Multiz Alignments of 100 Vertebrates
 

Capitalize exons based on show bases
Place cursor over species for alignment detail. Click on 'B' to link to browser for aligned species, click on 'D' to get DNA for aligned species.
Alignment block 1 of 50 in window, 42695314 - 42695427, 114 bps 
B D                     Human  tgca--------------aacatgctggcctag------------tgtaac----a-ggtg---ccc---
B D                     Chimp  tgca--------------aacatgctggcctag------------cataac----a-ggtg---ccc---
B D                   Gorilla  tgca--------------aacatgctggcctag------------cataac----a-ggtg---ccc---
B D                 Orangutan  tgca--------------aacatgctggcctag------------cataac----a-ggtg---ccc---
B D                    Gibbon  tgca--------------aacatgctggcctag------------cataat----a-ggtg---ccc---
B D                    Rhesus  tgca--------------aacatgctggcttag------------cataac----a-ggtg---ccc---
B D       Crab-eating macaque  tgca--------------aacatgctggcttag------------cataac----a-ggtg---ccc---
B D                    Baboon  tgca--------------aacatgctggcttag------------cataac----a-ggtg---ccc---
B D              Green monkey  tgca--------------aacatgctggcttag------------cataac----a-ggtg---ccc---
B D                  Marmoset  tgca--------------aacctgctggcctgg------------cataac----a-ggtg---ccc---
B D           Squirrel monkey  tgca--------------aacctgctggcctag------------cataac----a-ggtg---ccc---
B D                  Bushbaby  tgca--------------aacctgctgccttag------------cagaac----a-ggtg---ccc---
           Chinese tree shrew  tgca--------------aacctgctggcctag------------catgac----a-gggg---ccc---
B D                  Squirrel  tgca--------------aacctgctggcctag------------cttgat----g-gata---ccc---
       Lesser Egyptian jerboa  tgca--------------gacatgctagtcaag------------catgac----a-ggtg---ccc---
                 Prairie vole  tgca--------------aacctgctggcctag------------ca-----------------------
B D           Chinese hamster  tgta--------------aacctgctggcttag------------catgac----a-ggtg---ccc---
               Golden hamster  tgta--------------aacctgctggcctag------------catgac----a-ggtg---ccc---
B D                     Mouse  tgca--------------aacctgctgggctag------------catgcc----c-ggtgggtgcc---
B D                       Rat  tgca--------------aacctgctgggctag------------catgac----a-ggtg---ccc---
B D            Naked mole-rat  tgca--------------aacctgcttgctgag------------catggc----c-agtg---ccg---
B D                Guinea pig  tgca--------------aacctgctggcctgt------------tatggc----c-agtg---ccc---
                   Chinchilla  tgaa--------------aacctgctggcctgg------------catggc----c-agtg---ccc---
             Brush-tailed rat  tgca--------------aacctgctggcctgg------------cacagc----c-agtg---cct---
B D                    Rabbit  tgca--------------aacctgctggcctag------------cacgac----a-ggtg---ccg---
B D                      Pika  tgca--------------aacttgcttacctag------------catgac----a-ggtg---cct---
B D                       Pig  tgca--------------aacctgctgaccaa-----------------ac----a-ggtg---ccc---
B D                    Alpaca  tgca--------------aacctgctggcctag------------cattac----a-ggtg---ccc---
               Bactrian camel  tgca--------------aacctgctggcctag------------cattac----a-ggtg---ccc---
B D                   Dolphin  tgca--------------aacctgctgacctag------------cattat----a-ggtg---ccc---
                 Killer whale  tgca--------------aacctgctgacctag------------cattat----a-ggtg---ccc---
             Tibetan antelope  tgca--------------gacctgctggcctag------------cgttac----a-ggtg---cctgca
B D                       Cow  tgca--------------aacctgctggcctag------------cattac----a-ggtg---cct---
B D                     Sheep  tgca--------------gacctgctggcgtag------------cgttac----a-ggtg---cctgca
                Domestic goat  tgca--------------gacctgctggcctag------------cgttac----a-ggtg---cctgca
B D                     Horse  ttca--------------aacctgctggcctag------------cattac----a-ggtt---cct---
B D          White rhinoceros  ttca--------------aacctgctggcctag------------cgttac----a-ggtg---act---
B D                       Cat  tgca--------------aacctgctggcctag------------cattac----a-ggtg---ccc---
B D                       Dog  tgca--------------aacctgctggcctag------------cattac----a-ggtg---ccc---
B D                   Ferret   tgca--------------aacctgctggcctag------------cattac----a-gatg---ccg---
B D                     Panda  tgca--------------aacctgctgccctag------------cattac----a-gatg---ccc---
               Pacific walrus  tgca--------------aacctgctggcctag------------cattac----a-gata---ccc---
                 Weddell seal  tgca--------------aacctgctggcctag------------cattaa----a-gata----cc---
             Black flying-fox  tgca--------------aacctgctggcctag------------cattac----a-ggtc---cct---
B D                   Megabat  tgca--------------aacctgctggcctag------------cattac----a-ggtc---cct---
                Big brown bat  tgca--------------aaccttctggcctag------------caccac----a-ggtg---ccc---
         David's myotis (bat)  tgca--------------aaccttctggcatag------------caccac----a-ggt----ccc---
B D                  Microbat  cgca--------------aaccttctggcctag------------caccac----a-ggtg---ccc---
B D                  Hedgehog  tgca--------------aacctgctgaccaaa------------cattac----a-ggca---tcc---
B D                     Shrew  tgca--------------gccctgctgagccaa------------caccgc-------------------
              Star-nosed mole  tgtg--------------aacctgctga-ctag------------caccac----a--------------
B D                  Elephant  tgca--------------aacctgctggcctag------------cattac----a-ggtg---ccc---
          Cape elephant shrew  tgca--------------aacctgctggtccag------------cattgc----a-ggtg---ctc---
B D                   Manatee  tgca--------------aacctgctggcctag------------cattac----a-ggtg---cct---
             Cape golden mole  tgca--------------aatctgcttgtctag------------ctttac----a-ggta---cca---
B D                    Tenrec  tgca--------------aacctgctgacccgg------------ctccac----a-ggcg---ccc---
                     Aardvark  taca--------------aacctgctggcctag------------cattac----a-ggtg---ccc---
B D                 Armadillo  tgcc--------------agcctgctggcctag------------cgtcacatata-ggtg---ccc---
B D                   Opossum  tgca--------------aacctgctggcctgg-gctgtcccccgcattaa----g-agtg---tcc---
B D           Tasmanian devil  cgca--------------aacctgctagcctggcagtctgccccgaattaa----g-agtg---tcc---
B D                   Wallaby  ttca--------------aacctgctagcctgg-gctgtgccccaaattaa----g-actg---tcc---
B D                  Platypus  tgga--------------aaactgctggtctgg--actatcactgcattag----c-ggtg---tcc---
B D        American alligator  tgcacccacacaaagaaggaaacacttgtctgg------------tattat----aaggtg---acc---
                 Spotted gar  ======================================================================
B D                 Zebrafish  ======================================================================
B D                    Medaka  ======================================================================
      Yellowbelly pufferfish  ======================================================================
         Pundamilia nyererei  ======================================================================
                 Zebra mbuna  ======================================================================
       Burton's mouthbreeder  ======================================================================
         Princess of Burundi  ======================================================================
B D              Nile tilapia  ======================================================================
B D                Coelacanth  ======================================================================
B D             X. tropicalis  ======================================================================
B D                    Lizard  ======================================================================
  D    Spiny softshell turtle  ======================================================================
  D  Chinese softshell turtle  ======================================================================
  D            Painted turtle  ======================================================================
  D           Green seaturtle  ======================================================================
B D                    Turkey  ======================================================================
B D                   Chicken  ======================================================================
  D              Mallard duck  ======================================================================
B D                Budgerigar  ======================================================================
          Tibetan ground jay  ======================================================================
B D               Zebra finch  ======================================================================
B D       Medium ground finch  ======================================================================
  D    White-throated sparrow  ======================================================================
  D       Collared flycatcher  ======================================================================
  D          Peregrine falcon  ======================================================================
  D              Saker falcon  ======================================================================
  D               Rock pigeon  ======================================================================
    Mexican tetra (cavefish)  ======================================================================
B D                 Tetraodon  ======================================================================
B D                      Fugu  ======================================================================

                        Human  --ggacgaggagg-gg-caggggagc-----gtgc-agagcgg--gc---a-cc-taatcttattaaccc
                        Chimp  --ggacgaggagg-gg-caggggagc-----gtgc-agagcgg--gc---a-cc-taatcttattaaccc
                      Gorilla  --ggacgaggagg-gg-caggggagt-----gtgc-agagcgg--gc---a-cc-taatcttattaaccc
                    Orangutan  --ggacgaggaga-gg-caggggagc-----gtgc-agagcag--gc---a-tc-taatcttattaaccc
                       Gibbon  --agacgaggagg-gg-caagggagc-----gtgc-agagcgg--gc---a-cc-taatcttattaaccc
                       Rhesus  --gaacgaggagg-gg-caggggagc-----gtgc-agagcgg--gc---a-cc-taatcttattaaccc
          Crab-eating macaque  --gaacgaggagg-gg-caggggagc-----gtgc-agagcgg--gc---a-cc-taatcttattaaccc
                       Baboon  --gaacgaggagg-gg-caggggagc-----gtgc-agagcgg--gc---a-cc-taatcttattaaccc
                 Green monkey  --gaacgaggagg-gg-caggggagc-----gtgc-agagcag--gc---a-cc-taatcttattaaccc
                     Marmoset  --agacgaggagg-gg-caggggagc-----gtgc-agagc-a--gc---a-cc-taatcttattaaccc
              Squirrel monkey  --ggacgaggagg-gg-caggggagc-----gtgc-agagc-g--gc---a-cc-taatcttattaaccc
                     Bushbaby  --ggacaaggagg-ag-cagggaag------gtgc-agagcaa--gc---c-cc-taatcttattaaccc
           Chinese tree shrew  --agatgaggagg-gg-cgagggagc-----gtgc-agagcga--ac---a-cc-taatctcattaaccc
                     Squirrel  --agataaagagg-gg-a-ggggagc-----gtgt-caaacaagaat------c-taatcttattaact-
       Lesser Egyptian jerboa  --agaccaggaggggg-c-caggagc-----gtgc-gaagcag--ac---g-gc-taatcttactaactg
                 Prairie vole  ---------------------ggtgc-----ccgc-ccggcaggagc--tc-gc-taatcttcttagccc
              Chinese hamster  --aggtgaggagg--g-c-tgggagc-----ctgc-cgagcagcagc--ta-ga-taatcttattagccc
               Golden hamster  --gggagaggagg--g-c-tgggagc-----ctgc-ccagcagaagc---a-gc-taatcttattagccc
                        Mouse  --gggtgaggagg-gg-t-tgggagc-----ttgc-ctagcag-agcaatg-gc-taatcttattagccc
                          Rat  --aggtgaggagg-ca-c-cgggagc-----tcgc-caaggag-agcagta-gc-taatctcattagccc
               Naked mole-rat  ---tgtgaggagg-gg-c-agggagc-----gcac-cgagccc--ac---c-cc-tgatcctattagcc-
                   Guinea pig  --ctgtgaggcag-gg-c-agggagt-----gtgc-caagcct--gc---c-ac-tgat-ctattagcc-
                   Chinchilla  ---tgtgaggagg-gg-c-agggagc-----gtgc-caagccc--gc---c-tg-tgatcctattagcc-
             Brush-tailed rat  --gtgtgaggagg-gg-c-agggagc-----gtgc-cgagccc--gc---c-gc-tgatcctattagcc-
                       Rabbit  --gcatgaggagg-gg-tagggcagc-----gtgc-ggagcga--gc---c-cc-taatcttattaaccc
                         Pika  --gcctggggagg-gg-t-gagtggc-----acac-ggagtaa--g----c-cc-taatctccttaaccc
                          Pig  --agaagaggacg-gg-caggggagc-----gtgc-agagcaa--gc---g-cc-taatctcattaaccc
                       Alpaca  --ggacgaagagg-gg-caggggact-----g--c-agagcaa--gc---g-cc-taatcttattaaccc
               Bactrian camel  --agacgaagagg-gg-cgggggact-----g--c-agagcaa--gc---g-cc-taatcttattaaccc
                      Dolphin  --agacgagggga-gg-cgggggagt-----gtgc-ggagcaa--gc---c-cc-taatcttattaacct
                 Killer whale  --agacgagggga-gg-cgagggagt-----gtgc-ggagcaa--gc---c-cc-taatcttattaacct
             Tibetan antelope  gaaggagagaaga-gg-cgggggagt-----gtac-ggagcaa--gc---g-cc-taatcttattaacct
                          Cow  ggaggagagaaga-gg-cgggggagt-----gtgc-agagcaa--gc---g-cc-taatcttattaacct
                        Sheep  gaaggagagaaga-gg-cgggggagt-----gtgc-ggagcaa--gc---g-cc-taatcttattaacct
                Domestic goat  gaaggagagaaga-gg-cgggggagt-----gtgc-ggagcaa--gc---a-cc-taatcttattaacct
                        Horse  --ggacaaggaga-gg-caggggagc-----gtgc-agagcaa--gc---c-cc-taatcttattaactg
             White rhinoceros  --ggacaagcagg-gg-caggggagc-----gtgc-atagcaa--gc---c-cc-taatcttgttaaccc
                          Cat  --ggacaaggagg-gg-caggggagc-----gtgc-cgagcaa--gc---a-cc-taatcttattaacct
                          Dog  --ggactaggagg-gg-cagggaagc-----atgcgggagcaa--gc---a-cc-taatcttattaacct
                      Ferret   --ggacaaggagg-gg-cagggggccatgcaatgc-agagcaa--gc---a-ct-taatcttattaactt
                        Panda  --ggacaagg-gg-gg-caggggagc-----gtgc-agagcaa--gc---a-ct-taatcttattaacct
               Pacific walrus  --ggacaaggagg-gg-cgggggagc-----ctgc-agagcaa--gc---g-ct-taatcttattaacct
                 Weddell seal  --ggacaaggagg-gg-caggggagc-----ctgc-agagcaa--gc---a-ct-taatcttattaacct
             Black flying-fox  --gggcaaggagg-gg-cagggcagt-----gtgc-agagcaa--gc---a-cc-taatcttattaacct
                      Megabat  --gggcgaggagg-gg-cagggcagt-----gtgc-agcgcaa--gc---a-cc-taatcttattaacct
                Big brown bat  --agaagaggagg-gg-cagggcagc-----gtgc-agagcaa--gc---a-gc-taatcttattaaccc
         David's myotis (bat)  --agaagaggagg-gg-ccgggcagc-----gtgc-agagcaa--gc---a-gc-taatcttatcaatcc
                     Microbat  --agaagaggagg-gg-cagggcagc-----gtgc-agagcca--gc---a-gc-taatcttattaatct
                     Hedgehog  --aggcaggggtg-gg-caggggaga-----gtgg-gag-caa--gc---a-cc-taatcttattaaccc
                        Shrew  -----------------cggcggggc-----ctgc-aga-ctc--gg---g-cc-tgatcctattagtgc
              Star-nosed mole  -----caggag-g-gg-caggggagc-----aggc-agagcaa--gc---t-ct-taatcttattaattt
                     Elephant  --ggacgaggagc-gg-cagagaact-----gtgc-agagcaa--gc---t-cc-taatctgattaaccc
          Cape elephant shrew  --gcacgag---------agaagacg-----ggac-acag--a--gc---t-cc-taatctgatcaacct
                      Manatee  --ggatgaggaga-gg-caggacact-----g--c-agagcaa--gc---t-tc-taatctgattaacct
             Cape golden mole  --gagaaggcacg-----atggggct-----gtgc-agaacaa--gc---t-cc-taatctaattagctg
                       Tenrec  --ggccgacgagg-----agtgggat-----gtgc-agcgcaa--gc---t-tc-taatctgatcacccg
                     Aardvark  --ggacgaggaga-ggccagggcact-----gtgc-ag-gcaa--gc---t-tc-taatctgattagctt
                    Armadillo  --agacgaggagg-ag---------t-----gtac-agagcat--gc---a-cc-taatcttactgcctt
                      Opossum  --tggatcgggtg-gg-aag-----------atgc-agggctg--gt---a-gt-taatcttcttaact-
              Tasmanian devil  --tggttggaatg-gg-aag-----------gtgc-agagcta--gc---a-gt-taatcttcttaact-
                      Wallaby  --tggatgggatg-gg-aag-----------gtgc-agagcta--gc---a-gt-taatcttcttaact-
                     Platypus  --acccttggagg-gg----gggcgg-----tcag-ggagcag--gt---a-ctgtaatctcatt-tcca
           American alligator  -------agaatg-gt---------------gtgt-aatgcaa--ga---aggc-taatctcataaatt-
                  Spotted gar  ======================================================================
                    Zebrafish  ======================================================================
                       Medaka  ======================================================================
       Yellowbelly pufferfish  ======================================================================
          Pundamilia nyererei  ======================================================================
                  Zebra mbuna  ======================================================================
        Burton's mouthbreeder  ======================================================================
          Princess of Burundi  ======================================================================
                 Nile tilapia  ======================================================================
                   Coelacanth  ======================================================================
                X. tropicalis  ======================================================================
                       Lizard  ======================================================================
       Spiny softshell turtle  ======================================================================
     Chinese softshell turtle  ======================================================================
               Painted turtle  ======================================================================
              Green seaturtle  ======================================================================
                       Turkey  ======================================================================
                      Chicken  ======================================================================
                 Mallard duck  ======================================================================
                   Budgerigar  ======================================================================
           Tibetan ground jay  ======================================================================
                  Zebra finch  ======================================================================
          Medium ground finch  ======================================================================
       White-throated sparrow  ======================================================================
          Collared flycatcher  ======================================================================
             Peregrine falcon  ======================================================================
                 Saker falcon  ======================================================================
                  Rock pigeon  ======================================================================
     Mexican tetra (cavefish)  ======================================================================
                    Tetraodon  ======================================================================
                         Fugu  ======================================================================

