Multiz Alignments of 100 Vertebrates
 

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Alignment block 1 of 1686 in window, 102714541 - 102714591, 51 bps 
B D                     Human  gcgg---gagcct----------cccggcctgggattggtc--------------g--------------
B D                     Chimp  gcgg---gagcct----------cccggcctgggattggtc--------------g--------------
B D                   Gorilla  gcgg---gagcct----------cccggcctgggattggtc--------------g--------------
B D                 Orangutan  gcgg---gagcct----------cccggcctgggattggtc--------------g--------------
B D                    Gibbon  gcgg---gagcct----------cccggcttgggattggtc--------------g--------------
B D                    Rhesus  gcgg---gagcct----------ccaggcct-ggattggtc--------------g--------------
B D       Crab-eating macaque  gcgg---gagcct----------ccaggcctgggattggtc--------------g--------------
B D                    Baboon  gcgg---gagcct----------ccaggcctgggattggtc--------------g--------------
B D              Green monkey  gcgg---gagcct----------ccaggcctgggattggtc--------------g--------------
B D                  Marmoset  gcg-----------------------gacctgggattggtg--------------g--------------
B D           Squirrel monkey  gcg-----------------------gacctgggattggtg--------------g--------------
B D                  Bushbaby  gcgg---gagctt----------cctggcctgtgattggtc--------------a--------------
           Chinese tree shrew  gcgg---gagcct----------cccggcctgtgattggtc--------------c--------------
B D                  Squirrel  gcgg---gagtct----------cccggcctgtgattggtc--------------a--------------
       Lesser Egyptian jerboa  gcgg---gagcat----------cctggcccgggattggct--------------g--------------
                 Prairie vole  gcgg---gagcct-----------gtggcctgtgattggtc--------------a--------------
B D           Chinese hamster  gcgg---gagcct-----------gtggcctgtgattggtc--------------a--------------
               Golden hamster  tcgg---gagcct-----------gtggcctgtgataggtc--------------a--------------
B D                     Mouse  gccg---gagcct-----------gtggcctctgattggtc--------------g--------------
B D                       Rat  gccg---gagcct-----------gtggcctgtgattggtc--------------g--------------
B D            Naked mole-rat  gcgg---gagcct----------cgcggctggtgactggct--------------g--------------
B D                Guinea pig  gcgg---gagcct----------cgcgtctgatgactggcc--------------t--------------
B D                    Rabbit  gcgg---gagcct----------cccggtgcctgattggcc--------------a--------------
B D                      Pika  gcgg---gagcct----------cctggtgcgtgattggtc--------------g--------------
B D                       Pig  gcgg---gggcca----------cctagcctatgattggtc--------------c--------------
B D                    Alpaca  gctg---gggccg----------cccggcctgtcattggtt--------------g--------------
B D                   Dolphin  gcgg---gggcca----------cccggcctgtgattggcc--------------c--------------
                 Killer whale  gcgg---gggcca----------cccggcctgtgattggtc--------------c--------------
             Tibetan antelope  ccgg---gggcca----------cccggcttgtgattggtc--------------c--------------
B D                       Cow  gcgg---gggcca----------ccaggcttgtgattggtc--------------c--------------
B D                     Sheep  ccgg---gggcca----------cccggcttgtgattggtc--------------c--------------
B D                     Horse  gcgg---gggccg----------ccgggcctgagattggtc--------------a--------------
B D          White rhinoceros  gggg---gggccg----------cccggcctgtgattggtc--------------g--------------
B D                       Cat  gtgg---gcgctg----------cccggcctgtgattggtc--------------g--------------
B D                       Dog  gtgg---gcgccg----------ctcagcctgtgattggtc--------------g--------------
B D                   Ferret   gtgg---gcgccg----------cccagcctgtgattggtt--------------g--------------
B D                     Panda  gtgg---gtgccg----------cccagcctgtgattggtc--------------g--------------
               Pacific walrus  gtgg---gctccg----------cccagcctgtgattggtc--------------g--------------
                 Weddell seal  gtgg---gcaccg----------cccagcctgtgattggtc--------------g--------------
             Black flying-fox  gcag---gggccg----------ccgggccagtgctctgta--------------g--------------
B D                   Megabat  gcag---gggcct----------ccgggccagtgctctgta--------------g--------------
                Big brown bat  gc-----gggcag----------ccgggcctgtgattggtc--------------g--------------
         David's myotis (bat)  gc-----gggcag----------cctggcctgtgattggtc--------------g--------------
B D                  Microbat  gc-----gggcag----------cctggcctgtgattggtc--------------g--------------
B D                  Hedgehog  atgg---gggctg----------cctggctggtgattggcc--------------a--------------
              Star-nosed mole  gcgg---gagctg----------cctgaccagtgattggtc--------------g--------------
B D                  Elephant  gc------gcccg----------ccgagcc-ccgct----------------------------------
          Cape elephant shrew  g-------gcctgtgattggtc-cagagga-aagtg----------------------------------
B D                   Manatee  gcgg---gggccg----------ccgagccggtgat----------------------------------
             Cape golden mole  gccg---gggcca----------ctgagcctgtgattggtc--------------a--------------
B D                    Tenrec  gccg---gggcca----------ccgagtctgtgattggtc--------------a--------------
                     Aardvark  gctg----ggttg----------ccgagcctgtgattggtc--------------a--------------
B D                 Armadillo  gagc---gggccg----------cggggcctgtaattggta--------------g--------------
B D                   Opossum  acca---gggaca--------a-cccttcctttgattggtc--------------c--------------
B D           Tasmanian devil  acca---gggata--------g-cccctcctatgattggtc--------------a--------------
B D                   Wallaby  gcca---gggacg--------gccccctcctgtgattggtc--------------c--------------
B D                  Platypus  gaat---ggggag----------gtcgtcccg-gattggtc--------------g--------------
  D               Rock pigeon  --------accct----------tccaaccaaagggtgtgc--------------aa----------gag
  D              Saker falcon  gcgg---gagccc----------tcc----------tgggc--------------a--------------
  D          Peregrine falcon  gcgg---gagccc----------tcc----------tgggc--------------a--------------
B D                   Chicken  --------aggct----------ccc-------gggtggcc--------------aaggggaccactggg
B D        American alligator  gcggacaaagccc----------ccc-tccgcccgccgggcccggctcacctgaga--------------
B D                     Shrew  ======================================================================
               Domestic goat  NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
              Bactrian camel  NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
                  Chinchilla  ======================================================================
            Brush-tailed rat  ======================================================================
         Princess of Burundi  ======================================================================
B D              Nile tilapia  ======================================================================
B D                      Fugu  ======================================================================
      Yellowbelly pufferfish  ======================================================================
B D                 Tetraodon  ======================================================================
                 Zebra mbuna  ======================================================================
B D                 Zebrafish  ======================================================================
B D                Coelacanth  ======================================================================
B D              Atlantic cod  ======================================================================
                 Spotted gar  ======================================================================
B D               Stickleback  ======================================================================
    Mexican tetra (cavefish)  ======================================================================
         Pundamilia nyererei  ======================================================================
       Burton's mouthbreeder  ======================================================================
  D  Chinese softshell turtle  ======================================================================
  D           Green seaturtle  ======================================================================
  D       Collared flycatcher  ======================================================================
          Southern platyfish  ======================================================================
B D             X. tropicalis  ======================================================================
B D                Budgerigar  ======================================================================
B D       Medium ground finch  ======================================================================
  D    White-throated sparrow  ======================================================================
B D                    Turkey  ======================================================================
B D                    Lizard  ======================================================================
B D                    Medaka  ======================================================================
B D               Zebra finch  ======================================================================
  D            Painted turtle  ======================================================================
          Tibetan ground jay  ======================================================================
  D                    Parrot  ======================================================================
  D              Mallard duck  ======================================================================

                        Human  ------------a---aa-ag----------gaggg------gcgtg---ggg-cgg--g
                        Chimp  ------------a---aa-ag----------gaggg------gcgtg---ggg-cgg--g
                      Gorilla  ------------a---aa-ag----------gaggg------gcgtg---ggg-cgg--g
                    Orangutan  ------------a---aa-ag----------gaggg------gcgtg---gga-cgg--g
                       Gibbon  ------------a---aa-ag----------gaggg------gcgtg---ggg-cgg--a
                       Rhesus  ------------a---aa-ag----------gaggg------gcgtg---ga--cgg--g
          Crab-eating macaque  ------------a---aa-ag----------gaggg------gcgtg---ga--cgg--g
                       Baboon  ------------a---aa-ag----------gaggg------gcgtg---gg--cgg--g
                 Green monkey  ------------a---aa-ag----------gaggg------gcgtg---gg--cgg--g
                     Marmoset  ------------a---ga-ag----------gaggg------gcgtg---ggt-cgg--g
              Squirrel monkey  ------------a---ga-cg----------gaggg------gcgtg---ggg-cgg--g
                     Bushbaby  ------------g---ga-ag----------aaggg------gtgtg---cg--ggg--a
           Chinese tree shrew  ------------t---gc-ag----------gaggg------gcgtg---ggg-cgg--g
                     Squirrel  ------------c---ga-ag----------g-ggg------acgta--------gg--g
       Lesser Egyptian jerboa  ------------g---ca-cg----------g-aggcgggcaggggc--------gg--g
                 Prairie vole  ------------g---aa-aa----------g-ggg------gcgta--------gc--g
              Chinese hamster  ------------g---ga-aa----------g-ggg------gcgta--------gt--g
               Golden hamster  ------------g---ga-aa----------g-ggg------gcgta--------gt--g
                        Mouse  ------------g---aa-gt----------g-ggg------gcgta--------gg--g
                          Rat  ------------g---aa-ag----------g-tgg------gcgta--------gg--g
               Naked mole-rat  ------------g---cg-gg----------a-agt------ttgtg--------cg--g
                   Guinea pig  ------------g---ct-ag----------g-agg------ctgtc--------gg--a
                       Rabbit  ------------g---ga-gg----------a-ggg------gcgtg---gg--cgg--g
                         Pika  ------------a---ga-gg----------a-ggg------gcgtg---gg--cgg--g
                          Pig  ------------a-------g----------gagag------gggag---ggggcgt--g
                       Alpaca  ------------g---ta-ag----------gaggg------gcgtg---ggggcgg--g
                      Dolphin  ------------a---ga-ag----------gagag------gcgtg---ggggcgg--g
                 Killer whale  ------------a---ga-ag----------gagag------gcgtg---ggggcgg--g
             Tibetan antelope  ------------a---ga-gg----------gag-g------gcgtg---agggcgg--g
                          Cow  ------------a---ga-gg----------gag-g------gcgtg---agggcgg--g
                        Sheep  ------------a---ga-gg----------gag-g------gcgtg---cgggcgg--g
                        Horse  ------------g---gc-ag----------aaggc------gcgtg---ggggcgg--g
             White rhinoceros  ------------g---ga-ag----------gaggc------gcgtg---ggggcgg--g
                          Cat  ------------a---aa-ag----------gagag------gggcg---ggggcgg--g
                          Dog  ------------g---g--gg----------gagca------gggcg---gga--cg--g
                      Ferret   ------------g---ga-ag----------gagta------gggcg---ggggcgg--g
                        Panda  ------------g---aa-ag----------gagca------gggcg---ggggcgg--g
               Pacific walrus  ------------g---ga-ag----------gagca------gagca---ggggcgc--g
                 Weddell seal  ------------g---ga-ag----------gagca------gggca---ggggcgg--g
             Black flying-fox  ------------g---ca-ag----------gcggg------gcggg---gcgaggg--g
                      Megabat  ------------g---ca-ag----------gcggg------gcggg---gcgaggg--g
                Big brown bat  ------------g---ga-ag----------gagag------gcgtg---gaggcgg--g
         David's myotis (bat)  ------------g---aa-ag----------gagag------gcgtg---ggggcgg--g
                     Microbat  ------------g---aa-ag----------gagag------gcgtg---ggggcgg--g
                     Hedgehog  ------------g---ga-ag----------gag----------gcg---tgggcgg--g
              Star-nosed mole  ------------g---gagag----------ggc----------gtg---ggggcgg--g
                     Elephant  ---------------------------------------------tg---ggggcgg--g
          Cape elephant shrew  ---------------------------------------------tg---tgagggg--g
                      Manatee  ---------------------------------------------tt---ggggcgg--g
             Cape golden mole  ------------g---gg-ag----------ga--g------t--tt---ggggcgg--g
                       Tenrec  ------------g---ga-ag----------ga--g------tcgtg---ggggcgg--g
                     Aardvark  ------------c---ta-ag----------gg--g------cctgg---ggggcgg--a
                    Armadillo  ------------g---ga-gg----------gaagg------cggtg---ggggcgg--g
                      Opossum  ------------g---ga-ag----------cagag------gcgtg---gg---gg--g
              Tasmanian devil  ------------g---ga-tc----------cagag------gcgtg---gg---gg--g
                      Wallaby  ------------g---ga-ag----------cggag------gcgcg---gg---gg--g
                     Platypus  ------------gttgga-aa----------aagag------gcgggatcgggaggg--g
                  Rock pigeon  agagaggacatgg---gc-gg----------gtgtg------gtggc---aaggcag--g
                 Saker falcon  ------------g---gt-ag----------gtgct------gtgct---gagtcgg--g
             Peregrine falcon  ------------g---gt-ag----------gtgct------gtgct---gagtcgg--g
                      Chicken  acagtgctcctca---gt-ggtgccaccactgcgtg------gtttt---ggggtggcag
           American alligator  ------------c---gc-ca----------gcat-------gtgct---gggagag--g
                        Shrew  ============================================================
                Domestic goat  NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
               Bactrian camel  NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
                   Chinchilla  ============================================================
             Brush-tailed rat  ============================================================
          Princess of Burundi  ============================================================
                 Nile tilapia  ============================================================
                         Fugu  ============================================================
       Yellowbelly pufferfish  ============================================================
                    Tetraodon  ============================================================
                  Zebra mbuna  ============================================================
                    Zebrafish  ============================================================
                   Coelacanth  ============================================================
                 Atlantic cod  ============================================================
                  Spotted gar  ============================================================
                  Stickleback  ============================================================
     Mexican tetra (cavefish)  ============================================================
          Pundamilia nyererei  ============================================================
        Burton's mouthbreeder  ============================================================
     Chinese softshell turtle  ============================================================
              Green seaturtle  ============================================================
          Collared flycatcher  ============================================================
           Southern platyfish  ============================================================
                X. tropicalis  ============================================================
                   Budgerigar  ============================================================
          Medium ground finch  ============================================================
       White-throated sparrow  ============================================================
                       Turkey  ============================================================
                       Lizard  ============================================================
                       Medaka  ============================================================
                  Zebra finch  ============================================================
               Painted turtle  ============================================================
           Tibetan ground jay  ============================================================
                       Parrot  ============================================================
                 Mallard duck  ============================================================

Inserts between block 1 and 2 in window
            Black flying-fox 6bp
B D                  Megabat 6bp
B D          Tasmanian devil 2243bp
B D                  Wallaby 6bp

Alignment block 2 of 1686 in window, 102714592 - 102714602, 11 bps 
B D                     Human  c-----gtgg-gggcag----
B D                     Chimp  c-----gtgg-gggcag----
B D                   Gorilla  c-----gtgg-gggcag----
B D                 Orangutan  c-----gtgg-gggcaa----
B D                    Gibbon  c-----gtgg-gggcgg----
B D                    Rhesus  c-----atgg-gggcgg----
B D       Crab-eating macaque  c-----atgg-gggcgg----
B D                    Baboon  c-----atgg-gggcgg----
B D              Green monkey  c-----atgg-gggcgg----
B D                  Marmoset  c-----gtgg-gggcgg----
B D           Squirrel monkey  c-----gtgg-gggcgg----
B D                  Bushbaby  c-----gaggagggcag----
           Chinese tree shrew  c-----aagg-gggcgg----
B D                  Squirrel  gcgggagagg-gggagg----
       Lesser Egyptian jerboa  g-----gagg-gggcgg----
                 Prairie vole  c-----gagg-gggtgt----
B D           Chinese hamster  t-----gagg-gggagg----
               Golden hamster  t-----gagg-gggagg----
B D                     Mouse  c-----gagg-gggtgg----
B D                       Rat  c-----gagg-gggtgg----
B D            Naked mole-rat  c-----ggcc-cag-------
B D                Guinea pig  g-----ggcg-cgg-------
B D                    Rabbit  c-----gaga-aggcgg----
B D                      Pika  c-----gagg-aggcgg----
B D                       Pig  g-----cgag-gggcgg----
B D                    Alpaca  g-----cgag-gggcgg----
B D                   Dolphin  g-----cgag-gggcgg----
                 Killer whale  g-----cgag-gggcgg----
             Tibetan antelope  g-----cgag-gggagg----
B D                       Cow  g-----cgag-gggagg----
B D                     Sheep  g-----cgag-gggagg----
B D                     Horse  g-----caag-gggcgg----
B D          White rhinoceros  g-----caag-gggcgg----
B D                       Cat  a-----tgag-gggcgg----
B D                       Dog  c-----cgag-gggcgg----
B D                   Ferret   g-----cgag-gggcgg----
B D                     Panda  g-----agag-gggcgg----
               Pacific walrus  g-----cgag-gggtgg----
                 Weddell seal  g-----cgag-gggcgg----
             Black flying-fox  g-----cgag-gggagg----
B D                   Megabat  g-----cgag-gggagg----
                Big brown bat  g-----cgag-gggcgg----
         David's myotis (bat)  g-----cgag-gggagg----
B D                  Microbat  g-----cgag-gggagg----
B D                  Hedgehog  g-----caag-gggcgg----
              Star-nosed mole  g-----c-ct-aggcgg----
B D                  Elephant  g-----cgag-gg--------
          Cape elephant shrew  g-----agag-ggggcg----
B D                   Manatee  g-----cgag-ggg-------
             Cape golden mole  g--------------------
B D                    Tenrec  g-----cggg-atgggg----
                     Aardvark  t-----cgag-tgggcg----
B D                 Armadillo  g-----ctag-ggggcg----
B D                   Opossum  c-----ggag-ccaaag----
B D                   Wallaby  c-----gaag-gggcgg----
B D                  Platypus  g-----gagg-aggggg----
  D               Rock pigeon  ----------c----------
  D              Saker falcon  ----------cagagggacca
  D          Peregrine falcon  ----------cagagggacca
B D                   Chicken  ----------cggttggagca
B D        American alligator  ----------tggaaggggaa
B D                     Shrew  =====================
               Domestic goat  NNNNNNNNNNNNNNNNNNNNN
              Bactrian camel  NNNNNNNNNNNNNNNNNNNNN
                  Chinchilla  =====================
            Brush-tailed rat  =====================
         Princess of Burundi  =====================
B D              Nile tilapia  =====================
B D                      Fugu  =====================
      Yellowbelly pufferfish  =====================
B D                 Tetraodon  =====================
                 Zebra mbuna  =====================
B D                 Zebrafish  =====================
B D                Coelacanth  =====================
B D              Atlantic cod  =====================
                 Spotted gar  =====================
B D               Stickleback  =====================
    Mexican tetra (cavefish)  =====================
         Pundamilia nyererei  =====================
       Burton's mouthbreeder  =====================
  D  Chinese softshell turtle  =====================
  D           Green seaturtle  =====================
  D       Collared flycatcher  =====================
          Southern platyfish  =====================
B D             X. tropicalis  =====================
B D                Budgerigar  =====================
B D       Medium ground finch  =====================
  D    White-throated sparrow  =====================
B D                    Turkey  =====================
B D                    Lizard  =====================
B D                    Medaka  =====================
B D               Zebra finch  =====================
  D            Painted turtle  =====================
          Tibetan ground jay  =====================
  D                    Parrot  =====================
B D           Tasmanian devil  =====================
  D              Mallard duck  =====================

Inserts between block 2 and 3 in window
B D                  Opossum 12bp
B D                  Wallaby 2334bp
B D                  Chicken 12bp
B D       American alligator 19bp

Alignment block 3 of 1686 in window, 102714603 - 102714627, 25 bps 
B D                     Human  ttc-----------cccagcc----caggtc--c-tcctctc------a----------------
B D                     Chimp  ttc-----------cccagcc----caggtc--c-tcctctc------a----------------
B D                   Gorilla  ttc-----------cccagcc----caggtc--c-tcctctc------a----------------
B D                 Orangutan  ttc-----------cccagcc----caggtc--c-tcctctc------a----------------
B D                    Gibbon  ttc-----------ccccgcc----cagtcc--c-tcctctc------a----------------
B D                    Rhesus  ttc-----------ccccgcc----catgt-------ctctc------c----------------
B D       Crab-eating macaque  ttc-----------ccccgcc----caggt-------ctctc------c----------------
B D                    Baboon  ttc-----------ccccgcc----caggt-------ctctc------c----------------
B D              Green monkey  ttc-----------ccccgcc----caggt-------ctctc------c----------------
B D                  Marmoset  ttc-----------ccccgcc----ca-gtc--c-tcctctc------g----------------
B D           Squirrel monkey  ttc-----------ccccgct----caggtc--c-tcctctc------g----------------
B D                  Bushbaby  tcc-----------ccaggtc----ccagc-------gtttcagtgcaa----------------
           Chinese tree shrew  t-----------------------------------------------a----------------
B D                  Squirrel  ttc-----------cctgacc----ctgcca--aggcagtgg------t----------------
       Lesser Egyptian jerboa  tcc-----------ccgggcc----ctggc-----gagaggc------g----------------
                 Prairie vole  tcc-----------cc-ggcc----tagcc-----gcggtcc------t----------------
B D           Chinese hamster  tcc-----------cc-ggcc----tagcc-----gaggtac------t----------------
               Golden hamster  tcc-----------ct--gtc----tagcc-----gcggtac------t----------------
B D                     Mouse  ttc-----------ccgggcc----tagcc-----gcgacac------t----------------
B D                       Rat  ttc-----------ccgggcc----tagcc-----gcgacac------t----------------
B D            Naked mole-rat  -------------------------ctggc-----ggtgctc------t----------------
B D                Guinea pig  ---------------------------ggc-----gggatcg------g----------------
B D                    Rabbit  tcc-----------cttggccctggcaggc-----ggagcac------c----------------
B D                      Pika  gtc-----------ctggggcccgacaggc-----ggagcat------c----------------
B D                       Pig  ttc-----------ccgggtg----gaagcc--a-aaagtgc------a----------------
B D                    Alpaca  ttc-----------ccgggcg----gaggcc--a-gaagtgc------t----------------
B D                   Dolphin  ttc-----------ccgggcc----gaggcc--a-gaagtgc------a----------------
                 Killer whale  ttc-----------ccgggcc----gaggcc--a-gaagtgc------a----------------
             Tibetan antelope  ttc-----------ccgggcg----gaggcc--a-gaagtgc------a----------------
B D                       Cow  ttc-----------cctggcg----gaggcc--a-gaagggc------a----------------
B D                     Sheep  ttc-----------ccgggcg----gaggcc--a-gaagtgc------a----------------
B D                     Horse  ttc-----------ctgggcg----gtggcc--c-gaagtgc------a----------------
B D          White rhinoceros  ttc-----------ctgggcg----gtggcc--t-gaagtgc------a----------------
B D                       Cat  tt------------ccgggcc----tgggca--g-caggtta------g----------------
B D                       Dog  ttc-----------ccgggcc----gaggcc--g-caggttg------a----------------
B D                   Ferret   ttc-----------ccgggcc----gaggcc--g-ctggtta------g----------------
B D                     Panda  ggc-----------ccgggcc----gaggcc--t-caggttg------g----------------
               Pacific walrus  ttc-----------ccgcgcc----gaggcc--g-caggtta------c----------------
                 Weddell seal  ttc-----------ccgggca----gaggcc--g-caggtta------g----------------
             Black flying-fox  ttc-----------ccgggcc----gaggtc--c-gcagtgc------a----------------
B D                   Megabat  ttc-----------ccgggca----gaggtc--c-gcagtgc------a----------------
                Big brown bat  ttc-----------ccgggcg----gagtct--g-gcggggc------t----------------
         David's myotis (bat)  ttc-----------ccgggcg----gagtct--c-acggggc------t----------------
B D                  Microbat  ttc-----------ctgggcg----gagtct--c-acggggc------t----------------
B D                  Hedgehog  ctc-----------ccctgct----taaact--g-cggggga------g----------------
              Star-nosed mole  c-c-----------ccgggcc----gaggcc--g-cggaagg------g----------------
B D                  Elephant  -----------------------------------gcggggc-----------------------
          Cape elephant shrew  gtt-----------cccccgc----gaggcc--t-gcagagc-----------------------
B D                   Manatee  -----------------------------------gcggggc-----------------------
             Cape golden mole  --------------ctcgggt----gaggct--t-acagtgt-----------------------
B D                    Tenrec  gcggttc-------ctagggc----gtggct--a-gtagtgc-----------------------
                     Aardvark  gttc----------ccagggc----gagcc-----gctagtg-----------------------
B D                 Armadillo  gat-----------cccaggc----g---------gcagcct-----------------------
B D                   Opossum  ctc-----------ctggga---------------------------------------------
B D                  Platypus  ----gtctcgtgcgcttggcc----gggg------------------------------------
  D               Rock pigeon  -------------------cc----gagccc--t-gaaccct------g----------------
  D              Saker falcon  ------------------tcc----cacccc--t-gaagttt------gcccg---------tca
  D          Peregrine falcon  ------------------tcc----cacccc--t-gaagttt------gcccg---------tca
B D                   Chicken  ------------------ccc----caccacagt-gacgtgt------ggctgcgtctgc--tca
B D        American alligator  ------------------gcc----ccgttc--t-ccaggct------gccgccgccggccaccg
B D                     Shrew  =================================================================
               Domestic goat  NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
              Bactrian camel  NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
                  Chinchilla  =================================================================
            Brush-tailed rat  =================================================================
         Princess of Burundi  =================================================================
B D              Nile tilapia  =================================================================
B D                      Fugu  =================================================================
      Yellowbelly pufferfish  =================================================================
B D                 Tetraodon  =================================================================
                 Zebra mbuna  =================================================================
B D                 Zebrafish  =================================================================
B D                Coelacanth  =================================================================
B D              Atlantic cod  =================================================================
                 Spotted gar  =================================================================
B D               Stickleback  =================================================================
    Mexican tetra (cavefish)  =================================================================
         Pundamilia nyererei  =================================================================
       Burton's mouthbreeder  =================================================================
  D  Chinese softshell turtle  =================================================================
  D           Green seaturtle  =================================================================
  D       Collared flycatcher  =================================================================
          Southern platyfish  =================================================================
B D             X. tropicalis  =================================================================
B D                Budgerigar  =================================================================
B D       Medium ground finch  =================================================================
  D    White-throated sparrow  =================================================================
B D                    Turkey  =================================================================
B D                    Lizard  =================================================================
B D                    Medaka  =================================================================
B D               Zebra finch  =================================================================
  D            Painted turtle  =================================================================
          Tibetan ground jay  =================================================================
  D                    Parrot  =================================================================
B D           Tasmanian devil  =================================================================
B D                   Wallaby  =================================================================
  D              Mallard duck  =================================================================

