag---g--agatccta------c-gacgtt--tca-gc-----------------
B D                   Opossum  ----ttatcagt-at---ggcagacacta------a-aatgat--tta-gt-----------------
B D           Tasmanian devil  ----tg---agt-gt---ggcagacacta------a-aatgg---tta-tt-----------------
B D                  Platypus  ---------------------ggactcgcgccttta-aacttt--aca-ac-----------------
  D               Rock pigeon  ---------agt-gc---g--cagctgcc------g-ccccac--acc-ccgctctgcccagggcggg
  D              Saker falcon  ---------agtggc---a--aggctcca------g-aatgtt--ggg-ctgttgaactcatgctacc
  D          Peregrine falcon  ---------agtggc---a--aggctcca------g-aatgtt--ggg-ctgttgaactcatgctacc
  D       Collared flycatcher  ---------agtggc---a--aggctcca------g-gttgtc--agg-ccactgaactcctggtacc
  D    White-throated sparrow  ---------agtggc---a--aggctcca------g-attgtc--agg-ctactgaactcctggtacc
B D       Medium ground finch  ---------agtggc---a--aggctcca------g-attgtc--agg-ctactgaactcctggtacc
           Tibetan ground jay  ---------agtggc---a--aaggtcca------g-attgtc--agg-ccactgaactcctggtacc
B D                Budgerigar  ---------agtggc---a--aagctcca------g-gatgct--gag-ccactgagctcgtgctgcg
  D                    Parrot  ---------agtggc---a--aagctccg------g-gatgct--gag-ccactgagctcatgctgcg
  D             Scarlet macaw  ---------agtggc---a--aagctcca------g-gatgct--gag-ccactgagctcatgctgcg
  D              Mallard duck  ---------agtggc---a--aggctcca------a-aatgtt--ggg-ctattaaactcatgctacc
B D                   Chicken  ---------agtggc---a--atgcttca------g-aatgtt--ggg-caattaaattcatgctacc
B D                    Turkey  ---------agtggc---a--atgctcca------g-aatgtt--ggg-caattaatttcatgctacc
B D        American alligator  ---------actggc---a--aggctcca--------aatgag--ggg-at-----------------
  D           Green seaturtle  ---------actggt---g--aggctctg------a-aatgtc--agg-cagtgagactcatgctgcc
  D            Painted turtle  ---------actggt---g--aggctctg------a-aatgtc--agg-caaggagactcttcctgcc
B D                    Lizard  ---------actagc---a--aagctccc------a-gat--t--agg-caacaagacacat--tgcc
B D                    Tenrec  ====================================================================
             Star-nosed mole  ====================================================================
      Yellowbelly pufferfish  --------------------------------------------------------------------
B D                      Fugu  --------------------------------------------------------------------
B D               Stickleback  ====================================================================
         Pundamilia nyererei  ====================================================================
                 Zebra mbuna  ====================================================================
       Burton's mouthbreeder  ====================================================================
         Princess of Burundi  ====================================================================
B D                    Medaka  ====================================================================
B D                Coelacanth  ====================================================================
                 Spotted gar  ====================================================================
B D                   Wallaby  ====================================================================
          Southern platyfish  ====================================================================
    Mexican tetra (cavefish)  ====================================================================
B D                 Zebrafish  ====================================================================
B D              Nile tilapia  ====================================================================
B D                 Tetraodon  ====================================================================
B D              Atlantic cod  ====================================================================
  D  Chinese softshell turtle  ====================================================================
B D               Zebra finch  ====================================================================
B D             X. tropicalis  ====================================================================

Inserts between block 7 and 8 in window
  D             Saker falcon 28bp
  D         Peregrine falcon 28bp
  D      Collared flycatcher 31bp
  D   White-throated sparrow 26bp
B D      Medium ground finch 31bp
          Tibetan ground jay 31bp
B D               Budgerigar 24bp
  D                   Parrot 31bp
  D            Scarlet macaw 31bp
  D             Mallard duck 31bp
B D                  Chicken 32bp
B D                   Turkey 31bp
B D       American alligator 4bp
  D          Green seaturtle 31bp
  D           Painted turtle 31bp
B D                   Lizard 9bp

Alignment block 8 of 211 in window, 81843723 - 81843723, 1 bps 
B D                     Human  a
B D                     Chimp  a
B D                   Gorilla  a
B D                 Orangutan  a
B D                    Rhesus  g
B D       Crab-eating macaque  g
B D                    Baboon  g
B D              Green monkey  g
B D                  Marmoset  a
B D           Squirrel monkey  a
B D                  Bushbaby  a
           Chinese tree shrew  g
B D                  Squirrel  g
       Lesser Egyptian jerboa  g
                 Prairie vole  g
B D           Chinese hamster  g
               Golden hamster  g
B D                     Mouse  a
B D                       Rat  a
B D            Naked mole-rat  a
B D                Guinea pig  a
                   Chinchilla  a
             Brush-tailed rat  a
B D                      Pika  g
B D                    Alpaca  g
               Bactrian camel  g
B D                   Dolphin  g
                 Killer whale  g
             Tibetan antelope  g
B D                       Cow  g
B D                     Sheep  g
                Domestic goat  g
B D                     Horse  a
B D          White rhinoceros  g
B D                       Cat  g
B D                       Dog  g
B D                   Ferret   a
B D                     Panda  g
               Pacific walrus  g
                 Weddell seal  g
             Black flying-fox  g
B D                   Megabat  g
                Big brown bat  g
         David's myotis (bat)  g
B D                  Microbat  g
B D                  Hedgehog  g
B D                     Shrew  g
B D                  Elephant  g
B D                   Manatee  g
             Cape golden mole  g
                     Aardvark  g
B D                 Armadillo  g
B D                   Opossum  a
B D           Tasmanian devil  a
B D                  Platypus  c
  D               Rock pigeon  g
  D              Saker falcon  g
  D          Peregrine falcon  g
  D       Collared flycatcher  g
  D    White-throated sparrow  c
B D       Medium ground finch  g
B D               Zebra finch  a
           Tibetan ground jay  g
B D                Budgerigar  g
  D                    Parrot  g
  D             Scarlet macaw  g
  D              Mallard duck  g
B D                   Chicken  a
B D                    Turkey  g
B D        American alligator  c
  D           Green seaturtle  g
  D            Painted turtle  g
B D                    Tenrec  =
         Cape elephant shrew  -
             Star-nosed mole  =
      Yellowbelly pufferfish  -
B D                      Fugu  -
B D               Stickleback  =
         Pundamilia nyererei  =
                 Zebra mbuna  =
       Burton's mouthbreeder  =
         Princess of Burundi  =
B D                    Medaka  =
B D                Coelacanth  =
                 Spotted gar  =
B D                   Wallaby  =
B D                    Lizard  =
          Southern platyfish  =
    Mexican tetra (cavefish)  =
B D                 Zebrafish  =
B D              Nile tilapia  =
B D                 Tetraodon  =
B D              Atlantic cod  =
  D  Chinese softshell turtle  =
B D             X. tropicalis  =
B D                    Gibbon  -

Alignment block 9 of 211 in window, 81843724 - 81843748, 25 bps 
B D                     Human  a----g----cact------------------------------------------ctggac--a-----
B D                     Chimp  a----g----cact------------------------------------------ctggac--a-----
B D                   Gorilla  a----g----cact------------------------------------------ctggac--a-----
B D                 Orangutan  a----g----tact------------------------------------------ctggac--a-----
B D                    Gibbon  -----------act------------------------------------------ctggac--a-----
B D                    Rhesus  a----g----cact------------------------------------------ctggac--a-----
B D       Crab-eating macaque  a----g----cact------------------------------------------ctggac--a-----
B D                    Baboon  a----g----cact------------------------------------------ctggac--a-----
B D              Green monkey  a----g----cact------------------------------------------ctggac--a-----
B D                  Marmoset  a----g----cact------------------------------------------ctggac--a-----
B D           Squirrel monkey  a----g----cact------------------------------------------ctggac--a-----
B D                  Bushbaby  a----g----tact------------------------------------------ctggac--a-----
           Chinese tree shrew  a----g----cact------------------------------------------ccggac-aa-----
B D                  Squirrel  a----g----cact------------------------------------------caggac-aa-----
       Lesser Egyptian jerboa  a----g----cact------------------------------------------gaggac-aa-----
                 Prairie vole  a----g----cact------------------------------------------tgggacaaa-----
B D           Chinese hamster  a----g----cact------------------------------------------tgggac-aa-----
               Golden hamster  a----g----cact------------------------------------------tggggc-aa-----
B D                     Mouse  a----g----caca------------------------------------------tgggac-aa-----
B D                       Rat  a----g----cact------------------------------------------tgggac-aa-----
B D            Naked mole-rat  a----g----cact------------------------------------------tgggac-aa-----
B D                Guinea pig  a----g----cact------------------------------------------tgggac-aa-----
                   Chinchilla  a----g----cact------------------------------------------tgggac-aa-----
             Brush-tailed rat  a----g----cact------------------------------------------cgggac-aa-----
B D                      Pika  a----g----ctct------------------------------------------ca-gac-ga-----
B D                    Alpaca  a----a----cact------------------------------------------caggac--a-----
               Bactrian camel  a----a----cact------------------------------------------cgggac--a-----
B D                   Dolphin  g----g----cact------------------------------------------ctggac--a-----
                 Killer whale  g----g----cact------------------------------------------ctggac--a-----
             Tibetan antelope  a----g----cact------------------------------------------ctggac--a-----
B D                       Cow  a----g----cact------------------------------------------ctggac--a-----
B D                     Sheep  a----g----cact------------------------------------------ctggac--a-----
                Domestic goat  a----g----cact------------------------------------------ctggac--a-----
B D                     Horse  a----g----tact------------------------------------------ctggac--a-----
B D          White rhinoceros  a----g----cact------------------------------------------ctggac--a-----
B D                       Cat  a----g----cact------------------------------------------ttggac--a-----
B D                       Dog  a----g----cact------------------------------------------ttggac--a-----
B D                   Ferret   a----g----cact------------------------------------------ttggac--a-----
B D                     Panda  a----g----cact------------------------------------------ttggac--a-----
               Pacific walrus  a----g----cgct------------------------------------------ttggac--a-----
                 Weddell seal  a----g----cgct------------------------------------------ttggac--a-----
             Black flying-fox  c----g----cgtt------------------------------------------ctggaa--g-----
B D                   Megabat  c----g----cgtt------------------------------------------ctggaa--g-----
                Big brown bat  a----g----cgct------------------------------------------caggtc--a-----
         David's myotis (bat)  c----g----tgct------------------------------------------caggtc--a-----
B D                  Microbat  a----g----cgct------------------------------------------caggtc--a-----
B D                  Hedgehog  a----g----catt------------------------------------------ctggac--a-----
B D                     Shrew  a----g----c--t------------------------------------------ctggac--a-----
B D                  Elephant  a----g----cgct------------------------------------------ccagac-ag-----
          Cape elephant shrew  ----------------------------------------------------------------------
B D                   Manatee  agtgtg----cact------------------------------------------tgggac-ag-----
             Cape golden mole  g----------cag------------------------------------------ccgggc-ag-----
                     Aardvark  a---------gcac------------------------------------------ccgggc-ag-----
B D                 Armadillo  a----g----tgct------------------------------------------ccggac-ag-----
B D                   Opossum  a---------------------------------------------------------tgac--a-----
B D           Tasmanian devil  a---------------------------------------------------------tgat--actcat
B D                  Platypus  t----gctgccgcc------------------------------------------ccgacc-ca-----
  D               Rock pigeon  a----a----c------------------------------------------------gac--g-----
  D              Saker falcon  a----a----tact------------------------------------------tcaaac--a-----
  D          Peregrine falcon  a----a----tact------------------------------------------tcaaac--a-----
  D       Collared flycatcher  a----g----tcct------------------------------------------ccagac--a-----
  D    White-throated sparrow  a----g----ttct------------------------------------------ccagac--a-----
B D       Medium ground finch  a----g----ttct------------------------------------------ccagac--a-----
B D               Zebra finch  a----g----ttct------------------------------------------ccagac--a-----
           Tibetan ground jay  a----g----ttct------------------------------------------tcagac--a-----
B D                Budgerigar  a----a----tact------------------------------------------tcaagc--a-----
  D                    Parrot  a----a----tact------------------------------------------tcaagc--a-----
  D             Scarlet macaw  a----a----tact------------------------------------------tcaagc--a-----
  D              Mallard duck  a----a----tact------------------------------------------tgaaac--a-----
B D                   Chicken  a----a----tact------------------------------------------tgaaac--a-----
B D                    Turkey  a----a----tact------------------------------------------tgaaac--a-----
B D        American alligator  a----g----tactgccactcccacaacccgcttctacccagagcaacaacatatgtggaac--a-----
  D           Green seaturtle  a----a----cact------------------------------------------tggaac--a-----
  D            Painted turtle  a----a----cact------------------------------------------tggaac--a-----
  D  Chinese softshell turtle  a----a----tgct------------------------------------------tggaac--a-----
  D    Spiny softshell turtle  a----a----cgct------------------------------------------tggaac--a-----
B D                    Lizard  ----------tgct------------------------------------------tttacc--c-----
B D                    Tenrec  ======================================================================
             Star-nosed mole  ======================================================================
      Yellowbelly pufferfish  ----------------------------------------------------------------------
B D                      Fugu  ----------------------------------------------------------------------
B D               Stickleback  ======================================================================
         Pundamilia nyererei  ======================================================================
                 Zebra mbuna  ======================================================================
       Burton's mouthbreeder  ======================================================================
         Princess of Burundi  ======================================================================
B D                    Medaka  ======================================================================
B D                Coelacanth  ======================================================================
                 Spotted gar  ======================================================================
B D                   Wallaby  ======================================================================
          Southern platyfish  ======================================================================
    Mexican tetra (cavefish)  ======================================================================
B D                 Zebrafish  ======================================================================
B D              Nile tilapia  ======================================================================
B D                 Tetraodon  ======================================================================
B D              Atlantic cod  ======================================================================
B D             X. tropicalis  ======================================================================

                        Human  --------------gac--tcatgt--------------at------------g
                        Chimp  --------------gac--ccatgt--------------at------------g
                      Gorilla  --------------gac--ccacgt--------------at------------g
                    Orangutan  --------------gac--ccacgt--------------at------------g
                       Gibbon  --------------gac--ccatgt--------------at------------g
                       Rhesus  --------------gac--ccat-------------------------------
          Crab-eating macaque  --------------gac--ccat-------------------------------
                       Baboon  --------------gac--ccat-------------------------------
                 Green monkey  --------------gac--ccat-------------------------------
                     Marmoset  --------------gac--ccatgt--------------ac------------a
              Squirrel monkey  --------------gac--ccatgt--------------ac------------a
                     Bushbaby  --------------aag--cggtgt--------------ac------------a
           Chinese tree shrew  --------------aaa--ccgtgt--------------ac------------a
                     Squirrel  --------------aaa--ccatgt--------------ac------------a
       Lesser Egyptian jerboa  --------------aac--ccatgt--------------ac------------a
                 Prairie vole  --------------aat--ccacat--------------at--------aaaaa
              Chinese hamster  --------------aat--gcacat--------------at-------------
               Golden hamster  --------------aat--ccacat--------------at-------------
                        Mouse  --------------att--ccacat--------------ac------------a
                          Rat  --------------aat--ccacgt--------------ac------------a
               Naked mole-rat  --------------aaa--ccatgt--------------ac------------a
                   Guinea pig  --------------aaa--ccatgt--------------ac------------a
                   Chinchilla  --------------aaa--ccatgt--------------ac------------a
             Brush-tailed rat  --------------aaa--ccatgt--------------ac------------a
                         Pika  --------------aga--acatgt--------------ac------------a
                       Alpaca  --------------aaa--ctgtgt--------------ac------------a
               Bactrian camel  --------------aaa--ctgtgt--------------ac------------a
                      Dolphin  --------------gaa--ccatgt--------------ac------------a
                 Killer whale  --------------gaa--ccatgt--------------ac------------a
             Tibetan antelope  --------------aaa--ccgtgt--------------ac-----------aa
                          Cow  --------------aaa--ccatgt--------------ac-----------aa
                        Sheep  --------------aaa--ccgtgt--------------ac-----------aa
                Domestic goat  --------------aaa--ccgtgt--------------ac-----------aa
                        Horse  --------------aaa--ctgtgt--------------ac------------g
             White rhinoceros  --------------aaa--ccgtgt--------------ac------------a
                          Cat  --------------aaa--ccatgt--------------ac------------g
                          Dog  --------------aaa--ccatgt--------------ac------------g
                      Ferret   --------------gaa--ccatgt--------------ac------------g
                        Panda  --------------aaa--ccatgt--------------ac------------a
               Pacific walrus  --------------aaa--tcatgt--------------ac------------g
                 Weddell seal  --------------aaa--ccatgt--------------ac------------g
             Black flying-fox  --------------aaa--ccgtgt--------------ac------------g
                      Megabat  --------------aaa--ccgtgt--------------ac------------g
                Big brown bat  --------------aaa--ccgtgt--------------ac------------a
         David's myotis (bat)  --------------gaa--ccatgt--------------ac------------g
                     Microbat  --------------gaa--ccgtgt--------------ac------------g
                     Hedgehog  ---------------aa--ccatgt--------------ac-----------aa
                        Shrew  ---------------aa--c---gt--------------ac------------a
                     Elephant  --------------ata---caggt--------------ac------------a
          Cape elephant shrew  ---------------------------------------ac------------g
                      Manatee  --------------ata--ccaggt--------------ac------------a
             Cape golden mole  --------------gaa--tcagga--------------ac------------a
                     Aardvark  --------------caa--ccaggc--------------ac------------a
                    Armadillo  --------------aaa--acctgt--------------ac------------a
                      Opossum  --------------aca--gcactc--------------at------------g
              Tasmanian devil  gcttttaactttttaca--acccgcttcaaacaaaaaaaac------------a
                     Platypus  --------------aac--ccgtgt--------------ac------------a
                  Rock pigeon  --------------aca-gccgtgt--------------ac------------a
                 Saker falcon  --------------aaa-gctgtgt--------------ac-----------aa
             Peregrine falcon  --------------aaa-gctgtgt--------------ac-----------aa
          Collared flycatcher  --------------aaa-gctgtgt--------------ac-----------aa
       White-throated sparrow  --------------aaa-gctgtgt--------------ac------------a
          Medium ground finch  --------------aaa-gctgtgt--------------ac------------a
                  Zebra finch  --------------aaa-gctgtgt--------------ac------------a
           Tibetan ground jay  --------------aaa-gctgtgt--------------ac------------a
                   Budgerigar  --------------aaa-gctgtgt--------------ac------------a
                       Parrot  --------------aaa-gctgtgt--------------ac-----------aa
                Scarlet macaw  --------------aaa-gctgtgt--------------ac-----------aa
                 Mallard duck  --------------aaaagctgtgt--------------ac-----------aa
                      Chicken  --------------aaa--ctgtgt--------------ac------------a
                       Turkey  --------------aaa--ctgtgt--------------ac------------a
           American alligator  --------------aaa-cccatgt--------------ac-------------
              Green seaturtle  --------------aat--ccatgt--------------ac------------a
               Painted turtle  --------------aat--ccatgt--------------ac------------a
     Chinese softshell turtle  --------------aac--ccgtgt--------------ac------------a
       Spiny softshell turtle  --------------aac--ccgtgt--------------ac------------a
                       Lizard  --------------aga-tcacaga--------------acactgcaggaaaag
                       Tenrec  ======================================================
              Star-nosed mole  ======================================================
       Yellowbelly pufferfish  ------------------------------------------------------
                         Fugu  ------------------------------------------------------
                  Stickleback  ======================================================
          Pundamilia nyererei  ======================================================
                  Zebra mbuna  ======================================================
        Burton's mouthbreeder  ======================================================
          Princess of Burundi  ======================================================
                       Medaka  ======================================================
                   Coelacanth  ======================================================
                  Spotted gar  ======================================================
                      Wallaby  ======================================================
           Southern platyfish  ======================================================
     Mexican tetra (cavefish)  ======================================================
                    Zebrafish  ======================================================
                 Nile tilapia  ======================================================
                    Tetraodon  ======================================================
                 Atlantic cod  ======================================================
                X. tropicalis  ======================================================

Inserts between block 9 and 10 in window
B D                  Opossum 59bp
B D          Tasmanian devil 34bp
B D                 Platypus 10bp