                        Human  atattaaggttac-taggggtttatt---tac
                        Chimp  atattaaggttac-taggggtttatt---tac
                      Gorilla  atattaaggttac-taggggtttatt---tac
                    Orangutan  atattaaggttac-taggggtttatt---tac
                       Gibbon  atattaaggttac-taggggtttatt---tac
                       Rhesus  atattaaggttac-taggggtttatt---tac
          Crab-eating macaque  atattaaggttac-taggggtttatt---tac
                       Baboon  atattaaggttac-taggggtttatt---tac
                 Green monkey  atattaaggttac-taggggtttatt---tac
                     Marmoset  atattgaggttac-tcagggtttatt---tgc
              Squirrel monkey  atattgaggttac-tcagggtttatt---tgc
                     Bushbaby  atattgaggttac-tcagggcttatt---ccc
           Chinese tree shrew  atattgaggttac-tcggggtttact---tgc
                     Squirrel  atattgaggttacacagggttttatt---tgc
       Lesser Egyptian jerboa  atattgaggctac-ccggtacttatc---cac
                 Prairie vole  atattgaggttac-ttggggtttatt---tgt
              Chinese hamster  atattgaggttac-ttggggtttatt---tgt
               Golden hamster  atattgaggttac-taggggtttatt---tgt
                        Mouse  atattgaggttgc-ctgggatttaca---t--
                          Rat  atattgaggttac-ttggggtttact---t--
               Naked mole-rat  atattgaggttac-tgggagtttact---tgc
                   Guinea pig  atgtcaaggttgc-tcagggtttcct---tgc
                   Chinchilla  atatcgaggttgc-ttggggtttact---tcc
             Brush-tailed rat  atatcaaggttgc-tcagggtttact---tcc
                       Rabbit  atattgaggttac-gtgaggtttatt---tgc
                         Pika  ctattgaggttgt-gtggggtttatt---tgc
                          Pig  gaattgaggttac-tcagggtttatt---ggc
                       Alpaca  gaattgaggttac-tcagggtttatt---ggc
               Bactrian camel  gaatttaggttgc-tcagggtttatt---ggc
                      Dolphin  gaattgaggttac-taagggtttatt---ggc
                 Killer whale  gaattgaggttac-taagggtttatt---ggc
             Tibetan antelope  gaattgaggttac-tcagggtttatt---gac
                          Cow  gaattgaggttac-tcagggtttatt---gac
                        Sheep  gaattgaggttac-tcagggtttatt---gac
                Domestic goat  gaattgaggttac-tcagggtttatt---gac
                        Horse  gtattgaggttac-tcggggtttatt---tgt
             White rhinoceros  gtattgaggttac-tcggggtttatt---tgt
                          Cat  atattgaggttac-ttggggtttatt---tgc
                          Dog  gtattgaggttac-ttggggtttatt---tgc
                      Ferret   gtattgaggttac-ttggggtttatt---tgc
                        Panda  gtattgaggttac-ttggggtttatt---tac
               Pacific walrus  gtattgaggttac-ttggggtttatt---tgc
                 Weddell seal  gtattgaggttac-ttggggtttatt---tgc
             Black flying-fox  g-attgaggttat-tgagggtttatt---tgc
                      Megabat  g-attgaggttat-tgagggtttatt---tgc
                Big brown bat  gtattgaggttac-tcagggtttatttgctgc
         David's myotis (bat)  gtattgaggtcac-tcggggtttatttgctgc
                     Microbat  gtattgaggtcac-tcagggtttatttgctgc
                     Hedgehog  atattgaggttac-tccaggtttatt---tgc
                        Shrew  ccctccaggtgac-tcacaggttatt---tgc
              Star-nosed mole  gtattgaggctac-tca-gggtttat---tgc
                     Elephant  gtattgaggtcac-tcagggtttatc---tgc
          Cape elephant shrew  gtattgaggtcac-ttggggtttatt---tgc
                      Manatee  gtattgaggtcac-ttggggtttact---tgc
             Cape golden mole  gcattgaggtca---------gtcct--atgc
                       Tenrec  g-attgaggtcgc-acagggtgtcct---tgc
                     Aardvark  gtattgaggtcac-tca--gtttatt---tgt
                    Armadillo  gtgttgaggttac-ccaggcttaatt---tgc
                      Opossum  atattaaggttac-tcaagatttata---ggt
              Tasmanian devil  atattaaggttac-tcaagatttata---tgc
                      Wallaby  atattaaggttac-tcaaggtttatg---tgc
                     Platypus  ggattaaggccct-ttgggaattact---gac
           American alligator  gtattaaggttac-ttaggaattatt---agc
                  Spotted gar  ================================
                    Zebrafish  ================================
                       Medaka  ================================
       Yellowbelly pufferfish  ================================
          Pundamilia nyererei  ================================
                  Zebra mbuna  ================================
        Burton's mouthbreeder  ================================
          Princess of Burundi  ================================
                 Nile tilapia  ================================
                   Coelacanth  ================================
                X. tropicalis  ================================
                       Lizard  ================================
       Spiny softshell turtle  ================================
     Chinese softshell turtle  ================================
               Painted turtle  ================================
              Green seaturtle  ================================
                       Turkey  ================================
                      Chicken  ================================
                 Mallard duck  ================================
                   Budgerigar  ================================
           Tibetan ground jay  ================================
                  Zebra finch  ================================
          Medium ground finch  ================================
       White-throated sparrow  ================================
          Collared flycatcher  ================================
             Peregrine falcon  ================================
                 Saker falcon  ================================
                  Rock pigeon  ================================
     Mexican tetra (cavefish)  ================================
                    Tetraodon  ================================
                         Fugu  ================================

Inserts between block 1 and 2 in window
B D                 Platypus 3447bp

Alignment block 2 of 50 in window, 42695428 - 42695428, 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  t
       Lesser Egyptian jerboa  t
                 Prairie vole  c
B D           Chinese hamster  t
               Golden hamster  t
B D            Naked mole-rat  c
B D                Guinea pig  c
                   Chinchilla  c
             Brush-tailed rat  a
B D                    Rabbit  t
B D                      Pika  t
B D                       Pig  t
B D                    Alpaca  t
               Bactrian camel  t
B D                   Dolphin  t
                 Killer whale  t
             Tibetan antelope  t
B D                       Cow  t
B D                     Sheep  t
                Domestic goat  t
B D                     Horse  t
B D          White rhinoceros  t
B D                       Cat  t
B D                       Dog  t
B D                   Ferret   t
B D                     Panda  t
               Pacific walrus  t
                 Weddell seal  t
             Black flying-fox  t
B D                   Megabat  t
                Big brown bat  t
         David's myotis (bat)  t
B D                  Microbat  t
B D                  Hedgehog  c
B D                     Shrew  t
              Star-nosed mole  t
B D                  Elephant  t
          Cape elephant shrew  t
B D                   Manatee  t
             Cape golden mole  t
B D                    Tenrec  t
                     Aardvark  g
B D                 Armadillo  t
B D                   Opossum  c
B D           Tasmanian devil  c
B D                   Wallaby  c
B D        American alligator  t
B D                     Mouse  -
B D                       Rat  -
                 Spotted gar  =
B D                 Zebrafish  =
B D                    Medaka  =
      Yellowbelly pufferfish  =
         Pundamilia nyererei  =
                 Zebra mbuna  =
       Burton's mouthbreeder  =
         Princess of Burundi  =
B D              Nile tilapia  =
B D                Coelacanth  =
B D             X. tropicalis  =
B D                    Lizard  =
  D    Spiny softshell turtle  =
  D  Chinese softshell turtle  =
  D            Painted turtle  =
  D           Green seaturtle  =
B D                    Turkey  =
B D                   Chicken  =
  D              Mallard duck  =
B D                Budgerigar  =
          Tibetan ground jay  =
B D               Zebra finch  =
B D       Medium ground finch  =
  D    White-throated sparrow  =
  D       Collared flycatcher  =
  D          Peregrine falcon  =
  D              Saker falcon  =
  D               Rock pigeon  =
B D                  Platypus  =
    Mexican tetra (cavefish)  =
B D                 Tetraodon  =
B D                      Fugu  =

Inserts between block 2 and 3 in window
B D       American alligator 1378bp

Alignment block 3 of 50 in window, 42695429 - 42695471, 43 bps 
B D                     Human  ------------g------gca------------------------------------------------
B D                     Chimp  ------------g------gca------------------------------------------------
B D                   Gorilla  ------------g------gca------------------------------------------------
B D                 Orangutan  ------------g------gca------------------------------------------------
B D                    Gibbon  ------------g------gca------------------------------------------------
B D                    Rhesus  ------------g------gca------------------------------------------------
B D       Crab-eating macaque  ------------g------gca------------------------------------------------
B D                    Baboon  ------------g------gca------------------------------------------------
B D              Green monkey  ------------g------gca------------------------------------------------
B D                  Marmoset  ------------g------gca------------------------------------------------
B D           Squirrel monkey  ------------g------gca------------------------------------------------
B D                  Bushbaby  ------------g------aca------------------------------------------------
           Chinese tree shrew  ------------g------gga------------------------------------------------
B D                  Squirrel  ------------g------gcg------------------------------------------------
       Lesser Egyptian jerboa  ------------g------gta------------------------------------------------
                 Prairie vole  ------------g------gtg------------------------------------------------
B D           Chinese hamster  ------------g------atg------------------------------------------------
               Golden hamster  ------------g------atg------------------------------------------------
B D                     Mouse  ------------g------gtg------------------------------------------------
B D                       Rat  ------------g------gtg------------------------------------------------
B D            Naked mole-rat  ------------acgcc-agca------------------------------------------------
B D                Guinea pig  ------------atgccaagca------------------------------------------------
                   Chinchilla  ------------aggcc--gca------------------------------------------------
             Brush-tailed rat  ------------ggcct--gca------------------------------------------------
B D                    Rabbit  ------------g------gca------------------------------------------------
B D                      Pika  ------------g------gca------------------------------------------------
B D                       Pig  ------------g------gtg------------------------------------------------
B D                    Alpaca  ------------g------gtg------------------------------------------------
               Bactrian camel  ------------g------gtg------------------------------------------------
B D                   Dolphin  ------------g------gtg------------------------------------------------
                 Killer whale  ------------g------gtg------------------------------------------------
             Tibetan antelope  ------------g------ggg------------------------------------------------
B D                       Cow  ------------g------gtg------------------------------------------------
B D                     Sheep  ------------g------ggg------------------------------------------------
                Domestic goat  ------------t------ggg------------------------------------------------
B D                     Horse  ------------g------gtg------------------------------------------------
B D          White rhinoceros  ------------g------gtg------------------------------------------------
B D                       Cat  ------------g------gtg------------------------------------------------
B D                       Dog  ------------g------atg------------------------------------------------
B D                   Ferret   ------------g------gtg------------------------------------------------
B D                     Panda  ------------g------gtg------------------------------------------------
               Pacific walrus  ------------g------gtg------------------------------------------------
                 Weddell seal  ------------g------gtg------------------------------------------------
             Black flying-fox  ------------g------gtg------------------------------------------------
B D                   Megabat  ------------g------gtg------------------------------------------------
                Big brown bat  ------------g------gtg------------------------------------------------
         David's myotis (bat)  ------------g------gtg------------------------------------------------
B D                  Microbat  ------------g------gtg------------------------------------------------
B D                  Hedgehog  ------------g------gtg------------------------------------------------
B D                     Shrew  ------------g------g-a------------------------------------------------
              Star-nosed mole  ------------g---------------------------------------------------------
B D                  Elephant  ------------g------gtg------------------------------------------------
          Cape elephant shrew  ------------g------gtg------------------------------------------------
B D                   Manatee  ------------g------gtg------------------------------------------------
             Cape golden mole  ------------a------gga------------------------------------------------
B D                    Tenrec  ------------g------gtg------------------------------------------------
                     Aardvark  ------------g------gtg------------------------------------------------
B D                 Armadillo  ------------a------gtgttggtgaacacctgcccccactgccccctggcctcagtgctcagtacc
B D                   Opossum  ctgaagttaccag------cta------------------------------------------------
B D           Tasmanian devil  ttgaagttactag------cta------------------------------------------------
B D                   Wallaby  ctgaagttactag------cta------------------------------------------------
                 Spotted gar  ======================================================================
B D                 Zebrafish  ======================================================================
B D                    Medaka  ======================================================================
      Yellowbelly pufferfish  ======================================================================
         Pundamilia nyererei  ======================================================================
                 Zebra mbuna  ======================================================================
       Burton's mouthbreeder  ======================================================================
         Princess of Burundi  ======================================================================
B D              Nile tilapia  ======================================================================
B D                Coelacanth  ======================================================================
B D             X. tropicalis  ======================================================================
B D                    Lizard  ======================================================================
  D    Spiny softshell turtle  ======================================================================
  D  Chinese softshell turtle  ======================================================================
  D            Painted turtle  ======================================================================
  D           Green seaturtle  ======================================================================
B D                    Turkey  ======================================================================
B D                   Chicken  ======================================================================
  D              Mallard duck  ======================================================================
B D                Budgerigar  ======================================================================
          Tibetan ground jay  ======================================================================
B D               Zebra finch  ======================================================================
B D       Medium ground finch  ======================================================================
  D    White-throated sparrow  ======================================================================
  D       Collared flycatcher  ======================================================================
  D          Peregrine falcon  ======================================================================
  D              Saker falcon  ======================================================================
  D               Rock pigeon  ======================================================================
B D                  Platypus  ======================================================================
    Mexican tetra (cavefish)  ======================================================================
B D                 Tetraodon  ======================================================================
B D                      Fugu  ======================================================================
B D        American alligator  ======================================================================

                        Human  -------gctcagtcccaggcttgaag-ca-t-gttgtaaa-------------------gaagctg---
                        Chimp  -------gctcagtcccaggcttgaag-ca-t-gttgtaaa-------------------gaagctg---
                      Gorilla  -------gctcagtcccaggcttgaag-ca-t-gttgtaaa-------------------gaagctg---
                    Orangutan  -------gctcagtcccgggcttgaag-ca-t-gttgtaaa-------------------gaagctg---
                       Gibbon  -------gctcagtcccgggcttgaag-ca-t-gttgtaaa-------------------gaagctg---
                       Rhesus  -------gctcagtcctgggcttgaag-ca-t-gttgtaaa-------------------gaagttg---
          Crab-eating macaque  -------gctcagtcctgggcttgaag-ca-t-gttgtaaa-------------------gaagttg---
                       Baboon  -------gctcagtcctgggcttgaag-ca-t-gttgtaaa-------------------gaagctg---
                 Green monkey  -------gctcagtcctgggcttgaag-ca-t-gttgtaaa-------------------gaagctg---
                     Marmoset  -------gctcagccctgggcttgaag-ca-t-gttgtaaa-------------------gaagctg---
              Squirrel monkey  -------gctcaggcctgggcttgaag-ca-t-gtagtaaa-------------------gaagctg---
                     Bushbaby  -------actcagttctgggtttgaag-ca-t-gttgcaaa-------------------gaggctg---
           Chinese tree shrew  -------gctcagtcctgggcttgaag-ca-t-gttgc-aa-------------------gagactg---
                     Squirrel  -------gctcatccctgggcttgaag-catt-gttggcag-------------------aa-gcta---
       Lesser Egyptian jerboa  -------gctcagccttgcacctgaag-ca-t-gttggagg-------------------aa-gttg---
                 Prairie vole  -------gcttagtcttgagcttgaagcca-t-gccgaagg-------------------ga-gttg---
              Chinese hamster  -------acttagtcttgagcttgaag-ca-t-gccaaagg-------------------ga-gttg---
               Golden hamster  -------gcttagtcttgagcttgaaa-ca-t-gccaaagg-------------------ga-tctg---
                        Mouse  -------gcttagttttgagctggaag-ca-t-gtcaagag-------------------aa-gttg---
                          Rat  -------gcttagttttgagctggaaa-ca-t-gccaaaag-------------------ga-gttg---
               Naked mole-rat  -------gctcagccctagcctcgaag-ca-t-gacccaaa-------------------g---------
                   Guinea pig  -------gctcagccctgggcttgcag-gg-t-gatttaaa-------------------g---------
                   Chinchilla  -------cctcagtcctgggcttgta--ca-c-agtccaaa-------------------g---------
             Brush-tailed rat  -------gctcagctctgagcttgcag-ca-t-gaggcaaa-------------------g---------
                       Rabbit  -------acccagtcctgggcttgaag-ct-t-gttgcaag-------------------aa-gctg---
                         Pika  -------gtccaaacctgtgcttgaaa-ct-tagttgcgaa-------------------aa-gcta---
                          Pig  -------gctcagtcctgggcttgaag--a-t-gttgcagg-------------------ag-gcta---
                       Alpaca  -------gctcagtcctgggcttgaaa--a-t-gttg--gg-------------------ag-gcta---
               Bactrian camel  -------gctcagtcctgggcttgaaa--a-t-gttg--gg-------------------ag-gcta---
                      Dolphin  -------gctcagtcctgggcttgaaa--a-t-attgcaag-------------------ag-gctg---
                 Killer whale  -------gctcagtcctgggcttgaaa--a-t-attgcaag-------------------ag-gctg---
             Tibetan antelope  -------gctcagtcctgggcttgaac--a-t-gctgcagg-------------------ag-gctg---
                          Cow  -------gctcagtcctaggcttgaaa--a-t-gctgcagg-------------------ag-actg---
                        Sheep  -------gctcagtcctgggcttgaaa--a-t-gctgcagg-------------------ag-gctg---
                Domestic goat  -------gctcagtcctgggcttgaca--a-t-gctgcagg-------------------ag-gctg---
                        Horse  -------gctcagtcctgggcttgaaa--g-t-gttgcaag-------------------ag-gcca---
             White rhinoceros  -------tctcagtcctgggcttgaaa--g-t-gttgcaag-------------------aa-gctg---
                          Cat  -------gttcggtcctggacttgaac--g-t-gttgcaag-------------------aa-gcta---
                          Dog  -------gctcagtcctaggcttgaaa--g-c-gttgca---------------------aa-gcta---
                      Ferret   -------gctcagctctgcgctggaca--g-t-gttgcaag-------------------ag-actg---
                        Panda  -------gctcagtcctgggcttgaaa--g-t-gttgcaag-------------------ag-gcta---
               Pacific walrus  -------gctcagtcctgggctcgaaa--g-t-gttgcaaaaaaaaaaaa----------ag-gcta---
                 Weddell seal  -------gctcagtcctgggcttgaaa--g-t-gttgcaaaaaaaaaaaaaaaaaaaaagag-gcta---
             Black flying-fox  -------cctcagtcctg-gcttgaaa--g-t-gttgcaag-------------------ag-ggta---
                      Megabat  -------cctcagtcctg-gcttgaaa--g-t-gttgcaag-------------------ag-ggta---
                Big brown bat  -------gctcagtcctg-gttttaat--g-t-gttgcaag-------------------aa-acta---
         David's myotis (bat)  -------gctcagtcctg-gtttcaat--g-t-attgcaac-------------------ag-ac-----
                     Microbat  -------gctcagtcctg-gtttcagt--g-t-attgcaac-------------------ag-actg---
                     Hedgehog  -------gctcagtcctggacctgaaa-tg-t-gttataag-------------------ag-actg---
                        Shrew  -------gctcagacctaggctggcaa-ct-t-ggtacaga-------------------ag-gtca---
              Star-nosed mole  ----------------------------------------------------------------------
                     Elephant  -------gcacagccctgggcttgaag-ca-t-gttgcacg-------------------ag-gcag---
          Cape elephant shrew  -------gctcagccctgggtttgaag-ca-t-gttgcagg-------------------aa-ggaggct
                      Manatee  -------gcacagtcctgggcttgaag-ca-t-gttgcaca-------------------gg-gctg---
             Cape golden mole  -------gcattttgcagttcttgaag-------------------------------------------
                       Tenrec  -------gctctggcctgggctcgaag-cc-t-gct----------------------------------
                     Aardvark  -------actcagtcttggtcttgaag-ca-t-gttgcgtg-------------------ag-gttg---
                    Armadillo  tgcctcttctcagttctggacttgaaa-ca-t-gttgcaag-------------------ag-gctatct
                      Opossum  -------gctgtatttaggtcctggaa-ga-t-att---ag-------------------aa-gttg---
              Tasmanian devil  -------gctgtatttaggacctgaaa-ga-t-----------------------------a-attg---
                      Wallaby  -------gctgtactcaagacctgaaa-ga-t-att---ag-------------------aa-gttg---
                  Spotted gar  ======================================================================
                    Zebrafish  ======================================================================
                       Medaka  ======================================================================
       Yellowbelly pufferfish  ======================================================================
          Pundamilia nyererei  ======================================================================
                  Zebra mbuna  ======================================================================
        Burton's mouthbreeder  ======================================================================
          Princess of Burundi  ======================================================================
                 Nile tilapia  ======================================================================
                   Coelacanth  ======================================================================
                X. tropicalis  ======================================================================
                       Lizard  ======================================================================
       Spiny softshell turtle  ======================================================================
     Chinese softshell turtle  ======================================================================
               Painted turtle  ======================================================================
              Green seaturtle  ======================================================================
                       Turkey  ======================================================================
                      Chicken  ======================================================================
                 Mallard duck  ======================================================================
                   Budgerigar  ======================================================================
           Tibetan ground jay  ======================================================================
                  Zebra finch  ======================================================================
          Medium ground finch  ======================================================================
       White-throated sparrow  ======================================================================
          Collared flycatcher  ======================================================================
             Peregrine falcon  ======================================================================
                 Saker falcon  ======================================================================
                  Rock pigeon  ======================================================================
                     Platypus  ======================================================================
     Mexican tetra (cavefish)  ======================================================================
                    Tetraodon  ======================================================================
                         Fugu  ======================================================================
           American alligator  ======================================================================