Inserts between block 3 and 4 in window
B D                  Dolphin 1bp
                Killer whale 1bp
            Tibetan antelope 1bp
B D                      Cow 1bp
B D                    Sheep 1bp

Alignment block 4 of 1686 in window, 102714628 - 102714628, 1 bps 
B D                     Human  c
B D                     Chimp  c
B D                   Gorilla  c
B D                 Orangutan  c
B D                    Gibbon  c
B D                    Rhesus  c
B D       Crab-eating macaque  c
B D                    Baboon  c
B D              Green monkey  c
B D                  Marmoset  c
B D           Squirrel monkey  c
B D                  Bushbaby  t
           Chinese tree shrew  c
B D                  Squirrel  t
       Lesser Egyptian jerboa  c
                 Prairie vole  c
B D           Chinese hamster  c
               Golden hamster  c
B D                     Mouse  t
B D                       Rat  t
B D            Naked mole-rat  g
B D                Guinea pig  g
B D                    Rabbit  c
B D                      Pika  c
B D                       Pig  t
B D                    Alpaca  t
B D                   Dolphin  c
                 Killer whale  c
             Tibetan antelope  c
B D                       Cow  c
B D                     Sheep  c
                Domestic goat  c
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  c
B D                   Megabat  c
                Big brown bat  t
         David's myotis (bat)  t
B D                  Microbat  t
B D                  Hedgehog  t
              Star-nosed mole  a
B D                  Elephant  c
          Cape elephant shrew  c
B D                   Manatee  c
             Cape golden mole  c
B D                    Tenrec  c
                     Aardvark  c
B D                 Armadillo  g
B D                  Platypus  c
  D              Saker falcon  t
  D          Peregrine falcon  t
B D                   Chicken  g
B D        American alligator  a
B D                     Shrew  =
              Bactrian camel  N
                  Chinchilla  =
            Brush-tailed rat  =
         Princess of Burundi  =
B D              Nile tilapia  =
B D                      Fugu  =
      Yellowbelly pufferfish  =
B D                 Tetraodon  =
                 Zebra mbuna  =
B D                 Zebrafish  =
B D                Coelacanth  =
B D              Atlantic cod  =
                 Spotted gar  =
B D               Stickleback  =
    Mexican tetra (cavefish)  =
         Pundamilia nyererei  =
       Burton's mouthbreeder  =
  D  Chinese softshell turtle  =
  D           Green seaturtle  =
  D       Collared flycatcher  =
          Southern platyfish  =
B D             X. tropicalis  =
B D                Budgerigar  =
B D       Medium ground finch  =
  D    White-throated sparrow  =
B D                    Turkey  =
B D                    Lizard  =
B D                    Medaka  =
B D               Zebra finch  =
  D            Painted turtle  =
          Tibetan ground jay  =
  D                    Parrot  =
B D           Tasmanian devil  =
B D                   Wallaby  =
B D                   Opossum  -
  D               Rock pigeon  -
  D              Mallard duck  =

Inserts between block 4 and 5 in window
B D                      Pig 1bp
B D                   Alpaca 1bp
B D                    Horse 1bp
B D         White rhinoceros 1bp
B D                      Cat 1bp
B D                      Dog 1bp
B D                  Ferret  1bp
B D                    Panda 1bp
              Pacific walrus 1bp
                Weddell seal 1bp
            Black flying-fox 1bp
B D                  Megabat 1bp
               Big brown bat 1bp
        David's myotis (bat) 1bp
B D                 Microbat 1bp
B D                 Hedgehog 1bp
             Star-nosed mole 1bp

Alignment block 5 of 1686 in window, 102714629 - 102714636, 8 bps 
B D                     Human  c---cg-ggcca---
B D                     Chimp  c---cg-ggccg---
B D                   Gorilla  c---cg-ggccg---
B D                 Orangutan  c---cc-gccgg---
B D                    Gibbon  c---cg-gcccg---
B D                    Rhesus  c---ag-gccag---
B D       Crab-eating macaque  c---ag-gccag---
B D                    Baboon  c---ag-gccag---
B D              Green monkey  c---ag-gccag---
B D                  Marmoset  c---cc-gccag---
B D           Squirrel monkey  c---ca-gccag---
B D                  Bushbaby  c---tg-acctg---
           Chinese tree shrew  c---agtgccag---
B D                  Squirrel  c---ag-gccag---
       Lesser Egyptian jerboa  ccggag-tccag---
                 Prairie vole  c---ag-ttcag---
B D           Chinese hamster  c---ag-ttcaa---
               Golden hamster  c---ag-gtcaa---
B D                     Mouse  c---ag-ttctg---
B D                       Rat  c---ag-ttctg---
B D            Naked mole-rat  c----g-ttctg---
B D                Guinea pig  c--------cgg---
B D                    Rabbit  c----g-gccgg---
B D                      Pika  c----t-gccgg---
B D                       Pig  c---ag-gccag---
B D                    Alpaca  c---cg-gcc-g---
               Bactrian camel  c---cg-gcc-g---
B D                   Dolphin  c---tg-gccaa---
                 Killer whale  c---tg-gccaa---
             Tibetan antelope  c---tg-gcttg---
B D                       Cow  c---tg-gcctg---
B D                     Sheep  c---tg-gcttg---
                Domestic goat  c---tg-gcttg---
B D                     Horse  c---ac-gcctg---
B D          White rhinoceros  c---tc-gcctg---
B D                       Cat  c---tg-gccag---
B D                       Dog  c---ag-gccag---
B D                   Ferret   c---tg-acttg---
B D                     Panda  c---ag-gcccg---
               Pacific walrus  c---ag-gccgg---
                 Weddell seal  c---ag-gccag---
             Black flying-fox  c---ag-actct---
B D                   Megabat  c---ag-actct---
                Big brown bat  c---ag-gc------
         David's myotis (bat)  c---ag-gc------
B D                  Microbat  c---ag-gc------
B D                  Hedgehog  c---ag-actcg---
              Star-nosed mole  c---cg-gcggg---
B D                  Elephant  c---ag-accgg---
          Cape elephant shrew  c---ac-actgg---
B D                   Manatee  c---ag-acgcg---
             Cape golden mole  c---ag-ccaag---
B D                    Tenrec  t---ag-acctg---
                     Aardvark  c---ag-accgt---
B D                 Armadillo  t---ga-acccg---
B D                   Opossum  -----g-ggatg---
B D                  Platypus  c---gg-ggcga---
  D              Saker falcon  -------ccccacca
  D          Peregrine falcon  -------ccccacca
B D                   Chicken  -------actcagcc
B D        American alligator  -------ggcca---
B D                     Shrew  ===============
                  Chinchilla  ===============
            Brush-tailed rat  ===============
         Princess of Burundi  ===============
B D              Nile tilapia  ===============
B D                      Fugu  ===============
      Yellowbelly pufferfish  ===============
B D                 Tetraodon  ===============
                 Zebra mbuna  ===============
B D                 Zebrafish  ===============
B D                Coelacanth  ===============
B D              Atlantic cod  ===============
                 Spotted gar  ===============
B D               Stickleback  ===============
    Mexican tetra (cavefish)  ===============
         Pundamilia nyererei  ===============
       Burton's mouthbreeder  ===============
  D  Chinese softshell turtle  ===============
  D           Green seaturtle  ===============
  D       Collared flycatcher  ===============
          Southern platyfish  ===============
B D             X. tropicalis  ===============
B D                Budgerigar  ===============
B D       Medium ground finch  ===============
  D    White-throated sparrow  ===============
B D                    Turkey  ===============
B D                    Lizard  ===============
B D                    Medaka  ===============
B D               Zebra finch  ===============
  D            Painted turtle  ===============
          Tibetan ground jay  ===============
  D                    Parrot  ===============
B D           Tasmanian devil  ===============
B D                   Wallaby  ===============
  D               Rock pigeon  ---------------
  D              Mallard duck  ===============

Inserts between block 5 and 6 in window
      Lesser Egyptian jerboa 1bp
  D         Peregrine falcon 2bp
B D                  Chicken 8bp

Alignment block 6 of 1686 in window, 102714637 - 102714646, 10 bps 
B D                     Human  g----------ttttc----aag-g-
B D                     Chimp  g----------ttttc----aag-g-
B D                   Gorilla  g----------ttttc----aag-g-
B D                 Orangutan  g----------ttttc----aag-g-
B D                    Gibbon  g----------ttttc----aag-g-
B D                    Rhesus  g----------tttct----aag-g-
B D       Crab-eating macaque  g----------tttct----aag-g-
B D                    Baboon  g----------tttct----aag-g-
B D              Green monkey  g----------tttct----aag-g-
B D                  Marmoset  g----------tctcc----cag-g-
B D           Squirrel monkey  g----------tttcc----caa-g-
B D                  Bushbaby  g----------cttcc----aac-g-
           Chinese tree shrew  g----------cttcc----aac-g-
B D                  Squirrel  a----------gttcc----aac-g-
       Lesser Egyptian jerboa  c----------ttccc----ag--g-
                 Prairie vole  --------------------aa--g-
B D           Chinese hamster  c----------cttcc----ga--g-
               Golden hamster  c----------cttcc----aa--g-
B D                     Mouse  c----------tttcc----tg--g-
B D                       Rat  c----------tttcc----ta--g-
B D            Naked mole-rat  g----------ctccc----cgc-g-
B D                Guinea pig  c----------cttcc----agc-g-
B D                    Rabbit  g----------cttgc----agcgg-
B D                      Pika  a-----------ttcc----agcgg-
B D                       Pig  g----------ctgcg----aac-g-
B D                    Alpaca  g----------ctgcc----aac-g-
               Bactrian camel  g----------ctgcc----aac-g-
B D                   Dolphin  g----------ctgcc----aac-g-
                 Killer whale  g----------ctgcc----aac-g-
             Tibetan antelope  g----------ctgcc----aaa-g-
B D                       Cow  g----------ctgcc----aaa-g-
B D                     Sheep  g----------ctgcc----aaa-g-
                Domestic goat  g----------ctgcc----aaa-g-
B D                     Horse  a----------cttcc----agc-g-
B D          White rhinoceros  a----------cttcc----aac-g-
B D                       Cat  g----------cttct----aac-g-
B D                       Dog  g----------gttcc----aac-g-
B D                   Ferret   g----------cttcc----gac-g-
B D                     Panda  g----------cttcc----aaa-g-
               Pacific walrus  g----------cttcc----atc-g-
                 Weddell seal  g----------cttcc----aac-g-
             Black flying-fox  t----------cttcc----tgc-g-
B D                   Megabat  t----------cttcc----tac-g-
B D                  Hedgehog  g----------ttt------ccc-g-
              Star-nosed mole  g----------cttgc----acc-g-
B D                  Elephant  g----------ctccc----caa-g-
          Cape elephant shrew  g----------ttcct----caa-g-
B D                   Manatee  g----------ctctc----caa-g-
             Cape golden mole  g----------cttcc----caa-g-
B D                    Tenrec  g----------cttcc----aaa-g-
                     Aardvark  g----------cttcc----aaa-g-
B D                 Armadillo  ggctccgctacctccc----tac-g-
B D                   Opossum  g----------ttttctcggcag-g-
B D                  Platypus  g----------gttgc----aac-g-
  D               Rock pigeon  -----------gtgct----gtg-gg
  D          Peregrine falcon  -----------atccc----cct-gt
B D                   Chicken  -------------gct----gtc-at
B D        American alligator  --------------------gca-ag
B D                     Shrew  ==========================
               Big brown bat  --------------------------
B D                  Microbat  --------------------------
        David's myotis (bat)  --------------------------
                  Chinchilla  ==========================
            Brush-tailed rat  ==========================
         Princess of Burundi  ==========================
B D              Nile tilapia  ==========================
B D                      Fugu  ==========================
      Yellowbelly pufferfish  ==========================
B D                 Tetraodon  ==========================
                 Zebra mbuna  ==========================
B D                 Zebrafish  ==========================
B D                Coelacanth  ==========================
B D              Atlantic cod  ==========================
                 Spotted gar  ==========================
B D               Stickleback  ==========================
    Mexican tetra (cavefish)  ==========================
         Pundamilia nyererei  ==========================
       Burton's mouthbreeder  ==========================
  D  Chinese softshell turtle  ==========================
  D           Green seaturtle  ==========================
  D       Collared flycatcher  ==========================
          Southern platyfish  ==========================
B D             X. tropicalis  ==========================
B D                Budgerigar  ==========================
B D       Medium ground finch  ==========================
  D    White-throated sparrow  ==========================
  D              Saker falcon  ==========================
B D                    Turkey  ==========================
B D                    Lizard  ==========================
B D                    Medaka  ==========================
B D               Zebra finch  ==========================
  D            Painted turtle  ==========================
          Tibetan ground jay  ==========================
  D                    Parrot  ==========================
B D           Tasmanian devil  ==========================
B D                   Wallaby  ==========================
  D              Mallard duck  ==========================

Inserts between block 6 and 7 in window
B D                  Chicken 28bp
B D       American alligator 17bp

Alignment block 7 of 1686 in window, 102714647 - 102714689, 43 bps 
B D                     Human  cgggctg-taactggtg---gc-----------------at-------------ttg-------------
B D                     Chimp  cgggctg-taactggtg---gc-----------------at-------------ttg-------------
B D                   Gorilla  cgggttg-taactggtg---gc-----------------at-------------ttg-------------
B D                 Orangutan  cgggctg-taactggtg---gc-----------------at-------------ttg-------------
B D                    Gibbon  cgggctg-taactggtg---gc-----------------at-------------ttg-------------
B D                    Rhesus  ctgactg-taactggtg---gc-----------------at-------------ttg-------------
B D       Crab-eating macaque  ctgactg-taactggtg---gc-----------------at-------------ttg-------------
B D                    Baboon  cggactg-taactggtg---ac-----------------at-------------ttg-------------
B D              Green monkey  cggactg-taactggtg---gc-----------------at-------------ttg-------------
B D                  Marmoset  cgggctt-tatctggtg---gc-----------------at-------------ttg-------------
B D           Squirrel monkey  cgggctt-tatctgttg---gc-----------------at-------------ttg-------------
B D                  Bushbaby  ctggcta-cgtctggtg---gc-----------------ag-------------ttgtcttagttgttct
           Chinese tree shrew  cgggctg-caactgggg---gc-----------------gtagtcacagtactactc-------------
B D                  Squirrel  tgtgcta-catctggtg---gcactagtct---tggtgcat-------------cac-------------
       Lesser Egyptian jerboa  agtgcttccagctggtg---gc---agtcgtgccagtgcat-------------ccc-------------
                 Prairie vole  tcagcgg-cgcctgaca---gt---agtc----gggtgcat-------------ccc-------------
B D           Chinese hamster  tccgcta--acctggtg---gc---tgtctca-gggtgcat-------------ccc-------------
               Golden hamster  tcagcca--acctggta---g----ggtctca-ggctgcgc-------------ccc-------------
B D                     Mouse  tcagctt-cgcctggtg---gc---agtcgcg-gggtgcat-------------ccc-------------
B D                       Rat  tcagctt-cgtctggtg---gc---tgtcgcg-ggctgcat------------cccc-------------
B D            Naked mole-rat  cacgctg-ccttcggtg-cagc---tgtctcg-gg--gcgt-------------cct-------------
B D                Guinea pig  tgcgctg-atcttggtgactgc---tgtctca-gg--gcgt-------------ccc-------------
B D                    Rabbit  ctggcta-catctggcggcggc---tgtggca-g---gcat-------------ccc-------------
B D                      Pika  cgagtta-cacctgctgacagc---tggctca-gc--gcat--------------cc-------------
B D                       Pig  cgggctg-catctggta---gc---agttgtctcagcacat-------------tcc-------------
B D                    Alpaca  cgggctg-catctggta---gc---agctgtctcagtgcat-------------tcc-------------
               Bactrian camel  cgggctg-catctagta---gc---agctgtctcagtgcat-------------tcc-------------
B D                   Dolphin  cggggtg-catctggta---gc---agttgtctcagtgcgt-------------tcc-------------
                 Killer whale  cggggtg-catctggta---gc---agttgtctcagtgcgt-------------tcc-------------
             Tibetan antelope  cgggctg-cttctggaa---gc---agctgtgtcagtctgt-------------ttc-------------
B D                       Cow  cgggctg-cttttggaa---gc---ggctgtgttagtccgt-------------ttc-------------
B D                     Sheep  cgggctg-cttctggaa---gc---agctgtgtcagtctgt-------------ttc-------------
                Domestic goat  cgggctg-cttctggaa---gc---agctgtgtcagtctgt-------------ttc-------------
B D                     Horse  cgggct---gtctggtg---gc---agttgcctcagtacat-------------tcc-------------
B D          White rhinoceros  cggggtg-cgtctggtg---gc---agttgcttgagtgcat-------------tcc-------------
B D                       Cat  cagggtt-cttctgttg---gc---agttgtctcagtgcat-------------tct-------------
B D                       Dog  cgggctg-cttctgttg---gc---agttgttcccgtgcat-------------tct-------------
B D                   Ferret   cagtgta-cttcttttg---gc---agttgtctcagtgcat-------------tct-------------
B D                     Panda  cagggtg-cttctgttg---gc---agttgtctcagtgcat-------------tct-------------
               Pacific walrus  cagtgta-cttctgttg---gc---agttgtctcagtacat-------------tcg-------------
                 Weddell seal  cagggta-cttctgttg---gc---agttgtctcagtacat-------------tct-------------
             Black flying-fox  caagctg-catctggtg--------------------acgt-------------tcc-------------
B D                   Megabat  caagctg-catctggtg--------------------acat-------------tcc-------------
                Big brown bat  caagc------ctg------------------------cat-------------tcc-------------
         David's myotis (bat)  caggc------ctg------------------------cat-------------tct-------------
B D                  Microbat  caggc------ctg------------------------cat-------------tct-------------
B D                  Hedgehog  cgcgctg-ggttt-gcg---gc---tgtaccctaggtgcgt-------------tcc-------------
              Star-nosed mole  cggactg-catctggtg---gc---cggcgactcagtgcgt-------------tcc-------------
B D                  Elephant  cgtgctg-catctggta---gc---agttgtctcagggcac-------------tcc-------------
          Cape elephant shrew  cttgctg-cagttgctg---tc---tgttgtttctttgact-------------tct-------------
B D                   Manatee  cgtgctg-catctggtg---gc---agttgtctcagtgcac-------------tc--------------
             Cape golden mole  tgtgttg-catttggtg---gc---agctgtctcagtgcac-------------gcc-------------
B D                    Tenrec  tgagctt-catttggta---gc---agctgcttcagtgcat-------------tta-------------
                     Aardvark  catgttg-tatttggtg---gt---agttgtttcagtgcac-------------gac-------------
B D                 Armadillo  cgtgctg-ttcctagcg---gc---ggttgtctcag-gcat-------------acc-------------
B D                   Opossum  cgggctt-ccttttgcc---gt---agcagtgcag--acgt-------------ctt-------------
B D                  Platypus  gctgctg-catcttctc---tt--------tgcaggtaggg-------------ctc-------------
  D               Rock pigeon  -------------------------------------------------------ca-------------
  D          Peregrine falcon  -------------------------------------------------------ct-------------
  D              Mallard duck  -------------------------------------------------------cg-------------
B D                   Chicken  -------------------------------------------------------ct-------------
B D        American alligator  -------------------------------------------------------cg-------------
B D                     Shrew  ======================================================================
                  Chinchilla  ======================================================================
            Brush-tailed rat  ======================================================================
         Princess of Burundi  ======================================================================
B D              Nile tilapia  ======================================================================
B D                      Fugu  ======================================================================
      Yellowbelly pufferfish  ======================================================================
B D                 Tetraodon  ======================================================================
                 Zebra mbuna  ======================================================================
B D                 Zebrafish  ======================================================================
B D                Coelacanth  ======================================================================
B D              Atlantic cod  ======================================================================
                 Spotted gar  ======================================================================
B D               Stickleback  ======================================================================
    Mexican tetra (cavefish)  ======================================================================
         Pundamilia nyererei  ======================================================================
       Burton's mouthbreeder  ======================================================================
  D  Chinese softshell turtle  ======================================================================
  D           Green seaturtle  ======================================================================
  D       Collared flycatcher  ======================================================================
          Southern platyfish  ======================================================================
B D             X. tropicalis  ======================================================================
B D                Budgerigar  ======================================================================
B D       Medium ground finch  ======================================================================
  D    White-throated sparrow  ======================================================================
  D              Saker falcon  ======================================================================
B D                    Turkey  ======================================================================
B D                    Lizard  ======================================================================
B D                    Medaka  ======================================================================
B D               Zebra finch  ======================================================================
  D            Painted turtle  ======================================================================
          Tibetan ground jay  ======================================================================
  D                    Parrot  ======================================================================
B D           Tasmanian devil  ======================================================================
B D                   Wallaby  ======================================================================