Alignment block 10 of 211 in window, 81843749 - 81843842, 94 bps 
B D                     Human  aaaaa-gtacatca----------------t-g-------------------------------------
B D                     Chimp  aaaaa-gtacatca----------------t-g-------------------------------------
B D                   Gorilla  aaaaa-gtacatca----------------c---------------------------------------
B D                 Orangutan  aaaaa-gtacatca----------------t-g-------------------------------------
B D                    Gibbon  aaaaa-gtacatca----------------t-g-------------------------------------
B D                    Rhesus  ---aa-gtacatca----------------c-g-------------------------------------
B D       Crab-eating macaque  ---aa-gtacatca----------------c-g-------------------------------------
B D                    Baboon  ---aa-gtacatca----------------c-g-------------------------------------
B D              Green monkey  ---aa-gtacatca----------------c-g-------------------------------------
B D                  Marmoset  aaaaa-gtatatca----------------c-g-------------------------------------
B D           Squirrel monkey  aaaaa-gtacatca----------------c-g-------------------------------------
B D                  Bushbaby  aaaag-gtaggtca----------------c-a-------------------------------------
           Chinese tree shrew  aaaaa-gtacatca----------------c-a-------------------------------------
B D                  Squirrel  aaaaa-gtacatca----------------c-a-------------------------------------
       Lesser Egyptian jerboa  aaaaa-gtacatca----------------c-c-------------------------------------
                 Prairie vole  aaaaa-atacatca----------------c-a-------------------------------------
B D           Chinese hamster  aaaaa-gtacatca----------------c-a-------------------------------------
               Golden hamster  aaaaa-atacatca----------------c-a-------------------------------------
B D                     Mouse  aaaaa-gtacacca----------------c-c-------------------------------------
B D                       Rat  aaaaa-gtacacca----------------c-c-------------------------------------
B D            Naked mole-rat  aaaaa-gtacatca----------------c-a-------------------------------------
B D                Guinea pig  aaaaa-gtacacca----------------c-a-------------------------------------
                   Chinchilla  aaaaa-gtacatca----------------c-a-------------------------------------
             Brush-tailed rat  aaaaa-gtacatca----------------c-a-------------------------------------
B D                      Pika  aaaat-gtacatca----------------c-g-------------------------------------
B D                    Alpaca  aaaaa-gtacatca----------------c-a-------------------------------------
               Bactrian camel  aaaaa-gtacatca----------------c-a-------------------------------------
B D                   Dolphin  aaaaa-gtacatca----------------c-a-------------------------------------
                 Killer whale  aaaaa-gtacatca----------------c-a-------------------------------------
             Tibetan antelope  aaaaa-gtacatca----------------c-g-------------------------------------
B D                       Cow  aaaaa-gtacatca----------------c-g-------------------------------------
B D                     Sheep  aaaaa-gtacatca----------------c-g-------------------------------------
                Domestic goat  aaaaa-gtacatca----------------c-g-------------------------------------
B D                     Horse  aaaaa-gtacatca----------------c-a-------------------------------------
B D          White rhinoceros  aaaaa-gtacatca----------------c-a-------------------------------------
B D                       Cat  aaaaa-gtacatca----------------c-g-------------------------------------
B D                       Dog  aaaaa-gtacatca----------------c-a-------------------------------------
B D                   Ferret   aaaaa-gtacatca----------------c-a-------------------------------------
B D                     Panda  aaaaa-gtacatca----------------c-a-------------------------------------
               Pacific walrus  aaaaa-gtacatca----------------c-a-------------------------------------
                 Weddell seal  aaaaa-gtacatca----------------c-a-------------------------------------
             Black flying-fox  aaaaa-gtacatca----------------a-t-------------------------------------
B D                   Megabat  aaaaa-gtacatca----------------a-t-------------------------------------
                Big brown bat  aaaaa-gtacatca----------------c-a-------------------------------------
         David's myotis (bat)  gaaaa-ggacgaca----------------c-g-------------------------------------
B D                  Microbat  aaaaa-ggacgtca----------------c-a-------------------------------------
B D                  Hedgehog  aaaaa-gtacatca----------------c-attactggaaaaaaaaaaaaagaagaagaagaagaaga
B D                     Shrew  aaaaa-gtacatca----------------c-a-------------------------------------
B D                  Elephant  g--aa-gtacatca----------------c-a-------------------------------------
          Cape elephant shrew  t--gg-gtgcatca----------------c-a-------------------------------------
B D                   Manatee  a--aa-gtacatca----------------c-a-------------------------------------
             Cape golden mole  a--aatgcacatca----------------c-a-------------------------------------
                     Aardvark  aggaa-ggacagca----------------c-a-------------------------------------
B D                 Armadillo  a--aaggtacacca----------------c-a-------------------------------------
B D                   Opossum  aaaaa-gtacatca----ccccaccccttcc-c-------------------------------------
B D           Tasmanian devil  aaaca-atacatcacttcccccaccccttcc-c-------------------------------------
B D                   Wallaby  aaaaa-atacatcacatcctccaccccttcc-c-------------------------------------
B D                  Platypus  aaaag-gtacatca----------------c-a-------------------------------------
  D               Rock pigeon  aaaag-gtacaaca----------------c-g-------------------------------------
  D              Saker falcon  aaaaa-gtacatca----------------c-a-------------------------------------
  D          Peregrine falcon  aaaaa-gtacatca----------------c-a-------------------------------------
  D       Collared flycatcher  aaaaa-gtacatca----------------c-a-------------------------------------
  D    White-throated sparrow  aaaaa-gtacatca----------------c-a-------------------------------------
B D       Medium ground finch  aaaaa-gtacatca----------------c-a-------------------------------------
B D               Zebra finch  aaaaa-gtacatca----------------c-a-------------------------------------
           Tibetan ground jay  aaaaa-gtacatca----------------c-a-------------------------------------
B D                Budgerigar  aaaaa-gtacatcc----------------c-a-------------------------------------
  D                    Parrot  aaaaa-gtacatcc----------------c-a-------------------------------------
  D             Scarlet macaw  aaaaa-gtacatcc----------------caa-------------------------------------
  D              Mallard duck  aaaaa-gtacatca----------------c-a-------------------------------------
B D                   Chicken  aaaaa-gtacatca----------------c-a-------------------------------------
B D                    Turkey  aaaaa-gtacatca----------------c-a-------------------------------------
B D        American alligator  aggaa-gtacatta----------------c-a-------------------------------------
  D           Green seaturtle  aaaaa-gtacatca----------------c-a-------------------------------------
  D            Painted turtle  aaaaa-gtacatca----------------c-a-------------------------------------
  D  Chinese softshell turtle  aaaga-gaacgtca----------------c-a-------------------------------------
  D    Spiny softshell turtle  aaaga-gaacgtca----------------c-a-------------------------------------
B D                    Lizard  aaaat-gtacatca----------------c-a-------------------------------------
B D                    Tenrec  ======================================================================
             Star-nosed mole  ======================================================================
      Yellowbelly pufferfish  ----------------------------------------------------------------------
B D                      Fugu  ----------------------------------------------------------------------
B D               Stickleback  ======================================================================
         Pundamilia nyererei  ======================================================================
                 Zebra mbuna  ======================================================================
       Burton's mouthbreeder  ======================================================================
         Princess of Burundi  ======================================================================
B D                    Medaka  ======================================================================
B D                Coelacanth  ======================================================================
                 Spotted gar  ======================================================================
          Southern platyfish  ======================================================================
    Mexican tetra (cavefish)  ======================================================================
B D                 Zebrafish  ======================================================================
B D              Nile tilapia  ======================================================================
B D                 Tetraodon  ======================================================================
B D              Atlantic cod  ======================================================================
B D             X. tropicalis  ======================================================================

                        Human  --------------------------------------------gtttcag-------g-----------
                        Chimp  --------------------------------------------gtttcag-------g-----------
                      Gorilla  --------------------------------------------gtttcag-------g-----------
                    Orangutan  --------------------------------------------gtttcaa-------g-----------
                       Gibbon  --------------------------------------------gtttcaa-------g-----------
                       Rhesus  --------------------------------------------gtttcaa-------g-----------
          Crab-eating macaque  --------------------------------------------gtttcaa-------g-----------
                       Baboon  --------------------------------------------gtttcaa-------g-----------
                 Green monkey  --------------------------------------------gtttcaa-------g-----------
                     Marmoset  --------------------------------------------atttcaa-------g-----------
              Squirrel monkey  --------------------------------------------atttcaa-------g-----------
                     Bushbaby  --------------------------------------------attggaa-------a-----------
           Chinese tree shrew  --------------------------------------------attaaaa-------a-----------
                     Squirrel  --------------------------------------------atttaaa-------a-----------
       Lesser Egyptian jerboa  --------------------------------------------attaaaa-------a-----------
                 Prairie vole  --------------------------------------------atttaaa-------a------aaaaa
              Chinese hamster  --------------------------------------------attaaa---------------aaaat
               Golden hamster  --------------------------------------------attaaaa-------aaaaaacaaaaa
                        Mouse  --------------------------------------------aattaaa-------a-----------
                          Rat  --------------------------------------------aattaaa-------a-----------
               Naked mole-rat  --------------------------------------------attttta-------a-----------
                   Guinea pig  --------------------------------------------attttaa-------a-----------
                   Chinchilla  --------------------------------------------attttaa-------a-----------
             Brush-tailed rat  --------------------------------------------attttaa-------a-----------
                         Pika  --------------------------------------------attaaaa-------a-----------
                       Alpaca  --------------------------------------------gttaaaa------ta-----------
               Bactrian camel  --------------------------------------------gttaaaa-------a-----------
                      Dolphin  --------------------------------------------attt-aa-------a-----------
                 Killer whale  --------------------------------------------attt-aa-------a-----------
             Tibetan antelope  --------------------------------------------atttaaa-------a-----------
                          Cow  --------------------------------------------atttaaa-------a-----------
                        Sheep  --------------------------------------------atttaaa-------a-----------
                Domestic goat  --------------------------------------------atttaaa-------a-----------
                        Horse  --------------------------------------------attttaa-------a-----------
             White rhinoceros  --------------------------------------------attaaaa-------a-----------
                          Cat  --------------------------------------------atttaaa-------a-----------
                          Dog  --------------------------------------------atttaaa-------a-----------
                      Ferret   --------------------------------------------attaaaaacaaaaca-----------
                        Panda  --------------------------------------------atttaaa-------a-----------
               Pacific walrus  --------------------------------------------attaaaa-------a-----------
                 Weddell seal  --------------------------------------------atttaaa-------a-----------
             Black flying-fox  --------------------------------------------taaaaaa-------a-----------
                      Megabat  --------------------------------------------taaaaaa-------a-----------
                Big brown bat  --------------------------------------------aattaaa-------a-----------
         David's myotis (bat)  --------------------------------------------agtcgga-------a-----------
                     Microbat  --------------------------------------------gattaaa-------a-----------
                     Hedgehog  agaagaggaggaggaagaggaagaggaggaggaggaggaggaggaggagga-------a-----------
                        Shrew  --------------------------------------------attaaaa-------a-----------
                     Elephant  --------------------------------------------at----g-------a-----------
          Cape elephant shrew  --------------------------------------------g-------------------------
                      Manatee  --------------------------------------------at----g-------a-----------
             Cape golden mole  --------------------------------------------at----g-------g-----------
                     Aardvark  --------------------------------------------c-------------------------
                    Armadillo  --------------------------------------------ac----g-------g-----------
                      Opossum  --------------------------------------------ctgaaag-------a-----------
              Tasmanian devil  --------------------------------------------ctgaaag-------a-----------
                      Wallaby  --------------------------------------------ctgaaag-------g-----------
                     Platypus  --------------------------------------------gtagaaa-------a-----------
                  Rock pigeon  --------------------------------------------a----at-------c-----------
                 Saker falcon  --------------------------------------------at----a-------a-----------
             Peregrine falcon  --------------------------------------------at--aaa-------a-----------
          Collared flycatcher  --------------------------------------------at---ag-------a-----------
       White-throated sparrow  --------------------------------------------at---ag-------a-----------
          Medium ground finch  --------------------------------------------at---ag-------a-----------
                  Zebra finch  --------------------------------------------at---ag-------a-----------
           Tibetan ground jay  --------------------------------------------gc---ag-------a-----------
                   Budgerigar  --------------------------------------------ct---aa-------g-----------
                       Parrot  --------------------------------------------ca---ag-------g-----------
                Scarlet macaw  --------------------------------------------ct---aa-------g-----------
                 Mallard duck  --------------------------------------------at---aa-------a-----------
                      Chicken  --------------------------------------------at---aa-------a-----------
                       Turkey  --------------------------------------------at---aa-------a-----------
           American alligator  --------------------------------------------at---ga-------g-----------
              Green seaturtle  --------------------------------------------at---aa-------a-----------
               Painted turtle  --------------------------------------------at---aa-------a-----------
     Chinese softshell turtle  --------------------------------------------at---aa-------a-----------
       Spiny softshell turtle  --------------------------------------------at---aa-------a-----------
                       Lizard  --------------------------------------------gt---gt-------a-----------
                       Tenrec  ======================================================================
              Star-nosed mole  ======================================================================
       Yellowbelly pufferfish  ----------------------------------------------------------------------
                         Fugu  ----------------------------------------------------------------------
                  Stickleback  ======================================================================
          Pundamilia nyererei  ======================================================================
                  Zebra mbuna  ======================================================================
        Burton's mouthbreeder  ======================================================================
          Princess of Burundi  ======================================================================
                       Medaka  ======================================================================
                   Coelacanth  ======================================================================
                  Spotted gar  ======================================================================
           Southern platyfish  ======================================================================
     Mexican tetra (cavefish)  ======================================================================
                    Zebrafish  ======================================================================
                 Nile tilapia  ======================================================================
                    Tetraodon  ======================================================================
                 Atlantic cod  ======================================================================
                X. tropicalis  ======================================================================

                        Human  --------------------------------------aa-----aca----------------------
                        Chimp  --------------------------------------aa-----aca----------------------
                      Gorilla  --------------------------------------aa-----aca----------------------
                    Orangutan  --------------------------------------aa-----aca----------------------
                       Gibbon  --------------------------------------aa-----aca----------------------
                       Rhesus  --------------------------------------aa-----aca----------------------
          Crab-eating macaque  --------------------------------------aa-----aca----------------------
                       Baboon  --------------------------------------aa-----aca----------------------
                 Green monkey  --------------------------------------aa-----aca----------------------
                     Marmoset  --------------------------------------ag-----aca----------------------
              Squirrel monkey  --------------------------------------ag-----aca----------------------
                     Bushbaby  --------------------------------------aa-----aaa----------------------
           Chinese tree shrew  --------------------------------------aa-----gaa----------------------
                     Squirrel  ---------------------------------------------aag----------------------
       Lesser Egyptian jerboa  ---------------------------------------a-----aag----------------------
                 Prairie vole  tcaaaacaaacaaagaaacaaaa-------acacaccaaa-----aga----------------------
              Chinese hamster  caaaaacaaacaaa----------------------caaa-----aga----------------------
               Golden hamster  caaaaacaaacggaaaaaaaaaaaaaaaccacacaccaaa-----aga----------------------
                        Mouse  ------------------------------------caaa-----agg----------------------
                          Rat  ------------------------------------caaa-----acg----------------------
               Naked mole-rat  ---------------------------------------a-----aag----------------------
                   Guinea pig  ---------------------------------------a-----aaa----------------------
                   Chinchilla  ---------------------------------------a-----aag----------------------
             Brush-tailed rat  ---------------------------------------a-----aag----------------------
                         Pika  -----------------------------------------------a----------------------
                       Alpaca  --------------------------------------aa-----aaaaaaataaaaaataaaaaaaaaa
               Bactrian camel  --------------------------------------aa-----aaaaaaaaaaaaaaaaaaaaaaaag
                      Dolphin  --------------------------------------aa-----aaa----------------------
                 Killer whale  --------------------------------------aa-----aaa----------------------
             Tibetan antelope  --------------------------------------aa-----aaa----------------------
                          Cow  --------------------------------------aa-----aaa----------------------
                        Sheep  --------------------------------------aa-----aaa----------------------
                Domestic goat  --------------------------------------aa-----aaa----------------------
                        Horse  --------------------------------------aa-----aaaa---------------------
             White rhinoceros  --------------------------------------aa-----aaaa---------------------
                          Cat  --------------------------------------aa-----aaa----------------------
                          Dog  --------------------------------------aa-----aaa----------------------
                      Ferret   --------------------------------------aa-----aaaaacaac-------aaaaaaaaa
                        Panda  --------------------------------------aa-----aa-----------------------
               Pacific walrus  --------------------------------------aa-----aaaaaaaac----------------
                 Weddell seal  --------------------------------------aa-----aaaatcggc----------------
             Black flying-fox  --------------------------------------t-------------------------------
                      Megabat  --------------------------------------t-------------------------------
                Big brown bat  --------------------------------------a-------------------------------
         David's myotis (bat)  --------------------------------------a-------------------------------
                     Microbat  --------------------------------------a-------------------------------
                     Hedgehog  --------------------------------------ga-----a------------------------
                        Shrew  --------------------------------------cg-----a------------------------
                     Elephant  -------------------------------aaaccaaga-----gca----------------------
          Cape elephant shrew  ----------------------------------------------------------------------
                      Manatee  ----------------------------------------------------------------------
             Cape golden mole  -------------------------------acaatggag-----gaa----------------------
                     Aardvark  ----------------------------------------------------------------------
                    Armadillo  ------------------aagagaaacaaagaaacaaaaa-----gaa----------------------
                      Opossum  --------------------------------------ac-----agg----------------------
              Tasmanian devil  --------------------------------------ac-----agg----------------------
                      Wallaby  --------------------------------------at-----agg----------------------
                     Platypus  --------------------------------------ga-----aaaaaaaaaaattcaaataaagac-
                  Rock pigeon  --------------------------------------aa-----gat----------------------
                 Saker falcon  --------------------------------------aa-----aaa----------------------
             Peregrine falcon  --------------------------------------aa-----aaa----------------------
          Collared flycatcher  --------------------------------------aa-----aaa----------------------
       White-throated sparrow  --------------------------------------aa-----aaa----------------------
          Medium ground finch  --------------------------------------aa-----aaa----------------------
                  Zebra finch  --------------------------------------aa-----aaa----------------------
           Tibetan ground jay  --------------------------------------ta-----aaa----------------------
                   Budgerigar  --------------------------------------ga-----gga----------------------
                       Parrot  --------------------------------------ga-----gaa----------------------
                Scarlet macaw  --------------------------------------ga-----gga----------------------
                 Mallard duck  --------------------------------------aaaa-g-aat----------------------
                      Chicken  --------------------------------------aaaa-ataat----------------------
                       Turkey  --------------------------------------aaaa---aat----------------------
           American alligator  --------------------------------------agac-gaaag----------------------
              Green seaturtle  --------------------------------------aaaa-gtaag----------------------
               Painted turtle  --------------------------------------aaaa--taag----------------------
     Chinese softshell turtle  --------------------------------------aaaa-g-aag----------------------
       Spiny softshell turtle  --------------------------------------aaaa-ataag----------------------
                       Lizard  --------------------------------------tacatgaaga----------------------
                       Tenrec  ======================================================================
              Star-nosed mole  ======================================================================
       Yellowbelly pufferfish  ----------------------------------------------------------------------
                         Fugu  ----------------------------------------------------------------------
                  Stickleback  ======================================================================
          Pundamilia nyererei  ======================================================================
                  Zebra mbuna  ======================================================================
        Burton's mouthbreeder  ======================================================================
          Princess of Burundi  ======================================================================
                       Medaka  ======================================================================
                   Coelacanth  ======================================================================
                  Spotted gar  ======================================================================
           Southern platyfish  ======================================================================
     Mexican tetra (cavefish)  ======================================================================
                    Zebrafish  ======================================================================
                 Nile tilapia  ======================================================================
                    Tetraodon  ======================================================================
                 Atlantic cod  ======================================================================
                X. tropicalis  ======================================================================