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

Inserts between block 3 and 4 in window
B D                  Opossum 807bp
B D          Tasmanian devil 3bp
B D                  Wallaby 516bp

Alignment block 4 of 50 in window, 42695472 - 42695487, 16 bps 
B D                     Human  gggtt----ctggaact-gag
B D                     Chimp  gggtt----ctggaact-gag
B D                   Gorilla  gggtt----cttgaact-gag
B D                 Orangutan  gggtt----ctggaact-gag
B D                    Gibbon  gggtt----ctggaact-gag
B D                    Rhesus  gggtt----ctggaact-gag
B D       Crab-eating macaque  gggtt----ctggaact-gag
B D                    Baboon  gggtt----ctggaact-gag
B D              Green monkey  gggtt----ctggaact-gag
B D                  Marmoset  gggtt----ctggaact-gag
B D           Squirrel monkey  ggttt----ctggaact-gag
B D                  Bushbaby  aggtt----cttgaact-cgg
           Chinese tree shrew  gggtt----cttgagcc-gaa
B D                  Squirrel  gggtt----cttgaact-cgg
       Lesser Egyptian jerboa  aaggtt---ctttggct-gag
                 Prairie vole  gggctcttatctgagct-gag
B D           Chinese hamster  aggttcttacttgagct-gag
               Golden hamster  aggttctcacttgaggt-gag
B D                     Mouse  aggttcttacttgagct-gag
B D                       Rat  aagttctaactttagct-ggg
B D                    Rabbit  gggtt----cttgagct-gag
B D                      Pika  gagtt----cttgagct-gag
B D                       Pig  gggtc----cttgagct-gag
B D                    Alpaca  ggttt----cctgagat-gag
               Bactrian camel  ggttt----cctgagat-gag
B D                   Dolphin  gggct----cttgagct-gag
                 Killer whale  gggct----cttgagct-gag
             Tibetan antelope  gtggt----cttgagct-gag
B D                       Cow  gtggt----cttgagct-gag
B D                     Sheep  gtggt----cttgagct-gag
                Domestic goat  gtggt----cttgagct-gag
B D                     Horse  gggtt----cttgaact-gag
B D          White rhinoceros  gggtt----ctagaact-gag
B D                       Cat  gggtt----cttgaact-gaa
B D                       Dog  gggtt----cttaaact-gaa
B D                   Ferret   gggtt----cttaaactgaaa
B D                     Panda  gggtt----cttaaact-aaa
               Pacific walrus  gggat----cttaaact-gaa
                 Weddell seal  gggat----cttaaact-aaa
             Black flying-fox  ggatt----catgagct-gag
B D                   Megabat  ggatt----catgagct-gag
                Big brown bat  gggtt----attgagct-gag
         David's myotis (bat)  gggtt----attgagct-gag
B D                  Microbat  gggtt----attgagct-gag
B D                  Hedgehog  ggttt----ctggaacc-aaa
B D                     Shrew  aagct----cctgagct-gag
B D                  Elephant  gggtt----cttgagct-gag
          Cape elephant shrew  gggat----tttgagca-gag
B D                   Manatee  gggtt----cttgagct-gag
             Cape golden mole  ----------------t-gag
B D                    Tenrec  --------------gcc-caa
                     Aardvark  gggtt----cttgagct-gag
B D                 Armadillo  gggtt----cttgagct-gag
B D           Tasmanian devil  atgtt----ctcagtct-gtg
B D                Guinea pig  ---------------------
            Brush-tailed rat  ---------------------
                  Chinchilla  ---------------------
             Star-nosed mole  ---------------------
                 Spotted gar  =====================
B D                 Zebrafish  =====================
B D                    Medaka  =====================
      Yellowbelly pufferfish  =====================
         Pundamilia nyererei  =====================
                 Zebra mbuna  =====================
       Burton's mouthbreeder  =====================
         Princess of Burundi  =====================
B D              Nile tilapia  =====================
B D                Coelacanth  =====================
B D             X. tropicalis  =====================
B D                    Lizard  =====================
  D    Spiny softshell turtle  =====================
  D  Chinese softshell turtle  =====================
  D            Painted turtle  =====================
  D           Green seaturtle  =====================
B D                    Turkey  =====================
B D                   Chicken  =====================
  D              Mallard duck  =====================
B D                Budgerigar  =====================
          Tibetan ground jay  =====================
B D               Zebra finch  =====================
B D       Medium ground finch  =====================
  D    White-throated sparrow  =====================
  D       Collared flycatcher  =====================
  D          Peregrine falcon  =====================
  D              Saker falcon  =====================
  D               Rock pigeon  =====================
B D                  Platypus  =====================
B D                   Wallaby  =====================
    Mexican tetra (cavefish)  =====================
B D                 Tetraodon  =====================
B D                      Fugu  =====================
B D        American alligator  =====================
B D                   Opossum  =====================
B D            Naked mole-rat  ---------------------

Inserts between block 4 and 5 in window
      Lesser Egyptian jerboa 824bp
B D                    Shrew 1329bp

Alignment block 5 of 50 in window, 42695488 - 42695564, 77 bps 
B D                     Human  gccaa-aaattct-agg--aca--cagcttcccaaatat---tcagga-t-a----gtcatcac--ctgt
B D                     Chimp  gccaa-aaattct-agg--aca--cagcttcccaaatat---tcagga-t-a----gtcatcac--ctgt
B D                   Gorilla  gccaa-aaattat-agg--aca--cagcttcccaaatat---tcagga-t-a----gtcatcac--ctgt
B D                 Orangutan  gccaa-aaattct-agg--aca--cagcttcccaaatat---tcagga-t-a----gtcatcac--ctgt
B D                    Gibbon  gccaa-aaattct-agg--aca--cggcttcccaaatat---tcagga-t-a----gtcatcac--ctgt
B D                    Rhesus  gccaa-aaattcc-agg--aca--cagcttcccaaatat---tcagga-t-a----gtcatcac--ctgt
B D       Crab-eating macaque  gccaa-aaattcc-agg--aca--cagcttcccaaatat---tcagga-t-a----gtcatcac--ctgt
B D                    Baboon  gccaa-aaattcc-agg--aca--cagcttcccaaatat---tcagga-t-a----gtcatcac--ctgt
B D              Green monkey  gccaa-aaattcc-agg--aca--caacttcccaaatat---tcagga-t-a----gtcatcac--ctgt
B D                  Marmoset  gccac-aaattct-aggacaca--caacttcccaaatat---tcagga-t-a----gccatcac--ctgt
B D           Squirrel monkey  gccac-aaattct-aggacaca--caacttcccaaatat---tcagga-t-a----gtcatcac--ctgt
B D                  Bushbaby  gccat-aaattct-agg--acacccagcttcctaaatgt---tcagaa-taa----ggaatca-------
           Chinese tree shrew  gccac-aaactct-agg--acaagcagcttcctgaatgt---tcagaa-t-aagtcgctatcgc--ctgc
B D                  Squirrel  gctac-aaattct-agg--atacctggcttcctaaatat---tcagta-t-tggaacccattgc--ctac
                 Prairie vole  actac-aaactccaagg--agtcctgcctctctgggcgg---tcagca-t-aagaagccaccaa--ctgt
B D           Chinese hamster  actac-aaactcccagg--a--------ttgctgggtat---tcagca-c-aagaagccaccaa--gtgg
               Golden hamster  actaa-aaactctcggg--a--------ttgctgggtat---ttagca-c-aaaaagccaccaa--gtgg
B D                     Mouse  acgac-aaactcccagg--attcctgcctttctggtcat---tgagca-t-aagaaaccatcaa--ctgt
B D                       Rat  actac-aaactcccagg--attcctgcccttctgggtgc---tgagca-t-aagaagtcaccaa--ctgt
B D            Naked mole-rat  gctac-gaattcc-agg--acacccag-ctgctgtgt-----tgtgca-t-gaaaagccatggc--ctc-
B D                Guinea pig  gcttt-gcgttct-agg---------g-cacctgtgta---------------------attgc--ctct
                   Chinchilla  gccgc-aaatgcc-agg----gcctgg-ctgccgggtatccataagca-t-gagaggctgttgc--ctcc
             Brush-tailed rat  gctac-gaattcc-agg--acaccctg-cttccgggtatacatgagct-c-gaaaggccactgc--cttc
B D                    Rabbit  gccat-aaattcc-agg--acacccgg-cttcctaatgt-------ga-g-aagttgttgtcac--cgat
B D                      Pika  gcaat-aaattcc-agg--atacccag-------aaggt---ccagag-g-aagaggcggtcac--ccgc
B D                       Pig  gccac-agattct-agg--gcagctatcttcctaaatgt---tcagaa-t-aaatagctattac---tac
B D                    Alpaca  gccac-agattct-agg--acacttatctttctaaatgt---tcagaa-t-aagtagctattac---tac
               Bactrian camel  gccac-agactgt-agg--acacctatctttctaaatgt---tcggaa-t-aagtagctattac---tac
B D                   Dolphin  gctgc-agacact-agg--acacttatcttcctaaatgt---tgggaa-t-a---agtagctat---tac
                 Killer whale  gctgc-agacact-agg--acacttatcttcctaaatgt---tgggaa-t-a---agtagctat---tac
             Tibetan antelope  gccac-agatact-aag--acacctat-----taaatgt---tcggaa-t-----ggctgttac---tgc
B D                       Cow  gccac-agatatt-aag--acacctat-----taaatgt---tcggaa-t-----agctgttac---tgc
B D                     Sheep  gccac-agatact-gag--acacctat-----taaatgt---tcggaa-t-----agctgttac---tgc
                Domestic goat  gccac-agatact-aag--acacctat-----taaatgt---tcggaa-t-----agctgttac---tgc
B D                     Horse  cccac-aaattct-aga--acacctgccttcctaaatgt---tcagaa-t-aagtagttattat--ctac
B D          White rhinoceros  gccac-aatttct-agg--acacttgtcttcctaaatgt---tcagaa-t-aagcagctattac--ctat
B D                       Cat  gccac-agattcc-agc--acacttgtcttcctaaatgt---tcaaaa-t-aagcagctagtac--ctgc
B D                       Dog  accac-agattct-agc--atatttgtcttcaaaaatgt---tcaaaa-t-aagcagctaggac--ctac
B D                   Ferret   gccac-ggattct-agg--atacttgtcttcctaaacgt---tcaagaat-aagtaactagtac--ttac
B D                     Panda  gccac-agattct-agg--atacttgccttcctaaatat---tcaaaact-aagcagctagtac--ctac
               Pacific walrus  gccac-agattct-agg--atacttgtcttcctaaatgt---tcaaaaat-aagcagctagtac--ctac
                 Weddell seal  gccac-agattct-agg--atacttgtcttcctaaatgt---tcaaaaat-aagcagctagtac--ttac
             Black flying-fox  gccac-aaattct-aga--acacccatcttgctttatgt---tcagaa-t-aagtaactcgtcc--ctgt
B D                   Megabat  gccac-aaattct-aga--acacccatcttgctttatgt---tcagaa-t-aagtaactagtcc--ctgt
                Big brown bat  gccac-aaattct-agg--aaacccaccttcctaaatgt---tcagaa-t-aagca----ttgc--atac
         David's myotis (bat)  gccac-aaattcc-agg--aaatccaccttcctaaatgt---tcagaa-t-aagta----ttgc--atac
B D                  Microbat  gccac-aaattct-agg--aaatccaccttcctaaatgt---tcagaa-t-aagca----ttgc--atac
B D                  Hedgehog  gctac-aaattct-agg----atttattttcctaaatgt---tcagaa-t-aagtacttatttt-----c
              Star-nosed mole  --------------------------gtgccctaaacat---tcagaa-t-aagtaactatttttaccgc
B D                  Elephant  gccac-aaatccc-agg--acacccctctttctgaaggg---gcagaa-t-aagtagctattac--ctgc
          Cape elephant shrew  gcctc-acttcct-agg--gca-------ttctgaatgt---tcagaa-a-atgtagctg-cac--ctac
B D                   Manatee  gccac-aaat-ct-agg--acactcctctttctgcaagt---tcagaa-t-aagtagctattac--ctgc
             Cape golden mole  gccactttatcct-aga--acgcttccctttct-aaaaa---tgagaa-t-aagtacctatgac--ctgc
B D                    Tenrec  gacac-acatcct-aga--cc-cttctctttcc-aaagt---tcagaa-c-aa----tgagtac--ctcc
                     Aardvark  gccac-aaatccc-agg--acacctctctttctaaaagt---tgagaa-t-aagc-----tcat--ctgc
B D                 Armadillo  gccac-aaattct-ggg--atatccctcttcctacattt---tcagaa-t-aagtagtcattcc--ctgc
B D           Tasmanian devil  --cac-aaatcct-tta--caa------tccataaatgt---tctaaa-t-a---aacttacag--cttc
B D                     Shrew  ======================================================================
      Lesser Egyptian jerboa  ======================================================================
                 Spotted gar  ======================================================================
B D                 Zebrafish  ======================================================================
B D                    Medaka  ======================================================================
      Yellowbelly pufferfish  ======================================================================
         Pundamilia nyererei  ======================================================================
                 Zebra mbuna  ======================================================================
       Burton's mouthbreeder  ======================================================================
         Princess of Burundi  ======================================================================
B D              Nile tilapia  ======================================================================
B D                Coelacanth  ======================================================================
B D             X. tropicalis  ======================================================================
B D                    Lizard  ======================================================================
  D    Spiny softshell turtle  ======================================================================
  D  Chinese softshell turtle  ======================================================================
  D            Painted turtle  ======================================================================
  D           Green seaturtle  ======================================================================
B D                    Turkey  ======================================================================
B D                   Chicken  ======================================================================
  D              Mallard duck  ======================================================================
B D                Budgerigar  ======================================================================
          Tibetan ground jay  ======================================================================
B D               Zebra finch  ======================================================================
B D       Medium ground finch  ======================================================================
  D    White-throated sparrow  ======================================================================
  D       Collared flycatcher  ======================================================================
  D          Peregrine falcon  ======================================================================
  D              Saker falcon  ======================================================================
  D               Rock pigeon  ======================================================================
B D                  Platypus  ======================================================================
B D                   Wallaby  ======================================================================
    Mexican tetra (cavefish)  ======================================================================
B D                 Tetraodon  ======================================================================
B D                      Fugu  ======================================================================
B D        American alligator  ======================================================================
B D                   Opossum  ======================================================================

                        Human  ttcttcaccgt--------ggagtgagcattt------
                        Chimp  ttcttcactgt--------ggagtgagcattt------
                      Gorilla  ttcttcactgt--------ggagtgagcattt------
                    Orangutan  ttcttcactat--------ggagtgagcattt------
                       Gibbon  ttcttcactat--------ggagtgagcattt------
                       Rhesus  ttcttcactat--------ggagtgagcattt------
          Crab-eating macaque  ttcttcactat--------ggagtgagcattt------
                       Baboon  ttcttcactat--------ggagtgagcattt------
                 Green monkey  ttcttcactat--------ggagtgagcattt------
                     Marmoset  tccttcactat--------ggagtgagcattt------
              Squirrel monkey  tccttcactat--------ggagtgagcattt------
                     Bushbaby  tacttcactat--------ggaatgagtgttt------
           Chinese tree shrew  ttctttgctat--------ggaatgcatgtct------
                     Squirrel  taattccc------------taaacagtgact------
                 Prairie vole  tacttc--------------------------------
              Chinese hamster  tatttcac------------tagagaatgttt------
               Golden hamster  tatttcag------------tagagaacg-tt------
                        Mouse  tgttttac------------tagagactgttt------
                          Rat  tgttttgc------------tagagactgttt------
               Naked mole-rat  --ctctga------------ggactg-ggatt------
                   Guinea pig  tgctctgt------------ggggtgagagtc------
                   Chinchilla  tgctgtgc------------ggggtgagggtt------
             Brush-tailed rat  tgctctgt------------ggggtgaggatt------
                       Rabbit  ttcttcac---------------tgagtgttc------
                         Pika  ttctccaccgg--------gaagtgagagttc------
                          Pig  tccctcactat--------ggagtaac----t------
                       Alpaca  actctcgctat--------ggagtaactgctt------
               Bactrian camel  actctcactat--------ggagtaaccgctt------
                      Dolphin  tacttcactat--------ggagtaattgttt------
                 Killer whale  tacttcactat--------ggagtaattgttt------
             Tibetan antelope  tccttcactgt--------ggagtagttgttt------
                          Cow  tccttcactgt--------ggagtagttgttt------
                        Sheep  tccttcactgt--------ggagtagttgttt------
                Domestic goat  tccttcactgt--------ggaatagttgttt------
                        Horse  ttcacta---t--------ggagc----gttt------
             White rhinoceros  ttcacta---t--------ggagt----gttt------
                          Cat  ttcttcactctggag----aaagt----gttt------
                          Dog  ttcttca---atat-----ggaat----gttt------
                      Ferret   ttcacca---tgggg----taagt----gttt------
                        Panda  ttcacta---tggggtggttaagt----gttt------
               Pacific walrus  ctag---------------tacct----gttt------
                 Weddell seal  cttg---------------tacct----gttt------
             Black flying-fox  ttcttcactat--------ggagt------tt------
                      Megabat  ttcttcactat--------ggcgt------tt------
                Big brown bat  ttctacactgt--------ggagt--------------
         David's myotis (bat)  ttctgcactgt--------ggaat----gttt------
                     Microbat  ttctgcactgt--------ggagt----gttt------
                     Hedgehog  tacttcactat--------gggctgagtgttt------
              Star-nosed mole  ttctgtacagt--------ggagttagtgttt------
                     Elephant  ttcttcatttt--------gaagtgaatgttt------
          Cape elephant shrew  ttc-----ttt--------aaagtgaatgttt------
                      Manatee  ttcttcacttt--------gaagtgaatgttt------
             Cape golden mole  ttcttcacttc--------tgggtgactgttt------
                       Tenrec  tcctctgcctc--------agagtgacagctt------
                     Aardvark  ttcctcactt-------------ggaatgttt------
                    Armadillo  ttcgtcaccat--------g----gagtgttt------
              Tasmanian devil  tatttcatgat--------gggtt--ttatttgatttt
                        Shrew  ======================================
       Lesser Egyptian jerboa  ======================================
                  Spotted gar  ======================================
                    Zebrafish  ======================================
                       Medaka  ======================================
       Yellowbelly pufferfish  ======================================
          Pundamilia nyererei  ======================================
                  Zebra mbuna  ======================================
        Burton's mouthbreeder  ======================================
          Princess of Burundi  ======================================
                 Nile tilapia  ======================================
                   Coelacanth  ======================================
                X. tropicalis  ======================================
                       Lizard  ======================================
       Spiny softshell turtle  ======================================
     Chinese softshell turtle  ======================================
               Painted turtle  ======================================
              Green seaturtle  ======================================
                       Turkey  ======================================
                      Chicken  ======================================
                 Mallard duck  ======================================
                   Budgerigar  ======================================
           Tibetan ground jay  ======================================
                  Zebra finch  ======================================
          Medium ground finch  ======================================
       White-throated sparrow  ======================================
          Collared flycatcher  ======================================
             Peregrine falcon  ======================================
                 Saker falcon  ======================================
                  Rock pigeon  ======================================
                     Platypus  ======================================
                      Wallaby  ======================================
     Mexican tetra (cavefish)  ======================================
                    Tetraodon  ======================================
                         Fugu  ======================================
           American alligator  ======================================
                      Opossum  ======================================