                        Human  tc--ccgggaccaggta--------------------ag------------------ggg----------
                        Chimp  tc--ccgggaccaggta--------------------ag------------------ggg----------
                      Gorilla  tc--ccgggaccaggta--------------------ag------------------ggg----------
                    Orangutan  tc--ccgggaccaggta--------------------ag------------------ggg----------
                       Gibbon  tc--ccgggaccaggta--------------------ag------------------ggg----------
                       Rhesus  tc--ccgggaccaggta--------------------ag------------------ggg----------
          Crab-eating macaque  tc--ccgggaccaggta--------------------ag------------------ggg----------
                       Baboon  tc--ccgggaccaggta--------------------ag------------------ggg----------
                 Green monkey  tc--ccgggaccaggta--------------------ag------------------ggg----------
                     Marmoset  tc--ccgggaccaggta--------------------ag------------------ggg----------
              Squirrel monkey  tc--ccgggaccaggta--------------------ag------------------ggg----------
                     Bushbaby  tc--ccaggaccaggta--------------------ag------------------ggg----------
           Chinese tree shrew  tc--ccaggactaggta--------------------ag------------------ggg----------
                     Squirrel  tc--ctgggagcaggta--------------------ag------------------ggg----------
       Lesser Egyptian jerboa  tc--ccgggaccaggta--------------------ag------------------gcg----------
                 Prairie vole  t---ttgggaccaggta--------------------ag------------------ggg----------
              Chinese hamster  t---ctgggaccaggta--------------------ag------------------gga----------
               Golden hamster  t---ctgggaccaggta--------------------ag------------------ggg----------
                        Mouse  t---ctgggaccaggta--------------------ag------------------agt----------
                          Rat  t---ctgggaccaggta--------------------ag------------------agt----------
               Naked mole-rat  tc--ccgggcccaggta--------------------a-------------------ggg----------
                   Guinea pig  tt--ctgtggccaggta--------------------ag------------------ggg----------
                       Rabbit  tc--ttgcggccaggta--------------------ag------------------ggg----------
                         Pika  tc--ttccgaccaggta--------------------ag------------------ggg----------
                          Pig  tt--ctgggaccaggta--------------------ag------------------ggg----------
                       Alpaca  tc--ccgggaccaggta--------------------ag------------------gag----------
               Bactrian camel  tc--ccgggaccaggta--------------------ag------------------gag----------
                      Dolphin  tc--ccgggaccaggta--------------------ag------------------ggg----------
                 Killer whale  tc--ccgggaccaggta--------------------ag------------------ggg----------
             Tibetan antelope  tc--ccgggtccaggta--------------------a-------------------gga----------
                          Cow  tc--ccggatccaggta--------------------a-------------------gga----------
                        Sheep  tc--ccgggtccaggta--------------------a-------------------gga----------
                Domestic goat  tc--ccgggtccaggta--------------------a-------------------gga----------
                        Horse  tc--tcgggaccaggta--------------------ag------------------ggg----------
             White rhinoceros  tg--ccgggaccaggta--------------------ag------------------ggg----------
                          Cat  tt--tcggggccaggta--------------------ag------------------ggg----------
                          Dog  tc--ccgggacgaggta--------------------ag------------------ggg----------
                      Ferret   tc--ctgggaccaggta--------------------ag------------------ggg----------
                        Panda  tc--ccgggaccaggta--------------------ag------------------ggg----------
               Pacific walrus  tc--ccgggaccaggta--------------------ag------------------ggg----------
                 Weddell seal  tc--ccgggaccaggta--------------------ag------------------ggg----------
             Black flying-fox  tc--ccgggaccaggta--------------------ag------------------tgg----------
                      Megabat  tc--ccgggaccaggta--------------------ag------------------tgg----------
                Big brown bat  tc--ccgggaccaggta--------------------ag------------------tgg----------
         David's myotis (bat)  tc--ccgggaccaggta--------------------ag------------------tgg----------
                     Microbat  tc--ccgggaccaggta--------------------ag------------------tgg----------
                     Hedgehog  tt--ccagcaccaggta--------------------ag------------------ggg----------
              Star-nosed mole  tc--ccaggaccaggta--------------------ag------------------gga----------
                     Elephant  tc--ccgggaccaggta--------------------ag------------------ggc----------
          Cape elephant shrew  tt--cctggaccaggta--------------------ag------------------agt----------
                      Manatee  ----ccgggaccaggta--------------------ag------------------ggc----------
             Cape golden mole  tc--ccgggaccaggta--------------------ag------------------tgc----------
                       Tenrec  tc--ccgcggtcaggta--------------------ag------------------tgc----------
                     Aardvark  tt--ctgggaccaggta--------------------ag------------------ggc----------
                    Armadillo  tc--ccgagagcaggta--------------------ag------------------ggt----------
                      Opossum  cc--ctggcatcaggtt--------------------tgtctttcggggaactgtctggg----------
                     Platypus  ca--aggggactaggaa--------------------aa------------------ggg----------
                  Rock pigeon  gg--cagggtcaggagaacacat------gtccgg--ag------------------cggaaggacagat
             Peregrine falcon  gtcccagaggggggagaaggc----------------gg------------------tggaag-------
                 Mallard duck  ag--caggtacggggcaaggggg------ctccgggcag------------------cgggga-------
                      Chicken  gc--ccggtgcgggg----------------------ag------------------gaaggg-------
           American alligator  ag--aaggcgccgggcgccatggccagctgccccg--gg------------------tggatg-------
                        Shrew  ======================================================================
                   Chinchilla  ======================================================================
             Brush-tailed rat  ======================================================================
          Princess of Burundi  ======================================================================
                 Nile tilapia  ======================================================================
                         Fugu  ======================================================================
       Yellowbelly pufferfish  ======================================================================
                    Tetraodon  ======================================================================
                  Zebra mbuna  ======================================================================
                    Zebrafish  ======================================================================
                   Coelacanth  ======================================================================
                 Atlantic cod  ======================================================================
                  Spotted gar  ======================================================================
                  Stickleback  ======================================================================
     Mexican tetra (cavefish)  ======================================================================
          Pundamilia nyererei  ======================================================================
        Burton's mouthbreeder  ======================================================================
     Chinese softshell turtle  ======================================================================
              Green seaturtle  ======================================================================
          Collared flycatcher  ======================================================================
           Southern platyfish  ======================================================================
                X. tropicalis  ======================================================================
                   Budgerigar  ======================================================================
          Medium ground finch  ======================================================================
       White-throated sparrow  ======================================================================
                 Saker falcon  ======================================================================
                       Turkey  ======================================================================
                       Lizard  ======================================================================
                       Medaka  ======================================================================
                  Zebra finch  ======================================================================
               Painted turtle  ======================================================================
           Tibetan ground jay  ======================================================================
                       Parrot  ======================================================================
              Tasmanian devil  ======================================================================
                      Wallaby  ======================================================================

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

Inserts between block 7 and 8 in window
B D                 Platypus 7155bp

Alignment block 8 of 1686 in window, 102714690 - 102714763, 74 bps 
B D                     Human  ccttg-gg---acaatgg-----cgctcg------------------ccctg--tcta-cct--------
B D                     Chimp  ccttg-gg---acaatgg-----cgctcg------------------ccctg--tcta-cct--------
B D                   Gorilla  ccttg-gg---acaatgg-----cgctcg------------------ccctg--tcta-cct--------
B D                 Orangutan  ccttg-gg---acaatgg-----cgctcg------------------ccctg--tcta-cct--------
B D                    Gibbon  ccttg-gg---acaatgg-----cgctcg------------------ctctg--tcta-cct--------
B D                    Rhesus  ccttg-gg---acaaggg-----cgctca------------------ccctg--tcta-cct--------
B D       Crab-eating macaque  ccttg-ag---acaaggg-----cgctca------------------ccctg--tcta-cct--------
B D                    Baboon  ccttg-gg---acgaggg-----cgctca------------------ccctg--tcta-cct--------
B D              Green monkey  ccttg-gg---acgaggg-----cgctca------------------ccctg--tcta-cct--------
B D                  Marmoset  ctttg-gg---atgaggc-----cgctcg------------------cttcg--tcta-ctt--------
B D           Squirrel monkey  ctttg-gg---aggaagc-----cgctcg------------------cccta--tctt-ctt--------
B D                  Bushbaby  ctttg-gg---acacggc-----cgctcg------------------ccaca--tcta-tct--------
           Chinese tree shrew  ctggg-cg---aagaggc-----cgctcg------------------ccaca--agta-cct--------
B D                  Squirrel  ccatg-ag---aggaggc-----caccgg------------------ctata--tcta-cct--------
       Lesser Egyptian jerboa  ccccg-ag---ataagag-----cagccg------------------c-gcg--tccagatt--------
                 Prairie vole  cctcc-cg---tgcaggc-----cggttg------------------c-aca--gctg-ctt--------
B D           Chinese hamster  actca-ag---tgcagg---------------------------------------ta-ttt--------
               Golden hamster  catca-ag---cgcaggc-----cggttg------------------c-aca--gcta-ctt--------
B D                     Mouse  tcgca-ag---tgc-agc-----caaatg------------------c-aca--gcta-ctc--------
B D                       Rat  cctca-ag---tgcaagc-----caaaag------------------c-aca--gcta-ctc--------
B D            Naked mole-rat  cc--------------ac-----cctccg------------------a----------------------
B D                Guinea pig  cc--------------ac-----ccgccg------------------c------gttg-ctc--------
B D                    Rabbit  tcttg-ag---cggaggc-----tg----------------------c-cca--gcgg-ttt--------
B D                      Pika  tcttgaag---aggaggc-----tgctccccatc-------------c-ccc--gcgt-ctt--------
B D                       Pig  tcttg-gg---aggaggc-----agcctg------------------cagaa--tcta-tct--------
B D                    Alpaca  ccttg-gg---aagaggc-----cgtctg------------------ccaca--tcta-cct--------
               Bactrian camel  ccttg-gg---aagaggc-----cgtctg------------------ccaca--tcta-cct--------
B D                   Dolphin  tcttg-gg---aggagtc-----cgcctg------------------ccaca--tata-cct--------
                 Killer whale  tcttg-gg---aggagtc-----cgcctg------------------ccaca--tata-cct--------
             Tibetan antelope  tcttg-ag---aggacgc-----ctcctg------------------caaca--tcta-cctgtg-----
B D                       Cow  tcttg-ag---aggaggc-----ctcctg------------------caaca--tcta-cctgtg-----
B D                     Sheep  tcttg-ag---aggacgc-----ctcctg------------------caaca--tcta-cctgtg-----
                Domestic goat  tcttg-ag---aggacgc-----ctcctg------------------caaca--tcta-cctgtg-----
B D                     Horse  tcttg-gg---aggaggc-----cgtccg------------------ccgca--tcta-ttg--------
B D          White rhinoceros  ttttg-gg---acaaggc-----cgcccg------------------ccgca--tcta-cct--------
B D                       Cat  tcttg-gg---aggaggc-----cgccta------------------ccaca--cctt-cct--------
B D                       Dog  tcttg-gg---aggaggc-----cgccca------------------ccaca--cctt-cct--------
B D                   Ferret   tcttg-gg---aggaggc-----cgcctg------------------ccaca--cctt-cct--------
B D                     Panda  tcttg-gg---aagaggc-----cgccca------------------ccaca--cctt-cct--------
               Pacific walrus  tcttg-gg---aggaggc-----cgccta------------------ccaca--ccct-ctt--------
                 Weddell seal  tcttg-gg---aggaggc-----cgccta------------------ccaca--cctt-ctt--------
             Black flying-fox  tcttg-gg---aagaggc-----cgcaca------------------ccaca--tctg-ctt--------
B D                   Megabat  tcttg-gg---aagaggc-----cgcaca------------------ccaca--tatg-ctt--------
                Big brown bat  tcttg-gg---agccagc-----cgcctg------------------ccaaa--ccta-cct--------
         David's myotis (bat)  tcttg-gg---agcaagc-----cgcctg------------------ccgag--tcta-cct--------
B D                  Microbat  tcttg-gg---agccagc-----cgcctg------------------ccgag--tcta-cct--------
B D                  Hedgehog  tcttg-ga---ggaaggt-----g-cctg------------------tggcg--tctt-cct--------
              Star-nosed mole  tcttg-ga---aggaggc-----c-accg------------------ccacg--tcta-ccg--------
B D                  Elephant  ccttg-ggg--agagagc-----cgcttg------------------ccacg--tcta-ctt--------
          Cape elephant shrew  tcttg-ggg--aagaggc-----tacttg------------------cc---------------------
B D                   Manatee  agttg-ggg--agagggc-----cgcttg------------------ccacg--tcta-ctt--------
             Cape golden mole  acttg-ggc--aggaagc-----cgcttg------------------ccacg--tcca-c-t--------
B D                    Tenrec  tcttg-ggc--aagaggc-----tgcttg------------------ccacg--tcta-ctt--------
                     Aardvark  t-ttg-ggg--tgcaggc-----ctcttg------------------ttaaa--tcta-ctt--------
B D                 Armadillo  ccttg-ggg--aggaggc-----cgc-cg------------------tcaca--tcta-cct--------
B D                   Opossum  gctgg-gggcagagaggcggcattgcctg------------------cctcaactctt-tct--------
  D               Rock pigeon  -----------------------------ccccacaggaa-------caggg--gttc-ccccgttgttg
  D          Peregrine falcon  -----------------------------ccacgctatgg-------cggga--gtcc-c----------
  D              Mallard duck  -----------------------------gcaaagcggggatgtcgccagga--gcct-g----------
B D                   Chicken  -----------------------------gtgca-------------cggga--cccc-gtttgc-----
B D        American alligator  -----------------------------gagcggctggc-------cggcg--ccca-g----------
B D                     Shrew  ======================================================================
                  Chinchilla  ======================================================================
            Brush-tailed rat  ======================================================================
         Princess of Burundi  ======================================================================
B D              Nile tilapia  ======================================================================
B D                      Fugu  ======================================================================
      Yellowbelly pufferfish  ======================================================================
B D                 Tetraodon  ======================================================================
                 Zebra mbuna  ======================================================================
B D                 Zebrafish  ======================================================================
B D                Coelacanth  ======================================================================
B D              Atlantic cod  ======================================================================
                 Spotted gar  ======================================================================
B D               Stickleback  ======================================================================
    Mexican tetra (cavefish)  ======================================================================
         Pundamilia nyererei  ======================================================================
       Burton's mouthbreeder  ======================================================================
  D  Chinese softshell turtle  ======================================================================
  D           Green seaturtle  ======================================================================
  D       Collared flycatcher  ======================================================================
          Southern platyfish  ======================================================================
B D             X. tropicalis  ======================================================================
B D                Budgerigar  ======================================================================
B D                  Platypus  ======================================================================
B D       Medium ground finch  ======================================================================
  D    White-throated sparrow  ======================================================================
  D              Saker falcon  ======================================================================
B D                    Turkey  ======================================================================
B D                    Lizard  ======================================================================
B D                    Medaka  ======================================================================
B D               Zebra finch  ======================================================================
  D            Painted turtle  ======================================================================
          Tibetan ground jay  ======================================================================
  D                    Parrot  ======================================================================
B D           Tasmanian devil  ======================================================================
B D                   Wallaby  ======================================================================

                        Human  -----cc-----aa-------tccccac----atctc-g--g-------gtgggtgctga-------g--
                        Chimp  -----cc-----aa-------tccccac----atctc-g--g-------gtgggtgctga-------g--
                      Gorilla  -----cc-----aa-------tccccac----atctc-g--g-------gtgggtgctga-------g--
                    Orangutan  -----cc-----aa-------tccccac----atctc-g--g-------gagggtgctga-------g--
                       Gibbon  -----cc-----aa-------tccccac----atctc-g--g-------gagggtgctga-------g--
                       Rhesus  -----cc-----aa-------tccccac----atctc-g--g-------gagggagctga-------g--
          Crab-eating macaque  -----cc-----aa-------tccccac----atctc-g--g-------gagggagctga-------g--
                       Baboon  -----cc-----aa-------tccccac----atctc-g--g-------gagggagctga-------g--
                 Green monkey  -----cc-----aa-------tccccac----atctc-g--g-------gagggagctga-------g--
                     Marmoset  -----ct-----aa-------tcgctgc----agctc-g--g-------gagggagctga-------g--
              Squirrel monkey  -----cc-----aa-------tcgccac----atctc-g--g-------gagggagctga-------g--
                     Bushbaby  -----gt-----aa-------tcccctc----atttc-a--g-------aagggagctgg-------g--
           Chinese tree shrew  -----ct-----ag-------tccccac----gtccc-g--g-------gagggagctcg-------a--
                     Squirrel  -----cc-----ag-------tgtcccc----atcccgg--g-------gagggagcttg-------a--
       Lesser Egyptian jerboa  -----at-----aa-------tctccac----gtccc-c--c-------gagggaatgtg-------a--
                 Prairie vole  -----cc-----ag-------tccccgt----gtct--------------------cctg-------c--
              Chinese hamster  -----cc-----ag-------tctccgc----gtcgc-a--g-------aagggagcctg-------c--
               Golden hamster  -----cc-----ag-------tctccgc----gtctg-c--g-------aagggaacctg-------c--
                        Mouse  -----ct-----aa-------tccccgc----gcctc-c--g-------aagggagcgtg-------g--
                          Rat  -----ct-----at-------tccccgc----gcctc-c--g-------aagggagcctg-------g--
               Naked mole-rat  -----------------------tccta----ctccc-t--g---------gagggctgg-------a--
                   Guinea pig  -----tc-----ta-------attcctg----ctccc-t--g-------cagggggctgg-------a--
                       Rabbit  -----gc-----ag-------tcgccac----atccc-g--g-------ga--gggctgg-------gag
                         Pika  -----acctccaag-------tcgtcgc----atctt-g--g-------gaaggggctgg-------g-t
                          Pig  -----cc-----ag-------tccccac----attcc-g--c-------gacgtagcttg-------c--
                       Alpaca  -----cc-----ag-------tccccac----attcc-g--g-------gagggagcttg-------t--
               Bactrian camel  -----cc-----ag-------tccccac----atccc-g--g-------gagggagcttg-------t--
                      Dolphin  -----cc-----ag-------tccccac----atccc----g-------gagggagcttg-------c--
                 Killer whale  -----cc-----ag-------tccccac----atccc----g-------gagggagcttg-------c--
             Tibetan antelope  -----cc-----aggttttattccccag----atccc-a--g-------gagggagtttg-------c--
                          Cow  -----cc-----aggttttattccccac----atccc-a--g-------gagggagtttg-------c--
                        Sheep  -----cc-----aggttttattccccag----atccc-a--g-------gagggagtttg-------c--
                Domestic goat  -----cc-----aggttttattccccag----atccc-a--g-------gagggagtttg-------c--
                        Horse  -----tc-----ag-------tccccac----atccc-g--g-------gagggagcttg-------g--
             White rhinoceros  -----cc-----ag-------ttccctc----atcct-g--g-------gagggagcttg-------g--
                          Cat  -----tt-----ag-------acccaac----atccc-g--g-------gagggagcttg-------g--
                          Dog  -----ct-----ag-------accccgc----atctc-g--g-------gagggagcttg-------g--
                      Ferret   -----gt-----ag-------accgcac----atccc-g--c-------ggaggagcttg-------g--
                        Panda  -----ct-----ag-------accccac----atccc-c--g-------gagggagctcg-------g--
               Pacific walrus  -----ct-----ag-------accccac----atttc-c--g-------gagggagtttg-------g--
                 Weddell seal  -----ct-----ag-------accccac----atccc-c--g-------gagggagtttg-------g--
             Black flying-fox  -----ct-----ag-------tccttat----gt-ct-a--g-------taaggagttta-------t--
                      Megabat  -----ct-----ag-------tccttat----gt-ct-a--g-------taaggagttta-------t--
                Big brown bat  -----tt-----ag-------ttcttaa----ggcct-g--g-------gagggagcttg-------t--
         David's myotis (bat)  -----tt-----ag-------tcctgaa----gtcct-g--g-------gagggagcttg-------c--
                     Microbat  -----tt-----ag-------tccctaa----gccct-g--g-------gagggagcttg-------c--
                     Hedgehog  -----gc-----ag-------gccccgctggaatccc-c--g-------gagggggcttg-------g--
              Star-nosed mole  -----cc-----ac-------tcccgactggagtccc-c--g-------ggggggacttg-------g--
                     Elephant  -----tc-----ag-------tccccac----gtccc-g--g-------gagggagtttg-------g--
          Cape elephant shrew  ---------------------tccccg-----------g--g-------gagggagatt--------g--
                      Manatee  -----cc-----ag-------tcatcac----gtccc-g--g-------gagggagcttg-------g--
             Cape golden mole  -----tc-----ag-------gcccctt----gcctt-g--g-------aaacgaactta-------g--
                       Tenrec  -----tc-----ag-------tccccac----gtc-c-g--g-------aaggaagcttt-------g--
                     Aardvark  -----tg-----ag-------tctccac----gttcc-a--g-------cagg--------------g--
                    Armadillo  -----cc-----ag-------tccccac----ctccc-g--g-------gaggaaacttg-------a--
                      Opossum  -----gc-----ag-------acttcgg----ggcct-g--gcctttaatagggaagaag-------g--
                  Rock pigeon  atgagcg-----gg-------tctaccc----atc------c-------caggaagggta-------a--
             Peregrine falcon  -----ag-----gg-------ctcactc----aactc-t--t-------cggccagcctg-------g--
                 Mallard duck  -----ct-----ga-------tgcatcg----gctct-t--g-------cagaaagcgttggtgctgg--
                      Chicken  -----ct-----ac-------tgcccca----gcccc-c--a-------aggtaggtctc----------
           American alligator  -----cg-----gg-------ttgaaga----actgc-tgcg-------cgggcagcccc-------g--
                        Shrew  ======================================================================
                   Chinchilla  ======================================================================
             Brush-tailed rat  ======================================================================
          Princess of Burundi  ======================================================================
                 Nile tilapia  ======================================================================
                         Fugu  ======================================================================
       Yellowbelly pufferfish  ======================================================================
                    Tetraodon  ======================================================================
                  Zebra mbuna  ======================================================================
                    Zebrafish  ======================================================================
                   Coelacanth  ======================================================================
                 Atlantic cod  ======================================================================
                  Spotted gar  ======================================================================
                  Stickleback  ======================================================================
     Mexican tetra (cavefish)  ======================================================================
          Pundamilia nyererei  ======================================================================
        Burton's mouthbreeder  ======================================================================
     Chinese softshell turtle  ======================================================================
              Green seaturtle  ======================================================================
          Collared flycatcher  ======================================================================
           Southern platyfish  ======================================================================
                X. tropicalis  ======================================================================
                   Budgerigar  ======================================================================
                     Platypus  ======================================================================
          Medium ground finch  ======================================================================
       White-throated sparrow  ======================================================================
                 Saker falcon  ======================================================================
                       Turkey  ======================================================================
                       Lizard  ======================================================================
                       Medaka  ======================================================================
                  Zebra finch  ======================================================================
               Painted turtle  ======================================================================
           Tibetan ground jay  ======================================================================
                       Parrot  ======================================================================
              Tasmanian devil  ======================================================================
                      Wallaby  ======================================================================