                        Human  --a--------------gccccaccaggg----------t---ggg-ct-g-----cctggagatgga--
                        Chimp  --a--------------gccccaccaggg----------t---ggg-ct-g-----cctggagatgga--
                      Gorilla  --a--------------gccccaccaggg----------t---ggg-ct-g-----cctggagatgga--
                    Orangutan  --a--------------gccccaccaggg----------t---ggg-ct-g-----cctggagatgga--
                       Gibbon  --a--------------gccccaccaggg----------t---agg-ct-g-----cctggagatgga--
                       Rhesus  --a--------------gccccaccgggg----------t---ggg-ct-g-----cctggagatgga--
          Crab-eating macaque  --a--------------gccccaccgggg----------t---ggg-ct-g-----cctggagatgga--
                       Baboon  --a--------------gccccaccgggg----------t---ggg-ct-g-----cctggagatgga--
                 Green monkey  --a--------------gccccaccgggg----------t---ggg-ct-g-----cctggagatgga--
                     Marmoset  --a--------------ggcccaccaggg----------c---ggg-ct-g-----cctggagataga--
              Squirrel monkey  --a--------------ggcccaccaggg----------c---ggg-ct-g-----cctggagataga--
                     Bushbaby  --gaaaaagaaaatactagcccaccaaga----------c---ggg-ctgg-----tctggagataaa--
           Chinese tree shrew  --a--------aacagcagcccactggga----------t---gagcct-g-----cctggggac-ga--
                     Squirrel  --g--------------ggcccaccagga----------t---ggg-ct-g-----cctggagata-a--
       Lesser Egyptian jerboa  --t--------------agccctccaaga----------t---ggg-ct-gg----cctggaaaaaaa--
                 Prairie vole  --t--------------agctctttaaga----------t---ggg-ct-gg----cctggagagaga--
              Chinese hamster  --c--------------agctctttaaga----------t---ggg-ct-gg----cctggagagaga--
               Golden hamster  --c--------------agctctttaaga----------t---ggg-ct-gg----cctgaagagaga--
                        Mouse  --t--------------agcccttcaaga----------g---ggg-ct-ga----cctggacagaga--
                          Rat  --t--------------agcccttcaaga----------t---ggg-ct-gg----cctggacagaga--
               Naked mole-rat  --t--------------agcccagcaaga----------t---gga-ct-gg----cctggagataaa--
                   Guinea pig  --t--------------agcccagcaaga----------t---gga-ct-gg----ccagaagataaa--
                   Chinchilla  --t--------------agcccagcaaga----------t---gga-ct-gg----ctcggagataaa--
             Brush-tailed rat  --t--------------agcccagcaaga----------t---gga-ct-gg----ctcggagataaa--
                         Pika  --c--------------tgcccagcgag-----------t---ggg-cc-gg----cctggtagtcaa--
                       Alpaca  aac--------------ggcccaccaaga-----cgggcc---ggg-ct-gg----cctggagataaa--
               Bactrian camel  taa--------------ggcccaccaaga-----cgggcc---ggg-ct-gg----cctggagataaa--
                      Dolphin  -----------------ggcccaccaaga-----tgggct---ggg-ct-gg----cctggaaataaa--
                 Killer whale  -----------------ggcccaccaaga-----tgggct---ggg-ct-gg----cctggaaataaa--
             Tibetan antelope  -----------------ggcccaccaaga-----tgggct---ggg-ct-gg----cctggaaataaa--
                          Cow  -----------------ggcccaccaagatgggctgggct---ggg-ct-gg----cctggaaataaa--
                        Sheep  -----------------gccccaccaaga-----tgggct---ggg-ct-gg----cctggaaataaa--
                Domestic goat  -----------------ggcccaccaaga-----tgggct---ggg-ct-gg----cctggaaataaa--
                        Horse  --g--------------ggcccaccaaga----------t---ggg-ct-gg----cctggagataaa--
             White rhinoceros  --t--------------ggcccaccaagg----------t---ggg-ct-gg----cctggagataaa--
                          Cat  --t--------------ggcccag-aaga----------t---ggg-ct-gg----cctggagataaa--
                          Dog  --c--------------ggcccatcaaga----------t---ggg-ct-gg----cctggagataaa--
                      Ferret   aac--------------agcccaccacag----------t---gag-ct-gg----ctcggagagaaa--
                        Panda  --c--------------ggcccaccaagg----------t---gag-ct-gg----cctggagagaaa--
               Pacific walrus  aac--------------ggcccaccaggg----------t---gag-ct-gg----cctggagagaaa--
                 Weddell seal  -------------------ccccccaagg----------t---gag-ct-gg----cctggagagaaa--
             Black flying-fox  --g--------------ggccc------c----------g---acg-tt-gg----cctggggag--g--
                      Megabat  --g--------------ggccc------c----------g---agg-tt-gg----cctggggag--g--
                Big brown bat  --a--------------ggccct-----g----------a---ggg-ct-gg----cctggagac-aa--
         David's myotis (bat)  --g--------------gccccgc----g----------g---ggg-ct-gg----cc-ggagac--a--
                     Microbat  --g--------------gccccgc---ag----------a---ggg-cc-gg----cctggagac-aa--
                     Hedgehog  -----------------ggcatgcccaga----------t---ggg-ct-gg----cctggagataaa--
                        Shrew  -----------------ggcccgcc-------------------gg-cc-------cccgaag-------
                     Elephant  --g---------------------gcagc----------c---agg-cg-gc----cctggagacaga--
          Cape elephant shrew  ----------------------------------------------------------gggagacggg--
                      Manatee  ---------------------------------------c---aag-ag-gc----gctggcgacaga--
             Cape golden mole  --a---------------------cgggg----------c---gag-gg-cg----ggcagagacaga--
                     Aardvark  ---------------------------------------t---aaa-ga-ac----ccaagtgacag---
                    Armadillo  --acaaaaacac-----ggttcaccaaga----------c---agg-ct-ga----cctggaaacaag--
                      Opossum  --a--------------ggcttaccaaat------gatct---ggg-ct-a------ttaaaggtaac--
              Tasmanian devil  --a--------------ggctcaccaaat------gatct---ggg-ct-g------ttaaaggtaac--
                      Wallaby  --a--------------ggctcaccaaat------gatct---ggg-ct-a------ttaaagataac--
                     Platypus  --t--------------ctctcaccaggg----------c---agg-ct-gggct-actggagtccaaaa
                  Rock pigeon  --g--------------ggcccagcgggc----------t---gcg-ct-ggcca-cccggagacaga--
                 Saker falcon  --a--------------agcccagctggc----------t---ggg-ct-ggcta-cctagtgacaga--
             Peregrine falcon  --a--------------agcccagctggc----------t---ggg-ct-ggcta-cctagtgacaga--
          Collared flycatcher  --g--------------agcccagctggc----------t---ggg-ct-ggctc-cctagtgacagt--
       White-throated sparrow  --g--------------agcccagctggc----------t---ggg-ct-ggctc-cctagtgacagt--
          Medium ground finch  --g--------------agcccagctggc----------t---ggg-ct-ggctc-cctagtgacagt--
                  Zebra finch  --g--------------agcccagctggc----------t---ggg-ct-ggctc-cctagtgacagt--
           Tibetan ground jay  --g--------------agcccagctggc----------t---ggg-ct-ggctc-cctagtgacagt--
                   Budgerigar  --g--------------cac------agc----------a---ggg-ct-ggctc-cctggtgacaga--
                       Parrot  --g--------------cgc-------gc----------a---gggccc-agttc-cctggtgacaga--
                Scarlet macaw  --g--------------cgc------agc----------a---gggccc-ggctc-cctggtgacagt--
                 Mallard duck  --g--------------aacccagctggc----------a---ggg-ct-ggcta-cctagtgacaga--
                      Chicken  --g--------------aacccagctggc----------t---ggg-ct-ggcta-cctagtgataga--
                       Turkey  --g--------------aacccagctggc----------t---ggg-ct-ggctaccctagtgataga--
           American alligator  --a--------------ggcccaggcgcc----------t---ggg-ct--gcta-cctaaggacaaa--
              Green seaturtle  --a--------------ggcccaggtgcc----------t---ggg-c--agcta-cctagcgacaga--
               Painted turtle  --a--------------ggcccaggtgcc----------t---ggg-c--agcta-cctagcaacaga--
     Chinese softshell turtle  --a--------------tgcccaggtgcc----------c---agg-c--ggcta-cctagcgacaga--
       Spiny softshell turtle  --a--------------ggcccaggtgcc----------t---ggg-c--agcta-cctagagacaga--
                       Lizard  --a--------------aacaaagttccc----------tgtaggg-ta-ggcta-cctgg---ccgg--
                       Tenrec  ======================================================================
              Star-nosed mole  ======================================================================
       Yellowbelly pufferfish  ----------------------------------------------------------------------
                         Fugu  ----------------------------------------------------------------------
                  Stickleback  ======================================================================
          Pundamilia nyererei  ======================================================================
                  Zebra mbuna  ======================================================================
        Burton's mouthbreeder  ======================================================================
          Princess of Burundi  ======================================================================
                       Medaka  ======================================================================
                   Coelacanth  ======================================================================
                  Spotted gar  ======================================================================
           Southern platyfish  ======================================================================
     Mexican tetra (cavefish)  ======================================================================
                    Zebrafish  ======================================================================
                 Nile tilapia  ======================================================================
                    Tetraodon  ======================================================================
                 Atlantic cod  ======================================================================
                X. tropicalis  ======================================================================

                        Human  -----tccctttccaaaa-accgaaa------agc--agaagg---aagag
                        Chimp  -----tccctttccaaaa-accgaaa------agc--agaagg---aagag
                      Gorilla  -----tccctttccaaaa-accgaaa------agc--agaagg---aagag
                    Orangutan  -----tccctttccaaaa-accgaaa------agc--agaagg---aagag
                       Gibbon  -----tccctttccaaaa-accgaaa------agc--agaagg---aagag
                       Rhesus  -----tccctttccaaaa-accgaaa------agc--agaagg---aagag
          Crab-eating macaque  -----tccctttccaaaa-accgaaa------agc--agaagg---aagag
                       Baboon  -----tccctttccaaaa-accgaaa------agc--agaagg---aagag
                 Green monkey  -----tccctttccaaaa-accgaaa------agc--agaagg---aagag
                     Marmoset  -----tccctttccaaaa-actgaaa------agc--aaaagg---aagag
              Squirrel monkey  -----tccctttccgaaa-actgaaa------agc--aaaagg---aagag
                     Bushbaby  -----tccctttccaaaa-attgaaa------agc--aaaagg---aggac
           Chinese tree shrew  -----tccctttcc-aaa-cctgaaa------agc----aagg---gagag
                     Squirrel  -----tccctttcc-aaacattgaaa------agc-------g---aggag
       Lesser Egyptian jerboa  -----tccctttccaaaa-actgaaa------agc-----------aagag
                 Prairie vole  -----tcccttt-c-aaa-atttaaa------agc------aa---aagag
              Chinese hamster  -----tccctttcc-aaa-attgaaa------agc------aa---aagag
               Golden hamster  -----tccctctcc-aaa-actgaaa------agc------aa---aagag
                        Mouse  -----tccctttcc-aaa-attgaaa------agc---aaaag---aagag
                          Rat  -----tccctttcc-aaa-attgaaa------agcaaaaaaag---aagag
               Naked mole-rat  -----tccctttccaaaa-gttgaaa------agc--aaaagg-----gag
                   Guinea pig  -----tccctttccaaaa-attgaaa------agc--aaaagg---aagag
                   Chinchilla  -----tccctttccaaaa-attgaaa------agc--aaaagg---aagaa
             Brush-tailed rat  -----tccctttccaaaa-attgaaa------aat--aaaagg---aagag
                         Pika  -----ttcctttccaaag-attgaaa------agt----gtgg---aggag
                       Alpaca  -----tccctttccaaaa-attgaaa------agc--gaa------ggaag
               Bactrian camel  -----tccctttccaaaa-attgaaa------agc--gaa------ggaag
                      Dolphin  -----cccctttccaaaa-gttgaaa------agc--aaa------ggaag
                 Killer whale  -----cccctttccaaaa-gttgaaa------agc--aaa------ggaag
             Tibetan antelope  -----cccctttccaaaa-gttgaaa------agc--aaa------ggaag
                          Cow  -----cccttttccaaaa-gttgaaa------agc--aaa------ggaag
                        Sheep  -----cccctttccaaaa-gttgaaa------agc--aaa------ggaag
                Domestic goat  -----cccctttccaaaa-gttgaaa------agc--aaa------ggaag
                        Horse  -----tccctttgcaaaa-gttgaaa------agc--aaaaag---acgag
             White rhinoceros  -----tccctttccaaaa-gttgaaa------agc--aaaagg---aagag
                          Cat  -----tccctttccaaag-attgaaa------agc--aaa------gggtg
                          Dog  -----tccctttccaaaa-attgaaa------agc--agaagg---aagag
                      Ferret   -----tccctttccaaaa-actgaaa------agc--acaagt---aagag
                        Panda  -----tccctttccaaaa-attgaaa------agt-----------aagag
               Pacific walrus  -----tccttttccaaaa-attgaaa------agc--ag-------aagag
                 Weddell seal  -----tccctttccaaaa-attgaaa------agc--agaagt---aagag
             Black flying-fox  -----gtcctttccagga-acggaaa------ggc--ggaag----gagag
                      Megabat  -----gtcctttccagga-acggaaa------ggc--ggaag----gagag
                Big brown bat  -----gccctttcc----------ga------gat--gaagc----agaag
         David's myotis (bat)  -----gccctttcc----------ca------gac--gccgc----tgaag
                     Microbat  -----gccctttcc----------ca------gac--gaagc----agaag
                     Hedgehog  -----tccctttccaaaa-attgaaa------agc--cagtgg---aagag
                        Shrew  -----ccccctt---------------------------gtgg---gcagg
                     Elephant  -----t-cctttccagac-g--gaag------agc--cagag----gggag
          Cape elephant shrew  -----t-cc-atccgggc----gagg------agc--cccca----gcggg
                      Manatee  -----t-cctttccaaat----gaag------agc--cagag----aagag
             Cape golden mole  -----c-ccttcccaaa-----gtgg------agc--tgca------cggg
                     Aardvark  --------cagtccagcc--------------agg--cggag----gcggg
                    Armadillo  -----tccctttccaaaa-ttcgaag------agc--aagag----ac---
                      Opossum  -----tcacttttcaaaa-attgaaa------agc--aaaaag---gaaag
              Tasmanian devil  -----tcacttttcaaaa-attgaaa------agc--aaaaag---gaaaa
                      Wallaby  -----tcacttttcaaaa-actgaaa------agc--aaaaag---gaaag
                     Platypus  ccttccccccttcccctc-gccaaaa------agg--aaaaaa---aaaaa
                  Rock pigeon  -----tcc---ttggaga-gccgagg------g----aaaggaaggaag--
                 Saker falcon  -----tcccttctcaaaa-gggaaaa------ga---aaagaa---aag--
             Peregrine falcon  -----tcccttctcaaaa-gggaaaa------ga---aaagaa---aag--
          Collared flycatcher  -----tcccttttcaaaa-gccaaaa------g----aaagaa---aag--
       White-throated sparrow  -----tcccttttcaaaa-gccaaaa------g----aaagaa---aag--
          Medium ground finch  -----tcccttttcaaaa-gccaaaa------g----aaagaa---aag--
                  Zebra finch  -----tcccttttcaaaa-gccaaaa------g----aacgaa---aaa--
           Tibetan ground jay  -----tcccttttcaaaa-gccaaaa------g----aaagaa---aag--
                   Budgerigar  -----tcccttctcaaaa-gccaaac-----------agaaaa---gag--
                       Parrot  -----tcccttctcaaaa-gccaaac-----------agaaaa---gag--
                Scarlet macaw  -----tcccttctcgaaa-gccaaac-----------agaaaa---gag--
                 Mallard duck  -----tcccttttcgaaa-gtgaaag------a----aaaaga---tag--
                      Chicken  -----tcccttctcaaaa-gtgaaaagaaagaa----aaaaga---tag--
                       Turkey  -----tcccttctcaaaa-gtgaaaagaaag-a----aaaaga---tag--
           American alligator  -----tccctttccagaa-ccagaga------g----ggaggg---ggg--
              Green seaturtle  -----ccccttctcagaa-ctgaaaa--gtaag----aggaga---cag--
               Painted turtle  -----tcccttttcagaa-ctgaaaa--gtaag----aggaga---cag--
     Chinese softshell turtle  -----ccctttc-cagaa-ctgaa---------------gaga---cag--
       Spiny softshell turtle  -----tcctttc-cagaa-ctgaa---------------gaga---cag--
                       Lizard  -----tcccatttccaaa-ataaaat-----------aaaaaa---aag--
                       Tenrec  ===================================================
              Star-nosed mole  ===================================================
       Yellowbelly pufferfish  ---------------------------------------------------
                         Fugu  ---------------------------------------------------
                  Stickleback  ===================================================
          Pundamilia nyererei  ===================================================
                  Zebra mbuna  ===================================================
        Burton's mouthbreeder  ===================================================
          Princess of Burundi  ===================================================
                       Medaka  ===================================================
                   Coelacanth  ===================================================
                  Spotted gar  ===================================================
           Southern platyfish  ===================================================
     Mexican tetra (cavefish)  ===================================================
                    Zebrafish  ===================================================
                 Nile tilapia  ===================================================
                    Tetraodon  ===================================================
                 Atlantic cod  ===================================================
                X. tropicalis  ===================================================

Inserts between block 10 and 11 in window
B D                  Opossum 3bp
B D          Tasmanian devil 3bp
B D                  Wallaby 31bp
B D                 Platypus 1bp

Alignment block 11 of 211 in window, 81843843 - 81843844, 2 bps 
B D                     Human  ac
B D                     Chimp  ac
B D                   Gorilla  ac
B D                 Orangutan  ac
B D                    Gibbon  ac
B D                    Rhesus  ac
B D       Crab-eating macaque  ac
B D                    Baboon  ac
B D              Green monkey  ac
B D                  Marmoset  ac
B D           Squirrel monkey  ac
B D                  Bushbaby  ac
           Chinese tree shrew  gc
B D                  Squirrel  ac
       Lesser Egyptian jerboa  ac
                 Prairie vole  ac
B D           Chinese hamster  ac
               Golden hamster  ac
B D                     Mouse  ac
B D                       Rat  ac
B D            Naked mole-rat  ac
B D                Guinea pig  ac
                   Chinchilla  ac
             Brush-tailed rat  ac
B D                      Pika  ac
B D                    Alpaca  ac
               Bactrian camel  ac
B D                   Dolphin  ac
                 Killer whale  ac
             Tibetan antelope  ac
B D                       Cow  ac
B D                     Sheep  ac
                Domestic goat  ac
B D                     Horse  ac
B D          White rhinoceros  ac
B D                       Cat  at
B D                       Dog  ac
B D                   Ferret   ac
B D                     Panda  ac
               Pacific walrus  at
                 Weddell seal  at
             Black flying-fox  gc
B D                   Megabat  gc
                Big brown bat  ac
         David's myotis (bat)  ac
B D                  Microbat  ac
B D                  Hedgehog  ac
B D                     Shrew  gc
B D                  Elephant  gc
          Cape elephant shrew  gc
B D                   Manatee  gt
             Cape golden mole  gc
                     Aardvark  gc
B D                   Opossum  at
B D           Tasmanian devil  at
B D                  Platypus  a-
  D               Rock pigeon  cc
  D              Saker falcon  at
  D          Peregrine falcon  at
  D       Collared flycatcher  gt
  D    White-throated sparrow  gt
B D       Medium ground finch  gt
B D               Zebra finch  gt
           Tibetan ground jay  gt
B D                Budgerigar  tc
  D                    Parrot  tc
  D             Scarlet macaw  tc
  D              Mallard duck  tc
B D                   Chicken  tg
B D                    Turkey  tg
B D        American alligator  gc
  D           Green seaturtle  tc
  D            Painted turtle  tc
  D  Chinese softshell turtle  tc
  D    Spiny softshell turtle  tc
B D                    Lizard  ac
B D                    Tenrec  ==
             Star-nosed mole  ==
B D                 Armadillo  --
      Yellowbelly pufferfish  --
B D                      Fugu  --
B D               Stickleback  ==
         Pundamilia nyererei  ==
                 Zebra mbuna  ==
       Burton's mouthbreeder  ==
         Princess of Burundi  ==
B D                    Medaka  ==
B D                Coelacanth  ==
                 Spotted gar  ==
B D                   Wallaby  ==
          Southern platyfish  ==
    Mexican tetra (cavefish)  ==
B D                 Zebrafish  ==
B D              Nile tilapia  ==
B D                 Tetraodon  ==
B D              Atlantic cod  ==
B D             X. tropicalis  ==

Inserts between block 11 and 12 in window
B D                 Elephant 2bp
         Cape elephant shrew 2bp
B D                  Manatee 2bp
            Cape golden mole 2bp
                    Aardvark 14bp
B D                 Platypus 18bp
  D             Saker falcon 5bp
  D         Peregrine falcon 5bp
B D       American alligator 7bp
B D                   Lizard 5bp