Inserts between block 5 and 6 in window
         Cape elephant shrew 9bp

Alignment block 6 of 50 in window, 42695565 - 42695567, 3 bps 
B D                     Human  t-aa
B D                     Chimp  t-aa
B D                   Gorilla  t-aa
B D                 Orangutan  taaa
B D                    Gibbon  t-aa
B D                    Rhesus  t-aa
B D       Crab-eating macaque  t-aa
B D                    Baboon  t-aa
B D              Green monkey  t-aa
B D                  Marmoset  t-aa
B D           Squirrel monkey  t-aa
B D                  Bushbaby  t--a
           Chinese tree shrew  t---
B D                  Squirrel  t-aa
B D           Chinese hamster  t-ga
               Golden hamster  t-ga
B D                     Mouse  t-ga
B D                       Rat  t-ga
B D            Naked mole-rat  t-tt
B D                Guinea pig  t-aa
                   Chinchilla  a-aa
             Brush-tailed rat  t-aa
B D                    Rabbit  c-ta
B D                      Pika  t-ga
B D                       Pig  t-aa
B D                    Alpaca  taaa
               Bactrian camel  taaa
B D                   Dolphin  c-ag
                 Killer whale  c-ag
             Tibetan antelope  t-aa
B D                       Cow  t-aa
B D                     Sheep  t-aa
                Domestic goat  t-aa
B D                     Horse  t-ca
B D          White rhinoceros  t-aa
B D                       Cat  t-aa
B D                       Dog  t-aa
B D                   Ferret   t-aa
B D                     Panda  t-aa
               Pacific walrus  t-aa
                 Weddell seal  t-aa
             Black flying-fox  t-aa
B D                   Megabat  t-aa
         David's myotis (bat)  t-aa
B D                  Microbat  t-aa
B D                  Hedgehog  t-aa
              Star-nosed mole  t-aa
B D                  Elephant  t-aa
B D                   Manatee  t-aa
             Cape golden mole  t-ac
B D                    Tenrec  t-aa
                     Aardvark  t-ga
B D                 Armadillo  t-aa
B D           Tasmanian devil  t-aa
B D                     Shrew  ====
      Lesser Egyptian jerboa  ====
         Cape elephant shrew  ====
                Prairie vole  ----
               Big brown bat  ----
                 Spotted gar  ====
B D                 Zebrafish  ====
B D                    Medaka  ====
      Yellowbelly pufferfish  ====
         Pundamilia nyererei  ====
                 Zebra mbuna  ====
       Burton's mouthbreeder  ====
         Princess of Burundi  ====
B D              Nile tilapia  ====
B D                Coelacanth  ====
B D             X. tropicalis  ====
B D                    Lizard  ====
  D    Spiny softshell turtle  ====
  D  Chinese softshell turtle  ====
  D            Painted turtle  ====
  D           Green seaturtle  ====
B D                    Turkey  ====
B D                   Chicken  ====
  D              Mallard duck  ====
B D                Budgerigar  ====
          Tibetan ground jay  ====
B D               Zebra finch  ====
B D       Medium ground finch  ====
  D    White-throated sparrow  ====
  D       Collared flycatcher  ====
  D          Peregrine falcon  ====
  D              Saker falcon  ====
  D               Rock pigeon  ====
B D                  Platypus  ====
B D                   Wallaby  ====
    Mexican tetra (cavefish)  ====
B D                 Tetraodon  ====
B D                      Fugu  ====
B D        American alligator  ====
B D                   Opossum  ====

Inserts between block 6 and 7 in window
            Cape golden mole 862bp

Alignment block 7 of 50 in window, 42695568 - 42695576, 9 bps 
B D                     Human  aa--atgaaag--
B D                     Chimp  aa--atgaaag--
B D                   Gorilla  aa--atgaaag--
B D                 Orangutan  aa--atgaaag--
B D                    Gibbon  aa--atgaaag--
B D                    Rhesus  aa--atgaaag--
B D       Crab-eating macaque  aa--atgaaag--
B D                    Baboon  aa--atgaaag--
B D              Green monkey  aa--atgaaag--
B D                  Marmoset  aa--atggaag--
B D           Squirrel monkey  aa--atgaaag--
B D                  Bushbaby  aa--acagaag--
           Chinese tree shrew  ----attaaag--
B D                  Squirrel  aa--gtaaaag--
                 Prairie vole  ------agaag--
B D           Chinese hamster  aa--acagaag--
               Golden hamster  aa--atagaag--
B D                     Mouse  aa--atagaaa--
B D                       Rat  ac--ataaaaa--
B D            Naked mole-rat  tt--ttttaaa--
B D                Guinea pig  aa--gcaaaag--
                   Chinchilla  a-----acaag--
             Brush-tailed rat  at--gcaaaag--
B D                    Rabbit  a-----gaaag--
B D                      Pika  a-----gaaag--
B D                       Pig  aa--attaaag--
B D                    Alpaca  aa--atagaag--
               Bactrian camel  aa--atagaag--
B D                   Dolphin  aa--ataaaag--
                 Killer whale  aa--ataaaag--
             Tibetan antelope  aa--ac--aaa--
B D                       Cow  aa--acagaaa--
B D                     Sheep  aa--acagaaa--
                Domestic goat  aa--acagaaa--
B D                     Horse  aa--ataaaag--
B D          White rhinoceros  aa--ataaaag--
B D                       Cat  aagtggaaaag--
B D                       Dog  aagtgtaaaag--
B D                   Ferret   a--------ag--
B D                     Panda  aagtgtaaaag--
               Pacific walrus  aagtgtaagag--
                 Weddell seal  aagggtaagag--
             Black flying-fox  aa--ataaaag--
B D                   Megabat  aa--ataaaag--
                Big brown bat  aa--atgtttt--
         David's myotis (bat)  aa--ataaaag--
B D                  Microbat  aa--ataaaag--
B D                  Hedgehog  ag--ataaaag--
              Star-nosed mole  aa--aataaaa--
B D                  Elephant  aa--aga--ag--
B D                   Manatee  aa--atc--ag--
             Cape golden mole  aa--atgaaag--
B D                    Tenrec  ---------ac--
                     Aardvark  aa--ataaaaa--
B D                 Armadillo  aa--ataaaag--
B D           Tasmanian devil  ----ataataaat
B D                     Shrew  =============
      Lesser Egyptian jerboa  =============
         Cape elephant shrew  =============
                 Spotted gar  =============
B D                 Zebrafish  =============
B D                    Medaka  =============
      Yellowbelly pufferfish  =============
         Pundamilia nyererei  =============
                 Zebra mbuna  =============
       Burton's mouthbreeder  =============
         Princess of Burundi  =============
B D              Nile tilapia  =============
B D                Coelacanth  =============
B D             X. tropicalis  =============
B D                    Lizard  =============
  D    Spiny softshell turtle  =============
  D  Chinese softshell turtle  =============
  D            Painted turtle  =============
  D           Green seaturtle  =============
B D                    Turkey  =============
B D                   Chicken  =============
  D              Mallard duck  =============
B D                Budgerigar  =============
          Tibetan ground jay  =============
B D               Zebra finch  =============
B D       Medium ground finch  =============
  D    White-throated sparrow  =============
  D       Collared flycatcher  =============
  D          Peregrine falcon  =============
  D              Saker falcon  =============
  D               Rock pigeon  =============
B D                  Platypus  =============
B D                   Wallaby  =============
    Mexican tetra (cavefish)  =============
B D                 Tetraodon  =============
B D                      Fugu  =============
B D        American alligator  =============
B D                   Opossum  =============

Inserts between block 7 and 8 in window
B D                 Squirrel 432bp
B D                 Hedgehog 790bp
             Star-nosed mole 1bp

Alignment block 8 of 50 in window, 42695577 - 42695581, 5 bps 
B D                     Human  tccta
B D                     Chimp  tccta
B D                   Gorilla  tccta
B D                 Orangutan  tccta
B D                    Gibbon  tcctg
B D                    Rhesus  tccta
B D       Crab-eating macaque  tccta
B D                    Baboon  tccta
B D              Green monkey  tccta
B D                  Marmoset  tccta
B D           Squirrel monkey  tccta
B D                  Bushbaby  tccta
           Chinese tree shrew  tcctg
B D                  Squirrel  tccca
B D            Naked mole-rat  tcctg
B D                Guinea pig  tccta
                   Chinchilla  tcctg
             Brush-tailed rat  ccctg
B D                    Rabbit  -tcca
B D                      Pika  -tcca
B D                       Pig  tcctg
B D                    Alpaca  accta
               Bactrian camel  accta
B D                   Dolphin  ttcta
                 Killer whale  ttcta
             Tibetan antelope  ttcta
B D                       Cow  ttcta
B D                     Sheep  ttcta
                Domestic goat  ttcta
B D                     Horse  ttcta
B D          White rhinoceros  ttcta
B D                       Cat  gccta
B D                       Dog  gccta
B D                   Ferret   gccta
B D                     Panda  cccta
               Pacific walrus  gccta
                 Weddell seal  gccta
             Black flying-fox  accta
B D                   Megabat  accta
                Big brown bat  tccta
         David's myotis (bat)  tcctg
B D                  Microbat  tcctg
              Star-nosed mole  ccct-
B D                  Elephant  tagta
B D                   Manatee  cagta
             Cape golden mole  tcata
B D                    Tenrec  acaga
                     Aardvark  tctta
B D                 Armadillo  tctgg
B D           Tasmanian devil  ccctg
B D                     Shrew  =====
      Lesser Egyptian jerboa  =====
         Cape elephant shrew  =====
B D                  Hedgehog  =====
                Prairie vole  -----
B D           Chinese hamster  -----
B D                     Mouse  -----
              Golden hamster  -----
B D                       Rat  -----
                 Spotted gar  =====
B D                 Zebrafish  =====
B D                    Medaka  =====
      Yellowbelly pufferfish  =====
         Pundamilia nyererei  =====
                 Zebra mbuna  =====
       Burton's mouthbreeder  =====
         Princess of Burundi  =====
B D              Nile tilapia  =====
B D                Coelacanth  =====
B D             X. tropicalis  =====
B D                    Lizard  =====
  D    Spiny softshell turtle  =====
  D  Chinese softshell turtle  =====
  D            Painted turtle  =====
  D           Green seaturtle  =====
B D                    Turkey  =====
B D                   Chicken  =====
  D              Mallard duck  =====
B D                Budgerigar  =====
          Tibetan ground jay  =====
B D               Zebra finch  =====
B D       Medium ground finch  =====
  D    White-throated sparrow  =====
  D       Collared flycatcher  =====
  D          Peregrine falcon  =====
  D              Saker falcon  =====
  D               Rock pigeon  =====
B D                  Platypus  =====
B D                   Wallaby  =====
    Mexican tetra (cavefish)  =====
B D                 Tetraodon  =====
B D                      Fugu  =====
B D        American alligator  =====
B D                   Opossum  =====

Inserts between block 8 and 9 in window
        David's myotis (bat) 237bp
B D                 Microbat 230bp

Alignment block 9 of 50 in window, 42695582 - 42695586, 5 bps 
B D                     Human  aggc----c---
B D                     Chimp  aggc----c---
B D                   Gorilla  aggc----c---
B D                 Orangutan  aggc----c---
B D                    Gibbon  aggc----c---
B D                    Rhesus  aggc----t---
B D       Crab-eating macaque  aggc----t---
B D                    Baboon  aggc----t---
B D              Green monkey  aggc----t---
B D                  Marmoset  aggc----c---
B D           Squirrel monkey  aggc----c---
B D                  Bushbaby  aggc----c---
           Chinese tree shrew  gggc----c---
B D                  Squirrel  aagt----c---
B D            Naked mole-rat  agac----c---
B D                Guinea pig  agac----c---
                   Chinchilla  agac----c---
             Brush-tailed rat  agac----c---
B D                    Rabbit  aggg----c---
B D                      Pika  aagc----c---
B D                       Pig  gaat--------
B D                    Alpaca  aggc----a---
               Bactrian camel  aggc----a---
B D                   Dolphin  aggc----a---
                 Killer whale  aggcactga---
             Tibetan antelope  agat----a---
B D                       Cow  agat----a---
B D                     Sheep  agat----a---
                Domestic goat  agat----a---
B D                     Horse  aggc----a---
B D          White rhinoceros  aggc----a---
B D                       Cat  atgt----g---
B D                       Dog  aggt----a---
B D                   Ferret   aggt----g---
B D                     Panda  aagt----g---
               Pacific walrus  aggt----g---
                 Weddell seal  aggt----g---
             Black flying-fox  aggt----a---
B D                   Megabat  aggt----a---
                Big brown bat  aggc----a---
              Star-nosed mole  gggc----c---
B D                  Elephant  aagc----c---
B D                   Manatee  aggc----c---
             Cape golden mole  aagc----c---
B D                    Tenrec  aggc----c---
                     Aardvark  aggc----c---
B D                 Armadillo  ggac----t---
B D           Tasmanian devil  ---c----ttcc
B D                     Shrew  ============
      Lesser Egyptian jerboa  ============
         Cape elephant shrew  ============
B D                  Hedgehog  ============
                Prairie vole  ------------
B D           Chinese hamster  ------------
B D                     Mouse  ------------
              Golden hamster  ------------
B D                       Rat  ------------
B D                  Microbat  ============
        David's myotis (bat)  ============
                 Spotted gar  ============
B D                 Zebrafish  ============
B D                    Medaka  ============
      Yellowbelly pufferfish  ============
         Pundamilia nyererei  ============
                 Zebra mbuna  ============
       Burton's mouthbreeder  ============
         Princess of Burundi  ============
B D              Nile tilapia  ============
B D                Coelacanth  ============
B D             X. tropicalis  ============
B D                    Lizard  ============
  D    Spiny softshell turtle  ============
  D  Chinese softshell turtle  ============
  D            Painted turtle  ============
  D           Green seaturtle  ============
B D                    Turkey  ============
B D                   Chicken  ============
  D              Mallard duck  ============
B D                Budgerigar  ============
          Tibetan ground jay  ============
B D               Zebra finch  ============
B D       Medium ground finch  ============
  D    White-throated sparrow  ============
  D       Collared flycatcher  ============
  D          Peregrine falcon  ============
  D              Saker falcon  ============
  D               Rock pigeon  ============
B D                  Platypus  ============
B D                   Wallaby  ============
    Mexican tetra (cavefish)  ============
B D                 Tetraodon  ============
B D                      Fugu  ============
B D        American alligator  ============
B D                   Opossum  ============

Inserts between block 9 and 10 in window
          Chinese tree shrew 1720bp

Alignment block 10 of 50 in window, 42695587 - 42695588, 2 bps 
B D                     Human  ct
B D                     Chimp  ct
B D                   Gorilla  ct
B D                 Orangutan  ct
B D                    Gibbon  ct
B D                    Rhesus  ct
B D       Crab-eating macaque  ct
B D                    Baboon  ct
B D              Green monkey  ct
B D                  Marmoset  ct
B D           Squirrel monkey  tt
B D                  Bushbaby  ct
B D                  Squirrel  ct
B D            Naked mole-rat  at
B D                Guinea pig  ct
                   Chinchilla  ct
             Brush-tailed rat  ct
B D                    Rabbit  ct
B D                      Pika  tt
B D                    Alpaca  ct
               Bactrian camel  ct
B D                   Dolphin  ct
                 Killer whale  ct
             Tibetan antelope  ct
B D                       Cow  ct
B D                     Sheep  ct
                Domestic goat  ct
B D                     Horse  ct
B D          White rhinoceros  ct
B D                       Cat  ct
B D                       Dog  ct
B D                   Ferret   at
B D                     Panda  ct
               Pacific walrus  ct
                 Weddell seal  ct
             Black flying-fox  ct
B D                   Megabat  ct
                Big brown bat  ct
              Star-nosed mole  ct
B D                  Elephant  cc
B D                   Manatee  ct
             Cape golden mole  ct
B D                    Tenrec  ca
                     Aardvark  ct
B D                 Armadillo  gg
B D           Tasmanian devil  ct
B D                     Shrew  ==
      Lesser Egyptian jerboa  ==
         Cape elephant shrew  ==
B D                  Hedgehog  ==
                Prairie vole  --
B D           Chinese hamster  --
B D                     Mouse  --
              Golden hamster  --
B D                       Rat  --
B D                  Microbat  ==
        David's myotis (bat)  ==
          Chinese tree shrew  ==
                 Spotted gar  ==
B D                 Zebrafish  ==
B D                    Medaka  ==
      Yellowbelly pufferfish  ==
         Pundamilia nyererei  ==
                 Zebra mbuna  ==
       Burton's mouthbreeder  ==
         Princess of Burundi  ==
B D              Nile tilapia  ==
B D                Coelacanth  ==
B D             X. tropicalis  ==
B D                    Lizard  ==
  D    Spiny softshell turtle  ==
  D  Chinese softshell turtle  ==
  D            Painted turtle  ==
  D           Green seaturtle  ==
B D                    Turkey  ==
B D                   Chicken  ==
  D              Mallard duck  ==
B D                Budgerigar  ==
          Tibetan ground jay  ==
B D               Zebra finch  ==
B D       Medium ground finch  ==
  D    White-throated sparrow  ==
  D       Collared flycatcher  ==
  D          Peregrine falcon  ==
  D              Saker falcon  ==
  D               Rock pigeon  ==
B D                  Platypus  ==
B D                   Wallaby  ==
    Mexican tetra (cavefish)  ==
B D                 Tetraodon  ==
B D                      Fugu  ==
B D        American alligator  ==
B D                   Opossum  ==
B D                       Pig  --