                        Human  att---------gctgtcctg
                        Chimp  att---------gctgtcctg
                      Gorilla  att---------gctgtcctg
                    Orangutan  att---------gctgtcctg
                       Gibbon  att---------gctgtcctg
                       Rhesus  att---------tctgtcctg
          Crab-eating macaque  att---------tctgtcctg
                       Baboon  att---------tctgtcctg
                 Green monkey  att---------tctgtcctg
                     Marmoset  att---------tctgtcctg
              Squirrel monkey  att---------tctgtcctg
                     Bushbaby  att---------tctatcctg
           Chinese tree shrew  att---------tccgtcctg
                     Squirrel  gt-------------------
       Lesser Egyptian jerboa  tt-------------------
                 Prairie vole  ct-------------------
              Chinese hamster  ct-------------------
               Golden hamster  ct-------------------
                        Mouse  tt-------------------
                          Rat  ct-------------------
               Naked mole-rat  ct-------------------
                   Guinea pig  ct-------------------
                       Rabbit  tt-------------------
                         Pika  tt-------------------
                          Pig  att---------tctgtccta
                       Alpaca  att---------tctgtgttg
               Bactrian camel  att---------tctgtcttg
                      Dolphin  att---------tctgtcctg
                 Killer whale  att---------tctgtcctg
             Tibetan antelope  att---------tctgtcctg
                          Cow  att---------tctgtcctg
                        Sheep  att---------tctgtcttg
                Domestic goat  att---------tctgtcttg
                        Horse  att---------tcagtcctg
             White rhinoceros  att---------tctatcctg
                          Cat  att---------tctgtcctg
                          Dog  att---------tctgtcttg
                      Ferret   att---------tctgtcctg
                        Panda  att---------tctgtcctg
               Pacific walrus  att---------tatgtcctg
                 Weddell seal  att---------tatgtcctg
             Black flying-fox  att---------tctgcccta
                      Megabat  att---------tttgcccta
                Big brown bat  gtt---------tctgtccag
         David's myotis (bat)  att---------tctgtcccg
                     Microbat  att---------tctgtcccg
                     Hedgehog  att---------tctgt----
              Star-nosed mole  actgcgc-----cctgc----
                     Elephant  att---------tctgtcctt
          Cape elephant shrew  att---------tctggcctt
                      Manatee  att---------tctgtcctt
             Cape golden mole  gtt---------tctgtcctt
                       Tenrec  att---------tctttc---
                     Aardvark  att---------tctgtcctt
                    Armadillo  att---------tctgtcctg
                      Opossum  att---------gctttctaa
                  Rock pigeon  acatgg------ccctgcca-
             Peregrine falcon  acctgg------gctttctg-
                 Mallard duck  accaggagtgctgcgtgctg-
                      Chicken  -ccagcccccctcctcacca-
           American alligator  ---------------------
                        Shrew  =====================
                   Chinchilla  =====================
             Brush-tailed rat  =====================
          Princess of Burundi  =====================
                 Nile tilapia  =====================
                         Fugu  =====================
       Yellowbelly pufferfish  =====================
                    Tetraodon  =====================
                  Zebra mbuna  =====================
                    Zebrafish  =====================
                   Coelacanth  =====================
                 Atlantic cod  =====================
                  Spotted gar  =====================
                  Stickleback  =====================
     Mexican tetra (cavefish)  =====================
          Pundamilia nyererei  =====================
        Burton's mouthbreeder  =====================
     Chinese softshell turtle  =====================
              Green seaturtle  =====================
          Collared flycatcher  =====================
           Southern platyfish  =====================
                X. tropicalis  =====================
                   Budgerigar  =====================
                     Platypus  =====================
          Medium ground finch  =====================
       White-throated sparrow  =====================
                 Saker falcon  =====================
                       Turkey  =====================
                       Lizard  =====================
                       Medaka  =====================
                  Zebra finch  =====================
               Painted turtle  =====================
           Tibetan ground jay  =====================
                       Parrot  =====================
              Tasmanian devil  =====================
                      Wallaby  =====================

Inserts between block 8 and 9 in window
  D              Rock pigeon 4bp
  D         Peregrine falcon 7bp
  D             Mallard duck 31bp
B D                  Chicken 20bp

Alignment block 9 of 1686 in window, 102714764 - 102714851, 88 bps 
B D                     Human  a-----------------c--t--gcccaggc-----------ggg----------------gctgcag-
B D                     Chimp  a-----------------c--t--gcccaggc-----------ggg----------------gctgcag-
B D                   Gorilla  a-----------------c--t--gcccaggc-----------ggg----------------gctgcag-
B D                 Orangutan  a-----------------c--t--gcccaggc-----------ggg----------------gctgcag-
B D                    Gibbon  a-----------------c--t--gcccaggc-----------ggg----------------gctgcag-
B D                    Rhesus  a-----------------c--t--gtccaggc-----------ggg----------------gctgcag-
B D       Crab-eating macaque  a-----------------c--t--gtccaggc-----------ggg----------------gctgcag-
B D                    Baboon  a-----------------c--t--gtccaggc-----------ggg----------------gctgcag-
B D              Green monkey  a-----------------c--t--gtccaggc-----------ggg----------------gctgcag-
B D                  Marmoset  a-----------------c--t--gcccaggc-----------cgg----------------gccgcag-
B D           Squirrel monkey  a-----------------c--t--gcccaggc-----------cgg----------------gccgcag-
B D                  Bushbaby  g-----------------c--t--tctcaggc-----------ggt----------------actgcag-
           Chinese tree shrew  a-----------------c--tacgccaaggt-----------gag----------------gcaccag-
B D                  Squirrel  ------------------c--c--gttctgactctgccag-ggagg----------------gttgccg-
       Lesser Egyptian jerboa  ------------------c--t--gtccagtc-----------tgg----------------gccgctgc
                 Prairie vole  ------------------c--t--gctctgtt-----------ggg----------------gctgccg-
B D           Chinese hamster  ------------------c--t--gctctggt-----------ggg----------------gctgcca-
               Golden hamster  ------------------c--t--gctccgtt-----------ggg----------------gctgcca-
B D                     Mouse  ------------------c--t--gctctgtt-----------gcg----------------gctgcca-
B D                       Rat  ------------------c--c--cttctgtg-----------gtg----------------gctgcca-
B D            Naked mole-rat  --------------------------cccggg-----------gaa----------------gctgcag-
B D                Guinea pig  ------------------t------ccctggt-----------gtg----------------gggccag-
B D                    Rabbit  ------------------c--t--gtcctgactccgcctgcgctgg----------------gctgggg-
B D                      Pika  ------------------c--t--gtcct----------------t----------------gctgcca-
B D                       Pig  a---------------ctc--t--gcttaggc-----------ggg----------------gctgcag-
B D                    Alpaca  a---------------cac--t--acccagac-----------tgg----------------gctgcgg-
               Bactrian camel  a---------------cac--t--acccagac-----------tgg----------------gctgcgg-
B D                   Dolphin  a---------------ctc--t--gcccagga-----------ggg----------------gctgcag-
                 Killer whale  a---------------ctc--t--gcccagga-----------ggg----------------gctgcag-
             Tibetan antelope  a-----------------c--t--gcccaggc-----------gag----------------gctgcgg-
B D                       Cow  a-----------------c--t--gcccaggc-----------gag----------------gctgcgg-
B D                     Sheep  a---------------ctc--t--gcccaggc-----------gag----------------gctgcgg-
                Domestic goat  a---------------ctc--t--gcccaggc-----------gag----------------gctgcgg-
B D                     Horse  a-----------------cttt--acccgggc-----------ggg----------------gctgcgg-
B D          White rhinoceros  a-----------------ctct--ccctaggc-----------ggg----------------gctgtag-
B D                       Cat  a-----------------c--t--gctcggga-----------ggg----------------gctactg-
B D                       Dog  a-----------------c--t--gctcaggc-----------ggg----------------gccgctg-
B D                   Ferret   a-----------------c--t--gcccaggc-----------agg----------------gctgctg-
B D                     Panda  a-----------------c--t--gcccaggc-----------agg----------------gctgctg-
               Pacific walrus  a-----------------c--t--gccgaggc-----------agg----------------gctgctg-
                 Weddell seal  a-----------------c--t--gccgaggc-----------agg----------------gctgctg-
             Black flying-fox  a-----------------t--t--gcccaagc-----------tgg----------------gctgcag-
B D                   Megabat  a-----------------c--t--gcccaagc-----------tgg----------------gctgcag-
                Big brown bat  a---------------ctc--t--gacccagc-----------tgg----------------tctgcag-
         David's myotis (bat)  a---------------ctc--t--gaccaagc-----------tgg----------------tctgcag-
B D                  Microbat  a---------------ctc--t--gaccgagc-----------tgg----------------tctgcag-
B D                  Hedgehog  ------------------c--t------------------------------------------------
              Star-nosed mole  ------------------c--t--gccc-gca-----------tgg----------------gctgca--
B D                  Elephant  a---------------ctc--t--gcccaggt-----------ggg----------------gctgcag-
          Cape elephant shrew  a---------------ctc--t--gtccagcc-----------agg----------------gctacag-
B D                   Manatee  a---------------ctc--t--gctcagga-----------ggg----------------gctgcag-
             Cape golden mole  a---------------ttc--t--agtcagat-----------ggg----------------actgcag-
B D                    Tenrec  -----------------tc--t--agactggt-----------ggg----------------gctgcag-
                     Aardvark  a---------------gtt--t--gcccagaa-----------gga----------------aatgcag-
B D                 Armadillo  a---------------ctt--t--gcccaggc-----------gg------------------ctgcag-
B D                   Opossum  acaggttcagggcacgcag--t--cttcaggt-----------gtg----------------gttgc---
  D               Rock pigeon  -------------------------------------------------------------acgtcctg-
  D          Peregrine falcon  --------------------------ccagca-----------cag----------ctgccagcccctg-
           Tibetan ground jay  --------------------------acagca-----------cag----------gcagccctccctg-
  D              Mallard duck  --------------------------tcagct-----------ttg---------agtgagtgccgttt-
B D                   Chicken  --------------------------tcagct-----------ctg---------cttccccacatcag-
B D        American alligator  --------------------------acagcg-----------ccaggctctgcaggtgcccgcccagg-
B D                     Shrew  ======================================================================
                  Chinchilla  ======================================================================
            Brush-tailed rat  ======================================================================
         Princess of Burundi  ======================================================================
B D              Nile tilapia  ======================================================================
B D                      Fugu  ======================================================================
      Yellowbelly pufferfish  ======================================================================
B D                 Tetraodon  ======================================================================
                 Zebra mbuna  ======================================================================
B D                 Zebrafish  ======================================================================
B D                Coelacanth  ======================================================================
B D              Atlantic cod  ======================================================================
                 Spotted gar  ======================================================================
B D               Stickleback  ======================================================================
    Mexican tetra (cavefish)  ======================================================================
         Pundamilia nyererei  ======================================================================
       Burton's mouthbreeder  ======================================================================
  D  Chinese softshell turtle  ======================================================================
  D           Green seaturtle  ======================================================================
  D       Collared flycatcher  ======================================================================
          Southern platyfish  ======================================================================
B D             X. tropicalis  ======================================================================
B D                Budgerigar  ======================================================================
B D                  Platypus  ======================================================================
B D       Medium ground finch  ======================================================================
  D    White-throated sparrow  ======================================================================
  D              Saker falcon  ======================================================================
B D                    Turkey  ======================================================================
B D                    Lizard  ======================================================================
B D                    Medaka  ======================================================================
B D               Zebra finch  ======================================================================
  D            Painted turtle  ======================================================================
  D                    Parrot  ======================================================================
B D           Tasmanian devil  ======================================================================
B D                   Wallaby  ======================================================================

                        Human  -------c-----------------g--cgggct--gg-ac-ttccac---c--------------tg--
                        Chimp  -------c-----------------g--cgggct--gg-ac-ttccac---c--------------tg--
                      Gorilla  -------c-----------------g--cgggct--gg-ac-ttccac---c--------------tg--
                    Orangutan  -------c-----------------g--cgggtt--gg-ac-ttccac---c--------------tg--
                       Gibbon  -------c-----------------g--cgggct--gg-ac-ttccac---c--------------tg--
                       Rhesus  -------c-----------------g--cgggct--ag-ac-ttccac---c--------------ta--
          Crab-eating macaque  -------c-----------------g--cgggct--ag-ac-ttccac---c--------------ta--
                       Baboon  -------c-----------------g--cgggct--ag-ac-ttccgc---c--------------tg--
                 Green monkey  -------c-----------------g--cgggct--ag-ac-ttccac---c--------------tg--
                     Marmoset  -------c-----------------g--cgggct--gg-ac-ttccac---c--------------tg--
              Squirrel monkey  -------c-----------------g--cgggct--gg-ac-ttccac---c--------------tg--
                     Bushbaby  -----------------------------------------------c---c--------------ta--
           Chinese tree shrew  -------c-----------------g--cctgtg--gg-ac-tgccac---c--------------tg--
                     Squirrel  --aacagc-----------------g--caggct--gg-ac-ttccaa---t--------------tg--
       Lesser Egyptian jerboa  gcggtgcc-----------------g--cctgcctggg-ac-ttccac---c--------------tg--
                 Prairie vole  --gaccct-----------------g--cgtgct--ga-ac-ttccat---c--------------tg--
              Chinese hamster  --ggcact-----------------g--cgagct--gg-a-----ttt---c--------------tg--
               Golden hamster  --ggcacc-----------------g--cgtgct--gg-ac-ttgctt---c--------------tg--
                        Mouse  --ggcgct-----------------g--cgtgct--gg-ac-ttgcat---c--------------tg--
                          Rat  --ggcact-----------------g--cgtgct--gg-ac-ttgcat---c--------------tg--
               Naked mole-rat  --cacggc-----------------g--cgggct--gc-gc-ggccgt---c--------------tg--
                   Guinea pig  --cccagc-----------------g--gggcct--gcagc-atccac---c--------------tg--
                       Rabbit  -------t-----------------g--ggggct--ag-ac-ttctac---c--------------tg--
                         Pika  -------c-----------------g--agggcg--gg-ac-tgctac---c--------------tg--
                          Pig  -------c-----------------g--tgggcc--gg-gc-ttccac---c--------------tg--
                       Alpaca  -------c-----------------t--cggact--gg-gc-ttccac---c--------------tg--
               Bactrian camel  -------c-----------------t--cggact--gg-gc-ttccac---c--------------tg--
                      Dolphin  -------c-----------------g--cgggct--gg-gc-ttccac---c--------------tg--
                 Killer whale  -------c-----------------g--cgggct--gg-gc-ttccac---c--------------tg--
             Tibetan antelope  -------c-----------------g--cgggct--gg-gc-ttgcac---c--------------tg--
                          Cow  -------c-----------------g--cgggct--gg-gc-ttccac---c--------------tg--
                        Sheep  -------c-----------------g--cgggct--gg-gc-ttgcac---c--------------tg--
                Domestic goat  -------c-----------------g--ccggct--gg-gc-ttgcac---c--------------tg--
                        Horse  -------cgcgggctgggctgctgtg--cgggct--gg-gc-ttccac---c--------------tg--
             White rhinoceros  -------c-----------------g--cgggcc--ag-gc-ttccac---t--------------tg--
                          Cat  -------c-----------------t--gaagct--gg-ga-ttccac---c--------------tg--
                          Dog  -------c-----------------g--ggggct--gg-gc-atccac---c--------------tg--
                      Ferret   -------c-----------------g--ggggct--gg-gc-ttccac---c--------------tg--
                        Panda  -------c-----------------g--ggggct--gg-gc-ttccac---c--------------tg--
               Pacific walrus  -------c-----------------g--ggggct--gg-gc-ttccac---c--------------tg--
                 Weddell seal  -------c-----------------g--ggggct--gg-ac-ttccac---c--------------tg--
             Black flying-fox  -------c-----------------g--ggggct---g-gc-ttccac---c--------------tg--
                      Megabat  -------c-----------------g--ggggct---g-gc-ttccac---c--------------tg--
                Big brown bat  -------c-----------------g--cggact--gg-gc-ttctac---c--------------tg--
         David's myotis (bat)  -------c-----------------g--cggact--gg-gc-ttgtgc---c--------------tg--
                     Microbat  -------c-----------------g--cggact--gg-gc-ttctac---c--------------tg--
                     Hedgehog  -------c-----------------g--actacc--gt-gc-ttccac---c--------------tg--
              Star-nosed mole  -------c-----------------t--tctgct--gg-gc-tttcag---t--------------tg--
                     Elephant  -------c-----------------g--cgggct--gg-acgctagac---t--------------tcca
          Cape elephant shrew  -------c-----------------g--cgggct--gg-acgctggac---t--------------tc--
                      Manatee  -------c-----------------g--cgggct--ag-acgctagac---t--------------tcca
             Cape golden mole  -------c-----------------g--cgggtt--gg-a-actggac---c--------------tg--
                       Tenrec  -------c-----------------g--tgcgct--gg-acgctggac---c--------------tg--
                     Aardvark  -------c-----------------g--ctggct--gg-acgctggac---c--------------tg--
                    Armadillo  -------c-----------------g--cgggct--ga-a--ctcaac---c--------------tg--
                      Opossum  -------c-----------------t--acagca--gg-gt-tcccatgtgc--------------tg--
                  Rock pigeon  -------g-----------------g--caagtt--gt-ta-ccatct---g-----------cattg--
             Peregrine falcon  -------g-----------------a--cggagg--tg-ag-tcatct---c--------------tg--
           Tibetan ground jay  -------g-----------------ggccagccc--ca-ga-cccttt---g--------------tg--
                 Mallard duck  -------g-----------------g--gggatg--aa-tg-ccttcc---a--------------gg--
                      Chicken  -------g-----------------a--gggctc--ca-tg-cccagc---acctcaagaaaccaggg--
           American alligator  -------t-----------------g--cggggg--gc-tg-tccgtc------------------tg--
                        Shrew  ======================================================================
                   Chinchilla  ======================================================================
             Brush-tailed rat  ======================================================================
          Princess of Burundi  ======================================================================
                 Nile tilapia  ======================================================================
                         Fugu  ======================================================================
       Yellowbelly pufferfish  ======================================================================
                    Tetraodon  ======================================================================
                  Zebra mbuna  ======================================================================
                    Zebrafish  ======================================================================
                   Coelacanth  ======================================================================
                 Atlantic cod  ======================================================================
                  Spotted gar  ======================================================================
                  Stickleback  ======================================================================
     Mexican tetra (cavefish)  ======================================================================
          Pundamilia nyererei  ======================================================================
        Burton's mouthbreeder  ======================================================================
     Chinese softshell turtle  ======================================================================
              Green seaturtle  ======================================================================
          Collared flycatcher  ======================================================================
           Southern platyfish  ======================================================================
                X. tropicalis  ======================================================================
                   Budgerigar  ======================================================================
                     Platypus  ======================================================================
          Medium ground finch  ======================================================================
       White-throated sparrow  ======================================================================
                 Saker falcon  ======================================================================
                       Turkey  ======================================================================
                       Lizard  ======================================================================
                       Medaka  ======================================================================
                  Zebra finch  ======================================================================
               Painted turtle  ======================================================================
                       Parrot  ======================================================================
              Tasmanian devil  ======================================================================
                      Wallaby  ======================================================================

                        Human  ----cagaa-----------gccacgtggc----gcgaa--gt--g----cgccctgggg--ct------
                        Chimp  ----cagaa-----------gccacgtggc----gcgaa--ga--g----cgccctgggg--ct------
                      Gorilla  ----cagaa-----------gccacgtggc----gcgaa--ga--g----tgccctgggg--ct------
                    Orangutan  ----cagaa-----------gccacgtggc----gcgag--ga--g----cgccctgggg--ct------
                       Gibbon  ----cagaa-----------gccacgtggc----gcgag--ga--g----cgccctgggg--ct------
                       Rhesus  ----cagaa-----------gccacgtggc----gcgag--gagtg----tgccctgggg--ct------
          Crab-eating macaque  ----cagaa-----------gccacgtggc----gcgag--gagtg----tgccctgggg--ct------
                       Baboon  ----cagaa-----------gccacgtggc----gcgag--gagtg----tgccctgggg--ct------
                 Green monkey  ----cagaa-----------gccacgtggc----gcgag--gagtg----tgccctgggg--ct------
                     Marmoset  ----cggaa-----------gccacgtggc----gcgag--ga--g----tgccctggag--ct------
              Squirrel monkey  ----cagaa-----------gccacgtggc----gcgag--ga--g----tggcctggag--ct------
                     Bushbaby  ----cagaa-----------gccacgtggc----acgaa--ga--a----tgttgcgggg--ca------
           Chinese tree shrew  ----caaag-----------gccacgtggc----actaa--gg--g----tggcctgggg--ct------
                     Squirrel  ----ccgag-----------accacgaggt----gtgag--ga--g----tgg-----------------
       Lesser Egyptian jerboa  ----cagaa-----------gccacgtggc----gcgcg--ga--g----ctgaccag------------
                 Prairie vole  ----ctcac-----------gccgcgtggc----gggtg--gg--a----cggaccaggg--ct------
              Chinese hamster  ----cagga-----------gccgcatggc----gggtg--gg--a----cgcaccacgg--ct------
               Golden hamster  ----cagaa-----------gccgcgtggc----gggtg--gg--a----cggaccaggg--ct------
                        Mouse  ----cagaa-----------gccgcgtggc----cggag--gg--a----cccaccaggg--ct------
                          Rat  ----tagaa-----------gccgcgtggc----gggag--gg--a----cggaccaggg--ct------
               Naked mole-rat  ----aggaa-----------gccgcctgga----gctag--cg--g----cc--ccgggg----------
                   Guinea pig  ----aggga-----------gccgagcagg----gcctg--ag--g----ac--ccggggccag------
                       Rabbit  ----cagaa-----------gccacgtggt----tcaag--ga--g----tggcctagag--ct------
                         Pika  ----cagaa-----------gccacgtggttcgctcaag--ga--g----tggcctaacg--ct------
                          Pig  ----cccaa-----------gccacgtggc----acaag--aa--g-----------aag--at------
                       Alpaca  ----ccgaa-----------gccacgtggc----acgag--ga--g-----------gga--ca------
               Bactrian camel  ----ctgaa-----------gccacgtggc----acgag--ga--g-----------gga--ca------
                      Dolphin  ----ccgaa-----------gccacgtggc----aagag--aa--g-----------ggt--ct------
                 Killer whale  ----ccgaa-----------gccacgtggc----aagag--aa--g-----------ggt--ct------
             Tibetan antelope  ----ccaaa-----------gccacgtggc----aagag--aa--g-----------gag--ct------
                          Cow  ----ccaaa-----------gccacgtggc----aagga--aa--g-----------gcg--ct------
                        Sheep  ----ccaaa-----------gccacgtggc----aagag--aa--g-----------gag--ct------
                Domestic goat  ----ccaaa-----------gccacgtggc----aagag--aa--g-----------gag--ct------
                        Horse  ----ccgaa-----------gccacgtggc----gcaag--ga--g----tggcctgggg--ct------
             White rhinoceros  ----ccgaa-----------gccacgtggc----acaag--ga--g----tggtcttggg--ct------
                          Cat  ----ccgaa-----------gccacgtggc----gcgaa--ta--g----tagcttgggg--ct------
                          Dog  ----ccgaa-----------gccacgtggc----gc--a--ga--g----tggtctgggg--ct------
                      Ferret   ----ctgta-----------tccacgtggc----gcgaa--tg--g----tagcctgggg--ct------
                        Panda  ----ctgta-----------gccacgtggc----gcgaa--ta--g----tggcctgggg--ct------
               Pacific walrus  ----ctgta-----------gccacgtggc----gcgaa--ta--g----tggccggggg--ct------
                 Weddell seal  ----ctgta-----------gccacgtggc----gcgaa--ta--g----tggcctgggg--ct------
             Black flying-fox  ----cagaa-----------gccacgtggc----gagag--ga--g----tggcctgggg--ct------
                      Megabat  ----cagaa-----------gccacgtggc----gagag--ga--g----tggcctgggg--ct------
                Big brown bat  ----ctgaa-----------gccacgtggc----gagcg--ga--g----aggccaggat--ct------
         David's myotis (bat)  ----ctgca-----------gccacgtggc----gagag--ga--g----tggccagggt--ct------
                     Microbat  ----ctgca-----------gccacgtggc----gagag--ga--g----tggccagggt--ct------
                     Hedgehog  ----gagaa-----------gccacgtggc----gcaag--ga--g----tgacctgggg--ct------
              Star-nosed mole  ----tcgaa-----------gccatatggc----tcaaa--ga--g----tggtctggct--ca------
                     Elephant  cctgcagaa-----------gccacgtggc----gcgag--ga--g----tggcctcggg--ct------
          Cape elephant shrew  ----caaag-----------gccacgtggc----acaat--ta--g----tggcct-ggg--ct------
                      Manatee  cctgcagaa-----------gccacgtggc----gcgag--ga--g----tggcttgggg--ct------
             Cape golden mole  ----ctgaa-----------gccacgtggc----gcgag--ca--g----tggcgtgggt--ct------
                       Tenrec  ----cggaa-----------gccacgtggc----acaag--ga--a----tgacctgggg--cc------
                     Aardvark  ----cagaa-----------gccacgtggc----gcaag--aa--g----ttctatg-------------
                    Armadillo  ----cagat-----------gccatgtggc----gc--t--ga--g----tggcctgggg--ct------
                      Opossum  ----ctggc-----------tcaacgtggc----aaaaagcgg--g----aggcccaggt--tg------
                  Rock pigeon  ----catga-----------gtgtggctgc----acctg--at-------cctgccag-g--ct------
             Peregrine falcon  ----cactg-----------gccccacagc----atcac--gc--tgccactggccag-g--ct------
           Tibetan ground jay  ----accag-----------ggcaagtggc----accag--gc--tggtggcagcgtgtg--ct------
                 Mallard duck  ----ccaca-------------tcgcccgc----cccaa--cc--t----ccctgcagag--ccgctg--
                      Chicken  ----ccataatgcacgttgggtacgcctgt----accca--gc--t----ctgcacag-g--ctgccggg
           American alligator  ----cacca-----------gcagcggggc----gaagg--gc--t----cctt-----g--cc------
                        Shrew  ======================================================================
                   Chinchilla  ======================================================================
             Brush-tailed rat  ======================================================================
          Princess of Burundi  ======================================================================
                 Nile tilapia  ======================================================================
                         Fugu  ======================================================================
       Yellowbelly pufferfish  ======================================================================
                    Tetraodon  ======================================================================
                  Zebra mbuna  ======================================================================
                    Zebrafish  ======================================================================
                   Coelacanth  ======================================================================
                 Atlantic cod  ======================================================================
                  Spotted gar  ======================================================================
                  Stickleback  ======================================================================
     Mexican tetra (cavefish)  ======================================================================
          Pundamilia nyererei  ======================================================================
        Burton's mouthbreeder  ======================================================================
     Chinese softshell turtle  ======================================================================
              Green seaturtle  ======================================================================
          Collared flycatcher  ======================================================================
           Southern platyfish  ======================================================================
                X. tropicalis  ======================================================================
                   Budgerigar  ======================================================================
                     Platypus  ======================================================================
          Medium ground finch  ======================================================================
       White-throated sparrow  ======================================================================
                 Saker falcon  ======================================================================
                       Turkey  ======================================================================
                       Lizard  ======================================================================
                       Medaka  ======================================================================
                  Zebra finch  ======================================================================
               Painted turtle  ======================================================================
                       Parrot  ======================================================================
              Tasmanian devil  ======================================================================
                      Wallaby  ======================================================================