Alignment block 12 of 211 in window, 81843845 - 81843874, 30 bps 
B D                     Human  gggggt---gaac----ggacggt--gt--gtaggggt------gag
B D                     Chimp  gggggt---gaac----ggacggt--gt--gtaggggt------gag
B D                   Gorilla  gggggt---gaac----ggacggt--gt--gtaggggt------gag
B D                 Orangutan  gggggt---gaac----ggacggt--gt--gtgggggt------gag
B D                    Gibbon  gggggt---gaat----ggacggt--gt--gtgggggt------gag
B D                    Rhesus  gggggt---gaat----ggacggt--gt--gtgggggc------gag
B D       Crab-eating macaque  gggggt---gaat----ggacggt--gt--gtgggggc------gag
B D                    Baboon  gggggt---gaat----ggacggt--gt--gtgggggc------gag
B D              Green monkey  gggggt---gaat----ggacggt--gt--gtgggggc------gag
B D                  Marmoset  aggtgt---gaat----ggatgct--gt--gggggcac------aag
B D           Squirrel monkey  gggtgt---gaat----ggacgct--gt--ggggggac------acg
B D                  Bushbaby  aggact---aagt----ttacaa---gt--gtcaggat------ga-
           Chinese tree shrew  agg--------------------------------------------
B D                  Squirrel  aggtt----aggt----gcaca-c--gt--gt--g------------
       Lesser Egyptian jerboa  gggtta---atgt----gtaca-t--at--gttagaat------ga-
                 Prairie vole  aggttt---aggt----gcacg-t--gt--gttgg-at------gg-
B D           Chinese hamster  aggttt---aaat----gtacg-t--gt--gttag-at------ga-
               Golden hamster  aggttt---aagt----gtacg-t--gt--gttag-at------ga-
B D                     Mouse  aggtct---aagt----gtacg-t--gt--gtcag-at------ga-
B D                       Rat  aggttt---aagt----gtacg-t--gt--gtcag-at------ga-
B D            Naked mole-rat  gggttt---gcgt----ttcca-t--gt--gttggga----------
B D                Guinea pig  gaggcc---gagt----ttccc-t--gt--gtgaggac------ga-
                   Chinchilla  gggtct---gagt----ttcca-t--gt--gttaggac------ac-
             Brush-tailed rat  gggtct---gagt----ttcca-t--gt--gttaggac------gc-
B D                      Pika  --gctc---gggt----ccccg-c--g--------------------
B D                    Alpaca  gggttt---agag----ttaca-c--gt--gttggggt------gaa
               Bactrian camel  gggttt---agag----ttaca-catgt--gttggggt------gaa
B D                   Dolphin  gggttt---agat----ttaca-cgtgt--gttagagt------gaa
                 Killer whale  gggttt---agat----ttaca-cgtgt--gttagagt------gaa
             Tibetan antelope  gggttt---agat----ttgca-cgtgt--gttagagt------gaa
B D                       Cow  gggttt---agat----ttgca-cgtgt--ggtagagt------gaa
B D                     Sheep  gggttt---agat----ttgca-cgtgt--gttagagt------gaa
                Domestic goat  gggttt---agat----ttgca-cgtgt--gttagagt------gaa
B D                     Horse  gggttt---aaat----ttaca-c--gt--gttagaat------gaa
B D          White rhinoceros  gggttt---aaat----ttaca-t--gt--gttagaat------gaa
B D                       Cat  gggttt---cgat----ttaca-catgt--gttagaat------gaa
B D                       Dog  gggcct---aagt----ttaca-cgtat--gttaggat------gaa
B D                   Ferret   gggtct---aaat----ttacg-c--gt--gtcaggat------aaa
B D                     Panda  aggtct---aaat----ttacg-catgt--gttaggat------gaa
               Pacific walrus  gggtct---aaat----ttaca-c--gt--gttaggat------gaa
                 Weddell seal  gggtct---aaat----ttaca-c--gt--gttaggat------gaa
             Black flying-fox  gggtct---aagc----ctacg-c--gt--gtca--gt------gag
B D                   Megabat  gggtct---aagc----ctacg-c--gt--gtca--gt------gag
                Big brown bat  gggctt---aaat----gtaca-cgagt--gtcagcgt------gaa
         David's myotis (bat)  gggctt---caat----gtaca-cgagt--gtcagcgt------gaa
B D                  Microbat  gggctt---caat----gtaca-cgagt--gtcagcgt------gaa
B D                  Hedgehog  gggttt---ggat----tgaca-t--gt--gtgagaat------gag
B D                     Shrew  gg---------------------c--gg--gtgcgccc------gag
B D                  Elephant  ----gg---aggt----gtact-t--gt--gttagg-g------gaa
          Cape elephant shrew  ----g----------------c-g--gt--gtta----------gaa
B D                   Manatee  ----gg---agac----ggac-----at--gttagg-g------gaa
             Cape golden mole  -----g---aggt----gtgca-t--gtgagttagg-g------gga
B D                    Tenrec  ----gg---aggt----ggacg-t--gt--gtgagg-a------gaa
                     Aardvark  ----ag---gggt----ggaca-c--gt--gtaagg-a------gaa
B D                 Armadillo  ---------agatttcggttca-c--gt--gttaggag------gaa
B D                   Opossum  ----tt---gaat----ttaca-tacat--gttagaat------gaa
B D           Tasmanian devil  ----tt---gaat----ttaca-tacat--gttagaat------gaa
B D                  Platypus  acattc---aaat----ttaca-ggtac--gttgagac------gaa
  D               Rock pigeon  ---------aagt----gtaca-gacaa--gtgagggc------aa-
  D              Saker falcon  ----ca---aagt----gtaca-gccac--atgagggt------aaa
  D          Peregrine falcon  ----ca---aagt----gtaca-gccac--atgagggt------aaa
  D       Collared flycatcher  ---------aagt----gtaca-gacaa--gtgagggt------aaa
  D    White-throated sparrow  ---------aagt----gtaca-gacaa--gtgagggt------aaa
B D       Medium ground finch  ---------aagt----gtaca-gacaa--gtgagggt------aaa
B D               Zebra finch  ---------aagt----gtaca-gacaa--gtgagggt------aaa
           Tibetan ground jay  ---------aagt----gtaca-gacaa--gtgagggt------aaa
B D                Budgerigar  ---------aagt----gtaca-gacaa--gtgagggg------aaa
  D                    Parrot  ---------gagt----gtaca-gacaa--gtgagggg------aag
  D             Scarlet macaw  ---------gagt----gtaca-gacaa--gtgagggg------aaa
  D              Mallard duck  ---------aagt----gtaaa-gagaa--gtgagggt------gaa
B D                   Chicken  ---------aagt----gtaaa-gacaa--gtgagggc------gaa
B D                    Turkey  ---------aagt----gtaaa-gacaa--gtgagggt------gaa
B D        American alligator  ----aa---gagc----gagca-gacaa--gggaaggg------caa
  D           Green seaturtle  ---------aagt----gtaca-gacaa--gttaggat------gaa
  D            Painted turtle  ---------aagt----gtaca-gacaa--gttaggat------gaa
  D  Chinese softshell turtle  ---------aagt----gcaca-gacaa--gggagggt---ggagaa
  D    Spiny softshell turtle  ---------aagt----gtaca-gacaa--gtgagggtgaagaagaa
B D                    Lizard  ----caatcaatt----tgaca-gagaa--gttaggat------gaa
             Star-nosed mole  ===============================================
      Yellowbelly pufferfish  -----------------------------------------------
B D                      Fugu  -----------------------------------------------
B D               Stickleback  ===============================================
         Pundamilia nyererei  ===============================================
                 Zebra mbuna  ===============================================
       Burton's mouthbreeder  ===============================================
         Princess of Burundi  ===============================================
B D                    Medaka  ===============================================
B D                Coelacanth  ===============================================
                 Spotted gar  ===============================================
B D                   Wallaby  ===============================================
          Southern platyfish  ===============================================
    Mexican tetra (cavefish)  ===============================================
B D                 Zebrafish  ===============================================
B D              Nile tilapia  ===============================================
B D                 Tetraodon  ===============================================
B D              Atlantic cod  ===============================================
B D             X. tropicalis  ===============================================

Alignment block 13 of 211 in window, 81843875 - 81843925, 51 bps 
B D                     Human  gtgtcac--ttcag--------agaggt-----------tccctgggtt-tccggcg---ac---g--c-
B D                     Chimp  gtgtcac--ttcag--------agaggt-----------tccctgggtt-tccggcg---ac---g--c-
B D                   Gorilla  gtgtcac--ttcag--------agaggt-----------tccctgggtt-tccggcg---at---g--c-
B D                 Orangutan  gtgtcac--ttcag--------agaggt-----------tccctgggtt-tccggcg---ac---g--c-
B D                    Gibbon  gtgtcac--ttcag--------aaaggt-----------tccctgggtt-tccggcg---ac---g--c-
B D                    Rhesus  gtgtcac--ttcag--------aaaggt-----------tccctgggtt-tccggcg---ac---g--c-
B D       Crab-eating macaque  gtgtcac--ttcag--------aaaggt-----------tccctgggtt-tccggcg---ac---g--c-
B D                    Baboon  gtgtcac--ttcag--------aaaggt-----------tccctgggtt-tccggcg---ac---g--c-
B D              Green monkey  gtgtcac--ttcag--------aaaggt-----------tccctgggtt-tccggcg---ac---g--c-
B D                  Marmoset  gtgtcac--ttcag--------aaaggt-----------tccctggatt-ttcggca---at---g--c-
B D           Squirrel monkey  gtgtcac--ttcag--------aaaggt-----------tccctgggtt-ttcggcg---ac---g--c-
B D                  Bushbaby  atgtttc--ttcaa--------gaagat-----------tccctggatc-tccggtg---at---g--c-
           Chinese tree shrew  ------c--tccac--------gcggg-------------cgctggg----ccggcc---at---g--c-
B D                  Squirrel  ----------ttag--------aatgag-----------tccctgggtt-tccgatg---ac---actc-
       Lesser Egyptian jerboa  gtgtggc--ttcag--------aaagat-----------tccctggg-t-tctgatg---ac---gatc-
                 Prairie vole  gtgtggc--ttcag--------aaagac-----------tccctggg-t-tctgatg---gc---actc-
B D           Chinese hamster  gtgtggc--ttcag--------aaagat-----------tccctggg-t-tctggtg---at---gctc-
               Golden hamster  gtgtggc--ttcag--------aaagat-----------tccctggg-t-tctgatg---ac---gctc-
B D                     Mouse  gtgtggc--ttcag--------aaagat-----------tccctggg-t-tctgatg---gc---gctc-
B D                       Rat  gtgtggc--ttcag--------aaagat-----------tccctggg-t-tctgatg---gc---gctc-
B D            Naked mole-rat  ------c--tgcgg--------agggg-------------cccctgctc-cccag-g---gc---g--c-
B D                Guinea pig  gtgtggc--tgtgg--------gaggg-------------ccccggctc-ttcagtg---gc---g--c-
                   Chinchilla  gcgaggc--tgcag--------gagggc-----------tccctggctc-tccagtg---gt---t--c-
             Brush-tailed rat  gagtggc--tgcgg--------gagggc-----------tccccggctc-tccagtg---gc---g--c-
B D                      Pika  -------------------------ggc-----------tcccgggc-----------------------
B D                    Alpaca  gtgtggc--ttcag--------aaaagt-----------tccctgcatt-tccgaccgatgc---g--c-
               Bactrian camel  gtgtggc--ttcag--------aaaagt-----------tccctgcatt-tccgaccgatgc---g--c-
B D                   Dolphin  gtgtggc--ttcaa--------aaaagt-----------tccctgcatt-tccgatcgacgc---t--c-
                 Killer whale  gtgtggc--ttcaa--------aaaagt-----------tccctgcatt-tccgatcgacgc---t--c-
             Tibetan antelope  gtgtggc--ttcag--------aaaagt-----------tccctgcatt-tccgattgacgc---t--c-
B D                       Cow  gtgtggc--ttcag--------aaaagt-----------tccctgcatt-tccaatcgacgc---t--c-
B D                     Sheep  gtgtggc--ttcag--------aaaagt-----------tccctgcatt-tccgattgacgc---t--c-
                Domestic goat  gtgtggc--ttcag--------aaaagt-----------tccctgcatt-tccgattgacgc---t--c-
B D                     Horse  gtgttgc--ttcag--------aaaaat-----------tccctgcatt-tccgatcaatgc---t--c-
B D          White rhinoceros  gcgttgc--ctcag--------aaaaat-----------tccctgcatt-tccgatcgatgc---t--c-
B D                       Cat  gtgttgc--ttcag---------aaagt-----------tccctgcatt-tccgatggacat---t--c-
B D                       Dog  gtgtggc--ttcag--------aaaagt-----------tccctgcatt-tccgatcggtgt---t--c-
B D                   Ferret   gtgttgc--ttcag--------aaaaat-----------tccctgcact-tccggtcggtgt---c--c-
B D                     Panda  gtgttgc--ttcag--------aaaaat-----------tccctgcatt-tccggtcggtgt---t--c-
               Pacific walrus  gtgttgc--ttcag--------aaaaat-----------tccctgcatt-tccggtcggtgt---t--c-
                 Weddell seal  gtgttgc--ttcag--------aaaaat-----------tccctgcatt-tccggtcagtgt---t--c-
             Black flying-fox  gtgtcgc--ctcag---------gaagt-----------cccccgcact-tctggctggtgc---g--c-
B D                   Megabat  gtgtcgc--ctcag---------gaagt-----------cccccgcact-tctggctggtgc---g--c-
                Big brown bat  gtgtggc--ttcag---------aaagt-----------tccctgcatt-tccgatgggtgc---t----
         David's myotis (bat)  gtgtggc--ttcag----------aagg-----------tccctgcatt-tccgat-ggtgc---t--c-
B D                  Microbat  gtgtggc--ttcag----------aagt-----------tccctgcatt-tccgatgggtgc---t--c-
B D                  Hedgehog  gtggagc--ttcag--------aaaagt-----------tccctgcgtt-tccga-----gcgagg--t-
B D                     Shrew  -------------------------agg-----------tccctgcggt-tctgac----gc---t--c-
B D                  Elephant  gcgtta------------------gagg-----------tccctggat--ttcggtt---gc---t--g-
          Cape elephant shrew  gcgtca------------------agag-----------tccc-gggc--tgtggct---gc---t--ga
B D                   Manatee  gcatga------------------gagg-----------tccctggat--ttcggtc---gc---t--g-
             Cape golden mole  gcgtta------------------gagg-----------tccctggatt-tctggct---gc---t--g-
B D                    Tenrec  gcgtga------------------caag-----------tccctgggtc-ttcggtc---gc---t--g-
                     Aardvark  gcatca------------------ga-g-----------tccctggatt-tccggtc---gc---t--g-
B D                 Armadillo  gtgttaa--cgtga--------ggaggg-----------tccctgggt--gtccgat---ga---t--g-
B D                   Opossum  gtattacttttttt--------taaaaa-----------tccctggatt-ttcaatca--ag---a--c-
B D           Tasmanian devil  gtattaa--aaaaa--------aaaaaaaaaaaaaaaactccctggatt-ttcaatga--ac---a--c-
B D                   Wallaby  atattac--ttttt--------aaaaaa-----------tccctggatt-ttcaatca--ac---a--g-
B D                  Platypus  gtattac--tttaaaaaaaaaaaaaaaa-----------tccctggatt-tccatca---ac---g--t-
  D               Rock pigeon  gtgttat--tctaa-------aagccaa-----------tccctggatt-tccagtc---at---t--c-
  D              Saker falcon  gtgttac--tttaa-------aagccaa-----------tccctggatt-tccagtc---at---t--c-
  D          Peregrine falcon  gtgttac--tttaa-------aagccaa-----------tccctggatt-tccagtc---at---t--c-
  D       Collared flycatcher  gtgttac--tttag-------aagccaa-----------tccctggatt-tccagtc---at---t--t-
  D    White-throated sparrow  gtgttac--tttag-------aagccaa-----------tccctggatt-tccagtc---at---t--t-
B D       Medium ground finch  gtgttac--tttag-------aagccaa-----------tccctggatt-tccagtc---at---t--t-
B D               Zebra finch  gtgttac--tttag-------aagccaa-----------tccctggatt-tccagtc---at---t--t-
           Tibetan ground jay  gcgttac--tttag-------aagccaa-----------tccctggatt-tccagtc---at---t--t-
B D                Budgerigar  gtgttac--tttaa-------aagccaa-----------tccctggatt-ttcagtc---at---t--c-
  D                    Parrot  gtgttac--tttaa-------aagccaa-----------tccctgggtt-ttcagtc---at---t--c-
  D             Scarlet macaw  gtgttac--tttaa-------aagccaa-----------tccctgggtt-ttcagtc---at---t--c-
  D              Mallard duck  gtgttac--tttaa-------aagccaa-----------tccctggatt-tccagtc---at---t--c-
B D                   Chicken  gcgttac--tttaa-------gagccaa-----------tccctggatt-tccagtc---at---t--c-
B D                    Turkey  gcattat--tttaa-------gagccaa-----------tccctggatt-tccagtc---at---t--c-
B D        American alligator  agggtat--gttaa-------a--ccaa-----------ttcctgtgtt-tccagtc---ac---t--c-
  D           Green seaturtle  gtgttac--ttta---------aaccaa-----------tccctgcatt-tccagcc---aa---c--a-
  D            Painted turtle  gtgttac--ttta---------aaccaa-----------tccctgcatt-tccagcc---aa---c--a-
  D  Chinese softshell turtle  gtgttac--ttg----------agccaa-----------tccctgcatt-tctagcc---aa---c--a-
  D    Spiny softshell turtle  gtgttac--ttt----------agccaa-----------tccctgcatt-tccagcc---aa---c--a-
B D                    Lizard  aggttac--ttttg-------a--ccat-----------tccctgtattcttcagcc-------------
             Star-nosed mole  ======================================================================
      Yellowbelly pufferfish  ----------------------------------------------------------------------
B D                      Fugu  ----------------------------------------------------------------------
B D               Stickleback  ======================================================================
         Pundamilia nyererei  ======================================================================
                 Zebra mbuna  ======================================================================
       Burton's mouthbreeder  ======================================================================
         Princess of Burundi  ======================================================================
B D                    Medaka  ======================================================================
B D                Coelacanth  ======================================================================
                 Spotted gar  ======================================================================
          Southern platyfish  ======================================================================
    Mexican tetra (cavefish)  ======================================================================
B D                 Zebrafish  ======================================================================
B D              Nile tilapia  ======================================================================
B D                 Tetraodon  ======================================================================
B D              Atlantic cod  ======================================================================
B D             X. tropicalis  ======================================================================