Inserts between block 10 and 11 in window
             Star-nosed mole 311bp

Alignment block 11 of 50 in window, 42695589 - 42695598, 10 bps 
B D                     Human  gt-------------ct---acccc-c
B D                     Chimp  gt-------------ct---acccctc
B D                   Gorilla  gt-------------ct---acccctc
B D                 Orangutan  gt-------------ct---acccctc
B D                    Gibbon  gt-------------ct---acccctc
B D                    Rhesus  gt-------------ct-ttacccctc
B D       Crab-eating macaque  gt-------------ct-ttacccctc
B D                    Baboon  gt-------------ct-tcacccctc
B D              Green monkey  gt-------------ct-ttacccctc
B D                  Marmoset  gt-------------ct-ttactcctt
B D           Squirrel monkey  gt-------------ct-ttactccat
B D                  Bushbaby  ct-------------ct-ttactt---
B D                  Squirrel  gt-------------ct-tcacctcc-
B D            Naked mole-rat  gt-------------ct-ctacctgct
B D                Guinea pig  gt-------------cc-ctgccgcct
                   Chinchilla  ga-------------ctcttgcctcct
             Brush-tailed rat  gt-------------ct-gtacttccc
B D                    Rabbit  gt-------------ct-ttgcctccc
B D                      Pika  gt-------------gt-ttacctgcc
B D                       Pig  -----------------------t---
B D                    Alpaca  gt-------------ct-ttacct---
               Bactrian camel  gt-------------ct-ttacct---
B D                   Dolphin  gt-------------ct-ttacct---
                 Killer whale  gt-------------ct-ttacct---
             Tibetan antelope  gt-------------ct-ttatct---
B D                       Cow  gt-------------ct-gtatct---
B D                     Sheep  gt-------------ct-tcatct---
                Domestic goat  gt-------------ct-ttatct---
B D                     Horse  gt-------------ct-ttacct---
B D          White rhinoceros  gt-------------ct-ttacct---
B D                       Cat  gt-------------c--ttacct---
B D                       Dog  gc-------------ct-ttacct---
B D                   Ferret   gc-------------ct-ttatct---
B D                     Panda  gc-------------ct-ttacct---
               Pacific walrus  gc-------------ct-ttacct---
                 Weddell seal  gc-------------ct-ttacct---
             Black flying-fox  gt-------------ct-ttatct---
B D                   Megabat  gt-------------ct-ttatct---
                Big brown bat  gt-------------ct-ttacct---
B D                  Elephant  gt-------------ct-ttacctttt
B D                   Manatee  at-------------ct-ttacctctt
             Cape golden mole  gt-------------ct-ttg-ctctg
B D                    Tenrec  cc-------------tt-ttgtctcgt
                     Aardvark  gc-------------ct-ttacttctt
B D                 Armadillo  acatggcacaagcagtt-gagcctctg
B D           Tasmanian devil  ----------taaaatt-ctatcctg-
B D                     Shrew  ===========================
      Lesser Egyptian jerboa  ===========================
         Cape elephant shrew  ===========================
B D                  Hedgehog  ===========================
                Prairie vole  ---------------------------
B D           Chinese hamster  ---------------------------
B D                     Mouse  ---------------------------
              Golden hamster  ---------------------------
B D                       Rat  ---------------------------
             Star-nosed mole  ===========================
B D                  Microbat  ===========================
        David's myotis (bat)  ===========================
          Chinese tree shrew  ===========================
                 Spotted gar  ===========================
B D                 Zebrafish  ===========================
B D                    Medaka  ===========================
      Yellowbelly pufferfish  ===========================
         Pundamilia nyererei  ===========================
                 Zebra mbuna  ===========================
       Burton's mouthbreeder  ===========================
         Princess of Burundi  ===========================
B D              Nile tilapia  ===========================
B D                Coelacanth  ===========================
B D             X. tropicalis  ===========================
B D                    Lizard  ===========================
  D    Spiny softshell turtle  ===========================
  D  Chinese softshell turtle  ===========================
  D            Painted turtle  ===========================
  D           Green seaturtle  ===========================
B D                    Turkey  ===========================
B D                   Chicken  ===========================
  D              Mallard duck  ===========================
B D                Budgerigar  ===========================
          Tibetan ground jay  ===========================
B D               Zebra finch  ===========================
B D       Medium ground finch  ===========================
  D    White-throated sparrow  ===========================
  D       Collared flycatcher  ===========================
  D          Peregrine falcon  ===========================
  D              Saker falcon  ===========================
  D               Rock pigeon  ===========================
B D                  Platypus  ===========================
B D                   Wallaby  ===========================
    Mexican tetra (cavefish)  ===========================
B D                 Tetraodon  ===========================
B D                      Fugu  ===========================
B D        American alligator  ===========================
B D                   Opossum  ===========================

Inserts between block 11 and 12 in window
B D                      Pig 3bp
B D                   Alpaca 3bp
              Bactrian camel 3bp
B D                  Dolphin 3bp
                Killer whale 3bp
            Tibetan antelope 3bp
B D                      Cow 3bp
B D                    Sheep 3bp
               Domestic goat 3bp
B D                    Horse 51bp
B D         White rhinoceros 3bp
B D                      Cat 3bp
B D                      Dog 3bp
B D                  Ferret  3bp
B D                    Panda 3bp
              Pacific walrus 3bp
                Weddell seal 3bp
            Black flying-fox 3bp
B D                  Megabat 3bp
               Big brown bat 3bp

Alignment block 12 of 50 in window, 42695599 - 42695612, 14 bps 
B D                     Human  a----c----ccc-at--cccgggg
B D                     Chimp  a----c----ccc-at--cccaggg
B D                   Gorilla  a----c----ccc-at--cccaggg
B D                 Orangutan  a----c----ccc-at--cccaggg
B D                    Gibbon  a----c----ccc-at--cccaggg
B D                    Rhesus  a----c----ccctgt--cccagga
B D       Crab-eating macaque  a----c----ccctgt--cccaggg
B D                    Baboon  a----c----ccctgt--cccaggg
B D              Green monkey  a----c----ccctgt--cccaggg
B D                  Marmoset  a----c----ccc-at--cccaggg
B D           Squirrel monkey  a----c----ccc-at--cccaggg
B D                  Bushbaby  --------------ac--tactggt
B D                  Squirrel  a----a----ctccac-------cc
                 Prairie vole  ------------------------t
B D           Chinese hamster  -----g----ct-----------ag
               Golden hamster  ------------------------g
B D                     Mouse  ------------------------a
B D                       Rat  ------------------------a
B D            Naked mole-rat  a----a----cccca---cccagag
B D                Guinea pig  a----g----caccac--cccagag
                   Chinchilla  a----a----ccccac--cccggag
             Brush-tailed rat  a----a----ctccac--cccagag
B D                    Rabbit  a-ccca----ccatgc--tgcaggg
B D                      Pika  acccca----ccgcac--cccaggg
B D                       Pig  -----g-------------------
B D                    Alpaca  -----accgcccccct--cccccag
               Bactrian camel  -----a----ccccct--cccccgg
B D                   Dolphin  -----a----cccttc--cccaggg
                 Killer whale  -----a----cccttc--cccaggg
             Tibetan antelope  -----a----ccttcc--cccaggg
B D                       Cow  -----a----ccttcc--cccaggg
B D                     Sheep  -----a----ccttcc--cccaggg
                Domestic goat  -----a----ccttcc--cccaggg
B D          White rhinoceros  -----a----ccctac--cccaggg
B D                       Cat  -----a----ccctgc--cccaagg
B D                       Dog  -----a----ccatac--tccaggg
B D                   Ferret   -----a----tcctac--cccaggg
B D                     Panda  -----a----ttctat--ctcaggg
               Pacific walrus  -----a----ccctac--tccagg-
                 Weddell seal  -----a----tcctac--cccagg-
             Black flying-fox  -----a----tgctac--cccaggg
B D                   Megabat  -----a----tgctac--cccaggg
                Big brown bat  -----a----ccctat--cccaggg
B D                  Elephant  ---------atgccac--gccaggg
B D                   Manatee  ---------accctac--cccaggg
             Cape golden mole  ---------accccac---ccagag
B D                    Tenrec  ---------gctccac---cccaaa
                     Aardvark  ---------accctataccccaggg
B D           Tasmanian devil  -------atgccctac--catgg--
B D                     Shrew  =========================
      Lesser Egyptian jerboa  =========================
         Cape elephant shrew  =========================
B D                  Hedgehog  =========================
             Star-nosed mole  =========================
B D                  Microbat  =========================
        David's myotis (bat)  =========================
B D                 Armadillo  -------------------------
          Chinese tree shrew  =========================
                 Spotted gar  =========================
B D                 Zebrafish  =========================
B D                    Medaka  =========================
      Yellowbelly pufferfish  =========================
         Pundamilia nyererei  =========================
                 Zebra mbuna  =========================
       Burton's mouthbreeder  =========================
         Princess of Burundi  =========================
B D              Nile tilapia  =========================
B D                Coelacanth  =========================
B D             X. tropicalis  =========================
B D                    Lizard  =========================
  D    Spiny softshell turtle  =========================
  D  Chinese softshell turtle  =========================
  D            Painted turtle  =========================
  D           Green seaturtle  =========================
B D                    Turkey  =========================
B D                   Chicken  =========================
  D              Mallard duck  =========================
B D                Budgerigar  =========================
          Tibetan ground jay  =========================
B D               Zebra finch  =========================
B D       Medium ground finch  =========================
  D    White-throated sparrow  =========================
  D       Collared flycatcher  =========================
  D          Peregrine falcon  =========================
  D              Saker falcon  =========================
  D               Rock pigeon  =========================
B D                  Platypus  =========================
B D                   Wallaby  =========================
    Mexican tetra (cavefish)  =========================
B D                 Tetraodon  =========================
B D                      Fugu  =========================
B D        American alligator  =========================
B D                   Opossum  =========================
B D                     Horse  =========================

Alignment block 13 of 50 in window, 42695613 - 42695615, 3 bps 
B D                     Human  cta
B D                     Chimp  cta
B D                   Gorilla  cta
B D                 Orangutan  cta
B D                    Gibbon  cta
B D                    Rhesus  cta
B D       Crab-eating macaque  cta
B D                    Baboon  cta
B D              Green monkey  cta
B D                  Marmoset  cta
B D           Squirrel monkey  cta
B D                  Bushbaby  cta
B D                  Squirrel  cag
                 Prairie vole  ctg
B D           Chinese hamster  cta
               Golden hamster  cta
B D                     Mouse  ctg
B D                       Rat  ctg
B D            Naked mole-rat  ata
B D                Guinea pig  cta
                   Chinchilla  cta
             Brush-tailed rat  cca
B D                    Rabbit  caa
B D                      Pika  cta
B D                    Alpaca  cta
               Bactrian camel  cta
B D                   Dolphin  cta
                 Killer whale  cta
             Tibetan antelope  ttg
B D                       Cow  tta
B D                     Sheep  ttg
                Domestic goat  ttg
B D          White rhinoceros  cta
B D                       Dog  cta
B D                   Ferret   cta
B D                     Panda  ctg
             Black flying-fox  cta
B D                   Megabat  cta
                Big brown bat  gta
B D                  Elephant  cca
B D                   Manatee  cca
             Cape golden mole  ccg
B D                    Tenrec  cca
                     Aardvark  cca
B D                     Shrew  ===
      Lesser Egyptian jerboa  ===
         Cape elephant shrew  ===
B D                  Hedgehog  ===
             Star-nosed mole  ===
                Weddell seal  ---
B D                  Microbat  ===
        David's myotis (bat)  ===
B D                 Armadillo  ---
          Chinese tree shrew  ===
B D                       Cat  ---
              Pacific walrus  ---
                 Spotted gar  ===
B D                 Zebrafish  ===
B D                    Medaka  ===
      Yellowbelly pufferfish  ===
         Pundamilia nyererei  ===
                 Zebra mbuna  ===
       Burton's mouthbreeder  ===
         Princess of Burundi  ===
B D              Nile tilapia  ===
B D                Coelacanth  ===
B D             X. tropicalis  ===
B D                    Lizard  ===
  D    Spiny softshell turtle  ===
  D  Chinese softshell turtle  ===
  D            Painted turtle  ===
  D           Green seaturtle  ===
B D                    Turkey  ===
B D                   Chicken  ===
  D              Mallard duck  ===
B D                Budgerigar  ===
          Tibetan ground jay  ===
B D               Zebra finch  ===
B D       Medium ground finch  ===
  D    White-throated sparrow  ===
  D       Collared flycatcher  ===
  D          Peregrine falcon  ===
  D              Saker falcon  ===
  D               Rock pigeon  ===
B D                  Platypus  ===
B D                   Wallaby  ===
    Mexican tetra (cavefish)  ===
B D                 Tetraodon  ===
B D                      Fugu  ===
B D        American alligator  ===
B D           Tasmanian devil  ---
B D                   Opossum  ===
B D                       Pig  ---
B D                     Horse  ===

Inserts between block 13 and 14 in window
B D                      Dog 15bp
B D                    Panda 1bp

Alignment block 14 of 50 in window, 42695616 - 42695622, 7 bps 
B D                     Human  tgct-ggc----
B D                     Chimp  tgct-ggc----
B D                   Gorilla  tgct-ggc----
B D                 Orangutan  tgct-ggc----
B D                    Gibbon  tgct-ggc----
B D                    Rhesus  tgct-ggc----
B D       Crab-eating macaque  tgct-ggc----
B D                    Baboon  tgct-ggc----
B D              Green monkey  tgct-ggc----
B D                  Marmoset  tgct-ggc----
B D           Squirrel monkey  tgct-ggc----
B D                  Bushbaby  ggct-gac----
B D                  Squirrel  ag----------
                 Prairie vole  gg----------
B D           Chinese hamster  gg----------
               Golden hamster  gg----------
B D                     Mouse  gg----------
B D                       Rat  gg----------
B D            Naked mole-rat  ggcc-agg----
B D                Guinea pig  ggcc-agc----
                   Chinchilla  ggcc-agc----
             Brush-tailed rat  ggcc-cga----
B D                    Rabbit  agcc-cac----
B D                      Pika  agcctcac----
B D                    Alpaca  agtt-ggc----
               Bactrian camel  agtt-ggc----
B D                   Dolphin  ggct-gac----
                 Killer whale  ggct-gac----
             Tibetan antelope  ggca-ggc----
B D                       Cow  gtct-gac----
B D                     Sheep  ggca-ggc----
                Domestic goat  ggca-gac----
B D          White rhinoceros  ggct-g------
B D                     Panda  gcct-gcc----
             Black flying-fox  gact-ggc----
B D                   Megabat  gact-ggc----
                Big brown bat  ggct-agc----
B D                  Elephant  ggct-ggc----
B D                   Manatee  ggct-gg-----
             Cape golden mole  gcct-ggc----
B D                    Tenrec  ggct-ggc----
                     Aardvark  caat-ggc----
B D           Tasmanian devil  -----tgcaaaa
B D                     Shrew  ============
      Lesser Egyptian jerboa  ============
         Cape elephant shrew  ============
B D                  Hedgehog  ============
             Star-nosed mole  ============
                Weddell seal  ------------
B D                  Microbat  ============
        David's myotis (bat)  ============
B D                 Armadillo  ------------
          Chinese tree shrew  ============
B D                       Dog  ============
B D                   Ferret   ------------
B D                       Cat  ------------
              Pacific walrus  ------------
                 Spotted gar  ============
B D                 Zebrafish  ============
B D                    Medaka  ============
      Yellowbelly pufferfish  ============
         Pundamilia nyererei  ============
                 Zebra mbuna  ============
       Burton's mouthbreeder  ============
         Princess of Burundi  ============
B D              Nile tilapia  ============
B D                Coelacanth  ============
B D             X. tropicalis  ============
B D                    Lizard  ============
  D    Spiny softshell turtle  ============
  D  Chinese softshell turtle  ============
  D            Painted turtle  ============
  D           Green seaturtle  ============
B D                    Turkey  ============
B D                   Chicken  ============
  D              Mallard duck  ============
B D                Budgerigar  ============
          Tibetan ground jay  ============
B D               Zebra finch  ============
B D       Medium ground finch  ============
  D    White-throated sparrow  ============
  D       Collared flycatcher  ============
  D          Peregrine falcon  ============
  D              Saker falcon  ============
  D               Rock pigeon  ============
B D                  Platypus  ============
B D                   Wallaby  ============
    Mexican tetra (cavefish)  ============
B D                 Tetraodon  ============
B D                      Fugu  ============
B D        American alligator  ============
B D                   Opossum  ============
B D                       Pig  ------------
B D                     Horse  ============

Inserts between block 14 and 15 in window
B D                 Squirrel 5bp
                Prairie vole 8bp
B D          Chinese hamster 5bp
              Golden hamster 5bp
B D                    Mouse 8bp
B D                      Rat 5bp
B D                 Elephant 26bp