                        Human  --gcag------atgggc--c
                        Chimp  --gcag------atgggc--c
                      Gorilla  --gcag------atgggc--c
                    Orangutan  --acag------atgggc--c
                       Gibbon  --gcag------atgggc--c
                       Rhesus  --gcag------atgggc--c
          Crab-eating macaque  --gcag------atgggc--c
                       Baboon  --gcag------atgggc--c
                 Green monkey  --gcag------atgggc--c
                     Marmoset  --gcag------atgggc--c
              Squirrel monkey  --gcag------atggac--c
                     Bushbaby  --gccg------atagcc--a
           Chinese tree shrew  --gccg------gtggac--c
                     Squirrel  --cct-------gtgaac--t
       Lesser Egyptian jerboa  -------------tggcc--c
                 Prairie vole  --cca-------gtggac--t
              Chinese hamster  --cca-------atgggc--t
               Golden hamster  --cta-------atggac--t
                        Mouse  --cca-------atggat--t
                          Rat  --cca-------gtggat--t
               Naked mole-rat  ---------------------
                   Guinea pig  --agg-------gcggac--c
                       Rabbit  --gctc------gcagat--g
                         Pika  --gccccctaatgcagac--c
                          Pig  --acct------gtggac--a
                       Alpaca  --acct------gtggac--c
               Bactrian camel  --acct------gtggac--c
                      Dolphin  --acct------gtggac--c
                 Killer whale  --acct------gtggac--c
             Tibetan antelope  --acct------gtggac--c
                          Cow  --acct------gtggat--c
                        Sheep  --acct------gtggac--c
                Domestic goat  --acct------gtggac--c
                        Horse  --gccc------atggac--g
             White rhinoceros  --gccc------atggat--c
                          Cat  --gctc------aggggc--c
                          Dog  --gtgc------gggggc--c
                      Ferret   --gctc------agtgaccgc
                        Panda  --gccc------agggacctc
               Pacific walrus  --gccc------agggac--c
                 Weddell seal  --gccc------agggac--c
             Black flying-fox  --gccc------gtggat--c
                      Megabat  --gccc------gtggat--c
                Big brown bat  --gccc------ctggac--c
         David's myotis (bat)  --gccc------ctggac--c
                     Microbat  --gccc------ctggac--c
                     Hedgehog  --ggcc------acgcag--c
              Star-nosed mole  --gcgc------aggaaa--c
                     Elephant  --c------------------
          Cape elephant shrew  --g------------------
                      Manatee  --g------------------
             Cape golden mole  --g------------------
                       Tenrec  --a------------------
                     Aardvark  ---------------------
                    Armadillo  --g------------------
                      Opossum  --gaag------agtggc--a
                  Rock pigeon  ---------------------
             Peregrine falcon  ---------------------
           Tibetan ground jay  ---------------------
                 Mallard duck  ---------------------
                      Chicken  tg-------------------
           American alligator  ---------------------
                        Shrew  =====================
                   Chinchilla  =====================
             Brush-tailed rat  =====================
          Princess of Burundi  =====================
                 Nile tilapia  =====================
                         Fugu  =====================
       Yellowbelly pufferfish  =====================
                    Tetraodon  =====================
                  Zebra mbuna  =====================
                    Zebrafish  =====================
                   Coelacanth  =====================
                 Atlantic cod  =====================
                  Spotted gar  =====================
                  Stickleback  =====================
     Mexican tetra (cavefish)  =====================
          Pundamilia nyererei  =====================
        Burton's mouthbreeder  =====================
     Chinese softshell turtle  =====================
              Green seaturtle  =====================
          Collared flycatcher  =====================
           Southern platyfish  =====================
                X. tropicalis  =====================
                   Budgerigar  =====================
                     Platypus  =====================
          Medium ground finch  =====================
       White-throated sparrow  =====================
                 Saker falcon  =====================
                       Turkey  =====================
                       Lizard  =====================
                       Medaka  =====================
                  Zebra finch  =====================
               Painted turtle  =====================
                       Parrot  =====================
              Tasmanian devil  =====================
                      Wallaby  =====================

Inserts between block 9 and 10 in window
            Black flying-fox 48bp
B D                  Megabat 48bp

Alignment block 10 of 1686 in window, 102714852 - 102714858, 7 bps 
B D                     Human  -----cctctgc
B D                     Chimp  -----cctctgc
B D                   Gorilla  -----cctctgt
B D                 Orangutan  -----cctctgc
B D                    Gibbon  -----cctctgc
B D                    Rhesus  -----cctctgc
B D       Crab-eating macaque  -----cctctgc
B D                    Baboon  -----cctctgc
B D              Green monkey  -----cctctgc
B D                  Marmoset  -----cctcagc
B D           Squirrel monkey  -----cctcagc
B D                  Bushbaby  -----tctcccc
           Chinese tree shrew  -----gcacccc
B D                  Squirrel  -----cttctcc
       Lesser Egyptian jerboa  -----cttcccc
                 Prairie vole  -----cctccct
B D           Chinese hamster  -----cctcgcc
               Golden hamster  -----cctcgcc
B D                     Mouse  -----cttccct
B D                       Rat  -----cctctct
B D            Naked mole-rat  -------acccc
B D                Guinea pig  -----gtgctcc
B D                    Rabbit  -----ccactgc
B D                      Pika  -----ccaccta
B D                       Pig  -----tcttcct
B D                    Alpaca  -----tctcctt
               Bactrian camel  -----tctcctt
B D                   Dolphin  -----tcccctt
                 Killer whale  -----tctcctt
             Tibetan antelope  -----cc---tt
B D                       Cow  -----tc---tt
B D                     Sheep  -----cc----t
                Domestic goat  -----cc---tt
B D                     Horse  -----tctccct
B D          White rhinoceros  -----tctccct
B D                       Cat  -----tctccct
B D                       Dog  -----gctccct
B D                   Ferret   -----tatatct
B D                     Panda  -----tctccct
               Pacific walrus  -----gctccct
                 Weddell seal  -----gctccct
                Big brown bat  -----tctccct
         David's myotis (bat)  -----tctccct
B D                  Microbat  -----tcttgct
B D                  Hedgehog  -----tctccct
              Star-nosed mole  -----tctccct
B D                  Elephant  -------tcccc
          Cape elephant shrew  -------tccca
B D                   Manatee  -------tcccc
             Cape golden mole  -------cccgc
B D                    Tenrec  -------tccca
                     Aardvark  --------ctag
B D                 Armadillo  -------ac---
B D                   Opossum  -----ttgccct
  D               Rock pigeon  ---cagc-----
  D          Peregrine falcon  ---catc-----
           Tibetan ground jay  ---gggc-----
  D              Mallard duck  ---acgc-----
B D                   Chicken  cccacgc-----
B D        American alligator  ---cggc-----
B D                     Shrew  ============
                  Chinchilla  ============
            Brush-tailed rat  ============
            Black flying-fox  ============
         Princess of Burundi  ============
B D              Nile tilapia  ============
B D                      Fugu  ============
      Yellowbelly pufferfish  ============
B D                 Tetraodon  ============
                 Zebra mbuna  ============
B D                 Zebrafish  ============
B D                Coelacanth  ============
B D              Atlantic cod  ============
                 Spotted gar  ============
B D               Stickleback  ============
    Mexican tetra (cavefish)  ============
         Pundamilia nyererei  ============
       Burton's mouthbreeder  ============
  D  Chinese softshell turtle  ============
  D           Green seaturtle  ============
  D       Collared flycatcher  ============
          Southern platyfish  ============
B D             X. tropicalis  ============
B D                Budgerigar  ============
B D                  Platypus  ============
B D       Medium ground finch  ============
  D    White-throated sparrow  ============
  D              Saker falcon  ============
B D                    Turkey  ============
B D                    Lizard  ============
B D                    Medaka  ============
B D               Zebra finch  ============
  D            Painted turtle  ============
  D                    Parrot  ============
B D           Tasmanian devil  ============
B D                   Wallaby  ============
B D                   Megabat  ============

Inserts between block 10 and 11 in window
  D              Rock pigeon 5bp
  D         Peregrine falcon 10bp
          Tibetan ground jay 10bp
  D             Mallard duck 12bp
B D                  Chicken 45bp

Alignment block 11 of 1686 in window, 102714859 - 102714867, 9 bps 
B D                     Human  t-ct-gacccc
B D                     Chimp  t-ct-gacccc
B D                   Gorilla  t-ct-gacccc
B D                 Orangutan  t-tt-gacccc
B D                    Gibbon  t-ct-gacccc
B D                    Rhesus  t-ct-gatccc
B D       Crab-eating macaque  t-ct-gatccc
B D                    Baboon  t-ct-gatccc
B D              Green monkey  t-ct-gatccc
B D                  Marmoset  t-ct-gactcc
B D           Squirrel monkey  t-cc-gactcc
B D                  Bushbaby  t-ct-gaccac
           Chinese tree shrew  t-ct-aacgct
B D                  Squirrel  t-ct-gatcc-
       Lesser Egyptian jerboa  t-ct-gacgcc
                 Prairie vole  t-ct-gtccct
B D           Chinese hamster  t-ct-gacccc
               Golden hamster  t-ct-gacccc
B D                     Mouse  t-ct-gacccc
B D                       Rat  t-ct-gaacct
B D            Naked mole-rat  t-cc-gctccc
B D                Guinea pig  t-cg-gcgccc
B D                    Rabbit  t-cg-gattct
B D                      Pika  c-cg-ggtccg
B D                       Pig  t-at-ggcctc
B D                    Alpaca  t-at-ggcccc
               Bactrian camel  t-at-ggcccc
B D                   Dolphin  t-ac-ggcccc
                 Killer whale  t-ac-ggcccc
             Tibetan antelope  t-at-ggcctc
B D                       Cow  t-at-ggcctc
B D                     Sheep  t-at-ggcctc
                Domestic goat  t-at-ggcctc
B D                     Horse  g-ag-gacccc
B D          White rhinoceros  t-at-ggcccc
B D                       Cat  --gt-ggaccc
B D                       Dog  taat-ggcccc
B D                   Ferret   t-gt-ggt-cc
B D                     Panda  t-at-ggctcc
               Pacific walrus  t-at-tgtccc
                 Weddell seal  t-at-tgtccc
                Big brown bat  g-at-ggcccc
         David's myotis (bat)  g-at-ggcccc
B D                  Microbat  g-at-ggcccc
B D                  Hedgehog  a-gt-ggcccc
              Star-nosed mole  t-ct-aggccc
B D                  Elephant  g-ca-ggtccc
          Cape elephant shrew  g-ct-ggtgtc
B D                   Manatee  g-cc-aatcct
             Cape golden mole  t-ct-ggtccg
B D                    Tenrec  g-ctgggtccc
                     Aardvark  g-ca-aagggg
B D                 Armadillo  g-gt-gggctt
B D                   Opossum  t-cc-agg---
  D               Rock pigeon  t-gt-ggagca
  D          Peregrine falcon  t-ct-cccgcc
           Tibetan ground jay  c-cc-tctgcc
  D              Mallard duck  c-tt-ccttcc
B D                   Chicken  c-ct-gtgccc
B D                     Shrew  ===========
                  Chinchilla  ===========
            Brush-tailed rat  ===========
            Black flying-fox  ===========
         Princess of Burundi  ===========
B D              Nile tilapia  ===========
B D                      Fugu  ===========
      Yellowbelly pufferfish  ===========
B D                 Tetraodon  ===========
                 Zebra mbuna  ===========
B D                 Zebrafish  ===========
B D                Coelacanth  ===========
B D              Atlantic cod  ===========
                 Spotted gar  ===========
B D               Stickleback  ===========
    Mexican tetra (cavefish)  ===========
         Pundamilia nyererei  ===========
       Burton's mouthbreeder  ===========
  D  Chinese softshell turtle  ===========
  D           Green seaturtle  ===========
  D       Collared flycatcher  ===========
          Southern platyfish  ===========
B D             X. tropicalis  ===========
B D                Budgerigar  ===========
B D                  Platypus  ===========
B D       Medium ground finch  ===========
  D    White-throated sparrow  ===========
  D              Saker falcon  ===========
B D                    Turkey  ===========
B D                    Lizard  ===========
B D                    Medaka  ===========
B D               Zebra finch  ===========
  D            Painted turtle  ===========
  D                    Parrot  ===========
B D           Tasmanian devil  ===========
B D                   Wallaby  ===========
B D                   Megabat  ===========
B D        American alligator  ===========

Inserts between block 11 and 12 in window
B D               Guinea pig 790bp
  D              Rock pigeon 7bp

Alignment block 12 of 1686 in window, 102714868 - 102714872, 5 bps 
B D                     Human  cattg
B D                     Chimp  cattg
B D                   Gorilla  cattg
B D                 Orangutan  cattg
B D                    Gibbon  cattg
B D                    Rhesus  catta
B D       Crab-eating macaque  catta
B D                    Baboon  cattg
B D              Green monkey  cattg
B D                  Marmoset  cattg
B D           Squirrel monkey  cattg
B D                  Bushbaby  cattg
           Chinese tree shrew  caggg
B D                  Squirrel  cgttg
       Lesser Egyptian jerboa  cgtta
                 Prairie vole  cgttg
B D           Chinese hamster  cgttg
               Golden hamster  cgttg
B D                     Mouse  ggttg
B D                       Rat  cgttg
B D            Naked mole-rat  -cttg
B D                    Rabbit  agctg
B D                      Pika  cattg
B D                       Pig  cagca
B D                    Alpaca  cagca
               Bactrian camel  cagca
B D                   Dolphin  cagca
                 Killer whale  cagca
             Tibetan antelope  cagta
B D                       Cow  cagta
B D                     Sheep  cagta
                Domestic goat  cagta
B D                     Horse  cggcg
B D          White rhinoceros  cagcg
B D                       Cat  cagct
B D                       Dog  cggcg
B D                   Ferret   cggcg
B D                     Panda  tggcg
               Pacific walrus  cggcg
                 Weddell seal  cggcg
                Big brown bat  cagca
         David's myotis (bat)  cagca
B D                  Microbat  cagca
B D                  Hedgehog  ggt-g
              Star-nosed mole  cag-g
B D                  Elephant  caggg
          Cape elephant shrew  cagcg
B D                   Manatee  cagca
             Cape golden mole  tagag
B D                    Tenrec  tagca
                     Aardvark  caggg
B D                 Armadillo  c----
B D                   Opossum  cactc
  D               Rock pigeon  gagct
  D          Peregrine falcon  gagcc
  D              Mallard duck  ccgca
B D                   Chicken  tggct
B D                     Shrew  =====
                  Chinchilla  =====
B D                Guinea pig  =====
            Brush-tailed rat  =====
            Black flying-fox  =====
         Princess of Burundi  =====
B D              Nile tilapia  =====
B D                      Fugu  =====
      Yellowbelly pufferfish  =====
B D                 Tetraodon  =====
                 Zebra mbuna  =====
B D                 Zebrafish  =====
B D                Coelacanth  =====
B D              Atlantic cod  =====
                 Spotted gar  =====
B D               Stickleback  =====
    Mexican tetra (cavefish)  =====
         Pundamilia nyererei  =====
       Burton's mouthbreeder  =====
  D  Chinese softshell turtle  =====
  D           Green seaturtle  =====
  D       Collared flycatcher  =====
          Southern platyfish  =====
B D             X. tropicalis  =====
B D                Budgerigar  =====
B D                  Platypus  =====
B D       Medium ground finch  =====
  D    White-throated sparrow  =====
  D              Saker falcon  =====
B D                    Turkey  =====
B D                    Lizard  =====
B D                    Medaka  =====
B D               Zebra finch  =====
  D            Painted turtle  =====
          Tibetan ground jay  -----
  D                    Parrot  =====
B D           Tasmanian devil  =====
B D                   Wallaby  =====
B D                   Megabat  =====
B D        American alligator  =====

Inserts between block 12 and 13 in window
              Golden hamster 82bp
B D           Naked mole-rat 1bp

Alignment block 13 of 1686 in window, 102714873 - 102714879, 7 bps 
B D                     Human  -ccta-gga
B D                     Chimp  -ccta-gga
B D                   Gorilla  -ccta-gga
B D                 Orangutan  -ccta-gga
B D                    Gibbon  -ccta-gga
B D                    Rhesus  -cctg-cga
B D       Crab-eating macaque  -cctg-cga
B D                    Baboon  -cctg-cga
B D              Green monkey  -cctg-cga
B D                  Marmoset  -cctg-aga
B D           Squirrel monkey  -cctg-cga
B D                  Bushbaby  -tctt-cgg
           Chinese tree shrew  -ct------
B D                  Squirrel  -cttt-ctt
       Lesser Egyptian jerboa  -ccct-ccg
                 Prairie vole  -tctt-cga
B D           Chinese hamster  -tctt-cgg
B D                     Mouse  -tctt-cgg
B D                       Rat  -tctt-cgg
B D            Naked mole-rat  --ccc-agg
B D                    Rabbit  -ccat-gga
B D                      Pika  -cctc-cga
B D                       Pig  -cctt-cgt
B D                    Alpaca  -cttt-cgt
               Bactrian camel  -cttt-cgt
B D                   Dolphin  -cctt-cgt
                 Killer whale  -cctt-cgt
             Tibetan antelope  -cctt-cgt
B D                       Cow  -cctt-cgt
B D                     Sheep  -cctt-cgt
                Domestic goat  -cctt-cgt
B D                     Horse  -cttt-cga
B D          White rhinoceros  -cttt-cat
B D                       Cat  -ccat----
B D                       Dog  -ctcg---a
B D                   Ferret   -ccat---a
B D                     Panda  -ccct---a
               Pacific walrus  -ctat---a
                 Weddell seal  -ctat---g
                Big brown bat  -aacttcat
         David's myotis (bat)  -aacttcat
B D                  Microbat  -aacttcat
B D                  Hedgehog  -actt-tgc
              Star-nosed mole  -cctt-cgg
B D                  Elephant  -cctt-cgt
          Cape elephant shrew  -cctt-cta
B D                   Manatee  -cctt-cct
             Cape golden mole  -cctt-t-t
B D                    Tenrec  -cctt-cgt
                     Aardvark  -acgt-ttt
B D                 Armadillo  -tctt-cgt
B D                   Opossum  --ctt-aga
  D               Rock pigeon  gtatg-tg-
  D          Peregrine falcon  atcgg-aa-
           Tibetan ground jay  -cctg-ga-
  D              Mallard duck  gcctg-ga-
B D                   Chicken  ccccg-gg-
B D                     Shrew  =========
              Golden hamster  =========
                  Chinchilla  =========
B D                Guinea pig  =========
            Brush-tailed rat  =========
            Black flying-fox  =========
         Princess of Burundi  =========
B D              Nile tilapia  =========
B D                      Fugu  =========
      Yellowbelly pufferfish  =========
B D                 Tetraodon  =========
                 Zebra mbuna  =========
B D                 Zebrafish  =========
B D                Coelacanth  =========
B D              Atlantic cod  =========
                 Spotted gar  =========
B D               Stickleback  =========
    Mexican tetra (cavefish)  =========
         Pundamilia nyererei  =========
       Burton's mouthbreeder  =========
  D  Chinese softshell turtle  =========
  D           Green seaturtle  =========
  D       Collared flycatcher  =========
          Southern platyfish  =========
B D             X. tropicalis  =========
B D                Budgerigar  =========
B D                  Platypus  =========
B D       Medium ground finch  =========
  D    White-throated sparrow  =========
  D              Saker falcon  =========
B D                    Turkey  =========
B D                    Lizard  =========
B D                    Medaka  =========
B D               Zebra finch  =========
  D            Painted turtle  =========
  D                    Parrot  =========
B D           Tasmanian devil  =========
B D                   Wallaby  =========
B D                   Megabat  =========
B D        American alligator  =========