                        Human  ----cctc---cttcaagc
                        Chimp  ----cctc---cttcaagc
                      Gorilla  ----cctc---cttcaagc
                    Orangutan  ----cctc---cttcaagc
                       Gibbon  ----cctc---cttcaagc
                       Rhesus  ----cctc---cttcagat
          Crab-eating macaque  ----cctc---cttcagat
                       Baboon  ----cctc---cttcagat
                 Green monkey  ----cctc---cttcagat
                     Marmoset  ----cctc---cttcaggt
              Squirrel monkey  ----cctc---cttcaggc
                     Bushbaby  ----cctc---ctacaggt
           Chinese tree shrew  ----ctcc---c--cgagt
                     Squirrel  ----cctg---ct-caggt
       Lesser Egyptian jerboa  ----cctc---ct-tgggt
                 Prairie vole  ----cctc---ct-taggt
              Chinese hamster  ----cctc---ct-taggt
               Golden hamster  ----cctc---ct-tgagt
                        Mouse  ----cctc---ct-ggggt
                          Rat  ----cctc---ct-ggggt
               Naked mole-rat  ----cctc---ct-caggt
                   Guinea pig  ----cctc---ct-cgggt
                   Chinchilla  ----cctc---ct-caggt
             Brush-tailed rat  ----cctc---ct-caggt
                         Pika  --------------tgggt
                       Alpaca  ----cctc---t--cccgg
               Bactrian camel  ----cctc---t--cccgg
                      Dolphin  ----cctc---t---ccgg
                 Killer whale  ----cctc---t---ccgg
             Tibetan antelope  ----cctc---g---ctgg
                          Cow  ----cctc---g---ctgg
                        Sheep  ----cctc---g---ccgg
                Domestic goat  ----cctc---a---ccgg
                        Horse  ----cctc---ctcctggt
             White rhinoceros  ----cctc---cttc---t
                          Cat  ----cctc---cttccggg
                          Dog  ----cctc---gtcccggt
                      Ferret   ----cctc---cttgccgt
                        Panda  ----cctc---cttcccat
               Pacific walrus  ----cctc---ctgcctgt
                 Weddell seal  ----cctc---ctgcccgt
             Black flying-fox  ----ctcc---tcccc---
                      Megabat  ----ctcc---ccccc---
                Big brown bat  -----gtc---ctccc---
         David's myotis (bat)  ----ggtc---ctccc---
                     Microbat  ----ggtc---ctccc---
                     Hedgehog  ----cctc---c--cccgt
                        Shrew  ----cctc---g--ctcgc
                     Elephant  -----ccc---ctgcagg-
          Cape elephant shrew  ccccaccc---ccacagg-
                      Manatee  ----cccc---ttacagg-
             Cape golden mole  -----ccc---ctgcag--
                       Tenrec  -----ccc---ctgcagg-
                     Aardvark  -----ccc---ctg-agg-
                    Armadillo  ----cctt---ccaccgg-
                      Opossum  ----tctc---cttcagtt
              Tasmanian devil  ----tctc---cttcagtt
                      Wallaby  ----tctc---cttcagtt
                     Platypus  ----tctc---cttcggtt
                  Rock pigeon  ---acctt---ctgct---
                 Saker falcon  ---acctt---ctgct---
             Peregrine falcon  ---acctt---ctgct---
          Collared flycatcher  ---acctt---ctgct---
       White-throated sparrow  ---acctt---ctgct---
          Medium ground finch  ---acctt---ctgct---
                  Zebra finch  ---acctt---ctgct---
           Tibetan ground jay  ---acctt---ctgct---
                   Budgerigar  ---acctt---ctgct---
                       Parrot  ---acctt---ctgct---
                Scarlet macaw  ---acctt---ctgct---
                 Mallard duck  ---acctt---c-------
                      Chicken  ---acctt---c-------
                       Turkey  ---acctt---c-------
           American alligator  ---gcctt---ccatt---
              Green seaturtle  ----cctt---ctagt---
               Painted turtle  -----ctc---ctagt---
     Chinese softshell turtle  -----ctt---ctag----
       Spiny softshell turtle  -----cttctcctag----
                       Lizard  -------------------
              Star-nosed mole  ===================
       Yellowbelly pufferfish  -------------------
                         Fugu  -------------------
                  Stickleback  ===================
          Pundamilia nyererei  ===================
                  Zebra mbuna  ===================
        Burton's mouthbreeder  ===================
          Princess of Burundi  ===================
                       Medaka  ===================
                   Coelacanth  ===================
                  Spotted gar  ===================
           Southern platyfish  ===================
     Mexican tetra (cavefish)  ===================
                    Zebrafish  ===================
                 Nile tilapia  ===================
                    Tetraodon  ===================
                 Atlantic cod  ===================
                X. tropicalis  ===================

Inserts between block 13 and 14 in window
  D              Rock pigeon 11bp
  D             Saker falcon 11bp
  D         Peregrine falcon 11bp
  D      Collared flycatcher 91bp
  D   White-throated sparrow 11bp
B D      Medium ground finch 11bp
B D              Zebra finch 11bp
          Tibetan ground jay 11bp
B D               Budgerigar 9bp
  D                   Parrot 9bp
  D            Scarlet macaw 9bp
B D       American alligator 4bp
  D          Green seaturtle 1bp
  D           Painted turtle 1bp
  D Chinese softshell turtle 1bp
  D   Spiny softshell turtle 1bp

Alignment block 14 of 211 in window, 81843926 - 81843955, 30 bps 
B D                     Human  ----------------------gagg-----cc--gcaggcttcggag------gc-g--t-gcg-----
B D                     Chimp  ----------------------gaggg----cc--gcaggcttcggag------gc-g--t-gcg-----
B D                   Gorilla  ----------------------gaggg----cc--acaggcttcggag------gc-g--t-gcg-----
B D                 Orangutan  ----------------------gaggg----cc--gcgggcttcggag------gt-g--t-gcg-----
B D                    Gibbon  ----------------------gaggg----cc--acaggctttggga------gc-g--t-gcg-----
B D                    Rhesus  ----------------------gaggg----cc--gcaggcttcagag------gc-g--t-gcg-----
B D       Crab-eating macaque  ----------------------gaggg----cc--gcaggcttcagag------gc-g--t-gcg-----
B D                    Baboon  ----------------------gaggg----cc--acaggcttcagag------gc-g--t-gcg-----
B D              Green monkey  ----------------------gaggg----cc--gcaggcttcagag------gc-g--t-gcg-----
B D                  Marmoset  ----------------------gaggg----tc--acaggcttcggag------gc-g--t-gc------
B D           Squirrel monkey  ----------------------gaggg----cc--acaggcttcggag------gc-g--t-gc------
B D                  Bushbaby  ----------------------gaggt----cc--acagcttccggaa------gc-a--t-gt------
           Chinese tree shrew  ----------------------gcggg----gc--tgcggctccgagg------gcag--c-gcg-----
B D                  Squirrel  ----------------------gaggg----tc-----ggcgccgagg------gc-c--t-g-------
       Lesser Egyptian jerboa  ----------------------gaggg----tc----aggatccggag------gc-t--g-g-------
                 Prairie vole  ----------------------gaggc----tc----aggctccggag------at-g--t-g-------
B D           Chinese hamster  ----------------------gaggc----tc----aggctccgggg------at-g--t-g-------
               Golden hamster  ----------------------gaggc----tc----aggctccggag------ac-g--t-g-------
B D                     Mouse  ----------------------gaggc----tc----aggctccggag------at-g--t-g-------
B D                       Rat  ----------------------gaggc----tc----aggctccggag------at-g--t-g-------
B D            Naked mole-rat  ----------------------gaggt----c--------------------------------------
B D                Guinea pig  ----------------------gaggt----c--------------------------------------
                   Chinchilla  ----------------------gaggt----t--------------------------------------
             Brush-tailed rat  ----------------------gaggt----t--------------------------------------
B D                      Pika  ----------------------gggct----c------tgccctggg-----------------------
B D                    Alpaca  ----------------------gtggg----tc-tgc-ggcgcctgga------gg-c--c-g-------
               Bactrian camel  ----------------------gtggg----tc-tgc-ggcgcctgga------gg-c--t-g-------
B D                   Dolphin  ----------------------gaggg----tc-tgtgggcgtccgga------gg-c--t-g-------
                 Killer whale  ----------------------gaggg----tc-tgtgggcgtccgga------gg-c--t-g-------
             Tibetan antelope  ----------------------gaggg----tc-tgcgggcgtccgga------gg-c--t-g-------
B D                       Cow  ----------------------gaggg----tc-tgcgggcgtctgga------gg-c--t-g-------
B D                     Sheep  ----------------------gaggg----tc-tgcgggcgtccgga------gg-c--t-g-------
                Domestic goat  ----------------------gaggg----tc-tgcgggcgtccgga------gg-c--t-g-------
B D                     Horse  ----------------------gaggg----tc-tgtgggcttccgga------gg-c--t-g-------
B D          White rhinoceros  ----------------------gagag----tc-tacaggcttccaga------gg-c--t-g-------
B D                       Cat  ----------------------gaggg----gc-ccc-agcttccgga------gg-c--c-g-------
B D                       Dog  ----------------------gaggg----tc-cgcgggcttccaga------gg-c--c-g-------
B D                   Ferret   ----------------------gaggg----tc-ctcgggcttccgga------gg-c--c-g-------
B D                     Panda  ----------------------gaggg----tc-ctcgggcttccaga------gg-c--g-g-------
               Pacific walrus  ----------------------gaagg----tc-cccgggctttcgga------gg-c--c-g-------
                 Weddell seal  ----------------------gaggg----tc-cctgggctcctgga------gg-c--c-a-------
             Black flying-fox  ------------------------ggg----gg-cccgggctcccgggctcccaag-c--c-t-------
B D                   Megabat  ------------------------ggg----gg-cccgggcgcccgggctcccgag-c--c-t-------
                Big brown bat  ------------------------ggg----ag-ggtgcgcggcccgg------ag-g--c-t-------
         David's myotis (bat)  ------------------------ggg----ag-ggtgtgcagcccgg------ag-g--c-t-------
B D                  Microbat  ------------------------ggg----ag-ggtgcgcagcccgg------ag-g--c-t-------
B D                  Hedgehog  ----------------------gaggg----tc-tgtg-gcttctgga------gg-c--gac-------
B D                     Shrew  ----------------------ggacg----gc-ggtg------tgcg------cg-c--g---------
B D                  Elephant  ------------------------ggg----tc-ctggggtctccaga------gg-c--a-c-------
          Cape elephant shrew  ------------------------gg------c-ccaggctgccgaga----------------------
B D                   Manatee  ------------------------ggg---ttc-ctggggtctccaga------gg-c--a-c-------
             Cape golden mole  -------------------------gg----tc-ctggggtctcccga------gg-c--a-c-------
B D                    Tenrec  ------------------------agg----tc-ct-gggtcgcac-a------gg-c--a-a-------
                     Aardvark  ------------------------ggg----tc-ctggggtctcggga------gg-c--a-c-------
B D                 Armadillo  ------------------------gcgaggtct-cccgggtcccggag------gc-c--t-c-------
B D                   Opossum  ----------------------gttaa----tcttacaagtttccaga------tg-ca-t-t-------
B D           Tasmanian devil  ----------------------gtgaa----tcttacaagtttccaga------tg-catt-t-------
B D                   Wallaby  ----------------------gtgaa----tcttacaagtttccaga------tg-ca-t-t-------
B D                  Platypus  ----------------------ttcga----tt-cttacgcgttttgc------ag-a--t-gcgttctg
  D               Rock pigeon  ----------------------tgggt----t--------------------------------------
  D              Saker falcon  ----------------------tgggt----t--------------------------------------
  D          Peregrine falcon  ----------------------tgggt----t--------------------------------------
  D    White-throated sparrow  ----------------------tgggt----t--------------------------------------
B D       Medium ground finch  ----------------------tgggt----t--------------------------------------
B D               Zebra finch  ----------------------tgggt----t--------------------------------------
           Tibetan ground jay  ----------------------tgggt----t--------------------------------------
B D                Budgerigar  --------------------aatgg------t--------------------------------------
  D                    Parrot  --------------------aatgg------t--------------------------------------
  D             Scarlet macaw  --------------------aatgg------t--------------------------------------
  D              Mallard duck  -------tgttttaaatctttatgggt----t--------------------------------------
B D                   Chicken  -------tgctttaaatcttaatgggt----t--------------------------------------
B D                    Turkey  -------tgctttaaatcttaatgggt----t--------------------------------------
B D        American alligator  --------------aatcttgatgggt----t--------------------------------------
  D           Green seaturtle  ------------taaatccgaatgggt----t--------------------------------------
  D            Painted turtle  ------------taaatccgaatgggt----t--------------------------------------
  D  Chinese softshell turtle  ------------tacatcttaatgggg----c--------------------------------------
  D    Spiny softshell turtle  ------------taaatcttaatgggg----c--------------------------------------
B D                    Lizard  agcagcagtcttctggattgaatttat----t--------------------------------------
             Star-nosed mole  ======================================================================
      Yellowbelly pufferfish  ----------------------------------------------------------------------
B D                      Fugu  ----------------------------------------------------------------------
B D               Stickleback  ======================================================================
         Pundamilia nyererei  ======================================================================
                 Zebra mbuna  ======================================================================
       Burton's mouthbreeder  ======================================================================
         Princess of Burundi  ======================================================================
B D                    Medaka  ======================================================================
B D                Coelacanth  ======================================================================
                 Spotted gar  ======================================================================
          Southern platyfish  ======================================================================
    Mexican tetra (cavefish)  ======================================================================
B D                 Zebrafish  ======================================================================
B D              Nile tilapia  ======================================================================
B D                 Tetraodon  ======================================================================
B D              Atlantic cod  ======================================================================
  D       Collared flycatcher  ======================================================================
B D             X. tropicalis  ======================================================================

                        Human  ctgc
                        Chimp  ctgc
                      Gorilla  ctgc
                    Orangutan  ctgc
                       Gibbon  ctgc
                       Rhesus  ctgc
          Crab-eating macaque  ctgc
                       Baboon  ctgc
                 Green monkey  ctgc
                     Marmoset  --ac
              Squirrel monkey  --ac
                     Bushbaby  --gc
           Chinese tree shrew  ----
                     Squirrel  -ggc
       Lesser Egyptian jerboa  -ggc
                 Prairie vole  -ggc
              Chinese hamster  -agc
               Golden hamster  -ggc
                        Mouse  -ggc
                          Rat  -ggc
               Naked mole-rat  -gcc
                   Guinea pig  -ggc
                   Chinchilla  -ggc
             Brush-tailed rat  -ggc
                         Pika  -ggc
                       Alpaca  -tgc
               Bactrian camel  -tgc
                      Dolphin  -tgc
                 Killer whale  -tgc
             Tibetan antelope  -tgc
                          Cow  -tgc
                        Sheep  -tgc
                Domestic goat  -tgc
                        Horse  -tgc
             White rhinoceros  -tgc
                          Cat  -cgc
                          Dog  -tgc
                      Ferret   -cgc
                        Panda  -cgc
               Pacific walrus  -cgc
                 Weddell seal  -cgc
             Black flying-fox  -cgc
                      Megabat  -cgc
                Big brown bat  -ggc
         David's myotis (bat)  -ggc
                     Microbat  -ggc
                     Hedgehog  -tgc
                        Shrew  ----
                     Elephant  -cgc
          Cape elephant shrew  -cgc
                      Manatee  -cgc
             Cape golden mole  -cgc
                       Tenrec  -cg-
                     Aardvark  -cgc
                    Armadillo  -cgc
                      Opossum  -tgc
              Tasmanian devil  -tgc
                      Wallaby  -tgc
                     Platypus  cggc
                  Rock pigeon  ----
                 Saker falcon  ----
             Peregrine falcon  ----
       White-throated sparrow  ----
          Medium ground finch  ----
                  Zebra finch  ----
           Tibetan ground jay  ----
                   Budgerigar  ----
                       Parrot  ----
                Scarlet macaw  ----
                 Mallard duck  ----
                      Chicken  ----
                       Turkey  ----
           American alligator  ----
              Green seaturtle  ----
               Painted turtle  ----
     Chinese softshell turtle  ----
       Spiny softshell turtle  ----
                       Lizard  ----
              Star-nosed mole  ====
       Yellowbelly pufferfish  ----
                         Fugu  ----
                  Stickleback  ====
          Pundamilia nyererei  ====
                  Zebra mbuna  ====
        Burton's mouthbreeder  ====
          Princess of Burundi  ====
                       Medaka  ====
                   Coelacanth  ====
                  Spotted gar  ====
           Southern platyfish  ====
     Mexican tetra (cavefish)  ====
                    Zebrafish  ====
                 Nile tilapia  ====
                    Tetraodon  ====
                 Atlantic cod  ====
          Collared flycatcher  ====
                X. tropicalis  ====

Inserts between block 14 and 15 in window
  D              Rock pigeon 23bp
  D             Saker falcon 23bp
  D         Peregrine falcon 23bp
  D   White-throated sparrow 23bp
B D      Medium ground finch 23bp
B D              Zebra finch 23bp
          Tibetan ground jay 23bp
B D               Budgerigar 23bp
  D                   Parrot 23bp
  D            Scarlet macaw 23bp
  D             Mallard duck 20bp
B D                  Chicken 20bp
B D                   Turkey 20bp
B D       American alligator 25bp
  D          Green seaturtle 26bp
  D           Painted turtle 26bp
  D Chinese softshell turtle 24bp
  D   Spiny softshell turtle 26bp
B D                   Lizard 26bp

Alignment block 15 of 211 in window, 81843956 - 81843959, 4 bps 
B D                     Human  tg--ct
B D                     Chimp  tg--ct
B D                   Gorilla  tg--ct
B D                 Orangutan  tg--ct
B D                    Gibbon  tg--ct
B D                    Rhesus  tg--ct
B D       Crab-eating macaque  tg--ct
B D                    Baboon  tg--ct
B D              Green monkey  tg--ct
B D                  Marmoset  tg--ct
B D           Squirrel monkey  tg--ct
B D                  Bushbaby  tg--ct
B D                  Squirrel  tg--c-
       Lesser Egyptian jerboa  ag--ct
                 Prairie vole  tg--cg
B D           Chinese hamster  tg--ct
               Golden hamster  tg--ct
B D                     Mouse  tg--ct
B D                       Rat  tg--ct
B D            Naked mole-rat  tg----
B D                Guinea pig  tg----
                   Chinchilla  tg----
             Brush-tailed rat  tg----
B D                      Pika  tg--c-
B D                    Alpaca  ta--ct
               Bactrian camel  ta--ct
B D                   Dolphin  tg--ct
                 Killer whale  tg--ct
             Tibetan antelope  tg--ct
B D                       Cow  tg--ct
B D                     Sheep  tg--ct
                Domestic goat  tg--ct
B D                     Horse  tg--ct
B D          White rhinoceros  tg--ct
B D                       Cat  cg--ct
B D                       Dog  tg--ct
B D                   Ferret   ct--ct
B D                     Panda  tg--ct
               Pacific walrus  tg--cc
                 Weddell seal  tg--ct
             Black flying-fox  tg--ag
B D                   Megabat  tgc-ca
                Big brown bat  tg--ct
         David's myotis (bat)  tg--ct
B D                  Microbat  tg--ct
B D                  Hedgehog  tg--ct
B D                  Elephant  tg--cc
          Cape elephant shrew  tg--cc
B D                   Manatee  tg--cc
             Cape golden mole  tg--cc
B D                    Tenrec  tg--cc
                     Aardvark  tg--ct
B D                 Armadillo  tg--t-
B D                   Opossum  tg--ct
B D           Tasmanian devil  tg--ct
B D                   Wallaby  tg--ct
B D                  Platypus  tt--tt
B D             X. tropicalis  --ttct
B D                     Shrew  ------
             Star-nosed mole  ======
          Chinese tree shrew  ------
      Yellowbelly pufferfish  ------
B D                      Fugu  ------
B D               Stickleback  ======
         Pundamilia nyererei  ======
                 Zebra mbuna  ======
       Burton's mouthbreeder  ======
         Princess of Burundi  ======
B D                    Medaka  ======
B D                Coelacanth  ======
B D                    Turkey  ======
                 Spotted gar  ======
  D              Mallard duck  ======
  D             Scarlet macaw  ======
  D                    Parrot  ======
B D                Budgerigar  ======
  D    Spiny softshell turtle  ======
B D                    Lizard  ======
          Southern platyfish  ======
    Mexican tetra (cavefish)  ======
  D          Peregrine falcon  ======
B D                 Zebrafish  ======
  D               Rock pigeon  ======
B D              Nile tilapia  ======
  D            Painted turtle  ======
B D                 Tetraodon  ======
B D                   Chicken  ======
B D              Atlantic cod  ======
  D       Collared flycatcher  ======
  D  Chinese softshell turtle  ======
B D               Zebra finch  ======
  D              Saker falcon  ======
  D           Green seaturtle  ======
B D       Medium ground finch  ======
B D        American alligator  ======
  D    White-throated sparrow  ======
          Tibetan ground jay  ======