Alignment block 15 of 50 in window, 42695623 - 42695629, 7 bps 
B D                     Human  agaactt-------
B D                     Chimp  agaactt-------
B D                   Gorilla  agaactt-------
B D                 Orangutan  agaactt-------
B D                    Gibbon  agaactt-------
B D                    Rhesus  agaactt-------
B D       Crab-eating macaque  agaactt-------
B D                    Baboon  agaactt-------
B D              Green monkey  agaactt-------
B D                  Marmoset  agaactt-------
B D           Squirrel monkey  agaactt-------
B D                  Bushbaby  agaactt-------
B D            Naked mole-rat  agaattt-------
B D                Guinea pig  agaa----------
                   Chinchilla  agaacct-------
             Brush-tailed rat  agaactt-------
B D                    Rabbit  aga-----------
B D                      Pika  tgaacct-------
B D                    Alpaca  agggctt-------
               Bactrian camel  agggctt-------
B D                   Dolphin  aggactt-------
                 Killer whale  aggactt-------
             Tibetan antelope  aagattt-------
B D                       Cow  aagattt-------
B D                     Sheep  aagattt-------
                Domestic goat  aagattt-------
B D                     Panda  a-aactt-------
             Black flying-fox  aggactt-------
B D                   Megabat  aggactt-------
                Big brown bat  aggactt-------
             Cape golden mole  aggactt-------
B D                    Tenrec  agaactt-------
                     Aardvark  agaactt-------
B D                 Armadillo  ----ctt-------
B D           Tasmanian devil  ataactcagtttct
B D                     Shrew  ==============
      Lesser Egyptian jerboa  ==============
         Cape elephant shrew  ==============
B D                  Hedgehog  ==============
                Prairie vole  ==============
B D           Chinese hamster  ==============
B D                     Mouse  ==============
              Golden hamster  ==============
B D                       Rat  ==============
             Star-nosed mole  ==============
                Weddell seal  --------------
B D                  Microbat  ==============
        David's myotis (bat)  ==============
B D                  Squirrel  ==============
          Chinese tree shrew  ==============
B D                       Dog  ==============
B D                   Ferret   --------------
B D                       Cat  --------------
              Pacific walrus  --------------
                 Spotted gar  ==============
B D                 Zebrafish  ==============
B D                    Medaka  ==============
      Yellowbelly pufferfish  ==============
         Pundamilia nyererei  ==============
                 Zebra mbuna  ==============
       Burton's mouthbreeder  ==============
         Princess of Burundi  ==============
B D              Nile tilapia  ==============
B D                Coelacanth  ==============
B D             X. tropicalis  ==============
B D                    Lizard  ==============
  D    Spiny softshell turtle  ==============
  D  Chinese softshell turtle  ==============
  D            Painted turtle  ==============
  D           Green seaturtle  ==============
B D                    Turkey  ==============
B D                   Chicken  ==============
  D              Mallard duck  ==============
B D                Budgerigar  ==============
          Tibetan ground jay  ==============
B D               Zebra finch  ==============
B D       Medium ground finch  ==============
  D    White-throated sparrow  ==============
  D       Collared flycatcher  ==============
  D          Peregrine falcon  ==============
  D              Saker falcon  ==============
  D               Rock pigeon  ==============
B D                  Platypus  ==============
B D                   Wallaby  ==============
    Mexican tetra (cavefish)  ==============
B D                 Tetraodon  ==============
B D                      Fugu  ==============
B D        American alligator  ==============
B D                   Opossum  ==============
B D                   Manatee  --------------
B D                  Elephant  ==============
B D                       Pig  --------------
B D          White rhinoceros  --------------
B D                     Horse  ==============

Inserts between block 15 and 16 in window
            Black flying-fox 1bp
B D                  Megabat 1bp
B D                   Tenrec 19bp

Alignment block 16 of 50 in window, 42695630 - 42695630, 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
B D            Naked mole-rat  g
                   Chinchilla  t
             Brush-tailed rat  g
B D                      Pika  a
B D                    Alpaca  g
               Bactrian camel  g
B D                   Dolphin  g
                 Killer whale  g
             Tibetan antelope  g
B D                       Cow  g
B D                     Sheep  g
                Domestic goat  g
B D                     Panda  g
             Black flying-fox  g
B D                   Megabat  g
             Cape golden mole  t
                     Aardvark  t
B D                 Armadillo  c
B D           Tasmanian devil  t
B D                     Shrew  =
      Lesser Egyptian jerboa  =
         Cape elephant shrew  =
B D                  Hedgehog  =
B D                Guinea pig  -
                Prairie vole  =
B D                    Tenrec  =
B D           Chinese hamster  =
B D                     Mouse  =
              Golden hamster  =
B D                       Rat  =
             Star-nosed mole  =
                Weddell seal  -
               Big brown bat  -
B D                  Microbat  =
        David's myotis (bat)  =
B D                  Squirrel  =
          Chinese tree shrew  =
B D                       Dog  =
B D                   Ferret   -
B D                       Cat  -
              Pacific walrus  -
                 Spotted gar  =
B D                 Zebrafish  =
B D                    Medaka  =
      Yellowbelly pufferfish  =
         Pundamilia nyererei  =
                 Zebra mbuna  =
       Burton's mouthbreeder  =
         Princess of Burundi  =
B D              Nile tilapia  =
B D                Coelacanth  =
B D             X. tropicalis  =
B D                    Lizard  =
  D    Spiny softshell turtle  =
  D  Chinese softshell turtle  =
  D            Painted turtle  =
  D           Green seaturtle  =
B D                    Turkey  =
B D                   Chicken  =
  D              Mallard duck  =
B D                Budgerigar  =
          Tibetan ground jay  =
B D               Zebra finch  =
B D       Medium ground finch  =
  D    White-throated sparrow  =
  D       Collared flycatcher  =
  D          Peregrine falcon  =
  D              Saker falcon  =
  D               Rock pigeon  =
B D                  Platypus  =
B D                   Wallaby  =
    Mexican tetra (cavefish)  =
B D                 Tetraodon  =
B D                      Fugu  =
B D        American alligator  =
B D                   Opossum  =
B D                   Manatee  -
B D                  Elephant  =
B D                    Rabbit  -
B D                       Pig  -
B D          White rhinoceros  -
B D                     Horse  =

Alignment block 17 of 50 in window, 42695631 - 42695637, 7 bps 
B D                     Human  aaaagct
B D                     Chimp  aaaagct
B D                   Gorilla  aaaagct
B D                 Orangutan  aaaagct
B D                    Gibbon  aaaagct
B D                    Rhesus  aaaagct
B D       Crab-eating macaque  aaaagct
B D                    Baboon  aaaagct
B D              Green monkey  aaaagct
B D                  Marmoset  aaaagct
B D           Squirrel monkey  aaaagct
B D                  Bushbaby  aaaatct
B D            Naked mole-rat  gaatcct
B D                Guinea pig  gtgtact
                   Chinchilla  gaaagct
             Brush-tailed rat  ggaaact
B D                      Pika  aaaagcc
B D                    Alpaca  aaaagct
               Bactrian camel  aaaagct
B D                   Dolphin  aaaagct
                 Killer whale  aaaagct
             Tibetan antelope  aaaagca
B D                       Cow  aaaagca
B D                     Sheep  aaaagca
                Domestic goat  aaaagca
B D                     Panda  aaaacc-
B D                   Megabat  aaaact-
                     Aardvark  aaaaact
B D                 Armadillo  ccacatg
B D           Tasmanian devil  ggaaact
B D                     Shrew  =======
      Lesser Egyptian jerboa  =======
         Cape elephant shrew  =======
B D                  Hedgehog  =======
                Prairie vole  =======
B D                    Tenrec  =======
B D           Chinese hamster  =======
B D                     Mouse  =======
              Golden hamster  =======
B D                       Rat  =======
             Star-nosed mole  =======
            Black flying-fox  -------
                Weddell seal  -------
               Big brown bat  -------
B D                  Microbat  =======
        David's myotis (bat)  =======
B D                  Squirrel  =======
          Chinese tree shrew  =======
B D                       Dog  =======
B D                   Ferret   -------
B D                       Cat  -------
              Pacific walrus  -------
                 Spotted gar  =======
B D                 Zebrafish  =======
B D                    Medaka  =======
      Yellowbelly pufferfish  =======
         Pundamilia nyererei  =======
                 Zebra mbuna  =======
       Burton's mouthbreeder  =======
         Princess of Burundi  =======
B D              Nile tilapia  =======
B D                Coelacanth  =======
B D             X. tropicalis  =======
B D                    Lizard  =======
  D    Spiny softshell turtle  =======
  D  Chinese softshell turtle  =======
  D            Painted turtle  =======
  D           Green seaturtle  =======
B D                    Turkey  =======
B D                   Chicken  =======
  D              Mallard duck  =======
B D                Budgerigar  =======
          Tibetan ground jay  =======
B D               Zebra finch  =======
B D       Medium ground finch  =======
  D    White-throated sparrow  =======
  D       Collared flycatcher  =======
  D          Peregrine falcon  =======
  D              Saker falcon  =======
  D               Rock pigeon  =======
B D                  Platypus  =======
B D                   Wallaby  =======
    Mexican tetra (cavefish)  =======
B D                 Tetraodon  =======
B D                      Fugu  =======
B D        American alligator  =======
B D                   Opossum  =======
B D                   Manatee  -------
B D                  Elephant  =======
B D                    Rabbit  -------
            Cape golden mole  -------
B D                       Pig  -------
B D          White rhinoceros  -------
B D                     Horse  =======

Inserts between block 17 and 18 in window
B D                    Panda 1bp

Alignment block 18 of 50 in window, 42695638 - 42695639, 2 bps 
B D                     Human  ag
B D                     Chimp  aa
B D                   Gorilla  ag
B D                 Orangutan  ag
B D                    Gibbon  ag
B D                    Rhesus  gg
B D       Crab-eating macaque  gg
B D                    Baboon  gg
B D              Green monkey  gg
B D                  Marmoset  gg
B D           Squirrel monkey  gg
B D                  Bushbaby  gg
B D            Naked mole-rat  gg
B D                Guinea pig  -g
                   Chinchilla  gg
             Brush-tailed rat  gg
B D                    Alpaca  -g
               Bactrian camel  -g
B D                   Dolphin  -g
                 Killer whale  -g
             Tibetan antelope  -g
B D                       Cow  -g
B D                     Sheep  -g
                Domestic goat  -g
               Pacific walrus  -g
                 Weddell seal  -g
B D                   Megabat  gg
                     Aardvark  -g
B D                 Armadillo  -g
B D           Tasmanian devil  gg
B D                     Shrew  ==
      Lesser Egyptian jerboa  ==
         Cape elephant shrew  ==
B D                  Hedgehog  ==
                Prairie vole  ==
B D                    Tenrec  ==
B D           Chinese hamster  ==
B D                     Mouse  ==
              Golden hamster  ==
B D                      Pika  --
B D                       Rat  ==
             Star-nosed mole  ==
            Black flying-fox  --
B D                     Panda  ==
               Big brown bat  --
B D                  Microbat  ==
        David's myotis (bat)  ==
B D                  Squirrel  ==
          Chinese tree shrew  ==
B D                       Dog  ==
B D                   Ferret   --
B D                       Cat  --
                 Spotted gar  ==
B D                 Zebrafish  ==
B D                    Medaka  ==
      Yellowbelly pufferfish  ==
         Pundamilia nyererei  ==
                 Zebra mbuna  ==
       Burton's mouthbreeder  ==
         Princess of Burundi  ==
B D              Nile tilapia  ==
B D                Coelacanth  ==
B D             X. tropicalis  ==
B D                    Lizard  ==
  D    Spiny softshell turtle  ==
  D  Chinese softshell turtle  ==
  D            Painted turtle  ==
  D           Green seaturtle  ==
B D                    Turkey  ==
B D                   Chicken  ==
  D              Mallard duck  ==
B D                Budgerigar  ==
          Tibetan ground jay  ==
B D               Zebra finch  ==
B D       Medium ground finch  ==
  D    White-throated sparrow  ==
  D       Collared flycatcher  ==
  D          Peregrine falcon  ==
  D              Saker falcon  ==
  D               Rock pigeon  ==
B D                  Platypus  ==
B D                   Wallaby  ==
    Mexican tetra (cavefish)  ==
B D                 Tetraodon  ==
B D                      Fugu  ==
B D        American alligator  ==
B D                   Opossum  ==
B D                   Manatee  --
B D                  Elephant  ==
B D                    Rabbit  --
            Cape golden mole  --
B D                       Pig  --
B D          White rhinoceros  --
B D                     Horse  ==

Inserts between block 18 and 19 in window
B D                   Alpaca 1bp
              Bactrian camel 1bp
B D                  Dolphin 1bp
                Killer whale 1bp
            Tibetan antelope 668bp
B D                      Cow 665bp
B D                    Sheep 680bp
               Domestic goat 674bp
                    Aardvark 1bp
B D                Armadillo 1bp

Alignment block 19 of 50 in window, 42695640 - 42695644, 5 bps 
B D                     Human  --ct-ggg---
B D                     Chimp  --ct-ggg---
B D                   Gorilla  --ct-ggg---
B D                 Orangutan  --ctgggg---
B D                    Gibbon  --ctgggg---
B D                    Rhesus  --ct-ggg---
B D       Crab-eating macaque  --ct-ggg---
B D                    Baboon  --ct-ggg---
B D              Green monkey  --ct-ggg---
B D                  Marmoset  --ctgggg---
B D           Squirrel monkey  --ctgggg---
B D                  Bushbaby  --ct-gag---
B D            Naked mole-rat  --ct-gag---
B D                Guinea pig  --cc-gag---
                   Chinchilla  --ct-gag---
             Brush-tailed rat  --ct-gag---
B D                       Pig  --ct-gtg---
B D                    Alpaca  --ct-gag---
               Bactrian camel  --ct-gag---
B D                   Dolphin  --ct-gag---
                 Killer whale  --ct-gag---
               Pacific walrus  --ct-ggg---
                 Weddell seal  --ct-ggg---
B D                   Megabat  --ct-gag---
B D                   Manatee  -----cag---
                     Aardvark  -----ctg---
B D                 Armadillo  -----cgg---
B D           Tasmanian devil  ctct-tggaag
B D                     Shrew  ===========
      Lesser Egyptian jerboa  ===========
         Cape elephant shrew  ===========
B D                  Hedgehog  ===========
                Prairie vole  ===========
B D                    Tenrec  ===========
B D           Chinese hamster  ===========
B D                     Mouse  ===========
              Golden hamster  ===========
B D                      Pika  -----------
B D                       Rat  ===========
             Star-nosed mole  ===========
            Black flying-fox  -----------
B D                     Panda  ===========
               Big brown bat  -----------
B D                       Cow  ===========
               Domestic goat  ===========
B D                     Sheep  ===========
            Tibetan antelope  ===========
B D                  Microbat  ===========
        David's myotis (bat)  ===========
B D                  Squirrel  ===========
          Chinese tree shrew  ===========
B D                       Dog  ===========
B D                   Ferret   -----------
B D                       Cat  -----------
                 Spotted gar  ===========
B D                 Zebrafish  ===========
B D                    Medaka  ===========
      Yellowbelly pufferfish  ===========
         Pundamilia nyererei  ===========
                 Zebra mbuna  ===========
       Burton's mouthbreeder  ===========
         Princess of Burundi  ===========
B D              Nile tilapia  ===========
B D                Coelacanth  ===========
B D             X. tropicalis  ===========
B D                    Lizard  ===========
  D    Spiny softshell turtle  ===========
  D  Chinese softshell turtle  ===========
  D            Painted turtle  ===========
  D           Green seaturtle  ===========
B D                    Turkey  ===========
B D                   Chicken  ===========
  D              Mallard duck  ===========
B D                Budgerigar  ===========
          Tibetan ground jay  ===========
B D               Zebra finch  ===========
B D       Medium ground finch  ===========
  D    White-throated sparrow  ===========
  D       Collared flycatcher  ===========
  D          Peregrine falcon  ===========
  D              Saker falcon  ===========
  D               Rock pigeon  ===========
B D                  Platypus  ===========
B D                   Wallaby  ===========
    Mexican tetra (cavefish)  ===========
B D                 Tetraodon  ===========
B D                      Fugu  ===========
B D        American alligator  ===========
B D                   Opossum  ===========
B D                  Elephant  ===========
B D                    Rabbit  -----------
            Cape golden mole  -----------
B D          White rhinoceros  -----------
B D                     Horse  ===========

Inserts between block 19 and 20 in window
B D           Naked mole-rat 244bp
B D                      Pig 1bp
B D                   Alpaca 708bp
B D                Armadillo 2bp

Alignment block 20 of 50 in window, 42695645 - 42695645, 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
B D                Guinea pig  g
                   Chinchilla  c
             Brush-tailed rat  g
               Bactrian camel  t
B D                   Dolphin  t
                 Killer whale  t
               Pacific walrus  c
                 Weddell seal  c
B D                   Megabat  t
B D                 Armadillo  c
B D           Tasmanian devil  c
B D                     Shrew  =
      Lesser Egyptian jerboa  =
         Cape elephant shrew  =
B D                  Hedgehog  =
                Prairie vole  =
B D                    Tenrec  =
B D           Chinese hamster  =
B D                     Mouse  =
              Golden hamster  =
B D                      Pika  -
B D                       Rat  =
             Star-nosed mole  =
            Black flying-fox  -
B D                     Panda  =
               Big brown bat  -
B D                       Cow  =
               Domestic goat  =
B D                     Sheep  =
            Tibetan antelope  =
B D                  Microbat  =
        David's myotis (bat)  =
B D                  Squirrel  =
          Chinese tree shrew  =
B D                       Dog  =
B D                   Ferret   -
B D                       Cat  -
                 Spotted gar  =
B D                 Zebrafish  =
B D                    Medaka  =
      Yellowbelly pufferfish  =
         Pundamilia nyererei  =
                 Zebra mbuna  =
       Burton's mouthbreeder  =
         Princess of Burundi  =
B D              Nile tilapia  =
B D                Coelacanth  =
B D             X. tropicalis  =
B D                    Lizard  =
  D    Spiny softshell turtle  =
  D  Chinese softshell turtle  =
  D            Painted turtle  =
  D           Green seaturtle  =
B D                    Turkey  =
B D                   Chicken  =
  D              Mallard duck  =
B D                Budgerigar  =
          Tibetan ground jay  =
B D               Zebra finch  =
B D       Medium ground finch  =
  D    White-throated sparrow  =
  D       Collared flycatcher  =
  D          Peregrine falcon  =
  D              Saker falcon  =
  D               Rock pigeon  =
B D                  Platypus  =
B D                   Wallaby  =
    Mexican tetra (cavefish)  =
B D                 Tetraodon  =
B D                      Fugu  =
B D        American alligator  =
B D                   Opossum  =
B D                   Manatee  -
B D                  Elephant  =
B D            Naked mole-rat  =
B D                    Rabbit  -
                    Aardvark  -
            Cape golden mole  -
B D                       Pig  =
B D          White rhinoceros  -
B D                     Horse  =
B D                    Alpaca  =

Inserts between block 20 and 21 in window
B D               Guinea pig 3bp
                  Chinchilla 89bp
            Brush-tailed rat 4bp