Inserts between block 13 and 14 in window
B D                  Opossum 2988bp

Alignment block 14 of 1686 in window, 102714880 - 102714913, 34 bps 
B D                     Human  g-----t---gccaggccgagcg-gc-tggggcg------ttac-----gagct----------------
B D                     Chimp  g-----t---gccaggccgagcg-gc-tggggcg------ttac-----gagct----------------
B D                   Gorilla  g-----t---gccaggccgagcg-gc-tggggcg------ttac-----gagct----------------
B D                 Orangutan  g-----t---gccaggccgagcg-gc-tggggcg------ttac-----tagct----------------
B D                    Gibbon  g-----t---gccaggccgagcg-gc-tggggcg------ttac-----gagct----------------
B D                    Rhesus  g-----t---gccaggccgaggg-gc-tggggcg------ttac-----gagcc----------------
B D       Crab-eating macaque  g-----t---gccaggccgaggg-gc-tggggcg------ttac-----gagcc----------------
B D                    Baboon  g-----t---gccaggccgaggg-gc-tggggcg------ttac-----gagcc----------------
B D              Green monkey  g-----t---gccaggccgaggg-gc-tggggcg------ttac-----gagcc----------------
B D                  Marmoset  c-----t---gccaggccgagag-gc-tggggct------ttac-----gagct----------------
B D           Squirrel monkey  c-----t---gccaggccgaggg-gc-tggggct------ttat-----gagct----------------
B D                  Bushbaby  g-----t---accaggcccaggg-gc-tgaggcg------ctat-----aagct----------------
           Chinese tree shrew  g-----t---agcaggccaaggg-gt-gggggcg------ttac-----gggatgcacgcccatctc---
B D                  Squirrel  g-----t---gccagggcgaggg-gg-tgggggg--ggatgtat-----ggattgcgcacccatctc---
       Lesser Egyptian jerboa  g-----t---gccaggctttggg-gt-gcgagtg------tttatattggagctgcaccgcctttcc---
                 Prairie vole  c-----t---gccaggctttggg-gc-acccgag------ttat-----ggtctgctcctttatctc---
B D           Chinese hamster  g-----t---gccaggctttggg-gt-accggag------ctat-----gggcagcgccacggtctc---
B D                     Mouse  g-----t---gccaggctttagg-gc-tcaggag------ttgc------ggctacgtctctatctc---
B D                       Rat  g-----t---gtcaggatttagg-gc-tcagaag------ttgt-----gggctgagtgtctatc-----
B D            Naked mole-rat  g-----cggggccgtgctcggcg-gc-gcctggg------tctt-----------cgcagccggttt---
B D                    Rabbit  g-----c---gccgggcagaagg-gt--gggggg------ttag-----gggctgtgcagtcgtctc---
B D                      Pika  g-----cgcggccggggatcag------ggggga------ttct-----gggctgtgcatccacctc---
B D                       Pig  g-----t---gccaggctgaggg-gc-gagggcg------tcgt-----gggttgcacacccgtctc---
B D                    Alpaca  g-----t---gcctggctggggg-ac-gggggcg------tcat-----aggttgcgtacccatctc---
               Bactrian camel  g-----t---gcctggctggggg-gc-gggggcg------tcat-----aggttgcgtacccatctc---
B D                   Dolphin  g-----t---gccgggctgaggg-gc-ggggaag------tcat-----gggttgcgcacctatctc---
                 Killer whale  g-----t---gccgggctgaggg-gc-gggggag------tcat-----gggttaagcacccatctc---
             Tibetan antelope  g-----t---gccaggctgagga-gc-ggggacg------tcat-----gggttgctcgctcgtctg---
B D                       Cow  g-----t---gccaggctgagga-gc-gggggcg------tcat-----gggttgcgcacccgtctc---
B D                     Sheep  g-----t---gccaggctgagga-gc-gggggcg------tcat-----gggttgctcgctcgtctg---
                Domestic goat  g-----t---gccaggctgagga-gc-gggggcg------tcat-----gggttgctcgctcgtctg---
B D                     Horse  g-----t---gccaggctgaggt-gc-aggggtg------ttat-----gggttgcgcacccatctt---
B D          White rhinoceros  g-----t---gccaggctgaggg-gc-gggggcg------ttat-----gggttgcgcacccgtctc---
B D                       Cat  --------------agctgaggg-gt-gggggca------ttat-----gggatatgcatctttctc---
B D                       Dog  g-----g---tcccagctgaggg-gt-gacggcg------ttat-----gggctgtgcatctatctc---
B D                   Ferret   a-----g---gcccagcggaggt-gttgggcgcg------ttat-----gggctgtgcatctatctc---
B D                     Panda  a-----g---gcccagctga-gg-gtggggggcg------ttat-----gggctgtgcatctatctg---
               Pacific walrus  a-----g---gcccagctgaggg-gtggggggcc------ttat-----gggctgtgcatctatctc---
                 Weddell seal  a-----g---gcccagctgaggg-gtgggaggcg------ttat-----gggctgtgcatctatctc---
                Big brown bat  c-----t---gtcagtccgaggg-gt-gggggcg------taaa-----gggttgtgcacccttctc---
         David's myotis (bat)  c-----t---gtcagcctgaggg-gt-gggggcg------taga-----gggttgtgcacccttctc---
B D                  Microbat  c-----t---gtcaacctgaggg-gt-gggggcg------tagg-----gggttgtgcacccttctc---
B D                  Hedgehog  g-----t---g---gacggaaag-ac-gagggcc------ttag-----ggctggcgctgccccctc---
              Star-nosed mole  g-----t---gctaggccgaggg-gc-aagggcg------tcat-----gggttgtgcacccgtctc---
B D                  Elephant  g-----t---gctaggccaaggg-gc-cggggcg------tttt-----gagctgtgtgcccacctc---
          Cape elephant shrew  g-----t---gctgagc-------gc-c-cacca------tct---------------------------
B D                   Manatee  t-----t---gctagaccaaggg-ac-gggggcg------tttt-----gggctgcgcacctacctccct
             Cape golden mole  g-----t---ggtaggccaagtg-gc-ggtggca------tttt-----gggcttcgagcccacctc---
B D                    Tenrec  g-----t---gctaagccggtgg-gg-gggggcg------tttt-----gggctgcgcacccacctc---
                     Aardvark  g-----g---gctccgc------------gctca------cctc-----ca-------------------
B D                 Armadillo  g-----t---gttagggcgaggg-gc-cggggcg------ttct-----gggctgtgcg---acctt---
  D               Rock pigeon  g-----c---tcctgcc-------cc-gagcaga------cag-------aggca---------------
  D          Peregrine falcon  g-----c---gcccggcggaaggtcc-tgggagg------cggt-----gaggcg---------------
           Tibetan ground jay  c-----c---ccccttc-------cc-tgggatgatgcaatggc-----cgggag---------------
  D              Mallard duck  gatctcc---tccctcagcaaga-cc-atccgca------tcac-----ggccaa---------------
B D                   Chicken  g-----c---gactggtggagag-cc-gggagcg------ctac-----gagctg---------------
B D                     Shrew  ======================================================================
              Golden hamster  ======================================================================
                  Chinchilla  ======================================================================
B D                Guinea pig  ======================================================================
            Brush-tailed rat  ======================================================================
            Black flying-fox  ======================================================================
         Princess of Burundi  ======================================================================
B D              Nile tilapia  ======================================================================
B D                      Fugu  ======================================================================
      Yellowbelly pufferfish  ======================================================================
B D                 Tetraodon  ======================================================================
                 Zebra mbuna  ======================================================================
B D                 Zebrafish  ======================================================================
B D                Coelacanth  ======================================================================
B D              Atlantic cod  ======================================================================
                 Spotted gar  ======================================================================
B D               Stickleback  ======================================================================
    Mexican tetra (cavefish)  ======================================================================
         Pundamilia nyererei  ======================================================================
       Burton's mouthbreeder  ======================================================================
  D  Chinese softshell turtle  ======================================================================
  D           Green seaturtle  ======================================================================
  D       Collared flycatcher  ======================================================================
          Southern platyfish  ======================================================================
B D             X. tropicalis  ======================================================================
B D                Budgerigar  ======================================================================
B D                  Platypus  ======================================================================
B D       Medium ground finch  ======================================================================
  D    White-throated sparrow  ======================================================================
  D              Saker falcon  ======================================================================
B D                    Turkey  ======================================================================
B D                    Lizard  ======================================================================
B D                    Medaka  ======================================================================
B D               Zebra finch  ======================================================================
  D            Painted turtle  ======================================================================
  D                    Parrot  ======================================================================
B D           Tasmanian devil  ======================================================================
B D                   Wallaby  ======================================================================
B D                   Opossum  ======================================================================
B D                   Megabat  ======================================================================
B D        American alligator  ======================================================================

                        Human  -------------------g
                        Chimp  -------------------g
                      Gorilla  -------------------g
                    Orangutan  -------------------g
                       Gibbon  -------------------g
                       Rhesus  -------------------g
          Crab-eating macaque  -------------------g
                       Baboon  -------------------g
                 Green monkey  -------------------g
                     Marmoset  -------------------g
              Squirrel monkey  -------------------g
                     Bushbaby  -------------------g
           Chinese tree shrew  -cacagcc-ccgtgttagag
                     Squirrel  -cttagcc-ctttgtcagag
       Lesser Egyptian jerboa  -cacagtc-tggggtcagaa
                 Prairie vole  -cacaggc-t--cgttagaa
              Chinese hamster  -cacggtt-t--cgttagaa
                        Mouse  -cacattc-t--tgttagaa
                          Rat  --------------------
               Naked mole-rat  -cggggtc-c---------g
                       Rabbit  -cacag----------ggag
                         Pika  -cacagcg-ctgtgtccgag
                          Pig  -cacacac-ctgtgttagaa
                       Alpaca  -catacac-ctgagttagaa
               Bactrian camel  -catacac-ctgagttagaa
                      Dolphin  -cacacac-ctgtgttagaa
                 Killer whale  -cacacac-ctgtgttagaa
             Tibetan antelope  -cacacat-ccgtgttagaa
                          Cow  -cacacat-ccgtgttaaaa
                        Sheep  -cacacat-ccgtgttagaa
                Domestic goat  -cacacat-ccgtgttagaa
                        Horse  -cacacac-ctgtgttagag
             White rhinoceros  -cacacacaccgtgttagag
                          Cat  -caca--c-ctgtgttaggg
                          Dog  -cacatct-ctgtg-gagaa
                      Ferret   -cacatct-ctgtgtt----
                        Panda  -cacatct-gtgtgttagag
               Pacific walrus  -cacattt-ctgtgttagag
                 Weddell seal  -cacattt-ctgtgttagag
                Big brown bat  -cacacac-cactgttgaag
         David's myotis (bat)  -cacacac-cagtgttaaag
                     Microbat  -cacacac-cagtgttaaag
                     Hedgehog  -caca--g-cggcggttgag
              Star-nosed mole  -caca--c-c-----ctgag
                     Elephant  -cacaccc-tt-tgtaagag
          Cape elephant shrew  --atatcc-ag-tgtgagag
                      Manatee  gcacaccc-tg-tgtgagag
             Cape golden mole  -tacaccc------cgagag
                       Tenrec  -cgtactt----tgtgagaa
                     Aardvark  ---catcc-tg-tatgagag
                    Armadillo  -tgcaccc-cactgtcatcg
                  Rock pigeon  --------------------
             Peregrine falcon  --------------------
           Tibetan ground jay  --------------------
                 Mallard duck  --------------------
                      Chicken  --------------------
                        Shrew  ====================
               Golden hamster  ====================
                   Chinchilla  ====================
                   Guinea pig  ====================
             Brush-tailed rat  ====================
             Black flying-fox  ====================
          Princess of Burundi  ====================
                 Nile tilapia  ====================
                         Fugu  ====================
       Yellowbelly pufferfish  ====================
                    Tetraodon  ====================
                  Zebra mbuna  ====================
                    Zebrafish  ====================
                   Coelacanth  ====================
                 Atlantic cod  ====================
                  Spotted gar  ====================
                  Stickleback  ====================
     Mexican tetra (cavefish)  ====================
          Pundamilia nyererei  ====================
        Burton's mouthbreeder  ====================
     Chinese softshell turtle  ====================
              Green seaturtle  ====================
          Collared flycatcher  ====================
           Southern platyfish  ====================
                X. tropicalis  ====================
                   Budgerigar  ====================
                     Platypus  ====================
          Medium ground finch  ====================
       White-throated sparrow  ====================
                 Saker falcon  ====================
                       Turkey  ====================
                       Lizard  ====================
                       Medaka  ====================
                  Zebra finch  ====================
               Painted turtle  ====================
                       Parrot  ====================
              Tasmanian devil  ====================
                      Wallaby  ====================
                      Opossum  ====================
                      Megabat  ====================
           American alligator  ====================

Inserts between block 14 and 15 in window
  D              Rock pigeon 10bp
  D         Peregrine falcon 9bp
          Tibetan ground jay 16bp
  D             Mallard duck 4bp

Alignment block 15 of 1686 in window, 102714914 - 102714944, 31 bps 
B D                     Human  tcc----------------------------------------gg--gat--------------------
B D                     Chimp  tcc----------------------------------------gg--gat--------------------
B D                   Gorilla  tcc----------------------------------------gg--gat--------------------
B D                 Orangutan  tcc----------------------------------------gg--gat--------------------
B D                    Gibbon  tcc----------------------------------------cg--gat--------------------
B D                    Rhesus  tcc----------------------------------------gg--gat--------------------
B D       Crab-eating macaque  tcc----------------------------------------gg--gat--------------------
B D                    Baboon  tcc----------------------------------------gg--gat--------------------
B D              Green monkey  tcc----------------------------------------gg--gat--------------------
B D                  Marmoset  tcc----------------------------------------gg--gat--------------------
B D           Squirrel monkey  ttc----------------------------------------gg--gat--------------------
B D                  Bushbaby  cgcgcactgcgcacggggcacacaactgtgtccgcatcgggaagg--aat--------------------
           Chinese tree shrew  tcc----------------------------------------gg--gat--------------------
B D                  Squirrel  tct----------------------------------------gg--gct--------------------
       Lesser Egyptian jerboa  tcc----------------------------------------ag--aat--------------------
                 Prairie vole  tcc----------------------------------------ag--gac--------------------
B D           Chinese hamster  tgc----------------------------------------ag--gat--------------------
B D                     Mouse  tcc----------------------------------------ag--gat--------------------
B D                       Rat  tcc----------------------------------------ag--gat--------------------
B D            Naked mole-rat  tcc----------------------------------------cg--ggt--------------------
B D                    Rabbit  tcc----------------------------------------ctgcggg--------------------
B D                      Pika  tca----------------------------------------ggctggg--------------------
B D                       Pig  tcc----------------------------------------gg--gct--------------------
B D                    Alpaca  tcc----------------------------------------ga--gct--------------------
               Bactrian camel  tcc----------------------------------------ga--gct--------------------
B D                   Dolphin  tcc----------------------------------------gg--gct--------------------
                 Killer whale  tcc----------------------------------------gg--gct--------------------
             Tibetan antelope  tcc----------------------------------------gg--gct--------------------
B D                       Cow  tcc----------------------------------------gg--gct--------------------
B D                     Sheep  tcc----------------------------------------ag--gct--------------------
                Domestic goat  tcc----------------------------------------ag--gct--------------------
B D                     Horse  tcc----------------------------------------gt--gat--------------------
B D          White rhinoceros  t-c----------------------------------------gt--gat--------------------
B D                       Cat  tcc----------------------------------------ag--gat--------------------
B D                       Dog  tcc----------------------------------------ag--gat--------------------
B D                   Ferret   -------------------------------------------ag--gat--------------------
B D                     Panda  tcc----------------------------------------ag--gat--------------------
               Pacific walrus  tcc----------------------------------------ag--gat--------------------
                 Weddell seal  tcc----------------------------------------ag--gtt--------------------
                Big brown bat  cct----------------------------------------gg--ggt--------------------
         David's myotis (bat)  cct----------------------------------------gg--gat--------------------
B D                  Microbat  cct----------------------------------------gg--gat--------------------
B D                  Hedgehog  tct----------------------------------------gg--gag--------------------
              Star-nosed mole  tcg----------------------------------------gg--ggt--------------------
B D                  Elephant  tct----------------------------------------gg--gat--------------------
          Cape elephant shrew  tct----------------------------------------gg--gat--------------------
B D                   Manatee  tct----------------------------------------gg--aat--------------------
             Cape golden mole  tct----------------------------------------gg--gat--------------------
B D                    Tenrec  tct----------------------------------------gg--gat--------------------
                     Aardvark  tct----------------------------------------gt--gat--------------------
B D                 Armadillo  tct----------------------------------------gg--gat--------------------
  D               Rock pigeon  gcc----------------------------------------gt--gccaaagaagccttccccctccc
  D          Peregrine falcon  gcc----------------------------------------aa--gcc--------------------
           Tibetan ground jay  ccc----------------------------------------ag--act--------------------
  D              Mallard duck  acc----------------------------------------aa--gcg------------------ca
B D                     Shrew  ======================================================================
              Golden hamster  ======================================================================
                  Chinchilla  ======================================================================
B D                Guinea pig  ======================================================================
            Brush-tailed rat  ======================================================================
            Black flying-fox  ======================================================================
         Princess of Burundi  ======================================================================
B D              Nile tilapia  ======================================================================
B D                      Fugu  ======================================================================
      Yellowbelly pufferfish  ======================================================================
B D                 Tetraodon  ======================================================================
                 Zebra mbuna  ======================================================================
B D                 Zebrafish  ======================================================================
B D                Coelacanth  ======================================================================
B D              Atlantic cod  ======================================================================
                 Spotted gar  ======================================================================
B D               Stickleback  ======================================================================
    Mexican tetra (cavefish)  ======================================================================
         Pundamilia nyererei  ======================================================================
       Burton's mouthbreeder  ======================================================================
  D  Chinese softshell turtle  ======================================================================
  D           Green seaturtle  ======================================================================
  D       Collared flycatcher  ======================================================================
          Southern platyfish  ======================================================================
B D             X. tropicalis  ======================================================================
B D                Budgerigar  ======================================================================
B D                  Platypus  ======================================================================
B D       Medium ground finch  ======================================================================
  D    White-throated sparrow  ======================================================================
  D              Saker falcon  ======================================================================
B D                    Turkey  ======================================================================
B D                   Chicken  ----------------------------------------------------------------------
B D                    Lizard  ======================================================================
B D                    Medaka  ======================================================================
B D               Zebra finch  ======================================================================
  D            Painted turtle  ======================================================================
  D                    Parrot  ======================================================================
B D           Tasmanian devil  ======================================================================
B D                   Wallaby  ======================================================================
B D                   Opossum  ======================================================================
B D                   Megabat  ======================================================================
B D        American alligator  ======================================================================

                        Human  --gggg-gag---t-------------accgatggg-----ggg-agg
                        Chimp  --gggg-gag---t-------------accgatggg-----ggg-agg
                      Gorilla  --gggg-gag---t-------------accgatggg-----ggg-agg
                    Orangutan  --gggg-gaa---t-------------accgatggg-----ggg-agg
                       Gibbon  --gggg-gaa---t-------------accgatggg-----ggg-agg
                       Rhesus  --aggg-gag---t-------------accgatggg-----ggg-aga
          Crab-eating macaque  --aggg-gag---t-------------accgatggg-----ggg-aga
                       Baboon  --aggg-gag---t-------------accgatggg-----ggg-aga
                 Green monkey  --aggg-gag---t-------------accgatgcg-----ggg-aga
                     Marmoset  --gggg-cag---t-------------accgatgcg-----ggg-agg
              Squirrel monkey  --gggg-gag---t-------------actgatgag-----ggg-agg
                     Bushbaby  --gagg-gaa---t-------------acaga-agg-----agg-agg
           Chinese tree shrew  --ggaa-gag---t-------------cccggggagtggaaggg-agg
                     Squirrel  --cgag-gag---t-------------tctgtttgg---g-gag-aag
       Lesser Egyptian jerboa  --tggg-gag---t-------------cctgctgggtgtg-atg-aga
                 Prairie vole  --aggt-gat---g-------------tcttctgggttcg-ggg-aga
              Chinese hamster  --aggt-ggt---t-------------tctgctgggttcg-ggg-aga
                        Mouse  --aggt-gat---t-------------tgtactgtgttgg-ggg-agg
                          Rat  --aggt-gat---t-------------tctgctgggttgg-ggg-agg
               Naked mole-rat  --cagg-ggtccgt-------------cccgccgggagcg-gga-ggg
                       Rabbit  --tgaa-ggt---t-------------cctggtcgg------------
                         Pika  --agga-ggg-------------------cgttcag------------
                          Pig  --ggag-gaa---c-------------cctggtggt-----ggg-agg
                       Alpaca  --ggag-gag---t-------------cccggtggt-----gggaagg
               Bactrian camel  --ggag-gag---t-------------cccggtggt-----gggaagg
                      Dolphin  --ggag-gac---t-------------cctggtggt-----ggg-agg
                 Killer whale  --ggag-gac---t-------------cctggtggt-----ggg-agg
             Tibetan antelope  --ggag-gag---t-------------cctggtggt-----ggg-agg
                          Cow  --ggag-gag---t-------------cctggtggt-----gcg-agg
                        Sheep  --ggag-gag---t-------------cctggtggt-----ggg-agg
                Domestic goat  --ggag-gag---t-------------cctggtggt-----ggg-agg
                        Horse  --ggaa-gag---t-------------cccgctggt-----ggg-agg
             White rhinoceros  --ggag-gag---t-------------cccggtggt-----ggg-agg
                          Cat  --ggag-gag---t-------------cccggtggt-----ggg-agg
                          Dog  --ggag-gcg---t-------------cccggtggc-----ggg-agg
                      Ferret   --ggag-gag---t-------------cccgcaggg-----ggg-agg
                        Panda  --ggag-gag---t-------------cccggtggt-----ggg-agg
               Pacific walrus  --ggag-gag---t-------------ccc-gtggt-----ggg-agg
                 Weddell seal  --ggag-gag---t-------------cccggtggt-----ggg-agg
                Big brown bat  --ggag-gag---t-------------ccaagtggt-----ggg-agg
         David's myotis (bat)  --ggag-gag---t-------------ccaggtggt-----ggg-agg
                     Microbat  --ggag-gag---t-------------ccaggtggt-----ggg-agg
                     Hedgehog  --ggcg-gag---t-------------ccca--agc-----caggaga
              Star-nosed mole  --ggag-gag---t-------------cccagtagt-----gggctga
                     Elephant  --gagg-ga----t-------------ccgggtggt-----gag-agg
          Cape elephant shrew  --gggg-gt----t-------------ccaggtagt-----ggg-cgt
                      Manatee  --gggg-ga----t-------------ccaggtggt-----gag-agg
             Cape golden mole  --gggg-ga----t-------------ct---cgct-----agg-agc
                       Tenrec  --gagg-ga----t-------------cc---tggt-----ggg-agg
                     Aardvark  --gtgg-ga----t-------------cccagtgat-----ggg-agg
                    Armadillo  --ggggagg----t-------------cttggtgaa-----gga-agg
                  Rock pigeon  cacagg-gag---gtcctgtgtgggcgactgctgaa-----gtg-a--
             Peregrine falcon  --cagg-aag---t-------------actgctgcgt----gta-c--
           Tibetan ground jay  -gcagg-gag---t---------ggggacaacagggtg---gtg-a--
                 Mallard duck  tccggg-aag---t-------------gctgcagccc----gtg-c--
                        Shrew  ================================================
               Golden hamster  ================================================
                   Chinchilla  ================================================
                   Guinea pig  ================================================
             Brush-tailed rat  ================================================
             Black flying-fox  ================================================
          Princess of Burundi  ================================================
                 Nile tilapia  ================================================
                         Fugu  ================================================
       Yellowbelly pufferfish  ================================================
                    Tetraodon  ================================================
                  Zebra mbuna  ================================================
                    Zebrafish  ================================================
                   Coelacanth  ================================================
                 Atlantic cod  ================================================
                  Spotted gar  ================================================
                  Stickleback  ================================================
     Mexican tetra (cavefish)  ================================================
          Pundamilia nyererei  ================================================
        Burton's mouthbreeder  ================================================
     Chinese softshell turtle  ================================================
              Green seaturtle  ================================================
          Collared flycatcher  ================================================
           Southern platyfish  ================================================
                X. tropicalis  ================================================
                   Budgerigar  ================================================
                     Platypus  ================================================
          Medium ground finch  ================================================
       White-throated sparrow  ================================================
                 Saker falcon  ================================================
                       Turkey  ================================================
                      Chicken  ------------------------------------------------
                       Lizard  ================================================
                       Medaka  ================================================
                  Zebra finch  ================================================
               Painted turtle  ================================================
                       Parrot  ================================================
              Tasmanian devil  ================================================
                      Wallaby  ================================================
                      Opossum  ================================================
                      Megabat  ================================================
           American alligator  ================================================

Inserts between block 15 and 16 in window
B D                 Elephant 8bp
         Cape elephant shrew 8bp
B D                  Manatee 8bp
            Cape golden mole 8bp
B D                   Tenrec 226bp
                    Aardvark 8bp
B D                Armadillo 8bp