Alignment block 16 of 211 in window, 81843960 - 81843964, 5 bps 
B D                     Human  --ggg--tg
B D                     Chimp  --ggg--tg
B D                   Gorilla  --ggg--tg
B D                 Orangutan  --ggg--tg
B D                    Gibbon  --ggg--tg
B D                    Rhesus  --ggg--tg
B D       Crab-eating macaque  --ggg--tg
B D                    Baboon  --ggg--tg
B D              Green monkey  --ggg--tg
B D                  Marmoset  --ggg--tg
B D           Squirrel monkey  --ggg--tg
B D                  Bushbaby  --ggg--ag
B D                  Squirrel  --ggg--ag
       Lesser Egyptian jerboa  --gac--ag
                 Prairie vole  --ggg--ag
B D           Chinese hamster  --ggg--ag
               Golden hamster  --ggg--ag
B D                     Mouse  --ggg--ag
B D                       Rat  --ggg--a-
B D                    Alpaca  --ggg--cg
               Bactrian camel  --ggg--tg
B D                   Dolphin  --ggg--tg
                 Killer whale  --ggg--tg
             Tibetan antelope  --ggg--tg
B D                       Cow  --ggg--tg
B D                     Sheep  --ggg--tg
                Domestic goat  --ggg--tg
B D                     Horse  --ggg---g
B D          White rhinoceros  --ggg---a
B D                       Cat  ---ggg-tg
B D                       Dog  ---gga-cg
B D                   Ferret   --gggc-gg
B D                     Panda  --ggga-tg
               Pacific walrus  --aggg-cg
                 Weddell seal  --gggg-ca
             Black flying-fox  --ggg---c
B D                   Megabat  --ggg---c
                Big brown bat  --ggg---g
         David's myotis (bat)  --ggg---g
B D                  Microbat  --ggg---g
B D                  Hedgehog  --ggggg--
B D                  Elephant  --ggg--ag
          Cape elephant shrew  --cct--ag
B D                   Manatee  --agg--ag
             Cape golden mole  --tgc--ag
B D                    Tenrec  --gg---ag
                     Aardvark  --ggc--gg
B D                 Armadillo  ---gg--gg
B D                   Opossum  --tgg--tt
B D           Tasmanian devil  --tgg--tt
B D                   Wallaby  --tgg--tt
B D                  Platypus  --ggg--gg
B D             X. tropicalis  --aga--cg
                  Spotted gar  gaggg----
B D                Guinea pig  ---------
B D                     Shrew  ---------
             Star-nosed mole  =========
B D                      Pika  ---------
                  Chinchilla  ---------
            Brush-tailed rat  ---------
          Chinese tree shrew  ---------
B D            Naked mole-rat  ---------
      Yellowbelly pufferfish  ---------
B D                      Fugu  ---------
B D               Stickleback  =========
         Pundamilia nyererei  =========
                 Zebra mbuna  =========
       Burton's mouthbreeder  =========
         Princess of Burundi  =========
B D                    Medaka  =========
B D                Coelacanth  =========
B D                    Turkey  =========
  D              Mallard duck  =========
  D             Scarlet macaw  =========
  D                    Parrot  =========
B D                Budgerigar  =========
  D    Spiny softshell turtle  =========
B D                    Lizard  =========
          Southern platyfish  =========
    Mexican tetra (cavefish)  =========
  D          Peregrine falcon  =========
B D                 Zebrafish  =========
  D               Rock pigeon  =========
B D              Nile tilapia  =========
  D            Painted turtle  =========
B D                 Tetraodon  =========
B D                   Chicken  =========
B D              Atlantic cod  =========
  D       Collared flycatcher  =========
  D  Chinese softshell turtle  =========
B D               Zebra finch  =========
  D              Saker falcon  =========
  D           Green seaturtle  =========
B D       Medium ground finch  =========
B D        American alligator  =========
  D    White-throated sparrow  =========
          Tibetan ground jay  =========

Inserts between block 16 and 17 in window
B D                  Opossum 2bp
B D          Tasmanian devil 2bp
B D                  Wallaby 2bp
B D                 Platypus 8bp

Alignment block 17 of 211 in window, 81843965 - 81844009, 45 bps 
B D                     Human  ------------------------------tgcagcc-ccc---gag--g----g-------------g-
B D                     Chimp  ------------------------------tgcagcc-ccc---gag--g----g-------------g-
B D                   Gorilla  ------------------------------tgcagcc-ccc---gag--g----g-------------g-
B D                 Orangutan  ------------------------------tgcagcc-ccc---gag--g----g-------------g-
B D                    Gibbon  ------------------------------tgcagcc-ccc---gag--g----g-------------g-
B D                    Rhesus  ------------------------------tgcag-c-ccc---gag--a----g-------------g-
B D       Crab-eating macaque  ------------------------------tgcag-c-ccc---gag--a----g-------------g-
B D                    Baboon  ------------------------------tgcag-c-ccc---gag--a----g-------------g-
B D              Green monkey  ------------------------------tgcag-c-ccc---gag--a----g-------------g-
B D                  Marmoset  ------------------------------tgcagcc-ccc---aag--g----g-------------g-
B D           Squirrel monkey  ------------------------------tgcagcc-ccc---gag--g----g-------------g-
B D                  Bushbaby  ------------------------------tgcag-c-ccc---gat--a----g-------------g-
           Chinese tree shrew  -------------------------------gcagcc-tgc---gag--g----t-------------g-
B D                  Squirrel  ------------------------------cgcgg-c-cca---cc---a----g-------------g-
       Lesser Egyptian jerboa  ------------------------------tgcag-c-cca---cca--a----g-------------g-
                 Prairie vole  ------------------------------catgg-c-cc----ccg--a----g-------------g-
B D           Chinese hamster  ------------------------------catgg-c-cca---ccg--a----g-------------g-
               Golden hamster  ------------------------------catgg-c-cca---ccg--a----g-------------g-
B D                     Mouse  ------------------------------cgtgg-c-cca---ccg--a----g-------------g-
B D                       Rat  ------------------------------catgg-c-cca---ccg--a----g-------------g-
B D            Naked mole-rat  -------------------------------------------------a----g-------------g-
B D                Guinea pig  -------------------------------------------------a----g-------------g-
                   Chinchilla  -------------------------------------------------a----g-------------g-
             Brush-tailed rat  -------------------------------------------------a----g-------------g-
B D                      Pika  ------------------------------------a-tca---cca--c----g-------------g-
B D                    Alpaca  ------------------------------cgcag-c-c-----ccg--g----ga-ggtgac-----c-
               Bactrian camel  ------------------------------cgcag-c-c-----ccg--g----ga-ggtgac-----c-
B D                   Dolphin  ------------------------------tgcag-c-cca---ctg--g----ga-ggtgcc-----g-
                 Killer whale  ------------------------------tgcag-c-cca---ctg--g----ga-ggtgcc-----g-
             Tibetan antelope  ------------------------------tgcag-c-cca---ctg--g----ga-ggtgcc-----g-
B D                       Cow  ------------------------------tgcag-c-cca---ctg--g----ga-ggtgcc-----g-
B D                     Sheep  ------------------------------tgcag-c-cca---ctg--g----ga-ggtgcc-----g-
                Domestic goat  ------------------------------tgcag-c-cca---ctg--g----ga-ggtgcc-----g-
B D                     Horse  ------------------------------tgcag-c-cca---cgg--a----ga-ggtgtc-----g-
B D          White rhinoceros  ------------------------------tgcag-a-cca---ctg--a----ga------------c-
B D                       Cat  ------------------------------tgcgg-c-c-a---tga--g----g----tgcc-----g-
B D                       Dog  ------------------------------tgcag-c-c-g---tgg--g----g-----gtc-----g-
B D                   Ferret   ------------------------------cgctg-c-ccg---ggggtg----gg---ggtc-----g-
B D                     Panda  ------------------------------cgcgg-c-ctg---tgg--g----g----tgtc-----g-
               Pacific walrus  ------------------------------cgccg-c-ccg---cgg--g----ag---tgtc-----g-
                 Weddell seal  ------------------------------cactg-c-ccg---cgg--g----gc---tgtt-----g-
             Black flying-fox  ------------------------------tgcag-ctccg---agg--g---cg----cgtc-------
B D                   Megabat  ------------------------------tgcag-ctccg---agg--g---cg----cgtc-------
                Big brown bat  ------------------------------agcag-c-ctg---agg--g----g----cgtc-------
         David's myotis (bat)  ------------------------------agcag-c-ctg---agg--g----g----cgtc-------
B D                  Microbat  ------------------------------agcag-c-ctg---agg--g----g----cgtc-------
B D                  Hedgehog  ------------------------------tgcag-c-cac---tga--g----g---------------
B D                     Shrew  ------------------------------tgctc-a-cgc---cac--t----g---------------
              Star-nosed mole  ------------------------------tgcgg-c-cgc---ccg--g----g------gc-----c-
B D                  Elephant  ------------------------------ggctgcc-ct------g--a----g-------------g-
          Cape elephant shrew  ------------------------------agcacac-cc------g--a------------------g-
B D                   Manatee  ------------------------------tgccgcc-cc------a--c----g-------------g-
             Cape golden mole  ------------------------------tgccg-c-cc------g--a----g-------------g-
B D                    Tenrec  ------------------------------cacca-c-cc------g--a----g-------------g-
                     Aardvark  ------------------------------tgccc-c-cc------g--g----g-------------g-
B D                 Armadillo  ------------------------------tgcag-c-cc------g--cggagg-------------g-
B D                   Opossum  ------------------------------agcag-c-cca---taa--t----gt-agtgtc---tta-
B D           Tasmanian devil  ------------------------------agcag-c-cca---taa--t----gt-agtgtc---ttg-
B D                   Wallaby  ------------------------------agcag-c-cta---taa--t----gt-agtgtc---ttg-
B D                  Platypus  ------------------------------tacag-c-ttg---atg--g----tgtagtgtc---tta-
  D               Rock pigeon  ------------------------------agccg-c-caa---ttt--a----g----tgtc---tga-
  D              Saker falcon  ------------------------------agcag-c-caa---ttt--a----g----tgtc---tgat
  D          Peregrine falcon  ------------------------------agcag-c-caa---ttt--a----g----tgtc---tgat
  D    White-throated sparrow  ------------------------------agcag-c-caa---ttt--a----g----tgtc---tgat
B D       Medium ground finch  ------------------------------agcag-c-caa---ttt--a----g----tgtc---tga-
B D               Zebra finch  ------------------------------agcag-c-caa---ttt--a----g----tgtc---tga-
           Tibetan ground jay  ------------------------------agcag-c-caa---ttt--a----g----tgtc---tga-
B D                Budgerigar  ------------------------------agcag-c-caa---ttt--a----g----tgtc---tga-
  D                    Parrot  ------------------------------agcag-c-caa---ttt--a----g----tgtc---tga-
  D             Scarlet macaw  ------------------------------agcag-c-caa---ttt--a----g----tgtc---tga-
  D              Mallard duck  ------------------------------aacag-c-agccaattt--a----g----tgtc---tga-
B D                   Chicken  ------------------------------aacag-c-aaccaattt--a----g----tgtc---tga-
B D                    Turkey  ------------------------------aacag-c-aaccaattt--a----g----tgtc---tga-
B D        American alligator  ------------------------------agcag-c-cag---cat--a----g----tgtc---tgc-
  D           Green seaturtle  ------------------------------ggcag-c-cag---tgt--a----g----tgtc---tgc-
  D            Painted turtle  ------------------------------ggcag-c-cag---tgt--a----g----tgtc---tgc-
  D  Chinese softshell turtle  ------------------------------ggcac-c-cag---tgt--a----g----tgtc---tg--
  D    Spiny softshell turtle  ------------------------------ggcac-c-cag---tgt--a----g----tgtc---tg--
B D                    Lizard  ------------------------------ggcag-c-cac-agtgt--a----g----tgtc---tgg-
B D             X. tropicalis  -------------------------------tcca-c-cct---ctt--a----g----tgtcttctgg-
                  Spotted gar  ggcagcttcgcagggacctctacaactcgtcgtgg-c-ccc-----------------------------
      Yellowbelly pufferfish  ----------------------------------------------------------------------
B D                      Fugu  ----------------------------------------------------------------------
B D               Stickleback  ======================================================================
         Pundamilia nyererei  ======================================================================
                 Zebra mbuna  ======================================================================
       Burton's mouthbreeder  ======================================================================
         Princess of Burundi  ======================================================================
B D                    Medaka  ======================================================================
B D                Coelacanth  ======================================================================
          Southern platyfish  ======================================================================
    Mexican tetra (cavefish)  ======================================================================
B D                 Zebrafish  ======================================================================
B D              Nile tilapia  ======================================================================
B D                 Tetraodon  ======================================================================
B D              Atlantic cod  ======================================================================
  D       Collared flycatcher  ======================================================================

                        Human  tctcg-gc----agc--gcccgggtctggct-tt---g--cg
                        Chimp  tctcg-gc----ggc--gcccgggtctggct-ttt--g--cg
                      Gorilla  tctcg-gc----agc--gcccaggtctggct-tt---c--cg
                    Orangutan  tctcg-gc----agc--gcccgggtctggct-tt---c--cg
                       Gibbon  tctcg-gc----agc--gcccgggtctggct-tt---c--cg
                       Rhesus  tctcg-gc----agc--gcccgggtctggct-tt---c--cg
          Crab-eating macaque  tctcg-gc----agc--gcccgggtctggct-tt---c--cg
                       Baboon  tctcg-gc----agc--gcccgggtctggct-tt---c--cg
                 Green monkey  tctcg-gc----agc--gcccgggtctggct-tt---c--cg
                     Marmoset  tcttg-gc----ggc--acctgggtctggcg-tt---c--tg
              Squirrel monkey  tcttg-gc----ggc--acccgggtctggcg-tt---c--cg
                     Bushbaby  cgccatgctg--ggc--accaagatctg-----t---c--cc
           Chinese tree shrew  ccat--gc----cgt--gcgcag--ctggct-ct---c--c-
                     Squirrel  tgt---ggttggggt--gcccaggtctggc--tg---c--gg
       Lesser Egyptian jerboa  tgtca-ggtt-gggt--gcccaggtccggc--tt---c--tc
                 Prairie vole  tc-tg-ggctcaggc--atccg--tctg-c--tc---c--ac
              Chinese hamster  tcttg-ggtccgggt--gcccagatctggc--tt---t--tc
               Golden hamster  tcttg-ggtttgggt--gcccggatctgac--tt---c--tc
                        Mouse  ttttg-ggttcaggc--gcccagatctggc--tt---c--tg
                          Rat  ttttg-ggttcaggc--gcccagatctggc--tt---c--tg
               Naked mole-rat  tgtcg-ggct-gggt--gcccaggtctg----tc---c--ca
                   Guinea pig  tgctg-ggct--gca--gcccgggtctg----tt---t--cc
                   Chinchilla  tgtca-ggct--gct--gccctggtccg----tt---c--cc
             Brush-tailed rat  tgtcg-ggct--gct--gccccggtcca----tt---c--cc
                         Pika  tgt---ggttccggg--cgccaggccca----cc---c--gt
                       Alpaca  tgttc--g----ggt--gcccagctctgcct-ct---c--cg
               Bactrian camel  tgttc--g----ggtgcgcccagctctgctt-ct---c--tg
                      Dolphin  ggttt--g----ggt--gcccaggtctggtt-tt---c--tg
                 Killer whale  ggttt--g----ggt--gcccaggtctggtt-tt---c--tg
             Tibetan antelope  ggttc-------ggt--gcccaggtctggct-ct---c--tg
                          Cow  ggttt-------ggt--gcccaggtctggct-ct---c--tg
                        Sheep  ggttc-------ggt--gcccagatctggct-ct---c--tg
                Domestic goat  ggttc-------ggt--gcccaggtctggct-ct---c--tg
                        Horse  tgttt-gg----ggt--gcccaggtctggta--t---cc-tg
             White rhinoceros  tgtttggg----ggt--gcccaggtctggtt--t---cc-tg
                          Cat  tgtct--g----ggc--gccagggtctggcc--t---c--cg
                          Dog  tgtct-gg----ggt--gcccaggtctgcac--t---c--tg
                      Ferret   tgtct-gg----ggc--g-ccaggtgtgcgc--g---ccgca
                        Panda  tgtct-gg----ggc--gcccaggtctgcgc--t---c--ca
               Pacific walrus  tgtct-gg----ggt--gcccagg------------------
                 Weddell seal  cgtct-gg----ggc--acccagg------------------
             Black flying-fox  ------ag----ggt--gct--gggctggtt--g---t--ga
                      Megabat  ------ag----ggt--gct--gggctggtt--g---t--ga
                Big brown bat  ------gg----ggt--gcc--gggctgctt------c--ca
         David's myotis (bat)  ------gg----ggg--gcc--gggctgctc------c--ca
                     Microbat  ------gg----ggt--gcc--gggctgctc------c--ca
                     Hedgehog  tgaat-gc----tgg--gcccag----------g---c--tg
                        Shrew  ----t-gc----agt--gcccag----------g---c--tg
              Star-nosed mole  cgcag-gc----agt--ggct------------g---c--tg
                     Elephant  tatgg-gcatctggg--gtccaggtcagtct-tc---c--ag
          Cape elephant shrew  tgtgg-gtgcctggt--gtccaagtc--tcc-tg---c--ca
                      Manatee  tgtgg-gcatgtggt--gtccaggccgcctc-tc---c--gg
             Cape golden mole  tgtgg-gcgtctgct--gtccaggtaggcac-gg---t--gg
                       Tenrec  tgtgg-gcgtctggg--gtccactc--gccc-ct---c--ag
                     Aardvark  tgtga-gcgtctggt--ggccagctc--gcc-tt---c--ag
                    Armadillo  tgtgg-agtcggggt--gtccaggccggttg-c--------g
                      Opossum  ttttt-gg----gat--atgtcaacttagtt-ctccac--t-
              Tasmanian devil  ttttt-gg----gat--atgtcagcttattt-ct---c--t-
                      Wallaby  ttttg-gg----ggt--atgtcaacttagtt-ct---c--t-
                     Platypus  ttttg-gg----gaa--aaaaaaaaccaactctc---t--cc
                  Rock pigeon  ttttg-tg----ggt--g------------------------
                 Saker falcon  ttttt-tg----ggt--g------------------------
             Peregrine falcon  ttttt-tg----ggt--g------------------------
       White-throated sparrow  ttttt-tg----ggt--g------------------------
          Medium ground finch  ttttt-tg----ggt--g------------------------
                  Zebra finch  ttttt-tg----ggt--g------------------------
           Tibetan ground jay  ttttt-tg----ggt--g------------------------
                   Budgerigar  ttttt-tg----ggt--g------------------------
                       Parrot  ttttt-tg----ggt--g------------------------
                Scarlet macaw  ttttt-tg----ggt--g------------------------
                 Mallard duck  -tttt-tg----ggt--g------------------------
                      Chicken  -tttt-tg----ggt--g------------------------
                       Turkey  -tttt-tg----ggt--g------------------------
           American alligator  ----t-gg----ggt--t------------------------
              Green seaturtle  tcttt-gg----gat--a------------------------
               Painted turtle  tcttt-gg----gat--a------------------------
     Chinese softshell turtle  -cttt-gg----gag--a------------------------
       Spiny softshell turtle  -cttt-gg----gat--a------------------------
                       Lizard  ------gg----gat--a------------------------
                X. tropicalis  tttct-gcaa--gtt--agtcttattc---------------
                  Spotted gar  ------------------------------------------
       Yellowbelly pufferfish  ------------------------------------------
                         Fugu  ------------------------------------------
                  Stickleback  ==========================================
          Pundamilia nyererei  ==========================================
                  Zebra mbuna  ==========================================
        Burton's mouthbreeder  ==========================================
          Princess of Burundi  ==========================================
                       Medaka  ==========================================
                   Coelacanth  ==========================================
           Southern platyfish  ==========================================
     Mexican tetra (cavefish)  ==========================================
                    Zebrafish  ==========================================
                 Nile tilapia  ==========================================
                    Tetraodon  ==========================================
                 Atlantic cod  ==========================================
          Collared flycatcher  ==========================================

Inserts between block 17 and 18 in window
  D              Rock pigeon 19bp
  D             Saker falcon 16bp
  D         Peregrine falcon 16bp
  D   White-throated sparrow 19bp
B D      Medium ground finch 19bp
B D              Zebra finch 19bp
          Tibetan ground jay 20bp
B D               Budgerigar 19bp
  D                   Parrot 19bp
  D            Scarlet macaw 19bp
  D             Mallard duck 17bp
B D                  Chicken 19bp
B D                   Turkey 19bp
B D       American alligator 19bp
  D          Green seaturtle 20bp
  D           Painted turtle 20bp
  D Chinese softshell turtle 17bp
  D   Spiny softshell turtle 18bp
B D                   Lizard 18bp