Alignment block 21 of 50 in window, 42695646 - 42695646, 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
B D                       Pig  c
               Bactrian camel  c
                 Killer whale  c
               Pacific walrus  c
                 Weddell seal  c
B D                   Megabat  c
B D                 Armadillo  c
B D           Tasmanian devil  c
B D                     Shrew  =
      Lesser Egyptian jerboa  =
         Cape elephant shrew  =
B D                  Hedgehog  =
B D                Guinea pig  =
            Brush-tailed rat  =
                  Chinchilla  =
                Prairie vole  =
B D                    Tenrec  =
B D           Chinese hamster  =
B D                     Mouse  =
              Golden hamster  =
B D                      Pika  -
B D                       Rat  =
             Star-nosed mole  =
            Black flying-fox  -
B D                     Panda  =
               Big brown bat  -
B D                       Cow  =
               Domestic goat  =
B D                     Sheep  =
            Tibetan antelope  =
B D                  Microbat  =
        David's myotis (bat)  =
B D                  Squirrel  =
          Chinese tree shrew  =
B D                       Dog  =
B D                   Ferret   -
B D                       Cat  -
B D                   Dolphin  -
                 Spotted gar  =
B D                 Zebrafish  =
B D                    Medaka  =
      Yellowbelly pufferfish  =
         Pundamilia nyererei  =
                 Zebra mbuna  =
       Burton's mouthbreeder  =
         Princess of Burundi  =
B D              Nile tilapia  =
B D                Coelacanth  =
B D             X. tropicalis  =
B D                    Lizard  =
  D    Spiny softshell turtle  =
  D  Chinese softshell turtle  =
  D            Painted turtle  =
  D           Green seaturtle  =
B D                    Turkey  =
B D                   Chicken  =
  D              Mallard duck  =
B D                Budgerigar  =
          Tibetan ground jay  =
B D               Zebra finch  =
B D       Medium ground finch  =
  D    White-throated sparrow  =
  D       Collared flycatcher  =
  D          Peregrine falcon  =
  D              Saker falcon  =
  D               Rock pigeon  =
B D                  Platypus  =
B D                   Wallaby  =
    Mexican tetra (cavefish)  =
B D                 Tetraodon  =
B D                      Fugu  =
B D        American alligator  =
B D                   Opossum  =
B D                   Manatee  -
B D                  Elephant  =
B D            Naked mole-rat  =
B D                    Rabbit  -
                    Aardvark  -
            Cape golden mole  -
B D          White rhinoceros  -
B D                     Horse  =
B D                    Alpaca  =

Inserts between block 21 and 22 in window
B D                      Pig 1bp
              Bactrian camel 706bp
                Killer whale 712bp
              Pacific walrus 2bp
                Weddell seal 2bp

Alignment block 22 of 50 in window, 42695647 - 42695648, 2 bps 
B D                     Human  ag
B D                     Chimp  ag
B D                   Gorilla  ag
B D                 Orangutan  ag
B D                    Gibbon  ag
B D                    Rhesus  ag
B D       Crab-eating macaque  ag
B D                    Baboon  ag
B D              Green monkey  ag
B D                  Marmoset  ag
B D           Squirrel monkey  ag
B D                 Armadillo  ag
B D           Tasmanian devil  ag
B D                     Shrew  ==
      Lesser Egyptian jerboa  ==
         Cape elephant shrew  ==
B D                  Hedgehog  ==
B D                Guinea pig  ==
            Brush-tailed rat  ==
                  Chinchilla  ==
                Prairie vole  ==
B D                    Tenrec  ==
B D           Chinese hamster  ==
B D                     Mouse  ==
              Golden hamster  ==
B D                      Pika  --
B D                       Rat  ==
             Star-nosed mole  ==
            Black flying-fox  --
                Weddell seal  ==
                Killer whale  ==
B D                     Panda  ==
               Big brown bat  --
B D                       Cow  ==
               Domestic goat  ==
B D                     Sheep  ==
            Tibetan antelope  ==
B D                  Microbat  ==
        David's myotis (bat)  ==
B D                  Squirrel  ==
          Chinese tree shrew  ==
B D                       Dog  ==
B D                   Ferret   --
B D                       Cat  --
              Pacific walrus  ==
B D                   Dolphin  --
                 Spotted gar  ==
B D                 Zebrafish  ==
B D                    Medaka  ==
      Yellowbelly pufferfish  ==
         Pundamilia nyererei  ==
                 Zebra mbuna  ==
       Burton's mouthbreeder  ==
         Princess of Burundi  ==
B D              Nile tilapia  ==
B D                Coelacanth  ==
B D             X. tropicalis  ==
B D                    Lizard  ==
  D    Spiny softshell turtle  ==
  D  Chinese softshell turtle  ==
  D            Painted turtle  ==
  D           Green seaturtle  ==
B D                    Turkey  ==
B D                   Chicken  ==
  D              Mallard duck  ==
B D                Budgerigar  ==
          Tibetan ground jay  ==
B D               Zebra finch  ==
B D       Medium ground finch  ==
  D    White-throated sparrow  ==
  D       Collared flycatcher  ==
  D          Peregrine falcon  ==
  D              Saker falcon  ==
  D               Rock pigeon  ==
B D                  Platypus  ==
B D                   Wallaby  ==
    Mexican tetra (cavefish)  ==
B D                 Tetraodon  ==
B D                      Fugu  ==
B D        American alligator  ==
B D                   Opossum  ==
B D                   Manatee  --
B D                  Elephant  ==
B D                  Bushbaby  --
B D            Naked mole-rat  ==
B D                    Rabbit  --
              Bactrian camel  ==
B D                   Megabat  --
                    Aardvark  --
            Cape golden mole  --
B D                       Pig  ==
B D          White rhinoceros  --
B D                     Horse  ==
B D                    Alpaca  ==

Alignment block 23 of 50 in window, 42695649 - 42695677, 29 bps 
B D                     Human  gtg-----gctcactcctataa---------tcc-cagcactt--t
B D                     Chimp  gtg-----gctcactcctataa---------tcc-cagcactt--t
B D                   Gorilla  gtg-----gctcactcctataa---------tcc-cagcactt--t
B D                 Orangutan  gtgcagtagttcactcctgtaa---------tcc-cagcactt--t
B D                    Gibbon  gtgcagtggctcactcctgtaa---------tcc-cagtgctt--t
B D                    Rhesus  gtgcagtggctcactcctgtaa---------tcc-cagcactt--t
B D       Crab-eating macaque  gtgcagtggctcactcctgtaa---------tcc-cagcactt--t
B D                    Baboon  gtgcagtggctcactcctgtaa---------tcc-cagcactt--t
B D              Green monkey  ctgcagtggctcactcctgtaa---------tcc-cagcactt--t
B D                  Marmoset  gtgtggtggctcactcct----------------------------
B D           Squirrel monkey  ttgcggtggctcactcct----------------------------
B D                  Bushbaby  ----------------------------------------tct--t
B D                  Squirrel  --ctgacaa-------ctttaaaaatt---gtct-gagtcctt--t
                 Prairie vole  --atagtgatgcaggcctttaa---------ccc-cagcactc--a
B D           Chinese hamster  --atagtgatgcagggcttcaa---------tct-caacactc--a
               Golden hamster  --atagtgatgtgagacttcaa---------tct-caacaccc--a
B D                     Mouse  --acggtgacgt-ggccttcaa---------tct-caacaccc--a
B D                       Rat  --ctggcgatgt-ggctttcaa---------tct-caacactc--a
B D                       Pig  -----------------------------------cagtgtgt--t
B D          White rhinoceros  ---------------------------------t-caggactt--t
B D                   Megabat  ----------------------------------------ctt--t
B D                   Manatee  ------------------------------------aactttt---
                     Aardvark  ------------------------------------agtcccttg-
B D                 Armadillo  ------------------------gttcagttcc-cagtgcct---
B D           Tasmanian devil  -----cagaccctacttaccaa---------tctggaacagtt---
B D                     Shrew  ==============================================
      Lesser Egyptian jerboa  ==============================================
         Cape elephant shrew  ==============================================
B D                  Hedgehog  ==============================================
B D                Guinea pig  ==============================================
            Brush-tailed rat  ==============================================
                  Chinchilla  ==============================================
B D                    Tenrec  ==============================================
B D                      Pika  ----------------------------------------------
             Star-nosed mole  ==============================================
            Black flying-fox  ----------------------------------------------
                Weddell seal  ==============================================
                Killer whale  ==============================================
B D                     Panda  ==============================================
               Big brown bat  ----------------------------------------------
B D                       Cow  ==============================================
               Domestic goat  ==============================================
B D                     Sheep  ==============================================
            Tibetan antelope  ==============================================
B D                  Microbat  ==============================================
        David's myotis (bat)  ==============================================
          Chinese tree shrew  ==============================================
B D                       Dog  ==============================================
B D                   Ferret   ----------------------------------------------
B D                       Cat  ----------------------------------------------
              Pacific walrus  ==============================================
B D                   Dolphin  ----------------------------------------------
                 Spotted gar  ==============================================
B D                 Zebrafish  ==============================================
B D                    Medaka  ==============================================
      Yellowbelly pufferfish  ==============================================
         Pundamilia nyererei  ==============================================
                 Zebra mbuna  ==============================================
       Burton's mouthbreeder  ==============================================
         Princess of Burundi  ==============================================
B D              Nile tilapia  ==============================================
B D                Coelacanth  ==============================================
B D             X. tropicalis  ==============================================
B D                    Lizard  ==============================================
  D    Spiny softshell turtle  ==============================================
  D  Chinese softshell turtle  ==============================================
  D            Painted turtle  ==============================================
  D           Green seaturtle  ==============================================
B D                    Turkey  ==============================================
B D                   Chicken  ==============================================
  D              Mallard duck  ==============================================
B D                Budgerigar  ==============================================
          Tibetan ground jay  ==============================================
B D               Zebra finch  ==============================================
B D       Medium ground finch  ==============================================
  D    White-throated sparrow  ==============================================
  D       Collared flycatcher  ==============================================
  D          Peregrine falcon  ==============================================
  D              Saker falcon  ==============================================
  D               Rock pigeon  ==============================================
B D                  Platypus  ==============================================
B D                   Wallaby  ==============================================
    Mexican tetra (cavefish)  ==============================================
B D                 Tetraodon  ==============================================
B D                      Fugu  ==============================================
B D        American alligator  ==============================================
B D                   Opossum  ==============================================
B D                  Elephant  ==============================================
B D            Naked mole-rat  ==============================================
B D                    Rabbit  ----------------------------------------------
              Bactrian camel  ==============================================
            Cape golden mole  ----------------------------------------------
B D                     Horse  ==============================================
B D                    Alpaca  ==============================================

Alignment block 24 of 50 in window, 42695678 - 42695678, 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                  Bushbaby  -g
B D                  Squirrel  -g
                 Prairie vole  -t
B D           Chinese hamster  -g
               Golden hamster  -g
B D                     Mouse  -g
B D                       Rat  -g
B D           Tasmanian devil  t-
B D                     Shrew  ==
      Lesser Egyptian jerboa  ==
         Cape elephant shrew  ==
B D                  Hedgehog  ==
B D                Guinea pig  ==
            Brush-tailed rat  ==
                  Chinchilla  ==
B D                    Tenrec  ==
B D                      Pika  --
             Star-nosed mole  ==
            Black flying-fox  --
                Weddell seal  ==
                Killer whale  ==
B D                     Panda  ==
               Big brown bat  --
B D                       Cow  ==
               Domestic goat  ==
B D                     Sheep  ==
            Tibetan antelope  ==
B D                  Microbat  ==
        David's myotis (bat)  ==
B D                 Armadillo  --
          Chinese tree shrew  ==
B D                       Dog  ==
B D                   Ferret   --
B D                       Cat  --
              Pacific walrus  ==
B D                   Dolphin  --
                 Spotted gar  ==
B D                 Zebrafish  ==
B D                    Medaka  ==
      Yellowbelly pufferfish  ==
         Pundamilia nyererei  ==
                 Zebra mbuna  ==
       Burton's mouthbreeder  ==
         Princess of Burundi  ==
B D              Nile tilapia  ==
B D                Coelacanth  ==
B D             X. tropicalis  ==
B D                    Lizard  ==
  D    Spiny softshell turtle  ==
  D  Chinese softshell turtle  ==
  D            Painted turtle  ==
  D           Green seaturtle  ==
B D                    Turkey  ==
B D                   Chicken  ==
  D              Mallard duck  ==
B D                Budgerigar  ==
          Tibetan ground jay  ==
B D               Zebra finch  ==
B D       Medium ground finch  ==
  D    White-throated sparrow  ==
  D       Collared flycatcher  ==
  D          Peregrine falcon  ==
  D              Saker falcon  ==
  D               Rock pigeon  ==
B D                  Platypus  ==
B D                   Wallaby  ==
    Mexican tetra (cavefish)  ==
B D                 Tetraodon  ==
B D                      Fugu  ==
B D        American alligator  ==
B D                   Opossum  ==
B D                   Manatee  --
B D                  Elephant  ==
B D            Naked mole-rat  ==
B D                    Rabbit  --
              Bactrian camel  ==
B D                   Megabat  --
                    Aardvark  --
            Cape golden mole  --
B D                       Pig  --
B D          White rhinoceros  --
B D           Squirrel monkey  --
B D                     Horse  ==
B D                    Alpaca  ==
B D                  Marmoset  --

Alignment block 25 of 50 in window, 42695679 - 42695680, 2 bps 
B D                     Human  -gg
B D                     Chimp  -gg
B D                   Gorilla  -gg
B D                 Orangutan  -gg
B D                    Gibbon  -gg
B D                    Rhesus  -gg
B D       Crab-eating macaque  -gg
B D                    Baboon  -gg
B D              Green monkey  -gg
B D                  Bushbaby  -gg
B D                  Squirrel  -gg
                 Prairie vole  -ga
B D           Chinese hamster  -ga
               Golden hamster  -gc
B D                     Mouse  -ga
B D                       Rat  -ga
B D                      Pika  --a
                     Aardvark  -gg
B D           Tasmanian devil  ca-
B D                     Shrew  ===
      Lesser Egyptian jerboa  ===
         Cape elephant shrew  ===
B D                  Hedgehog  ===
B D                Guinea pig  ===
            Brush-tailed rat  ===
                  Chinchilla  ===
B D                    Tenrec  ===
             Star-nosed mole  ===
            Black flying-fox  ---
                Weddell seal  ===
                Killer whale  ===
B D                     Panda  ===
               Big brown bat  ---
B D                       Cow  ===
               Domestic goat  ===
B D                     Sheep  ===
            Tibetan antelope  ===
B D                  Microbat  ===
        David's myotis (bat)  ===
B D                 Armadillo  ---
          Chinese tree shrew  ===
B D                       Dog  ===
B D                   Ferret   ---
B D                       Cat  ---
              Pacific walrus  ===
B D                   Dolphin  ---
                 Spotted gar  ===
B D                 Zebrafish  ===
B D                    Medaka  ===
      Yellowbelly pufferfish  ===
         Pundamilia nyererei  ===
                 Zebra mbuna  ===
       Burton's mouthbreeder  ===
         Princess of Burundi  ===
B D              Nile tilapia  ===
B D                Coelacanth  ===
B D             X. tropicalis  ===
B D                    Lizard  ===
  D    Spiny softshell turtle  ===
  D  Chinese softshell turtle  ===
  D            Painted turtle  ===
  D           Green seaturtle  ===
B D                    Turkey  ===
B D                   Chicken  ===
  D              Mallard duck  ===
B D                Budgerigar  ===
          Tibetan ground jay  ===
B D               Zebra finch  ===
B D       Medium ground finch  ===
  D    White-throated sparrow  ===
  D       Collared flycatcher  ===
  D          Peregrine falcon  ===
  D              Saker falcon  ===
  D               Rock pigeon  ===
B D                  Platypus  ===
B D                   Wallaby  ===
    Mexican tetra (cavefish)  ===
B D                 Tetraodon  ===
B D                      Fugu  ===
B D        American alligator  ===
B D                   Opossum  ===
B D                   Manatee  ---
B D                  Elephant  ===
B D            Naked mole-rat  ===
B D                    Rabbit  ---
              Bactrian camel  ===
B D                   Megabat  ---
            Cape golden mole  ---
B D                       Pig  ---
B D          White rhinoceros  ---
B D           Squirrel monkey  ---
B D                     Horse  ===
B D                    Alpaca  ===
B D                  Marmoset  ---

Alignment block 26 of 50 in window, 42695681 - 42695682, 2 bps 
B D                     Human  -ag
B D                     Chimp  -ag
B D                   Gorilla  -ag
B D                 Orangutan  -ag
B D                    Gibbon  -ag
B D                    Rhesus  -ag
B D       Crab-eating macaque  -ag
B D                    Baboon  -ag
B D              Green monkey  -ag
B D                  Bushbaby  -ag
B D                  Squirrel  -a-
                 Prairie vole  -g-
B D           Chinese hamster  -g-
               Golden hamster  -g-
B D                     Mouse  -g-
B D                       Rat  -t-
B D                      Pika  -g-
B D           Tasmanian devil  ag-
B D                     Shrew  ===
      Lesser Egyptian jerboa  ===
         Cape elephant shrew  ===
B D                  Hedgehog  ===
B D                Guinea pig  ===
            Brush-tailed rat  ===
                  Chinchilla  ===
B D                    Tenrec  ===
             Star-nosed mole  ===
            Black flying-fox  ---
                Weddell seal  ===
                Killer whale  ===
B D                     Panda  ===
               Big brown bat  ---
B D                       Cow  ===
               Domestic goat  ===
B D                     Sheep  ===
            Tibetan antelope  ===
B D                  Microbat  ===
        David's myotis (bat)  ===
B D                 Armadillo  ---
          Chinese tree shrew  ===
B D                       Dog  ===
B D                   Ferret   ---
B D                       Cat  ---
              Pacific walrus  ===
B D                   Dolphin  ---
                 Spotted gar  ===
B D                 Zebrafish  ===
B D                    Medaka  ===
      Yellowbelly pufferfish  ===
         Pundamilia nyererei  ===
                 Zebra mbuna  ===
       Burton's mouthbreeder  ===
         Princess of Burundi  ===
B D              Nile tilapia  ===
B D                Coelacanth  ===
B D             X. tropicalis  ===
B D                    Lizard  ===
  D    Spiny softshell turtle  ===
  D  Chinese softshell turtle  ===
  D            Painted turtle  ===
  D           Green seaturtle  ===
B D                    Turkey  ===
B D                   Chicken  ===
  D              Mallard duck  ===
B D                Budgerigar  ===
          Tibetan ground jay  ===
B D               Zebra finch  ===
B D       Medium ground finch  ===
  D    White-throated sparrow  ===
  D       Collared flycatcher  ===
  D          Peregrine falcon  ===
  D              Saker falcon  ===
  D               Rock pigeon  ===
B D                  Platypus  ===
B D                   Wallaby  ===
    Mexican tetra (cavefish)  ===
B D                 Tetraodon  ===
B D                      Fugu  ===
B D        American alligator  ===
B D                   Opossum  ===
B D                   Manatee  ---
B D                  Elephant  ===
B D            Naked mole-rat  ===
B D                    Rabbit  ---
              Bactrian camel  ===
B D                   Megabat  ---
                    Aardvark  ---
            Cape golden mole  ---
B D                       Pig  ---
B D          White rhinoceros  ---
B D           Squirrel monkey  ---
B D                     Horse  ===
B D                    Alpaca  ===
B D                  Marmoset  ---