Alignment block 16 of 1686 in window, 102714945 - 102714952, 8 bps 
B D                     Human  ccg-----tctgt
B D                     Chimp  ccg-----tctgt
B D                   Gorilla  ccg-----tctgt
B D                 Orangutan  ccc-----tctgt
B D                    Gibbon  ccg-----tctgt
B D                    Rhesus  ccg-----tctgt
B D       Crab-eating macaque  ccg-----tctgt
B D                    Baboon  ccg-----tctgt
B D              Green monkey  ccg-----tctgt
B D                  Marmoset  ctg-----tctgt
B D           Squirrel monkey  tcg-----tctgt
B D                  Bushbaby  gta-----cctgt
           Chinese tree shrew  ccg-----ccaat
B D                  Squirrel  cca-----cctgt
       Lesser Egyptian jerboa  tca-----cctga
                 Prairie vole  tcg-----cctga
B D           Chinese hamster  tcg-----cttga
B D                     Mouse  tcg-----cctga
B D                       Rat  tcc-----cctga
B D            Naked mole-rat  gcggggtctccgt
B D                       Pig  ctg-----cctgt
B D                    Alpaca  ctg-----cctgt
               Bactrian camel  ctg-----cctgt
B D                   Dolphin  ctg-----cctgt
                 Killer whale  ctg-----cctgt
             Tibetan antelope  cta-----cctac
B D                       Cow  ctg-----cctac
B D                     Sheep  ctg-----cctac
                Domestic goat  ctg-----cctac
B D                     Horse  atg-----t-tgt
B D          White rhinoceros  atg-----tctgt
B D                       Cat  ctg-----cctgt
B D                       Dog  ccg-----cctgt
B D                   Ferret   ctg-----cctgt
B D                     Panda  ctg-----cctgt
               Pacific walrus  ctg-----cttgt
                 Weddell seal  ctg-----cctgt
                Big brown bat  ctg-----cctgt
         David's myotis (bat)  ccg-----cctgt
B D                  Microbat  ccg-----cctgt
B D                  Hedgehog  ctg----------
              Star-nosed mole  ctg-----cttat
B D                  Elephant  cag-----cttgt
          Cape elephant shrew  ctg-----gctgt
B D                   Manatee  cag-----cttgt
             Cape golden mole  tcg-----cttgc
                     Aardvark  ccg-----tcttt
B D                 Armadillo  cta-----ccaat
  D               Rock pigeon  ccc-----acagg
  D          Peregrine falcon  ctg-----cccga
           Tibetan ground jay  ccc-----caggg
  D              Mallard duck  tgg-----gcaaa
B D                     Shrew  =============
              Golden hamster  =============
B D                      Pika  -------------
B D                    Rabbit  -------------
                  Chinchilla  =============
B D                Guinea pig  =============
            Brush-tailed rat  =============
B D                    Tenrec  =============
            Black flying-fox  =============
         Princess of Burundi  =============
B D              Nile tilapia  =============
B D                      Fugu  =============
      Yellowbelly pufferfish  =============
B D                 Tetraodon  =============
                 Zebra mbuna  =============
B D                 Zebrafish  =============
B D                Coelacanth  =============
B D              Atlantic cod  =============
                 Spotted gar  =============
B D               Stickleback  =============
    Mexican tetra (cavefish)  =============
         Pundamilia nyererei  =============
       Burton's mouthbreeder  =============
  D  Chinese softshell turtle  =============
  D           Green seaturtle  =============
  D       Collared flycatcher  =============
          Southern platyfish  =============
B D             X. tropicalis  =============
B D                Budgerigar  =============
B D                  Platypus  =============
B D       Medium ground finch  =============
  D    White-throated sparrow  =============
  D              Saker falcon  =============
B D                    Turkey  =============
B D                   Chicken  -------------
B D                    Lizard  =============
B D                    Medaka  =============
B D               Zebra finch  =============
  D            Painted turtle  =============
  D                    Parrot  =============
B D           Tasmanian devil  =============
B D                   Wallaby  =============
B D                   Opossum  =============
B D                   Megabat  =============
B D        American alligator  =============

Inserts between block 16 and 17 in window
            Cape golden mole 3441bp

Alignment block 17 of 1686 in window, 102714953 - 102714955, 3 bps 
B D                     Human  cgg-
B D                     Chimp  cgg-
B D                   Gorilla  cgg-
B D                 Orangutan  cgg-
B D                    Gibbon  cgg-
B D                    Rhesus  cgg-
B D       Crab-eating macaque  cgg-
B D                    Baboon  cgg-
B D              Green monkey  cgg-
B D                  Marmoset  cgg-
B D           Squirrel monkey  cgg-
B D                  Bushbaby  cgg-
           Chinese tree shrew  ggg-
B D                  Squirrel  agg-
       Lesser Egyptian jerboa  gag-
                 Prairie vole  gag-
B D           Chinese hamster  gag-
B D                     Mouse  gag-
B D                       Rat  gag-
B D            Naked mole-rat  ggg-
B D                       Pig  tgg-
B D                    Alpaca  cgg-
               Bactrian camel  cgg-
B D                   Dolphin  cgg-
                 Killer whale  cgg-
             Tibetan antelope  cgg-
B D                       Cow  agg-
B D                     Sheep  cgg-
                Domestic goat  cgg-
B D                     Horse  cgg-
B D          White rhinoceros  tgg-
B D                       Cat  cgg-
B D                       Dog  cgg-
B D                   Ferret   -gg-
B D                     Panda  cgg-
               Pacific walrus  tgg-
                 Weddell seal  tgg-
                Big brown bat  cgg-
         David's myotis (bat)  ctg-
B D                  Microbat  cgg-
              Star-nosed mole  cag-
B D                  Elephant  ctc-
          Cape elephant shrew  ctc-
B D                   Manatee  ctc-
             Cape golden mole  cgt-
                     Aardvark  ctt-
B D                 Armadillo  cgg-
  D               Rock pigeon  -agt
  D              Mallard duck  -tac
B D                  Hedgehog  ----
B D                     Shrew  ====
              Golden hamster  ====
B D                      Pika  ----
B D                    Rabbit  ----
                  Chinchilla  ====
B D                Guinea pig  ====
            Brush-tailed rat  ====
B D                    Tenrec  ====
            Black flying-fox  ====
         Princess of Burundi  ====
B D              Nile tilapia  ====
B D                      Fugu  ====
      Yellowbelly pufferfish  ====
B D                 Tetraodon  ====
                 Zebra mbuna  ====
B D                 Zebrafish  ====
B D                Coelacanth  ====
B D              Atlantic cod  ====
                 Spotted gar  ====
B D               Stickleback  ====
    Mexican tetra (cavefish)  ====
         Pundamilia nyererei  ====
       Burton's mouthbreeder  ====
  D  Chinese softshell turtle  ====
  D           Green seaturtle  ====
  D       Collared flycatcher  ====
          Southern platyfish  ====
B D             X. tropicalis  ====
B D                Budgerigar  ====
B D                  Platypus  ====
B D       Medium ground finch  ====
  D    White-throated sparrow  ====
  D          Peregrine falcon  ----
  D              Saker falcon  ====
B D                    Turkey  ====
B D                   Chicken  ----
B D                    Lizard  ====
B D                    Medaka  ====
B D               Zebra finch  ====
  D            Painted turtle  ====
          Tibetan ground jay  ----
  D                    Parrot  ====
B D           Tasmanian devil  ====
B D                   Wallaby  ====
B D                   Opossum  ====
B D                   Megabat  ====
B D        American alligator  ====

Alignment block 18 of 1686 in window, 102714956 - 102714982, 27 bps 
B D                     Human  ag---------------g--g----------------------c----aag-------aagcag----cc
B D                     Chimp  ag---------------g--g----------------------c----aag-------aagcag----cc
B D                   Gorilla  ag---------------g--g----------------------c----aag-------aagcag----cc
B D                 Orangutan  ag---------------g--g----------------------c----aag-------aagcag----cc
B D                    Gibbon  ag---------------g--g----------------------c----aag-------aagcag----cc
B D                    Rhesus  ag---------------g--g----------------------c----aag-------aagcag----cc
B D       Crab-eating macaque  ag---------------g--g----------------------c----aag-------aagcag----cc
B D                    Baboon  ag---------------g--g----------------------c----aag-------aagcag----cc
B D              Green monkey  ag---------------g--g----------------------c----aag-------aagcag----cc
B D                  Marmoset  ag---------------g--g----------------------c----aag-------cagcaa----cc
B D           Squirrel monkey  ag---------------g--g----------------------c----aag-------cagcag----cc
B D                  Bushbaby  gg---------------g--g----------------------c----aag-------aagcag----cc
           Chinese tree shrew  aa---------------a--g----------------------g----aag-------aagcaa----cc
B D                  Squirrel  ag---------------g--g----------------------c----gag-------agacag----ac
       Lesser Egyptian jerboa  ag---------------g--g----------------------c----aac-------aggcag---tct
                 Prairie vole  ag---------------g--g----------------------c----gat-------agggag----at
B D           Chinese hamster  ag---------------g--g----------------------c----gat-------agggag----at
               Golden hamster  gg---------------g--g----------------------c----gat-------aggcag----at
B D                     Mouse  ag---------------g--g----------------------cgagagat-------agggag----gt
B D                       Rat  ag---------------g--g----------------------c----gat-------aggcag----gt
B D            Naked mole-rat  ag---------------g--c----------------------c----gaggcagtgagggcgg----gg
B D                    Rabbit  ag---------------g--g----------------------c----cgg-------gggcag----cc
B D                      Pika  ag---------------g--g----------------------c----ctg-------gggcaa----cc
B D                       Pig  ag---------------g--g----------------------c----aag-------aaactg----cc
B D                    Alpaca  ag---------------c--g----------------------c----aag-------aaactg----cc
               Bactrian camel  ag---------------c--g----------------------c----aag-------aaactg----cc
B D                   Dolphin  aa---------------g--g----------------------c----aag-------aagctg----ct
                 Killer whale  aa---------------g--g----------------------c----aag-------aagctg----ct
             Tibetan antelope  ag---------------g--gcgggaggctgcctaccggaggtc----aag-------aagctg----cc
B D                       Cow  ag---------------g--g----------------------c----aag-------aagctg----cc
B D                     Sheep  ag---------------g--g----------------------c----aag-------aagctg----cc
                Domestic goat  ag---------------g--g----------------------c----aag-------aagctg----cc
B D                     Horse  ag---------------g--g----------------------c----aag-------aagcac----cc
B D          White rhinoceros  ag---------------g--g----------------------c----aag-------aagcag----ct
B D                       Cat  ag---------------g--g----------------------c----aag-------agacag----cc
B D                       Dog  ag---------------g--g----------------------c----aag-------aggcag----cc
B D                   Ferret   ag---------------g--g----------------------c----aag-------aagcag----cc
B D                     Panda  ag---------------g--g----------------------c----aag-------aggcag----cc
               Pacific walrus  ag---------------g--g----------------------c----aag-------aggcag----cc
                 Weddell seal  ag---------------g----------------------------------------------------
                Big brown bat  ag---------------gagg----------------------t----aac-------aagctg----cc
         David's myotis (bat)  ag---------------gagg----------------------t----aac--------agctg----cc
B D                  Microbat  ag---------------gagg----------------------t----aac--------agctg----cc
B D                  Hedgehog  ------------------------------------------------------------gccc------
              Star-nosed mole  ag---------------g--g----------------------c----aa---------agccc----cc
B D                  Elephant  ag---------------g--g----------------------c----aaa-------gaccaa----tc
          Cape elephant shrew  aa---------------g--g----------------------c----aag-------caccagggactc
B D                   Manatee  ag---------------t--a----------------------c----aag-------gaccaa----tc
             Cape golden mole  ag---------------g--g----------------------c----aag-------gaccaa----tc
                     Aardvark  ag---------------g--g----------------------c----aaa-------gaccaa----tc
B D                 Armadillo  at---------------g--g----------------------c----aag-------aatcag----gg
  D               Rock pigeon  ggatcctcgtaggtctct--g----------------------c----tgc-------agcgtg----tc
  D          Peregrine falcon  -----------------t--g----------------------g----cac-------agcctc----gc
           Tibetan ground jay  -----------------c--a----------------------g----cac-------agctgt----gc
  D              Mallard duck  gg---------------c--g----------------------t----caa-------cgtgga----gc
B D                     Shrew  ======================================================================
                  Chinchilla  ======================================================================
B D                Guinea pig  ======================================================================
            Brush-tailed rat  ======================================================================
B D                    Tenrec  ======================================================================
            Black flying-fox  ======================================================================
         Princess of Burundi  ======================================================================
B D              Nile tilapia  ======================================================================
B D                      Fugu  ======================================================================
      Yellowbelly pufferfish  ======================================================================
B D                 Tetraodon  ======================================================================
                 Zebra mbuna  ======================================================================
B D                 Zebrafish  ======================================================================
B D                Coelacanth  ======================================================================
B D              Atlantic cod  ======================================================================
                 Spotted gar  ======================================================================
B D               Stickleback  ======================================================================
    Mexican tetra (cavefish)  ======================================================================
         Pundamilia nyererei  ======================================================================
       Burton's mouthbreeder  ======================================================================
  D  Chinese softshell turtle  ======================================================================
  D           Green seaturtle  ======================================================================
  D       Collared flycatcher  ======================================================================
          Southern platyfish  ======================================================================
B D             X. tropicalis  ======================================================================
B D                Budgerigar  ======================================================================
B D                  Platypus  ======================================================================
B D       Medium ground finch  ======================================================================
  D    White-throated sparrow  ======================================================================
  D              Saker falcon  ======================================================================
B D                    Turkey  ======================================================================
B D                   Chicken  ----------------------------------------------------------------------
B D                    Lizard  ======================================================================
B D                    Medaka  ======================================================================
B D               Zebra finch  ======================================================================
  D            Painted turtle  ======================================================================
  D                    Parrot  ======================================================================
B D           Tasmanian devil  ======================================================================
B D                   Wallaby  ======================================================================
B D                   Opossum  ======================================================================
B D                   Megabat  ======================================================================
B D        American alligator  ======================================================================

                        Human  tgggggctggc
                        Chimp  tgggggctggc
                      Gorilla  tgggggctggc
                    Orangutan  tgggggctggc
                       Gibbon  tgggggctggc
                       Rhesus  t-ggggctggc
          Crab-eating macaque  t-ggggctggc
                       Baboon  t-ggggctggc
                 Green monkey  t-ggggctggc
                     Marmoset  tgggggttggc
              Squirrel monkey  tgggggctggc
                     Bushbaby  t-------ggc
           Chinese tree shrew  tgaaggc--ac
                     Squirrel  cggggactggc
       Lesser Egyptian jerboa  tgggaggcgga
                 Prairie vole  tggggacccgt
              Chinese hamster  tggggaccggt
               Golden hamster  tggggaccggt
                        Mouse  tggggaccggt
                          Rat  taggaaccagt
               Naked mole-rat  tgggggccagt
                       Rabbit  tcctgaccgct
                         Pika  tcaggactggt
                          Pig  tgaggactggc
                       Alpaca  cgagaattggc
               Bactrian camel  cgagaattggc
                      Dolphin  tgaggactggc
                 Killer whale  tgaggactggc
             Tibetan antelope  tgaggactggc
                          Cow  tgaggactggc
                        Sheep  tgaggactggc
                Domestic goat  tgaggactggc
                        Horse  tggagactggt
             White rhinoceros  tgaggactggc
                          Cat  tggggattggc
                          Dog  tgggcactggc
                      Ferret   tggggactggc
                        Panda  tggggactggc
               Pacific walrus  tgggaactggc
                 Weddell seal  -ggggactggc
                Big brown bat  gaggaa-----
         David's myotis (bat)  gaggaactggc
                     Microbat  gaggaactggc
                     Hedgehog  -----------
              Star-nosed mole  atgggattga-
                     Elephant  tg-ggactt--
          Cape elephant shrew  ag-ggagctga
                      Manatee  tg-ggactggc
             Cape golden mole  tg-ggactggc
                     Aardvark  tg-ggactgac
                    Armadillo  tgaggactggc
                  Rock pigeon  tggg-------
             Peregrine falcon  tggc-------
           Tibetan ground jay  tggg-------
                 Mallard duck  tggc-------
                        Shrew  ===========
                   Chinchilla  ===========
                   Guinea pig  ===========
             Brush-tailed rat  ===========
                       Tenrec  ===========
             Black flying-fox  ===========
          Princess of Burundi  ===========
                 Nile tilapia  ===========
                         Fugu  ===========
       Yellowbelly pufferfish  ===========
                    Tetraodon  ===========
                  Zebra mbuna  ===========
                    Zebrafish  ===========
                   Coelacanth  ===========
                 Atlantic cod  ===========
                  Spotted gar  ===========
                  Stickleback  ===========
     Mexican tetra (cavefish)  ===========
          Pundamilia nyererei  ===========
        Burton's mouthbreeder  ===========
     Chinese softshell turtle  ===========
              Green seaturtle  ===========
          Collared flycatcher  ===========
           Southern platyfish  ===========
                X. tropicalis  ===========
                   Budgerigar  ===========
                     Platypus  ===========
          Medium ground finch  ===========
       White-throated sparrow  ===========
                 Saker falcon  ===========
                       Turkey  ===========
                      Chicken  -----------
                       Lizard  ===========
                       Medaka  ===========
                  Zebra finch  ===========
               Painted turtle  ===========
                       Parrot  ===========
              Tasmanian devil  ===========
                      Wallaby  ===========
                      Opossum  ===========
                      Megabat  ===========
           American alligator  ===========

Inserts between block 18 and 19 in window
B D                   Rabbit 6bp
         Cape elephant shrew 25bp

Alignment block 19 of 1686 in window, 102714983 - 102714983, 1 bps 
B D                     Human  -c
B D                     Chimp  -c
B D                   Gorilla  -c
B D                 Orangutan  -c
B D                    Gibbon  -c
B D                    Rhesus  -c
B D       Crab-eating macaque  -c
B D                    Baboon  -c
B D              Green monkey  -c
B D                  Marmoset  -c
B D           Squirrel monkey  -c
B D                  Bushbaby  -c
           Chinese tree shrew  -c
B D                  Squirrel  -t
       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                    Rabbit  -c
B D                      Pika  -c
B D                       Pig  -c
B D                    Alpaca  -c
               Bactrian camel  -c
B D                   Dolphin  -c
                 Killer whale  -c
             Tibetan antelope  -c
B D                       Cow  -c
B D                     Sheep  -c
                Domestic goat  -c
B D                     Horse  -c
B D          White rhinoceros  -c
B D                       Cat  -c
B D                       Dog  -c
B D                   Ferret   -c
B D                     Panda  -c
               Pacific walrus  -c
                 Weddell seal  -c
         David's myotis (bat)  -c
B D                  Microbat  -c
  D               Rock pigeon  g-
  D          Peregrine falcon  c-
           Tibetan ground jay  a-
  D              Mallard duck  g-
         Cape elephant shrew  ==
B D                  Hedgehog  --
B D                     Shrew  ==
               Big brown bat  --
             Star-nosed mole  --
                  Chinchilla  ==
B D                Guinea pig  ==
B D                   Manatee  --
B D                  Elephant  --
B D                 Armadillo  --
            Brush-tailed rat  ==
B D                    Tenrec  ==
            Black flying-fox  ==
         Princess of Burundi  ==
B D              Nile tilapia  ==
B D                      Fugu  ==
      Yellowbelly pufferfish  ==
B D                 Tetraodon  ==
                 Zebra mbuna  ==
B D                 Zebrafish  ==
B D                Coelacanth  ==
B D              Atlantic cod  ==
                 Spotted gar  ==
B D               Stickleback  ==
    Mexican tetra (cavefish)  ==
         Pundamilia nyererei  ==
       Burton's mouthbreeder  ==
  D  Chinese softshell turtle  ==
  D           Green seaturtle  ==
  D       Collared flycatcher  ==
          Southern platyfish  ==
B D             X. tropicalis  ==
B D                Budgerigar  ==
B D                  Platypus  ==
B D       Medium ground finch  ==
  D    White-throated sparrow  ==
  D              Saker falcon  ==
B D                    Turkey  ==
B D                   Chicken  --
B D                    Lizard  ==
B D                    Medaka  ==
B D               Zebra finch  ==
  D            Painted turtle  ==
  D                    Parrot  ==
B D           Tasmanian devil  ==
B D                   Wallaby  ==
B D                   Opossum  ==
                    Aardvark  --
            Cape golden mole  --
B D                   Megabat  ==
B D        American alligator  ==

Inserts between block 19 and 20 in window
  D              Rock pigeon 17bp

Alignment block 20 of 1686 in window, 102714984 - 102715000, 17 bps 
B D                     Human  c----tgagccctgaggt--gag-
B D                     Chimp  c----tgagccctgaggt--gag-
B D                   Gorilla  c----tgagccctgaggt--gag-
B D                 Orangutan  c----tgagccctgaggt--gag-
B D                    Gibbon  c----tgagccctgaggt--gag-
B D                    Rhesus  c----tgagccctgaggt--gag-
B D       Crab-eating macaque  c----tgagccctgaggt--gag-
B D                    Baboon  c----tgagccctgaggt--gag-
B D              Green monkey  c----tgagccctgaggt--gag-
B D                  Marmoset  c----tgagccctgaggt--gag-
B D           Squirrel monkey  c----tgagccctgaggt--gag-
B D                  Bushbaby  a----tgagca-------------
           Chinese tree shrew  g----tgagcccagaagt--gag-
B D                  Squirrel  c----tgaatcttgaggtgggag-
       Lesser Egyptian jerboa  a----agagccccgaggt--atg-
                 Prairie vole  c---g-tagtgtcgaggt--tag-
B D           Chinese hamster  c---gctagcatcgaggt--ctg-
               Golden hamster  cctagctaacatcgaggt--tag-
B D                     Mouse  c----ctagcattgaggt--tag-
B D                       Rat  c----ctagcattgaggt--tag-
B D            Naked mole-rat  t---ggagccctcggggg--aca-
B D                    Rabbit  c----cgagct-----gg--gac-
B D                      Pika  c----tgccca-----gc--gag-
B D                       Pig  c----tgagggctggtat--gag-
B D                    Alpaca  c----tgagggctggggt--gag-
               Bactrian camel  c----tgagggctggggt--gag-
B D                   Dolphin  c----tgagggctggggt--gag-
                 Killer whale  c----tgagggctggggt--gag-
             Tibetan antelope  g----tgagggctgggat--gag-
B D                       Cow  g----tgagggctgggat--gag-
B D                     Sheep  g----tgagggctgggat--gag-
                Domestic goat  a----tgagggctgggat--gag-
B D                     Horse  c----tgagcgctgaagt--gag-
B D          White rhinoceros  c----tgagcgctgaggt--gag-
B D                       Cat  c----tgaacgctgaggt--gag-
B D                       Dog  c----tgaacgccgaggt--gag-
B D                   Ferret   c----tgaacactgaggt--gag-
B D                     Panda  c----tgagcactgaggt--gag-
               Pacific walrus  c----tgaacactgaggt--gag-
                 Weddell seal  c----tgaacactgaggt--gag-
         David's myotis (bat)  c----tgagccctgaagt--gag-
B D                  Microbat  c----tgagccctgaagt--gag-
B D                  Hedgehog  -----tgagctctggggt--gag-
              Star-nosed mole  -----tagtccccgaggt--gag-
B D                  Elephant  --------gctctgatct--gag-
B D                   Manatee  ----------cctgatct--gag-
             Cape golden mole  ----------cctgatct--gag-
                     Aardvark  ----------cctgatct--gag-
B D                 Armadillo  ----------cccgggct------
  D               Rock pigeon  -----------ctgggga--cagc
           Tibetan ground jay  -----atggaacctggga--tggt
         Cape elephant shrew  ========================
B D                     Shrew  ========================
               Big brown bat  ------------------------
                  Chinchilla  ========================
B D                Guinea pig  ========================
            Brush-tailed rat  ========================
B D                    Tenrec  ========================
            Black flying-fox  ========================
         Princess of Burundi  ========================
B D              Nile tilapia  ========================
B D                      Fugu  ========================
      Yellowbelly pufferfish  ========================
B D                 Tetraodon  ========================
                 Zebra mbuna  ========================
B D                 Zebrafish  ========================
B D                Coelacanth  ========================
B D              Atlantic cod  ========================
                 Spotted gar  ========================
B D               Stickleback  ========================
    Mexican tetra (cavefish)  ========================
         Pundamilia nyererei  ========================
       Burton's mouthbreeder  ========================
  D  Chinese softshell turtle  ========================
  D           Green seaturtle  ========================
  D       Collared flycatcher  ========================
          Southern platyfish  ========================
B D             X. tropicalis  ========================
B D                Budgerigar  ========================
B D                  Platypus  ========================
B D       Medium ground finch  ========================
  D    White-throated sparrow  ========================
  D          Peregrine falcon  ========================
  D              Saker falcon  ========================
B D                    Turkey  ========================
B D                   Chicken  ------------------------
B D                    Lizard  ========================
B D                    Medaka  ========================
B D               Zebra finch  ========================
  D            Painted turtle  ========================
  D                    Parrot  ========================
B D           Tasmanian devil  ========================
B D                   Wallaby  ========================
B D                   Opossum  ========================
  D              Mallard duck  ------------------------
B D                   Megabat  ========================
B D        American alligator  ========================