Alignment block 18 of 211 in window, 81844010 - 81844011, 2 bps 
B D                     Human  -ta
B D                     Chimp  -ta
B D                   Gorilla  -ta
B D                 Orangutan  -ta
B D                    Gibbon  -ta
B D                    Rhesus  -tc
B D       Crab-eating macaque  -tc
B D                    Baboon  -tc
B D              Green monkey  -tc
B D                  Marmoset  -ta
B D           Squirrel monkey  -tg
B D                  Bushbaby  -gg
           Chinese tree shrew  -tg
B D                  Squirrel  -tg
       Lesser Egyptian jerboa  -ag
                 Prairie vole  -ca
B D           Chinese hamster  -ca
               Golden hamster  -ca
B D                     Mouse  -ca
B D                       Rat  -ca
B D            Naked mole-rat  -ca
B D                Guinea pig  -aa
                   Chinchilla  -aa
             Brush-tailed rat  -at
B D                      Pika  -gc
B D                    Alpaca  -cc
               Bactrian camel  -cc
B D                   Dolphin  -tg
                 Killer whale  -tg
             Tibetan antelope  -cg
B D                       Cow  -tg
B D                     Sheep  -ca
                Domestic goat  -cg
B D                     Horse  -ca
B D          White rhinoceros  -ta
B D                       Cat  -tg
B D                       Dog  -cc
B D                   Ferret   -cc
B D                     Panda  -cc
             Black flying-fox  -ca
B D                   Megabat  -ca
                Big brown bat  -cc
         David's myotis (bat)  -cc
B D                  Microbat  -cc
B D                  Hedgehog  -ag
B D                     Shrew  -cg
              Star-nosed mole  -cg
B D                  Elephant  -cc
          Cape elephant shrew  -cc
B D                   Manatee  -cc
             Cape golden mole  -cc
B D                    Tenrec  -cc
                     Aardvark  -cc
B D                 Armadillo  -cg
B D                  Platypus  -tc
           Southern platyfish  tc-
              Pacific walrus  ---
                Weddell seal  ---
      Yellowbelly pufferfish  ---
B D                      Fugu  ---
B D               Stickleback  ===
         Pundamilia nyererei  ===
                 Zebra mbuna  ===
       Burton's mouthbreeder  ===
         Princess of Burundi  ===
B D                    Medaka  ===
B D                Coelacanth  ===
B D                    Turkey  ===
                 Spotted gar  ---
  D              Mallard duck  ===
  D             Scarlet macaw  ===
  D                    Parrot  ===
B D                Budgerigar  ===
B D                   Wallaby  ---
  D    Spiny softshell turtle  ===
B D                    Lizard  ===
    Mexican tetra (cavefish)  ===
  D          Peregrine falcon  ===
B D                 Zebrafish  ===
  D               Rock pigeon  ===
B D              Nile tilapia  ===
  D            Painted turtle  ===
B D                 Tetraodon  ===
B D                   Chicken  ===
B D              Atlantic cod  ===
  D       Collared flycatcher  ===
  D  Chinese softshell turtle  ===
B D               Zebra finch  ===
  D              Saker falcon  ===
B D             X. tropicalis  ---
  D           Green seaturtle  ===
B D       Medium ground finch  ===
B D                   Opossum  ---
B D        American alligator  ===
  D    White-throated sparrow  ===
          Tibetan ground jay  ===
B D           Tasmanian devil  ---

Inserts between block 18 and 19 in window
B D                 Hedgehog 8bp

Alignment block 19 of 211 in window, 81844012 - 81844012, 1 bps 
B D                     Human  t
B D                     Chimp  t
B D                   Gorilla  t
B D                 Orangutan  t
B D                    Gibbon  t
B D                    Rhesus  t
B D       Crab-eating macaque  t
B D                    Baboon  t
B D              Green monkey  t
B D                  Marmoset  t
B D           Squirrel monkey  t
B D                  Bushbaby  t
           Chinese tree shrew  t
B D                  Squirrel  c
       Lesser Egyptian jerboa  t
                 Prairie vole  c
B D           Chinese hamster  c
               Golden hamster  c
B D                     Mouse  c
B D                       Rat  c
B D            Naked mole-rat  t
B D                Guinea pig  t
                   Chinchilla  t
             Brush-tailed rat  t
B D                      Pika  t
B D                    Alpaca  t
               Bactrian camel  t
B D                   Dolphin  t
                 Killer whale  t
             Tibetan antelope  t
B D                       Cow  t
B D                     Sheep  t
                Domestic goat  t
B D                     Horse  t
B D          White rhinoceros  t
B D                       Cat  t
B D                       Dog  t
B D                   Ferret   t
B D                     Panda  t
               Pacific walrus  t
                 Weddell seal  t
             Black flying-fox  t
B D                   Megabat  t
                Big brown bat  t
         David's myotis (bat)  t
B D                  Microbat  t
B D                  Hedgehog  t
B D                     Shrew  c
              Star-nosed mole  c
B D                  Elephant  t
          Cape elephant shrew  t
B D                   Manatee  t
             Cape golden mole  t
B D                    Tenrec  t
                     Aardvark  t
B D                 Armadillo  c
B D                   Opossum  t
B D           Tasmanian devil  t
B D                   Wallaby  t
B D                  Platypus  t
  D               Rock pigeon  t
  D              Saker falcon  t
  D          Peregrine falcon  t
  D       Collared flycatcher  t
  D    White-throated sparrow  t
B D       Medium ground finch  t
B D               Zebra finch  t
B D                Budgerigar  t
  D                    Parrot  t
  D             Scarlet macaw  t
  D              Mallard duck  t
B D                   Chicken  t
B D                    Turkey  t
B D        American alligator  t
  D           Green seaturtle  t
  D            Painted turtle  t
  D  Chinese softshell turtle  t
  D    Spiny softshell turtle  t
B D                    Lizard  t
B D             X. tropicalis  t
                  Zebra mbuna  t
          Pundamilia nyererei  t
           Southern platyfish  t
      Yellowbelly pufferfish  -
B D                      Fugu  -
B D               Stickleback  =
       Burton's mouthbreeder  =
         Princess of Burundi  =
B D                    Medaka  =
B D                Coelacanth  =
                 Spotted gar  -
    Mexican tetra (cavefish)  =
B D                 Zebrafish  =
B D              Nile tilapia  =
B D                 Tetraodon  =
B D              Atlantic cod  =
          Tibetan ground jay  =

Alignment block 20 of 211 in window, 81844013 - 81844085, 73 bps 
B D                     Human  tacagttcatctttcacagctttctgatca---tcg---t------cttcctccatgtctggctcc---t
B D                     Chimp  tacagttcgtctttcacagctttctgatca---tca---t------cttcctccatgtctggctcc---t
B D                   Gorilla  tacagttcatctttcacagctttctgatca---tcg---t------cttcctccatgtctggctcc---t
B D                 Orangutan  tacagttcatctttcacagctttctgatca---tca---t------cttcctccatgtctggctcc---t
B D                    Gibbon  tacagttcatctttcacagctttctgatca---tca---t------cttcctccatgtctggctcc---t
B D                    Rhesus  tacagttcatctttcacagctttctgatca---tca---t------cttcctccatgtctggctcc---t
B D       Crab-eating macaque  tacagttcatctttcacagctttctgatca---tca---t------cttcctccatgtctggctcc---t
B D                    Baboon  tacagttcatctttcacagctttctgatca---tca---t------cttcctccatgtctggctcc---t
B D              Green monkey  tacagttcatctttcacagctttctgatca---tca---t------cttcctccatgtctggctcc---t
B D                  Marmoset  tacagttcatctttcacagctttctgatca---tca---t------cttcctccatgtctggctcc---t
B D           Squirrel monkey  tacagttcatctttcacagctttctgatcg---tca---t------cttcctccatgtctggctcc---t
B D                  Bushbaby  cacagttcatctttcacagctctctgatca---tca---t------cttcctccatgtctggctct---t
           Chinese tree shrew  cacagctcatccttcacagccttctggtca---tcg---t------cctcctccatgtctggctcg---t
B D                  Squirrel  tacagttcgtctttcacagctttctggtcg---tcg---t------cctcctccatgtctggctct---t
       Lesser Egyptian jerboa  tacagttcatccttcacagctttctgatca---tcg---t------cttcctccatgtctggctct---a
                 Prairie vole  tacagctcgtccttcacggctttctgatcg---tcg---t------cctcctccatgtcgggctcc---a
B D           Chinese hamster  tacaattcgtcctttatagctttctgatca---tca---t------cttcctccatgtctggctct---a
               Golden hamster  tacaattcgtcctttacagctttctggtca---tca---t------cctcctccatgtctggctct---a
B D                     Mouse  tacagttcatccttcacagctttctgatcg---tcg---t------cttcctccatgtctggctct---a
B D                       Rat  tacagttcatccttcacggctttctgatcg---tcg---t------cttcttccatatctggctct---a
B D            Naked mole-rat  cacagttcatctttcacagctttctgatcg---tca---t------cttcctccatgtctggttct---t
B D                Guinea pig  cacagttcatctttcacagctttctggtcg---tca---t------cttcctccatgtctggctct---t
                   Chinchilla  cacagttcatctttcacagctttctgatcg---tca---t------cttcctccatatctggctct---t
             Brush-tailed rat  tacagttcatctttcacagctttctgatca---tca---t------cttcctccatgtctggctct---t
B D                      Pika  cacagctcatcccgta---ctttctggtcc---tcg---t------cctcctccaggtccggctcc---t
B D                    Alpaca  tacagttcatctttcacagcttt---gtcg---tcg---t------cttcctccaggtcaggctct---t
               Bactrian camel  tacagttcatctttcacagcttt---gtcg---tcg---t------cttcctccaggtcaggctct---t
B D                   Dolphin  tacagttcatctttcacagctttttgatca---tcg---t------cttcctccagatcaggctct---t
                 Killer whale  tacagttcatctttcacagctttttgatca---tcg---t------cttcctccagatcaggctct---t
             Tibetan antelope  tacagttcatctttcacagctttttgatcg---tca---t------cttcctccagatcaggctct---t
B D                       Cow  tacagttcatctttcacagctttttgatca---tca---t------cttcctccagatcaggctct---t
B D                     Sheep  tacagttcatctttcacagctttttgatca---tca---t------cttcctccagatcaggctct---t
                Domestic goat  tacagttcatctttcacagctttttgatca---tca---t------cttcctccagatcaggctct---t
B D                     Horse  tacagttcatctttcacagctttttgatca---tca---t------cttcctcgaggtcgggctct---t
B D          White rhinoceros  tacagttcatctttcacagctttttgatca---tca---t------cttcctccagatcaggctct---t
B D                       Cat  cacagttcatccttcacagctttctgatcg---tca---t------cttcctccaggtcaggctct---t
B D                       Dog  cacagctcatctctcacagttttctgatcg---tcc---t------cctcctccaggtcaggctcc---t
B D                   Ferret   cacagctcgtctcgcacggctctctggtcg---tcc---t------cctcctccaggtcaggctct---t
B D                     Panda  cacagctcatctctcgcagctctctgaccg---tcc---t------cctcctccaggtcaggctct---t
               Pacific walrus  cacagctcatctcttacagctttctgatct---tcc---t------cctcctccaggtcaggctct---t
                 Weddell seal  cacagctcatctctcacagctttctgatcc---tcc---t------cctcctccaggtcaggctct---t
             Black flying-fox  cacagttcgtccttcacagctttctgatcg---tcg---t------cttcctccaggtcgggctct---t
B D                   Megabat  cacagttcgtccttcacagctttctgatcg---tcg---t------cttcctccaggtcgggctct---t
                Big brown bat  cacagctcgtccttcacagctttctggtca---tcg---t------cctcctccaggtccggctcc---t
         David's myotis (bat)  cacagctcgtccttcacagctttctggtca---tcg---t------cctcctccaggtccggctcc---t
B D                  Microbat  cacagctcgtccttcacagctttctggtca---tcg---t------cctcctccaggtccggctcc---t
B D                  Hedgehog  cacagttcatccttcacagctttctggtca---tcg---t------cttcttccaaatcaggctcc---t
B D                     Shrew  tacagctcgtccttcacggctttctggtcg---tcg---t------cctcctccaggtcgggctcc---t
              Star-nosed mole  tacagctcgtccttcacggccttctgctcg---tca---t------cctcctccaggtcgggctcc---t
B D                  Elephant  cacagctcatccttcacagctttctggtcg---tcg---t------cttcctccatgtctggctcc---t
          Cape elephant shrew  cacagctcgtctttcacggctttctggtca---tcg---t------cctcctccatgtcgggttcc---t
B D                   Manatee  cacagctcgtccttcacagctttctggtca---tcg---t------cttcctccatgtctggctct---t
             Cape golden mole  cacagttcgtccttcacagctttctggtca---tca---t------cctcttccaggtctggctcc---t
B D                    Tenrec  cacaactcgtccttcaaggctttctggtcc---tcg---t------cctcctccaagtccggctcc---t
                     Aardvark  cacagctcgtccttcacagctttctggtcg---tcg---t------cgtcctccatgtcaggctcc---t
B D                 Armadillo  tacagctcgtccttggcggctttatggtcg---tcg---t------cttcctccatgtctggctct---t
B D                   Opossum  tacaattcatcttttggagctgtctgatca---tca---t------cttcttccatatctggctct---t
B D           Tasmanian devil  tacaattcatcttttggagctacttgatca---tca---t------cttcttccatatctggctct---t
B D                   Wallaby  tacagttcatctttgggggctacttgatca---tca---t------cttcttccatatctggctct---t
B D                  Platypus  tacagttcgtctctcaaattcttctggtcg---tcg---t------cctcctctaggtccggctct---t
  D               Rock pigeon  tacaattcatccttctggattttctgctcatcttcc---tcgtcaccttcctcgaggtccgtttct---t
  D              Saker falcon  tacaactcatccttctggattttctgatca---tcg---tcatcaccttcctctaggtcggtttct---t
  D          Peregrine falcon  tacaactcatccttctggattttctgatca---tcg---tcatcaccttcctctaggtcggtttct---t
  D       Collared flycatcher  tacaattcatccttttggagtttctgctca---tcc---tcatcaccttcctcaagttctgtttct---t
  D    White-throated sparrow  tacaattcatccttttggagtttctgctca---tcc---tcatcaccttcctcaagttcagtttct---t
B D       Medium ground finch  tacaattcatccttttggagtttctgctca---tcc---tcatcaccttcctcaagttcagtttct---t
B D               Zebra finch  tacaattcatccttttggagtttctgctca---tcc---tcatcaccttcctcaagttcagtttct---t
           Tibetan ground jay  tacaattcatccttttggagtttctgctca---tcc---tcatcaccttcctcaagttctgtttct---t
B D                Budgerigar  tacaattcatccttctgcattttctgctct---tca---tcatcaccttcttcaaggtctgtttct---t
  D                    Parrot  tacaattcatccttctgcattttctgctct---tca---tcatcaccttcttcaaggtctgtttct---t
  D             Scarlet macaw  tacaattcatccttctgcattttctgctct---tca---tcatcaccttcttcaaggtctgcttct---t
  D              Mallard duck  tacaactcatccttttgcattttctgc------tca---tcatcaccttcctcaaggtctgtttct---t
B D                   Chicken  tacaattcatccttttggattttttgctca---tca---tcatcaccttcctcaaggtccgtttct---t
B D                    Turkey  tacaattcatccttttggattttttgctca---tca---tcatcaccttcctcaaggtctgtttct---t
B D        American alligator  tacagctcgtccttgtggggtttctggtcc---tct---tcctcatcttcttcaatatctgcctcg---t
  D           Green seaturtle  tacagttcatctttgtggatcttcgggtcc---tcc------tcaccttcctcaagatcagtc------t
  D            Painted turtle  tacagttcatctttgtggatcttctggtcc---tct------tcaccttcctcaagatcaatc------t
  D  Chinese softshell turtle  tacagttcatctctgtggagtgtctggtcc---tcctcctcttcaccttcctccagctcggtc------t
  D    Spiny softshell turtle  tacagttcatctctgtggagcttctggtcg---tcctcttcatcaccttcctccagctctgtc------t
B D                    Lizard  tacagttcatcttttttaagtgtagcatcc---tcc---tcttcctccccttcagcatctggctct---t
B D             X. tropicalis  tataattcatcttttgtatgtgct---tca---tct---c------cctcctccaaatcagactca---t
B D                Coelacanth  tacaactcgtcttttgcatggaggtcatcc---tct---t------catcatctgtctctggttct---t
                  Zebra mbuna  tacaactcatcgtgtccg---tcgtcgtca---gtg---c------cgtcctcactatcggagtcgtcct
          Pundamilia nyererei  tacaactcatcgtgtcca---tcgtcgtca---gtg---c------cgtcctcactatcggagtcgtcct
           Southern platyfish  tacaactcgtcgtgtccg---tcatcgtcg---ccg---c------catcctcgccatctgaatca---t
                  Spotted gar  -------cctcttcccca---tcagagtcg---tcg---t------cgccctcctcctcggggaga---t
      Yellowbelly pufferfish  ----------------------------------------------------------------------
B D                      Fugu  ----------------------------------------------------------------------
B D               Stickleback  ======================================================================
       Burton's mouthbreeder  ======================================================================
         Princess of Burundi  ======================================================================
B D                    Medaka  ======================================================================
    Mexican tetra (cavefish)  ======================================================================
B D                 Zebrafish  ======================================================================
B D              Nile tilapia  ======================================================================
B D                 Tetraodon  ======================================================================
B D              Atlantic cod  ======================================================================

                        Human  ctgcttcttccaggtcct
                        Chimp  ctgcttcttccaggtcct
                      Gorilla  ctgcttcttccaagtcct
                    Orangutan  ctgcttcttccaggtcct
                       Gibbon  ctgcttcttccaggtcct
                       Rhesus  ctgcttcttccaggtcct
          Crab-eating macaque  ctgcttcttccaggtcct
                       Baboon  ctgcttcttccaggtcct
                 Green monkey  ctgcttcttccaggtcct
                     Marmoset  ctgcttcttccaggtcct
              Squirrel monkey  ctgcttcttccaggtcct
                     Bushbaby  ctgcttcttccagatcct
           Chinese tree shrew  cagcttcttctaggtcct
                     Squirrel  cagcttcttctagg---t
       Lesser Egyptian jerboa  cagcttcttcaagg---t
                 Prairie vole  aagcctcttctagg---t
              Chinese hamster  aagcttcttctaga---t
               Golden hamster  aagcttcctctagg---t
                        Mouse  aagcttcttctagg---t
                          Rat  aagcttcttctagg---t
               Naked mole-rat  cggcttcttccagg---t
                   Guinea pig  ccgcttcttcgagg---t
                   Chinchilla  cagcttcttccagg---t
             Brush-tailed rat  cagcttcttccagg---t
                         Pika  ctgcttcttccaggtcct
                       Alpaca  ctgcttcctctaggtctt
               Bactrian camel  ctgcttcttctaggtctt
                      Dolphin  ctgcttcttcgaggtctt
                 Killer whale  ctgcttcttcgaggtctt
             Tibetan antelope  ctgcttcttcgagatctt
                          Cow  ctgcttcttcaagatctt
                        Sheep  ctgcttcttcgagatctt
                Domestic goat  ctgcttcttcaagatcct
                        Horse  cggcttcttctagatctt
             White rhinoceros  ccgcttcttctagatctt
                          Cat  ccgcctcttccagatctt
                          Dog  ctgcttcttccagatctt
                      Ferret   ccgcttcttccaggtctt
                        Panda  ccgcttcttccagatctt
               Pacific walrus  ctgcttcttccagatctt
                 Weddell seal  ctgcttcttccagatctt
             Black flying-fox  ctgcctcctctaggtctt
                      Megabat  ctgcctcctctaggtctt
                Big brown bat  ctgcctcctccaggtcct
         David's myotis (bat)  ctgcctcctccagatctt
                     Microbat  ctgcctcctccagatctt
                     Hedgehog  cagcttcttctagatctt
                        Shrew  cagcttcctccaggtcct
              Star-nosed mole  cagcttcttccagg---t
                     Elephant  cagcctcctccagatctt
          Cape elephant shrew  cagcctcctccaggtcct
                      Manatee  cagcctcctccagatctt
             Cape golden mole  cagcctcctccaagtcct
                       Tenrec  ccgcctcctcaaggtcct
                     Aardvark  ccgcctcctccaggtcct
                    Armadillo  ccgcttcctcaagatctt
                      Opossum  cagcttcttccaaatctt
              Tasmanian devil  cagcttcttccaagtctt
                      Wallaby  cagcttcttccaagtctt
                     Platypus  ccgcttcttcgagatctt
                  Rock pigeon  catccgtctccaggtcct
                 Saker falcon  catctgtctccaggtcct
             Peregrine falcon  catctgtctccaggtcct
          Collared flycatcher  catccgtctccaggtcct
       White-throated sparrow  catccatctccaggtcct
          Medium ground finch  catccatctccaggtcct
                  Zebra finch  catccatctccaggtcct
           Tibetan ground jay  catccatctccaggtcct
                   Budgerigar  catccgtctccaggtcct
                       Parrot  catccgtctccaggtcct
                Scarlet macaw  catccgtctccagatcct
                 Mallard duck  catctgtctccagatcct
                      Chicken  catctgtctccagatctt
                       Turkey  catctgtctccagatctt
           American alligator  catcagcctctacatcct
              Green seaturtle  catcagcctccaggtcct
               Painted turtle  catcagcctccaggtcct
     Chinese softshell turtle  catcaacctccaggtcct
       Spiny softshell turtle  catcaacctccaggtcct
                       Lizard  ccatatcctctagatctt
                X. tropicalis  cagcatcttctaaatctt
                   Coelacanth  ctacctcttccaaatcct
                  Zebra mbuna  ccacgtcttccaagtcct
          Pundamilia nyererei  ccacgtcttccaagtcct
           Southern platyfish  ccgcatcttccaagtcct
                  Spotted gar  ccgcatcctccaggtcct
       Yellowbelly pufferfish  ------------------
                         Fugu  ------------------
                  Stickleback  ==================
        Burton's mouthbreeder  ==================
          Princess of Burundi  ==================
                       Medaka  ==================
     Mexican tetra (cavefish)  ==================
                    Zebrafish  ==================
                 Nile tilapia  ==================
                    Tetraodon  ==================
                 Atlantic cod  ==================