Alignment block 27 of 50 in window, 42695683 - 42695697, 15 bps 
B D                     Human  gccaagg-----cgggcag------------------a
B D                     Chimp  gccaagg-----cgggcag------------------a
B D                   Gorilla  gccaagg-----cgggcag------------------a
B D                 Orangutan  gccaagg-----cgggcag------------------a
B D                    Gibbon  gccaagg-----cgggcag------------------a
B D                    Rhesus  gccaagg-----caggcag------------------a
B D       Crab-eating macaque  gccaagg-----caggcag------------------a
B D                    Baboon  gccaagg-----caggcag------------------a
B D              Green monkey  gccaagg-----caggcag------------------a
B D                  Marmoset  ------g-----caggcag------------------a
B D           Squirrel monkey  ------g-----caggcag------------------a
B D                  Squirrel  gaag------------tga------------------a
                 Prairie vole  gcagaag-----ctggcgg------------------a
B D           Chinese hamster  gcagagg-----ctaacag------------------a
               Golden hamster  gcagagg-----ctggcag------------------a
B D                     Mouse  gcagagg-----ctggcag------------------a
B D                       Rat  gcagagg-----ctggcag------------------a
B D                Guinea pig  -caggggtggctcgggtagcactcacttagcacgtgag
             Brush-tailed rat  -caggggcaactccgctag------------------a
B D                      Pika  gccaag--------------------------------
B D                       Pig  ---ga---------------------------------
B D           Tasmanian devil  cacagag-----ctggtga------------------c
B D                     Shrew  ======================================
      Lesser Egyptian jerboa  ======================================
         Cape elephant shrew  ======================================
B D                  Hedgehog  ======================================
                  Chinchilla  ======================================
B D                    Tenrec  ======================================
             Star-nosed mole  ======================================
            Black flying-fox  --------------------------------------
                Weddell seal  ======================================
                Killer whale  ======================================
B D                     Panda  ======================================
               Big brown bat  --------------------------------------
B D                       Cow  ======================================
               Domestic goat  ======================================
B D                     Sheep  ======================================
            Tibetan antelope  ======================================
B D                  Microbat  ======================================
        David's myotis (bat)  ======================================
B D                 Armadillo  --------------------------------------
          Chinese tree shrew  ======================================
B D                       Dog  ======================================
B D                   Ferret   --------------------------------------
B D                       Cat  --------------------------------------
              Pacific walrus  ======================================
B D                   Dolphin  --------------------------------------
                 Spotted gar  ======================================
B D                 Zebrafish  ======================================
B D                    Medaka  ======================================
      Yellowbelly pufferfish  ======================================
         Pundamilia nyererei  ======================================
                 Zebra mbuna  ======================================
       Burton's mouthbreeder  ======================================
         Princess of Burundi  ======================================
B D              Nile tilapia  ======================================
B D                Coelacanth  ======================================
B D             X. tropicalis  ======================================
B D                    Lizard  ======================================
  D    Spiny softshell turtle  ======================================
  D  Chinese softshell turtle  ======================================
  D            Painted turtle  ======================================
  D           Green seaturtle  ======================================
B D                    Turkey  ======================================
B D                   Chicken  ======================================
  D              Mallard duck  ======================================
B D                Budgerigar  ======================================
          Tibetan ground jay  ======================================
B D               Zebra finch  ======================================
B D       Medium ground finch  ======================================
  D    White-throated sparrow  ======================================
  D       Collared flycatcher  ======================================
  D          Peregrine falcon  ======================================
  D              Saker falcon  ======================================
  D               Rock pigeon  ======================================
B D                  Platypus  ======================================
B D                   Wallaby  ======================================
    Mexican tetra (cavefish)  ======================================
B D                 Tetraodon  ======================================
B D                      Fugu  ======================================
B D        American alligator  ======================================
B D                   Opossum  ======================================
B D                   Manatee  --------------------------------------
B D                  Elephant  ======================================
B D                  Bushbaby  --------------------------------------
B D            Naked mole-rat  ======================================
B D                    Rabbit  --------------------------------------
              Bactrian camel  ======================================
B D                   Megabat  --------------------------------------
                    Aardvark  --------------------------------------
            Cape golden mole  --------------------------------------
B D          White rhinoceros  --------------------------------------
B D                     Horse  ======================================
B D                    Alpaca  ======================================

Alignment block 28 of 50 in window, 42695698 - 42695739, 42 bps 
B D                     Human  --------tcacctaaggacaggagttcgagac-cagcc----t--------------ggccaacatgg
B D                     Chimp  --------tcacctaaggacaggagttcgagac-cagcc----t--------------ggccaacatgg
B D                   Gorilla  --------tcacctaaggacaggagttcgagac-cagcc----t--------------ggccaacatgg
B D                 Orangutan  --------tcacctaaggacaggagttcgagac-cagcc----t--------------ggccaacatgg
B D                    Gibbon  --------tcacctaaggacaggagttcaagac-cagcc----t--------------ggccaacatgg
B D                    Rhesus  --------tcacctaaggacaggagttcgagac-cagcc----t--------------ggacaacatgg
B D       Crab-eating macaque  --------tcacctaaggacaggagttcgagac-cagcc----t--------------ggacaacatgg
B D                    Baboon  --------tcacctaaggacaggagttcgagac-cagcc----t--------------ggacaacatgg
B D              Green monkey  --------tcacctaaggacaggagttcaagac-cagcc----t--------------ggacaacatgg
B D                  Marmoset  --------t---ctaaggtcaggagttcgagac-cagct------------------------------
B D           Squirrel monkey  --------tctcctaaggtcaggagttcgagac-cagcc----t--------------gaccaacatgg
B D                  Squirrel  --------ttta-------cactagccctagga-aagac----t--------------ga---------
                 Prairie vole  --------tctc-------tgtgagttcaaggc-cagtc----t--------------ggtctatatag
B D           Chinese hamster  --------tctc---------tgaattcaaggc-cagtc----t--------------ggtctacagaa
               Golden hamster  --------tctc---------tgagttctaggc-cattc----t--------------ggtctacataa
B D                     Mouse  --------tctc-------tgtaaattcaagac-cactc----t--------------gatccacatag
B D                       Rat  --------gctc-------tgtaaacccaagacacactc----c--------------ggtctacttag
B D                Guinea pig  --------gccc---------tgggttc------cattc----c-----cagctcagagagagaaacag
             Brush-tailed rat  --------gcac---------tgggctc------catcc----ctagcacggt-----ggaagaaacag
B D                       Pig  ----------------------aaatccaagtg-cagcagctca--------------ggtcactatgg
B D                   Megabat  -------------------------------------------g--------------gg---------
B D                 Armadillo  -----------cctaaaagcaaaaaatcaaatc-aaa--------------------------------
B D           Tasmanian devil  aaatttatgcatctattg-cagtagcaccagcc-cagct----t--------------attaaagaaaa
B D                     Shrew  =====================================================================
      Lesser Egyptian jerboa  =====================================================================
         Cape elephant shrew  =====================================================================
B D                  Hedgehog  =====================================================================
                  Chinchilla  =====================================================================
B D                    Tenrec  =====================================================================
B D                      Pika  ---------------------------------------------------------------------
             Star-nosed mole  =====================================================================
            Black flying-fox  ---------------------------------------------------------------------
                Weddell seal  =====================================================================
                Killer whale  =====================================================================
B D                     Panda  =====================================================================
               Big brown bat  ---------------------------------------------------------------------
B D                       Cow  =====================================================================
               Domestic goat  =====================================================================
B D                     Sheep  =====================================================================
            Tibetan antelope  =====================================================================
B D                  Microbat  =====================================================================
        David's myotis (bat)  =====================================================================
          Chinese tree shrew  =====================================================================
B D                       Dog  =====================================================================
B D                   Ferret   ---------------------------------------------------------------------
B D                       Cat  ---------------------------------------------------------------------
              Pacific walrus  =====================================================================
B D                   Dolphin  ---------------------------------------------------------------------
                 Spotted gar  =====================================================================
B D                 Zebrafish  =====================================================================
B D                    Medaka  =====================================================================
      Yellowbelly pufferfish  =====================================================================
         Pundamilia nyererei  =====================================================================
                 Zebra mbuna  =====================================================================
       Burton's mouthbreeder  =====================================================================
         Princess of Burundi  =====================================================================
B D              Nile tilapia  =====================================================================
B D                Coelacanth  =====================================================================
B D             X. tropicalis  =====================================================================
B D                    Lizard  =====================================================================
  D    Spiny softshell turtle  =====================================================================
  D  Chinese softshell turtle  =====================================================================
  D            Painted turtle  =====================================================================
  D           Green seaturtle  =====================================================================
B D                    Turkey  =====================================================================
B D                   Chicken  =====================================================================
  D              Mallard duck  =====================================================================
B D                Budgerigar  =====================================================================
          Tibetan ground jay  =====================================================================
B D               Zebra finch  =====================================================================
B D       Medium ground finch  =====================================================================
  D    White-throated sparrow  =====================================================================
  D       Collared flycatcher  =====================================================================
  D          Peregrine falcon  =====================================================================
  D              Saker falcon  =====================================================================
  D               Rock pigeon  =====================================================================
B D                  Platypus  =====================================================================
B D                   Wallaby  =====================================================================
    Mexican tetra (cavefish)  =====================================================================
B D                 Tetraodon  =====================================================================
B D                      Fugu  =====================================================================
B D        American alligator  =====================================================================
B D                   Opossum  =====================================================================
B D                   Manatee  ---------------------------------------------------------------------
B D                  Elephant  =====================================================================
B D                  Bushbaby  ---------------------------------------------------------------------
B D            Naked mole-rat  =====================================================================
B D                    Rabbit  ---------------------------------------------------------------------
              Bactrian camel  =====================================================================
                    Aardvark  ---------------------------------------------------------------------
            Cape golden mole  ---------------------------------------------------------------------
B D          White rhinoceros  ---------------------------------------------------------------------
B D                     Horse  =====================================================================
B D                    Alpaca  =====================================================================

Inserts between block 28 and 29 in window
B D                 Squirrel 6bp
B D                      Pig 4bp

Alignment block 29 of 50 in window, 42695740 - 42695745, 6 bps 
B D                     Human  tgaaat-
B D                     Chimp  tgaaat-
B D                   Gorilla  tgaaat-
B D                 Orangutan  tgaaat-
B D                    Gibbon  tgaaat-
B D                    Rhesus  cgaaac-
B D       Crab-eating macaque  cgaaac-
B D                    Baboon  cgaaac-
B D              Green monkey  caaaac-
B D           Squirrel monkey  taaaaa-
                 Prairie vole  aaagtt-
B D           Chinese hamster  caagtc-
               Golden hamster  tgagtt-
B D                     Mouse  caaatt-
B D                       Rat  cacatt-
B D                Guinea pig  gaagtt-
             Brush-tailed rat  gaaatt-
B D                       Pig  ctaaat-
B D                   Megabat  tgaaat-
                Big brown bat  tgaaat-
B D           Tasmanian devil  -ggaatc
B D                     Shrew  =======
      Lesser Egyptian jerboa  =======
         Cape elephant shrew  =======
B D                  Hedgehog  =======
                  Chinchilla  =======
B D                    Tenrec  =======
B D                      Pika  -------
             Star-nosed mole  =======
            Black flying-fox  -------
                Weddell seal  =======
                Killer whale  =======
B D                     Panda  =======
B D                       Cow  =======
               Domestic goat  =======
B D                     Sheep  =======
            Tibetan antelope  =======
B D                  Microbat  =======
        David's myotis (bat)  =======
B D                 Armadillo  -------
B D                  Squirrel  =======
          Chinese tree shrew  =======
B D                       Dog  =======
B D                   Ferret   -------
B D                       Cat  -------
              Pacific walrus  =======
B D                   Dolphin  -------
                 Spotted gar  =======
B D                 Zebrafish  =======
B D                    Medaka  =======
      Yellowbelly pufferfish  =======
         Pundamilia nyererei  =======
                 Zebra mbuna  =======
       Burton's mouthbreeder  =======
         Princess of Burundi  =======
B D              Nile tilapia  =======
B D                Coelacanth  =======
B D             X. tropicalis  =======
B D                    Lizard  =======
  D    Spiny softshell turtle  =======
  D  Chinese softshell turtle  =======
  D            Painted turtle  =======
  D           Green seaturtle  =======
B D                    Turkey  =======
B D                   Chicken  =======
  D              Mallard duck  =======
B D                Budgerigar  =======
          Tibetan ground jay  =======
B D               Zebra finch  =======
B D       Medium ground finch  =======
  D    White-throated sparrow  =======
  D       Collared flycatcher  =======
  D          Peregrine falcon  =======
  D              Saker falcon  =======
  D               Rock pigeon  =======
B D                  Platypus  =======
B D                   Wallaby  =======
    Mexican tetra (cavefish)  =======
B D                 Tetraodon  =======
B D                      Fugu  =======
B D        American alligator  =======
B D                   Opossum  =======
B D                   Manatee  -------
B D                  Elephant  =======
B D                  Bushbaby  -------
B D            Naked mole-rat  =======
B D                    Rabbit  -------
              Bactrian camel  =======
                    Aardvark  -------
            Cape golden mole  -------
B D          White rhinoceros  -------
B D                     Horse  =======
B D                    Alpaca  =======
B D                  Marmoset  -------

Inserts between block 29 and 30 in window
               Big brown bat 1bp

Alignment block 30 of 50 in window, 42695746 - 42695749, 4 bps 
B D                     Human  -ctca
B D                     Chimp  -ctca
B D                   Gorilla  -ctca
B D                 Orangutan  -ctca
B D                    Gibbon  -ctca
B D                    Rhesus  -ccca
B D       Crab-eating macaque  -ccca
B D                    Baboon  -ccca
B D              Green monkey  -ccca
B D           Squirrel monkey  -ccca
                 Prairie vole  -cca-
B D           Chinese hamster  -ccg-
               Golden hamster  -cta-
B D                     Mouse  -cca-
B D                       Rat  -cca-
B D                Guinea pig  -aaa-
             Brush-tailed rat  -aaa-
B D                       Pig  -tcg-
                Big brown bat  -ttg-
B D           Tasmanian devil  gttg-
B D                     Shrew  =====
      Lesser Egyptian jerboa  =====
         Cape elephant shrew  =====
B D                  Hedgehog  =====
                  Chinchilla  =====
B D                    Tenrec  =====
B D                      Pika  -----
             Star-nosed mole  =====
            Black flying-fox  -----
                Weddell seal  =====
                Killer whale  =====
B D                     Panda  =====
B D                       Cow  =====
               Domestic goat  =====
B D                     Sheep  =====
            Tibetan antelope  =====
B D                  Microbat  =====
        David's myotis (bat)  =====
B D                 Armadillo  -----
B D                  Squirrel  =====
          Chinese tree shrew  =====
B D                       Dog  =====
B D                   Ferret   -----
B D                       Cat  -----
              Pacific walrus  =====
B D                   Dolphin  -----
                 Spotted gar  =====
B D                 Zebrafish  =====
B D                    Medaka  =====
      Yellowbelly pufferfish  =====
         Pundamilia nyererei  =====
                 Zebra mbuna  =====
       Burton's mouthbreeder  =====
         Princess of Burundi  =====
B D              Nile tilapia  =====
B D                Coelacanth  =====
B D             X. tropicalis  =====
B D                    Lizard  =====
  D    Spiny softshell turtle  =====
  D  Chinese softshell turtle  =====
  D            Painted turtle  =====
  D           Green seaturtle  =====
B D                    Turkey  =====
B D                   Chicken  =====
  D              Mallard duck  =====
B D                Budgerigar  =====
          Tibetan ground jay  =====
B D               Zebra finch  =====
B D       Medium ground finch  =====
  D    White-throated sparrow  =====
  D       Collared flycatcher  =====
  D          Peregrine falcon  =====
  D              Saker falcon  =====
  D               Rock pigeon  =====
B D                  Platypus  =====
B D                   Wallaby  =====
    Mexican tetra (cavefish)  =====
B D                 Tetraodon  =====
B D                      Fugu  =====
B D        American alligator  =====
B D                   Opossum  =====
B D                   Manatee  -----
B D                  Elephant  =====
B D                  Bushbaby  -----
B D            Naked mole-rat  =====
B D                    Rabbit  -----
              Bactrian camel  =====
B D                   Megabat  -----
                    Aardvark  -----
            Cape golden mole  -----
B D          White rhinoceros  -----
B D                     Horse  =====
B D                    Alpaca  =====
B D                  Marmoset  -----

Inserts between block 30 and 31 in window
                Prairie vole 4bp
B D          Chinese hamster 31bp
              Golden hamster 138bp
B D                    Mouse 28bp
B D                      Rat 3bp
B D               Guinea pig 4bp
            Brush-tailed rat 4bp
B D                      Pig 1bp

Alignment block 31 of 50 in window, 42695750 - 42695766, 17 bps 
B D                     Human  -------------------------tctctaataaaaata-----ca
B D                     Chimp  -------------------------tctctactaaaaata-----ca
B D                   Gorilla  -------------------------tctctactaaaaata-----ca
B D                 Orangutan  -------------------------tctctactaaaaata-----ca
B D                    Gibbon  -------------------------tctctactaaaaata-----ca
B D                    Rhesus  -------------------------tctctactaaaaata-----ta
B D       Crab-eating macaque  -------------------------tctctactaaaaata-----ta
B D                    Baboon  -------------------------tctctactaaaaatg-----ta
B D              Green monkey  -------------------------tctctaccaaaaata-----ta
B D           Squirrel monkey  -------------------------tctctactaaaaata-----ca
B D                  Squirrel  ---------------------------acacaagaaag---------
                 Prairie vole  ---------------------------tatc---aagatt-------
B D           Chinese hamster  ---------------------------tctc--aaaaact-------
B D                     Mouse  ---------------------------tctcaaaaaaact-------
B D                       Rat  ---------------------------tttcaaaaagtct-------
B D                Guinea pig  -------------------------gctctgaataaaa---------
             Brush-tailed rat  -------------------------gctctgatttgaactttaac--
B D                      Pika  --------------------------ctct-----------------
B D                       Pig  -------------------------tccc------------------
B D                 Armadillo  -----------------------------tgataaaacca-----gg
B D           Tasmanian devil  ccagacattgggtcatcaagtatggttcct-----------------
B D                     Shrew  ===============================================
      Lesser Egyptian jerboa  ===============================================
         Cape elephant shrew  ===============================================
B D                  Hedgehog  ===============================================
                  Chinchilla  ===============================================
B D                    Tenrec  ===============================================
              Golden hamster  ===============================================
             Star-nosed mole  ===============================================
            Black flying-fox  -----------------------------------------------
                Weddell seal  ===============================================
                Killer whale  ===============================================
B D                     Panda  ===============================================
               Big brown bat  -----------------------------------------------
B D                       Cow  ===============================================
               Domestic goat  ===============================================
B D                     Sheep  ===============================================
            Tibetan antelope  ===============================================
B D                  Microbat  ===============================================
        David's myotis (bat)  ===============================================
          Chinese tree shrew  ===============================================
B D                       Dog  ===============================================
B D                   Ferret   -----------------------------------------------
B D                       Cat  -----------------------------------------------
              Pacific walrus  ===============================================
B D                   Dolphin  -----------------------------------------------
                 Spotted gar  ===============================================
B D                 Zebrafish  ===============================================
B D                    Medaka  ===============================================
      Yellowbelly pufferfish  ===============================================
         Pundamilia nyererei  ===============================================
                 Zebra mbuna  ===============================================
       Burton's mouthbreeder  ===============================================
         Princess of Burundi  ===============================================
B D              Nile tilapia  ===============================================
B D                Coelacanth  ===============================================
B D             X. tropicalis  ===============================================
B D                    Lizard  ===============================================