Inserts between block 20 and 21 in window
               Domestic goat 21bp

Alignment block 21 of 1686 in window, 102715001 - 102715009, 9 bps 
B D                     Human  -----------ctga---aag----ca--
B D                     Chimp  -----------ctga---aag----ca--
B D                   Gorilla  -----------ctga---aag----ca--
B D                 Orangutan  -----------ctga---aag----ca--
B D                    Gibbon  -----------ctga---aag----ca--
B D                    Rhesus  -----------ctg----aag----ca--
B D       Crab-eating macaque  -----------ctg----aag----ca--
B D                    Baboon  -----------ctg----aag----ca--
B D              Green monkey  -----------ctg----aag----ca--
B D                  Marmoset  -----------ctga---aag----ca--
B D           Squirrel monkey  -----------ctga---aag----ca--
           Chinese tree shrew  -----------cagg---cag----ta--
B D                  Squirrel  -----------ctga---cag----ct--
       Lesser Egyptian jerboa  -----------ctga---cag----ca--
                 Prairie vole  -----------caga---gag----cg--
B D           Chinese hamster  -----------ctga---cag----cg--
               Golden hamster  -----------ctga---cag----cg--
B D                     Mouse  -----------ctgg---cag----cg--
B D                       Rat  -----------ccgg---cat----cg--
B D            Naked mole-rat  -----------cagg---ccg----ag--
B D                    Rabbit  -----------ctgg---agg----ca--
B D                      Pika  -----------ctga---cag----ca--
B D                       Pig  -----------gtga---cag----cc--
B D                    Alpaca  -----------ctga---cag----cg--
               Bactrian camel  -----------ctga---cag----cg--
B D                   Dolphin  -----------ctga---tag----cg--
                 Killer whale  -----------ctga---tag----cg--
             Tibetan antelope  -----------gtga---tcgcttacg--
B D                       Cow  -----------ctga---tggtttacg--
B D                     Sheep  -----------gtga---tcgcttacg--
B D                     Horse  -----------ctga---cag----cg--
B D          White rhinoceros  -----------ctga---cag----ag--
B D                       Cat  -----------ccgatggcag----ca--
B D                       Dog  -----------caga---cag----ca--
B D                   Ferret   -----------caga---cag----ca--
B D                     Panda  -----------caga---cag----ca--
               Pacific walrus  -----------caga---cag----ca--
                 Weddell seal  -----------caga---cag----ca--
                Big brown bat  -----------ctga---cag----cg--
         David's myotis (bat)  -----------ctga---cag----cg--
B D                  Microbat  -----------ctga---cag----cg--
B D                  Hedgehog  -----------ctga---cag----ct--
              Star-nosed mole  -----------ctga---cag----tt--
B D                  Elephant  -----------ttga---cag----ca--
B D                   Manatee  -----------ttga---cag----ca--
             Cape golden mole  -----------ttgg---cag----ct--
                     Aardvark  -----------ctga---cag----ca--
B D                 Armadillo  -----------ctga---cag----cc--
  D               Rock pigeon  cctccctggtgccaa---ggg----aatg
           Tibetan ground jay  ttt---------------ggg----aa--
  D              Mallard duck  ---ctgctgcgccgg---gtg----aggg
         Cape elephant shrew  =============================
B D                     Shrew  =============================
               Domestic goat  =============================
                  Chinchilla  =============================
B D                Guinea pig  =============================
            Brush-tailed rat  =============================
B D                    Tenrec  =============================
B D                  Bushbaby  -----------------------------
            Black flying-fox  =============================
         Princess of Burundi  =============================
B D              Nile tilapia  =============================
B D                      Fugu  =============================
      Yellowbelly pufferfish  =============================
B D                 Tetraodon  =============================
                 Zebra mbuna  =============================
B D                 Zebrafish  =============================
B D                Coelacanth  =============================
B D              Atlantic cod  =============================
                 Spotted gar  =============================
B D               Stickleback  =============================
    Mexican tetra (cavefish)  =============================
         Pundamilia nyererei  =============================
       Burton's mouthbreeder  =============================
  D  Chinese softshell turtle  =============================
  D           Green seaturtle  =============================
  D       Collared flycatcher  =============================
          Southern platyfish  =============================
B D             X. tropicalis  =============================
B D                Budgerigar  =============================
B D                  Platypus  =============================
B D       Medium ground finch  =============================
  D    White-throated sparrow  =============================
  D          Peregrine falcon  =============================
  D              Saker falcon  =============================
B D                    Turkey  =============================
B D                   Chicken  -----------------------------
B D                    Lizard  =============================
B D                    Medaka  =============================
B D               Zebra finch  =============================
  D            Painted turtle  =============================
  D                    Parrot  =============================
B D           Tasmanian devil  =============================
B D                   Wallaby  =============================
B D                   Opossum  =============================
B D                   Megabat  =============================
B D        American alligator  =============================

Inserts between block 21 and 22 in window
B D                   Rabbit 1829bp

Alignment block 22 of 1686 in window, 102715010 - 102715027, 18 bps 
B D                     Human  --------------------caggt----g-aaaggcgttttg
B D                     Chimp  --------------------caggt----g-aaaggcgttttg
B D                   Gorilla  --------------------caggt----g-aaaggcgttttg
B D                 Orangutan  --------------------caggt----g-aaaggcgttttg
B D                    Gibbon  --------------------caggt----g-aaaggcgttttg
B D                    Rhesus  --------------------caggt----g-aaaggcgttttg
B D       Crab-eating macaque  --------------------caggt----g-aaaggcgttttg
B D                    Baboon  --------------------caggt----g-aaaggcgttttg
B D              Green monkey  --------------------caggt----g-aaaggcgttttg
B D                  Marmoset  --------------------caggt----g-aaaggcgttttg
B D           Squirrel monkey  --------------------caggt----g-aaagacgttttg
B D                  Bushbaby  ---------------------------------------tttg
           Chinese tree shrew  --------------------ggagg----g-aaaggcatttt-
B D                  Squirrel  --------------------gaagt----t-aaaggtgttttg
       Lesser Egyptian jerboa  --------------------gttgt----g-tacgaccctcgg
                 Prairie vole  --------------------gaaat----g-ttagaccgtctg
B D           Chinese hamster  --------------------ggagt----g-ttagatcgtcc-
               Golden hamster  --------------------ggagt----g-ttagattgtcag
B D                     Mouse  --------------------ggagt----g-ttagattgtttg
B D                       Rat  --------------------ggagt----g-ttaaattgtctg
B D            Naked mole-rat  --------------------gg--------------tcgtctg
B D                      Pika  ----------------------ggg----a-tgagggtgtttt
B D                       Pig  --------------------ggg-t----g-aaaggcgtttta
B D                    Alpaca  --------------------ggggt----g-aaaggcgttttg
               Bactrian camel  --------------------ggggt----g-aaaggcgttttg
B D                   Dolphin  --------------------gggat----g-aaagacgttttg
                 Killer whale  --------------------gggat----g-aaagacgttttg
             Tibetan antelope  --------------------ggggt----g-aaaggtgtttgg
B D                       Cow  --------------------ggggt----g-aaaggcgattgg
B D                     Sheep  --------------------ggggt----g-aaaggtgtttgg
B D                     Horse  --------------------ggggt----g-caaggcgttttg
B D          White rhinoceros  --------------------ggcgt----g-aaaggcgttttg
B D                       Cat  --------------------ggggtgaaag-aaaggcgttttg
B D                       Dog  --------------------ggagt----g-aaaggcgttttg
B D                   Ferret   --------------------gggtt----g-aaaggcgttttg
B D                     Panda  --------------------agggt----g-aaaggcgttttg
               Pacific walrus  --------------------ggggt----g-aaaggcgttttg
                 Weddell seal  --------------------ggggt----g-aaaggcgttttg
                Big brown bat  --------------------cgggt----g-aaagacattgtg
         David's myotis (bat)  --------------------cgggt----c-aaagacattttg
B D                  Microbat  --------------------cgggt----g-aaagacattttg
B D                  Hedgehog  --------------------gtggg----gaaaaggtgttggg
              Star-nosed mole  --------------------gcagt----g-aaaggcgtt---
B D                  Elephant  --------------------ggagt----g-aaaggcgttttg
B D                   Manatee  --------------------gtggt----g-aaaggcgttttg
             Cape golden mole  --------------------ggagt----g-aaaggtgttttg
                     Aardvark  --------------------tgggt----g-aaaggcattttg
B D                 Armadillo  --------------------ggagt----g-aaaggcatttt-
  D               Rock pigeon  cag---caccgct------gggtgc--------tg--------
           Tibetan ground jay  cag----------------gggtgc----a-gatg--------
  D              Mallard duck  cagccacagcgctgggctggggggt----c-tggg--------
         Cape elephant shrew  ===========================================
B D                     Shrew  ===========================================
               Domestic goat  ===========================================
B D                    Rabbit  ===========================================
                  Chinchilla  ===========================================
B D                Guinea pig  ===========================================
            Brush-tailed rat  ===========================================
B D                    Tenrec  ===========================================
            Black flying-fox  ===========================================
         Princess of Burundi  ===========================================
B D              Nile tilapia  ===========================================
B D                      Fugu  ===========================================
      Yellowbelly pufferfish  ===========================================
B D                 Tetraodon  ===========================================
                 Zebra mbuna  ===========================================
B D                 Zebrafish  ===========================================
B D                Coelacanth  ===========================================
B D              Atlantic cod  ===========================================
                 Spotted gar  ===========================================
B D               Stickleback  ===========================================
    Mexican tetra (cavefish)  ===========================================
         Pundamilia nyererei  ===========================================
       Burton's mouthbreeder  ===========================================
  D  Chinese softshell turtle  ===========================================
  D           Green seaturtle  ===========================================
  D       Collared flycatcher  ===========================================
          Southern platyfish  ===========================================
B D             X. tropicalis  ===========================================
B D                Budgerigar  ===========================================
B D                  Platypus  ===========================================
B D       Medium ground finch  ===========================================
  D    White-throated sparrow  ===========================================
  D          Peregrine falcon  ===========================================
  D              Saker falcon  ===========================================
B D                    Turkey  ===========================================
B D                   Chicken  -------------------------------------------
B D                    Lizard  ===========================================
B D                    Medaka  ===========================================
B D               Zebra finch  ===========================================
  D            Painted turtle  ===========================================
  D                    Parrot  ===========================================
B D           Tasmanian devil  ===========================================
B D                   Wallaby  ===========================================
B D                   Opossum  ===========================================
B D                   Megabat  ===========================================
B D        American alligator  ===========================================

Inserts between block 22 and 23 in window
B D                      Cow 2bp
            Cape golden mole 3bp

Alignment block 23 of 1686 in window, 102715028 - 102715028, 1 bps 
B D                     Human  g
B D                     Chimp  g
B D                   Gorilla  g
B D                 Orangutan  g
B D                    Gibbon  g
B D                    Rhesus  g
B D       Crab-eating macaque  g
B D                    Baboon  g
B D              Green monkey  g
B D                  Marmoset  g
B D           Squirrel monkey  g
B D                  Bushbaby  g
           Chinese tree shrew  a
B D                  Squirrel  g
       Lesser Egyptian jerboa  g
                 Prairie vole  g
B D           Chinese hamster  g
               Golden hamster  g
B D                     Mouse  g
B D                       Rat  g
B D            Naked mole-rat  a
B D                      Pika  g
B D                       Pig  g
B D                    Alpaca  g
               Bactrian camel  g
B D                   Dolphin  g
                 Killer whale  g
B D                     Horse  g
B D          White rhinoceros  g
B D                       Cat  g
B D                       Dog  g
B D                   Ferret   g
B D                     Panda  g
               Pacific walrus  g
                 Weddell seal  g
                Big brown bat  g
         David's myotis (bat)  g
B D                  Microbat  g
B D                 Armadillo  g
  D               Rock pigeon  a
           Tibetan ground jay  g
  D              Mallard duck  g
         Cape elephant shrew  =
B D                  Hedgehog  -
B D                     Shrew  =
               Domestic goat  =
B D                     Sheep  -
B D                       Cow  =
            Tibetan antelope  -
             Star-nosed mole  -
B D                    Rabbit  =
                  Chinchilla  =
B D                Guinea pig  =
B D                   Manatee  -
B D                  Elephant  -
            Brush-tailed rat  =
B D                    Tenrec  =
            Black flying-fox  =
         Princess of Burundi  =
B D              Nile tilapia  =
B D                      Fugu  =
      Yellowbelly pufferfish  =
B D                 Tetraodon  =
                 Zebra mbuna  =
B D                 Zebrafish  =
B D                Coelacanth  =
B D              Atlantic cod  =
                 Spotted gar  =
B D               Stickleback  =
    Mexican tetra (cavefish)  =
         Pundamilia nyererei  =
       Burton's mouthbreeder  =
  D  Chinese softshell turtle  =
  D           Green seaturtle  =
  D       Collared flycatcher  =
          Southern platyfish  =
B D             X. tropicalis  =
B D                Budgerigar  =
B D                  Platypus  =
B D       Medium ground finch  =
  D    White-throated sparrow  =
  D          Peregrine falcon  =
  D              Saker falcon  =
B D                    Turkey  =
B D                   Chicken  -
B D                    Lizard  =
B D                    Medaka  =
B D               Zebra finch  =
  D            Painted turtle  =
  D                    Parrot  =
B D           Tasmanian devil  =
B D                   Wallaby  =
B D                   Opossum  =
                    Aardvark  -
            Cape golden mole  =
B D                   Megabat  =
B D        American alligator  =

Inserts between block 23 and 24 in window
B D                     Pika 16bp
B D                      Pig 1bp
B D                   Alpaca 2bp
              Bactrian camel 2bp
B D                  Dolphin 1bp
                Killer whale 1bp
B D                    Horse 2bp
B D         White rhinoceros 2bp
B D                  Ferret  2bp
B D                    Panda 2bp
               Big brown bat 2bp

Alignment block 24 of 1686 in window, 102715029 - 102715029, 1 bps 
B D                     Human  g
B D                     Chimp  g
B D                   Gorilla  g
B D                 Orangutan  g
B D                    Gibbon  g
B D                    Rhesus  g
B D       Crab-eating macaque  g
B D                    Baboon  g
B D              Green monkey  g
B D                  Marmoset  g
B D           Squirrel monkey  g
B D                  Bushbaby  g
           Chinese tree shrew  g
                     Aardvark  c
B D                 Armadillo  g
  D               Rock pigeon  g
           Tibetan ground jay  g
  D              Mallard duck  g
         Cape elephant shrew  =
B D                  Hedgehog  -
B D                     Shrew  =
               Domestic goat  =
B D                     Sheep  -
B D                       Cow  =
            Tibetan antelope  -
               Big brown bat  =
B D                  Microbat  -
        David's myotis (bat)  -
              Bactrian camel  =
B D                    Alpaca  =
             Star-nosed mole  -
B D                     Mouse  -
B D                     Panda  =
B D                       Dog  -
B D                       Rat  -
                Prairie vole  -
B D           Chinese hamster  -
              Golden hamster  -
                Killer whale  =
B D                   Ferret   =
B D                  Squirrel  -
B D                       Cat  -
B D                      Pika  =
              Pacific walrus  -
B D            Naked mole-rat  -
B D                    Rabbit  =
                  Chinchilla  =
B D                Guinea pig  =
B D                   Manatee  -
B D                  Elephant  -
      Lesser Egyptian jerboa  -
            Brush-tailed rat  =
B D                    Tenrec  =
B D                     Horse  =
            Black flying-fox  =
B D          White rhinoceros  =
         Princess of Burundi  =
B D              Nile tilapia  =
B D                      Fugu  =
      Yellowbelly pufferfish  =
B D                 Tetraodon  =
                 Zebra mbuna  =
B D                 Zebrafish  =
B D                Coelacanth  =
B D              Atlantic cod  =
                 Spotted gar  =
B D               Stickleback  =
    Mexican tetra (cavefish)  =
         Pundamilia nyererei  =
       Burton's mouthbreeder  =
  D  Chinese softshell turtle  =
  D           Green seaturtle  =
  D       Collared flycatcher  =
          Southern platyfish  =
B D             X. tropicalis  =
B D                Budgerigar  =
B D                  Platypus  =
B D       Medium ground finch  =
  D    White-throated sparrow  =
  D          Peregrine falcon  =
  D              Saker falcon  =
B D                    Turkey  =
B D                   Chicken  -
B D                    Lizard  =
B D                    Medaka  =
B D               Zebra finch  =
  D            Painted turtle  =
  D                    Parrot  =
B D           Tasmanian devil  =
B D                   Wallaby  =
B D                   Opossum  =
                Weddell seal  -
            Cape golden mole  =
B D                   Dolphin  =
B D                       Pig  =
B D                   Megabat  =
B D        American alligator  =

Alignment block 25 of 1686 in window, 102715030 - 102715030, 1 bps 
B D                     Human  g
B D                     Chimp  g
B D                   Gorilla  g
B D                 Orangutan  g
B D                    Gibbon  g
B D                    Rhesus  g
B D       Crab-eating macaque  g
B D                    Baboon  g
B D              Green monkey  g
B D                  Marmoset  g
B D           Squirrel monkey  g
B D                  Bushbaby  g
           Chinese tree shrew  a
B D                  Squirrel  g
       Lesser Egyptian jerboa  g
                 Prairie vole  g
B D           Chinese hamster  g
               Golden hamster  g
B D                     Mouse  g
B D                       Rat  g
B D            Naked mole-rat  g
B D                       Pig  a
B D                   Dolphin  a
                 Killer whale  a
             Tibetan antelope  a
B D                     Sheep  a
B D                  Hedgehog  g
                     Aardvark  a
B D                 Armadillo  a
  D               Rock pigeon  c
           Tibetan ground jay  g
  D              Mallard duck  g
         Cape elephant shrew  =
B D                     Shrew  =
               Domestic goat  =
B D                       Cow  =
               Big brown bat  =
B D                  Microbat  -
        David's myotis (bat)  -
              Bactrian camel  =
B D                    Alpaca  =
             Star-nosed mole  -
B D                     Panda  =
B D                       Dog  -
B D                   Ferret   =
B D                       Cat  -
B D                      Pika  =
              Pacific walrus  -
B D                    Rabbit  =
                  Chinchilla  =
B D                Guinea pig  =
B D                   Manatee  -
B D                  Elephant  -
            Brush-tailed rat  =
B D                    Tenrec  =
B D                     Horse  =
            Black flying-fox  =
B D          White rhinoceros  =
         Princess of Burundi  =
B D              Nile tilapia  =
B D                      Fugu  =
      Yellowbelly pufferfish  =
B D                 Tetraodon  =
                 Zebra mbuna  =
B D                 Zebrafish  =
B D                Coelacanth  =
B D              Atlantic cod  =
                 Spotted gar  =
B D               Stickleback  =
    Mexican tetra (cavefish)  =
         Pundamilia nyererei  =
       Burton's mouthbreeder  =
  D  Chinese softshell turtle  =
  D           Green seaturtle  =
  D       Collared flycatcher  =
          Southern platyfish  =
B D             X. tropicalis  =
B D                Budgerigar  =
B D                  Platypus  =
B D       Medium ground finch  =
  D    White-throated sparrow  =
  D          Peregrine falcon  =
  D              Saker falcon  =
B D                    Turkey  =
B D                   Chicken  -
B D                    Lizard  =
B D                    Medaka  =
B D               Zebra finch  =
  D            Painted turtle  =
  D                    Parrot  =
B D           Tasmanian devil  =
B D                   Wallaby  =
B D                   Opossum  =
                Weddell seal  -
            Cape golden mole  =
B D                   Megabat  =
B D        American alligator  =

Inserts between block 25 and 26 in window
B D                 Squirrel 1bp
      Lesser Egyptian jerboa 3484bp
B D           Naked mole-rat 2bp

Alignment block 26 of 1686 in window, 102715031 - 102715031, 1 bps 
B D                     Human  a
B D                     Chimp  a
B D                   Gorilla  a
B D                 Orangutan  a
B D                    Gibbon  a
B D                    Rhesus  a
B D       Crab-eating macaque  a
B D                    Baboon  a
B D              Green monkey  a
B D                  Marmoset  a
B D           Squirrel monkey  a
B D                  Bushbaby  a
           Chinese tree shrew  a
B D                  Squirrel  g
                 Prairie vole  g
B D           Chinese hamster  a
               Golden hamster  a
B D                     Mouse  a
B D                       Rat  a
B D            Naked mole-rat  t
B D                   Dolphin  a
                 Killer whale  a
             Tibetan antelope  a
B D                     Sheep  a
B D                       Cat  a
B D                       Dog  a
               Pacific walrus  a
                 Weddell seal  a
B D                  Hedgehog  g
                     Aardvark  g
B D                 Armadillo  a
  D               Rock pigeon  a
           Tibetan ground jay  a
  D              Mallard duck  g
         Cape elephant shrew  =
B D                     Shrew  =
               Domestic goat  =
B D                       Cow  =
               Big brown bat  =
B D                  Microbat  -
        David's myotis (bat)  -
              Bactrian camel  =
B D                    Alpaca  =
             Star-nosed mole  -
B D                     Panda  =
B D                   Ferret   =
B D                      Pika  =
B D                    Rabbit  =
                  Chinchilla  =
B D                Guinea pig  =
B D                   Manatee  -
B D                  Elephant  -
      Lesser Egyptian jerboa  =
            Brush-tailed rat  =
B D                    Tenrec  =
B D                     Horse  =
            Black flying-fox  =
B D          White rhinoceros  =
         Princess of Burundi  =
B D              Nile tilapia  =
B D                      Fugu  =
      Yellowbelly pufferfish  =
B D                 Tetraodon  =
                 Zebra mbuna  =
B D                 Zebrafish  =
B D                Coelacanth  =
B D              Atlantic cod  =
                 Spotted gar  =
B D               Stickleback  =
    Mexican tetra (cavefish)  =
         Pundamilia nyererei  =
       Burton's mouthbreeder  =
  D  Chinese softshell turtle  =
  D           Green seaturtle  =
  D       Collared flycatcher  =
          Southern platyfish  =
B D             X. tropicalis  =
B D                Budgerigar  =
B D                  Platypus  =
B D       Medium ground finch  =
  D    White-throated sparrow  =
  D          Peregrine falcon  =
  D              Saker falcon  =
B D                    Turkey  =
B D                   Chicken  -
B D                    Lizard  =
B D                    Medaka  =
B D               Zebra finch  =
  D            Painted turtle  =
  D                    Parrot  =
B D           Tasmanian devil  =
B D                   Wallaby  =
B D                   Opossum  =
            Cape golden mole  =
B D                       Pig  -
B D                   Megabat  =
B D        American alligator  =

Inserts between block 26 and 27 in window
B D                      Cat 1bp
B D                      Dog 1bp
              Pacific walrus 1bp
                Weddell seal 1bp

Alignment block 27 of 1686 in window, 102715032 - 102715032, 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  g
                 Prairie vole  t
B D           Chinese hamster  t
               Golden hamster  t
B D                     Mouse  t
B D                       Rat  t
B D            Naked mole-rat  t
             Tibetan antelope  t
B D                     Sheep  t
B D                     Horse  t
B D          White rhinoceros  t
B D                       Cat  t
B D                       Dog  t
               Pacific walrus  t
                 Weddell seal  t
                Big brown bat  t
  D               Rock pigeon  t
           Tibetan ground jay  t
  D              Mallard duck  t
         Cape elephant shrew  =
B D                  Hedgehog  -
B D                     Shrew  =
               Domestic goat  =
B D                       Cow  =
B D                  Microbat  -
        David's myotis (bat)  -
              Bactrian camel  =
B D                    Alpaca  =
             Star-nosed mole  -
B D                     Panda  =
                Killer whale  -
B D                   Ferret   =
B D                      Pika  =
B D                    Rabbit  =
                  Chinchilla  =
B D                Guinea pig  =