Inserts between block 20 and 21 in window
          Southern platyfish 1304bp

Alignment block 21 of 211 in window, 81844086 - 81844091, 6 bps 
B D                     Human  cgagat
B D                     Chimp  cgagat
B D                   Gorilla  cgagat
B D                 Orangutan  cgagat
B D                    Gibbon  cgagat
B D                    Rhesus  cgagat
B D       Crab-eating macaque  cgagat
B D                    Baboon  cgagat
B D              Green monkey  cgagat
B D                  Marmoset  cgagat
B D           Squirrel monkey  cgagat
B D                  Bushbaby  cgagat
           Chinese tree shrew  ccaggt
B D                  Squirrel  ctaggt
       Lesser Egyptian jerboa  caaggt
                 Prairie vole  ccacgt
B D           Chinese hamster  ccatgt
               Golden hamster  ccacat
B D                     Mouse  cgaggt
B D                       Rat  cgaggt
B D            Naked mole-rat  ccaggt
B D                Guinea pig  ccaggt
                   Chinchilla  ccaggt
             Brush-tailed rat  ccaggt
B D                      Pika  ccagac
B D                    Alpaca  ctaaat
               Bactrian camel  ctagat
B D                   Dolphin  ctagat
                 Killer whale  ctagat
             Tibetan antelope  ctagat
B D                       Cow  ctagat
B D                     Sheep  ctagat
                Domestic goat  ctagat
B D                     Horse  ctagat
B D          White rhinoceros  ctagat
B D                       Cat  ctaggt
B D                       Dog  ccagat
B D                   Ferret   ccaggt
B D                     Panda  ccagat
               Pacific walrus  ccagat
                 Weddell seal  ccagat
             Black flying-fox  cgagat
B D                   Megabat  cgagat
                Big brown bat  ctaggt
         David's myotis (bat)  ccagat
B D                  Microbat  ccagat
B D                  Hedgehog  ccaggt
B D                     Shrew  ccaggt
              Star-nosed mole  ccaggt
B D                  Elephant  ctagat
          Cape elephant shrew  cgaggt
B D                   Manatee  ccaggt
             Cape golden mole  ccagat
B D                    Tenrec  cgaggt
                     Aardvark  ccaggt
B D                 Armadillo  ctagat
B D                   Opossum  ctagat
B D           Tasmanian devil  ctagat
B D                   Wallaby  ctagat
B D                  Platypus  ccaggt
  D               Rock pigeon  ccagat
  D              Saker falcon  ccagat
  D          Peregrine falcon  ccagat
  D       Collared flycatcher  ccagat
  D    White-throated sparrow  ccagat
B D       Medium ground finch  ccagat
B D               Zebra finch  ccagat
           Tibetan ground jay  ccagat
B D                Budgerigar  ccagat
  D                    Parrot  ccagat
  D             Scarlet macaw  ccagat
  D              Mallard duck  ccagat
B D                   Chicken  ccagat
B D                    Turkey  ccagat
B D        American alligator  ccagat
  D           Green seaturtle  ccagat
  D            Painted turtle  ccagat
  D  Chinese softshell turtle  ccaggt
  D    Spiny softshell turtle  ccaggt
B D                    Lizard  ccagat
B D             X. tropicalis  caagat
B D                Coelacanth  ccaagt
                  Zebra mbuna  gcagag
          Pundamilia nyererei  gcagag
                  Spotted gar  --ggag
      Yellowbelly pufferfish  ------
B D                      Fugu  ------
B D               Stickleback  ======
       Burton's mouthbreeder  ======
         Princess of Burundi  ======
B D                    Medaka  ======
          Southern platyfish  ======
    Mexican tetra (cavefish)  ======
B D                 Zebrafish  ======
B D              Nile tilapia  ======
B D                 Tetraodon  ======
B D              Atlantic cod  ======

Alignment block 22 of 211 in window, 81844092 - 81844095, 4 bps 
B D                     Human  cctg-
B D                     Chimp  cctg-
B D                   Gorilla  cctg-
B D                 Orangutan  cctg-
B D                    Gibbon  cctg-
B D                    Rhesus  cctg-
B D       Crab-eating macaque  cctg-
B D                    Baboon  cctg-
B D              Green monkey  cctg-
B D                  Marmoset  cct--
B D           Squirrel monkey  cctg-
B D                  Bushbaby  cctg-
           Chinese tree shrew  cctg-
B D                  Squirrel  cctg-
       Lesser Egyptian jerboa  cct--
                 Prairie vole  cct--
B D           Chinese hamster  cct--
               Golden hamster  cct--
B D                     Mouse  cct--
B D                       Rat  cct--
B D            Naked mole-rat  cct--
B D                Guinea pig  cct--
                   Chinchilla  cct--
             Brush-tailed rat  cct--
B D                      Pika  cct--
B D                    Alpaca  cctg-
               Bactrian camel  cctg-
B D                   Dolphin  cctg-
                 Killer whale  cctg-
             Tibetan antelope  cctg-
B D                       Cow  cctg-
B D                     Sheep  cctg-
                Domestic goat  cctg-
B D                     Horse  cctg-
B D          White rhinoceros  cctg-
B D                       Cat  cctg-
B D                       Dog  cctg-
B D                   Ferret   cctg-
B D                     Panda  cctg-
               Pacific walrus  cctg-
                 Weddell seal  cctg-
             Black flying-fox  cctg-
B D                   Megabat  cctg-
                Big brown bat  cctg-
         David's myotis (bat)  cctg-
B D                  Microbat  cctg-
B D                  Hedgehog  ccta-
B D                     Shrew  cctg-
              Star-nosed mole  cctg-
B D                  Elephant  cctg-
          Cape elephant shrew  cctg-
B D                   Manatee  cctg-
             Cape golden mole  cctg-
B D                    Tenrec  cctg-
                     Aardvark  cctg-
B D                 Armadillo  cctg-
B D                   Opossum  cctg-
B D           Tasmanian devil  ccta-
B D                  Platypus  cctg-
  D               Rock pigeon  cctg-
  D              Saker falcon  cctg-
  D          Peregrine falcon  cctg-
  D       Collared flycatcher  ccta-
  D    White-throated sparrow  cctg-
B D       Medium ground finch  cctg-
B D               Zebra finch  cctg-
           Tibetan ground jay  cctg-
B D                Budgerigar  cctg-
  D                    Parrot  cctg-
  D             Scarlet macaw  cctg-
  D              Mallard duck  cctg-
B D                   Chicken  cctg-
B D                    Turkey  cctg-
B D        American alligator  cctg-
  D           Green seaturtle  cctg-
  D            Painted turtle  cctg-
  D  Chinese softshell turtle  cctg-
  D    Spiny softshell turtle  cctg-
B D                    Lizard  cctg-
B D             X. tropicalis  cctg-
B D                Coelacanth  ccta-
                  Zebra mbuna  -caga
          Pundamilia nyererei  -caga
                  Spotted gar  -gaga
      Yellowbelly pufferfish  -----
B D                      Fugu  -----
B D               Stickleback  =====
       Burton's mouthbreeder  =====
         Princess of Burundi  =====
B D                    Medaka  =====
B D                   Wallaby  -----
          Southern platyfish  =====
    Mexican tetra (cavefish)  =====
B D                 Zebrafish  =====
B D              Nile tilapia  =====
B D                 Tetraodon  =====
B D              Atlantic cod  =====

Inserts between block 22 and 23 in window
B D                 Elephant 8bp
         Cape elephant shrew 163bp
B D                  Manatee 8bp
            Cape golden mole 7bp
B D                   Tenrec 697bp
                    Aardvark 7bp
B D                  Opossum 1bp
B D          Tasmanian devil 1bp
  D              Rock pigeon 13bp
  D             Saker falcon 541bp
  D         Peregrine falcon 545bp
  D      Collared flycatcher 9bp
  D   White-throated sparrow 9bp
B D      Medium ground finch 9bp
B D              Zebra finch 9bp
          Tibetan ground jay 490bp
B D               Budgerigar 557bp
  D                   Parrot 10bp
  D            Scarlet macaw 376bp
  D             Mallard duck 5bp
B D                  Chicken 5bp
B D                   Turkey 5bp
B D       American alligator 5bp
  D          Green seaturtle 1bp
  D           Painted turtle 2bp
  D Chinese softshell turtle 2bp
  D   Spiny softshell turtle 2bp
B D                   Lizard 2bp
B D            X. tropicalis 1bp
B D               Coelacanth 5bp

Alignment block 23 of 211 in window, 81844096 - 81844097, 2 bps 
B D                     Human  gg
B D                     Chimp  gg
B D                   Gorilla  gg
B D                 Orangutan  gg
B D                    Gibbon  gg
B D                    Rhesus  gg
B D       Crab-eating macaque  gg
B D                    Baboon  gg
B D              Green monkey  gg
B D                  Marmoset  gg
B D           Squirrel monkey  gg
B D                  Bushbaby  gg
           Chinese tree shrew  cg
B D                  Squirrel  gg
       Lesser Egyptian jerboa  ag
                 Prairie vole  gg
B D           Chinese hamster  gg
               Golden hamster  gg
B D                     Mouse  gg
B D                       Rat  gg
B D            Naked mole-rat  gg
B D                Guinea pig  gg
                   Chinchilla  gg
             Brush-tailed rat  ag
B D                      Pika  gg
B D                    Alpaca  gg
               Bactrian camel  gg
B D                   Dolphin  gg
                 Killer whale  gg
             Tibetan antelope  gg
B D                       Cow  gg
B D                     Sheep  gg
                Domestic goat  gg
B D                     Horse  gg
B D          White rhinoceros  gg
B D                       Cat  gg
B D                       Dog  cg
B D                   Ferret   gg
B D                     Panda  gg
               Pacific walrus  gg
                 Weddell seal  gg
             Black flying-fox  gg
B D                   Megabat  gg
                Big brown bat  gg
         David's myotis (bat)  gg
B D                  Microbat  gg
B D                  Hedgehog  ga
B D                     Shrew  ga
              Star-nosed mole  tc
B D                 Armadillo  -a
B D                   Opossum  a-
B D           Tasmanian devil  a-
B D                  Platypus  gg
B D             X. tropicalis  a-
B D                Coelacanth  ga
                  Zebra mbuna  ga
          Pundamilia nyererei  ga
                  Spotted gar  ga
B D                    Tenrec  ==
B D                  Elephant  ==
         Cape elephant shrew  ==
B D                   Manatee  ==
            Cape golden mole  ==
      Yellowbelly pufferfish  --
B D                      Fugu  --
                    Aardvark  ==
B D               Stickleback  ==
       Burton's mouthbreeder  ==
         Princess of Burundi  ==
B D                    Medaka  ==
B D                    Turkey  ==
  D              Mallard duck  ==
  D             Scarlet macaw  ==
  D                    Parrot  ==
B D                Budgerigar  ==
B D                   Wallaby  --
  D    Spiny softshell turtle  ==
B D                    Lizard  ==
          Southern platyfish  ==
    Mexican tetra (cavefish)  ==
  D          Peregrine falcon  ==
B D                 Zebrafish  ==
  D               Rock pigeon  ==
B D              Nile tilapia  ==
  D            Painted turtle  ==
B D                 Tetraodon  ==
B D                   Chicken  ==
B D              Atlantic cod  ==
  D       Collared flycatcher  ==
  D  Chinese softshell turtle  ==
B D               Zebra finch  ==
  D              Saker falcon  ==
  D           Green seaturtle  ==
B D       Medium ground finch  ==
B D        American alligator  ==
  D    White-throated sparrow  ==
          Tibetan ground jay  ==

Inserts between block 23 and 24 in window
            Black flying-fox 5bp
B D                  Megabat 5bp
               Big brown bat 2bp
        David's myotis (bat) 2bp
B D                 Hedgehog 4bp
B D                    Shrew 4bp
             Star-nosed mole 2bp
B D                Armadillo 9bp
B D                  Opossum 3bp
B D          Tasmanian devil 3bp
B D                 Platypus 1739bp

Alignment block 24 of 211 in window, 81844098 - 81844100, 3 bps 
B D                     Human  ata--
B D                     Chimp  ata--
B D                   Gorilla  ata--
B D                 Orangutan  ata--
B D                    Gibbon  ata--
B D                    Rhesus  ata--
B D       Crab-eating macaque  ata--
B D                    Baboon  ata--
B D              Green monkey  ata--
B D                  Marmoset  atg--
B D           Squirrel monkey  atg--
B D                  Bushbaby  gtg--
           Chinese tree shrew  gtg--
B D                  Squirrel  gtg--
       Lesser Egyptian jerboa  aga--
                 Prairie vole  atg--
B D           Chinese hamster  at---
               Golden hamster  atg--
B D                     Mouse  atg--
B D                       Rat  atg--
B D            Naked mole-rat  gcg--
B D                Guinea pig  gtg--
                   Chinchilla  gtg--
             Brush-tailed rat  atg--
B D                      Pika  ggg--
B D                    Alpaca  agg--
               Bactrian camel  agg--
B D                   Dolphin  acg--
                 Killer whale  acg--
             Tibetan antelope  aca--
B D                       Cow  aca--
B D                     Sheep  aca--
                Domestic goat  aca--
B D                     Horse  atg--
B D          White rhinoceros  atg--
B D                       Cat  gcg--
B D                       Dog  gga--
B D                   Ferret   gtg--
B D                     Panda  gtg--
               Pacific walrus  gtg--
                 Weddell seal  gtg--
             Black flying-fox  gga--
B D                   Megabat  gga--
                Big brown bat  a-c--
         David's myotis (bat)  agg--
B D                  Elephant  aga--
B D                   Manatee  aga--
             Cape golden mole  atg--
                     Aardvark  aga--
B D                 Armadillo  gca--
B D                   Opossum  aaa--
B D           Tasmanian devil  aaa--
  D           Green seaturtle  tt---
  D            Painted turtle  tt---
  D  Chinese softshell turtle  tt---
  D    Spiny softshell turtle  tt---
B D                    Lizard  -t---
B D             X. tropicalis  ac---
B D                Coelacanth  aag--
                  Zebra mbuna  --aca
          Pundamilia nyererei  --aca
                  Spotted gar  --ga-
B D                    Tenrec  =====
B D                  Hedgehog  =====
         Cape elephant shrew  =====
B D                     Shrew  =====
             Star-nosed mole  =====
B D                  Microbat  -----
      Yellowbelly pufferfish  -----
B D                      Fugu  -----
B D               Stickleback  =====
       Burton's mouthbreeder  =====
         Princess of Burundi  =====
B D                    Medaka  =====
B D                    Turkey  =====
  D              Mallard duck  =====
  D             Scarlet macaw  =====
  D                    Parrot  =====
B D                Budgerigar  =====
B D                   Wallaby  -----
          Southern platyfish  =====
    Mexican tetra (cavefish)  =====
  D          Peregrine falcon  =====
B D                 Zebrafish  =====
  D               Rock pigeon  =====
B D              Nile tilapia  =====
B D                 Tetraodon  =====
B D                   Chicken  =====
B D              Atlantic cod  =====
B D                  Platypus  =====
  D       Collared flycatcher  =====
B D               Zebra finch  =====
  D              Saker falcon  =====
B D       Medium ground finch  =====
B D        American alligator  =====
  D    White-throated sparrow  =====
          Tibetan ground jay  =====

Inserts between block 24 and 25 in window
  D          Green seaturtle 1bp
  D           Painted turtle 1bp
  D Chinese softshell turtle 1bp
  D   Spiny softshell turtle 1bp
B D                   Lizard 1bp

Alignment block 25 of 211 in window, 81844101 - 81844103, 3 bps 
B D                     Human  c------ag-
B D                     Chimp  c------ag-
B D                   Gorilla  c------ag-
B D                 Orangutan  c------ag-
B D                    Gibbon  c------ag-
B D                    Rhesus  c------ag-
B D       Crab-eating macaque  c------ag-
B D                    Baboon  c------ag-
B D              Green monkey  c------ag-
B D                  Marmoset  c------ag-
B D           Squirrel monkey  c------ag-
B D                  Bushbaby  c------ag-
           Chinese tree shrew  c------ga-
B D                  Squirrel  c------gg-
       Lesser Egyptian jerboa  c------ag-
                 Prairie vole  g------ag-
               Golden hamster  a------ag-
B D                     Mouse  a------ag-
B D                       Rat  c------ag-
B D            Naked mole-rat  t------gg-
B D                Guinea pig  t------ag-
                   Chinchilla  t------ag-
             Brush-tailed rat  c------ag-
B D                      Pika  a------ga-
B D                    Alpaca  c------ga-
               Bactrian camel  c------ga-
B D                   Dolphin  g------ag-
                 Killer whale  g------ag-
             Tibetan antelope  t------ac-
B D                       Cow  t------at-
B D                     Sheep  t------at-
                Domestic goat  t------at-
B D                     Horse  t------ag-
B D          White rhinoceros  t------ag-
B D                       Cat  c------ag-
B D                       Dog  g------ag-
B D                   Ferret   g------ag-
B D                     Panda  g------ag-
               Pacific walrus  g------gg-
                 Weddell seal  g------gg-
             Black flying-fox  a------ca-
B D                   Megabat  a------cg-
                Big brown bat  g------gg-
         David's myotis (bat)  g------gg-
B D                  Elephant  a------ag-
B D                   Manatee  a------ag-
             Cape golden mole  g------gg-
                     Aardvark  agcgggtgg-
B D                 Armadillo  g------gg-
B D                   Opossum  t------aa-
B D           Tasmanian devil  a------aa-
  D               Rock pigeon  ------cag-
  D       Collared flycatcher  ------cag-
  D    White-throated sparrow  ------cag-
B D       Medium ground finch  ------cag-
B D               Zebra finch  ------cag-
  D                    Parrot  ------cag-
  D              Mallard duck  ------tag-
B D                   Chicken  ------cat-
B D                    Turkey  ------cat-
B D        American alligator  -------aa-
  D           Green seaturtle  -------aa-
  D            Painted turtle  -------aa-
  D  Chinese softshell turtle  -------aa-
  D    Spiny softshell turtle  -------aa-
B D                    Lizard  ------gaa-
B D             X. tropicalis  ------cag-
B D                Coelacanth  ------tag-
                  Zebra mbuna  -------agg
          Pundamilia nyererei  -------agg
B D                    Tenrec  ==========
B D                  Hedgehog  ==========
B D           Chinese hamster  ----------
         Cape elephant shrew  ==========
B D                     Shrew  ==========
             Star-nosed mole  ==========
B D                  Microbat  ----------
      Yellowbelly pufferfish  ----------
B D                      Fugu  ----------
B D               Stickleback  ==========
       Burton's mouthbreeder  ==========
         Princess of Burundi  ==========
B D                    Medaka  ==========
                 Spotted gar  ----------
  D             Scarlet macaw  ==========
B D                Budgerigar  ==========
B D                   Wallaby  ----------
          Southern platyfish  ==========
    Mexican tetra (cavefish)  ==========
  D          Peregrine falcon  ==========
B D                 Zebrafish  ==========
B D              Nile tilapia  ==========
B D                 Tetraodon  ==========
B D              Atlantic cod  ==========
B D                  Platypus  ==========
  D              Saker falcon  ==========
          Tibetan ground jay  ==========

Inserts between block 25 and 26 in window
  D              Rock pigeon 9bp
  D                   Parrot 375bp
B D       American alligator 1bp
  D          Green seaturtle 1bp
  D           Painted turtle 1bp
  D   Spiny softshell turtle 1bp

Alignment block 26 of 211 in window, 81844104 - 81844104, 1 bps 
B D                     Human  g
B D                     Chimp  g
B D                   Gorilla  g