Multiz Alignments of 100 Vertebrates
 

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Alignment block 1 of 1078 in window, 56741761 - 56741838, 78 bps 
B D                     Human  tactttcttcaagtgctcccaacgctgaagtgaattgtgagacttttggaagct-ttgttgaagttcatc
B D                     Chimp  tactttcttcaagtgctcccaacgctgaagtgaattgtgagacttttggaagct-ttgttgaagttcatc
B D                   Gorilla  tactttcttcaagtgctcccaacgctgaagtgaattgtgagacttttggaagcg-ttgttgaagttcatc
B D                 Orangutan  tactttcttcaagtgctcccaacgctgaagtgaattgtgagacttttggaagct-ttgttgaagttcatc
B D                    Gibbon  tactttcttcaagtgctcccaacgctgaagtgaactgtgagacttttggaagtt-ttgttgaagttcatc
B D                    Rhesus  tactttcttcaagtgctcccaacgctgaagtgaattgtgagacttttggaagcc-ttgttgaagttcatc
B D       Crab-eating macaque  tactttcttcaagtgctcccaacgctgaagtgaattgtgagacttttggaagcc-ttgttgaagttcatc
B D                    Baboon  tactttcttcaagtgctcccaacgctgaagtgaattgtgagacttttggaagcc-ttgttgaagttcatc
B D              Green monkey  tactttcttcaagtgctcccaacgctgaagtgaattgtgagacttttggaagcc-ttgttgaagttcatc
B D                  Marmoset  tgctttcttcaagtgctcccaacgctgaagtgaactgtgagacttttggaagct-ttgttggagttcatc
B D           Squirrel monkey  tgctttcttcaagtgctcccaacgctgaagtgaactgtgagacttttggaagtt-ttgttgaagttcatc
B D                  Bushbaby  tgctttcttcaaatgctcccaacgctgatgtgaactgtgagacttttggaagtt-ttgttgaagttcatc
           Chinese tree shrew  tactttcttcaaatgttcccagcgctgaagtgaattgtgagacttttggaagtt-ttgttgaagttcatc
B D                  Squirrel  tactctcttcaaatactcccatctctgaagtgaactgtgagacttttggaagtt-tttttgaagatcttc
       Lesser Egyptian jerboa  tgttttcttcaattgctcccagcgctgaagtgaactgtgagacttctggaagtg-cttttgaagttcatc
                 Prairie vole  cactttcttcagatactcccagcgctgagatgaactgtgaagcctttgaaagcc-cttctgaagctcatc
B D           Chinese hamster  cactttcctcagatattcccagcgttgaggtgaactgtgaagcctttggaagcc-tctctgaagctcttc
               Golden hamster  cactttcctcagatactcccagcgttgagatgaactgtgaagcctttggaagcc-cctctgaagctcatc
B D                     Mouse  cactttcctcaggtgttcccagcgctgaggtgaactgtggaacttctggaaccc-tctttgcagctcatc
B D                       Rat  cactttcctcaggtattcccagcgctgaggtgaactgtgaaatctctgaaaccc-tttttgcagctcatc
B D            Naked mole-rat  tattcttttcagatgctcccaacgctgaagtgaattatgagacttctggaagta-tggttgaagttcttc
B D                Guinea pig  tactcttttcagatgctcccaacgctgaactgaattgtgagacttctggaagca-tgtctgaagttcttc
                   Chinchilla  tactctttttagatgctcccaacgctgaagtgaattgtgagacttctggaacgc-tgtctgaaggtcttc
             Brush-tailed rat  tactttttttagatgctcccaacgctgaagtgaattgtgagacttctggaagtt-tgtctgaagttcttc
B D                    Rabbit  tgttttcttcaggtgctcccaacgctgaagagagctgtgacacttctggaagcc-ttgttgaagatcagc
B D                      Pika  aactttcttcaaatattcccaacgttgaagggaattgtgacacttgacgaagcc-ttgctgaagttcatc
B D                       Pig  tgctttcttcaaatactcccaacgctgaagtgaattctgatgcttttggaagct-ttgttgaagttcatc
B D                    Alpaca  tgcttttttcaaatgctcccaacgctgaagtgaattgtgatccttttgaaagtt-ctgttgaagtttatc
               Bactrian camel  tgcttttttcaaatgctcccaacgctgaagtgaattgtgatccttttgaaagtt-ctgttgaagttcatc
B D                   Dolphin  tgctttcttcaaatgctcccagcgctgaagtgaattgtgatgcttttggaagct-ttgttgaagttcatc
                 Killer whale  tgctttcttcaaatgctcccagcgctgaagtgaattgtgatgcttttggaagct-ttgttgaagttcatc
             Tibetan antelope  ggtgttcttcaaattctcccaacgctgaagtgaattgctatgccttgggaagcc-ttgttgaagttcatc
B D                       Cow  ggtgttcttcaaagtctcccaacgctgaggtgaattgctctgcctttggaagcc-ttgttgaagttcatc
B D                     Sheep  ggtgttcttcaaattctcccaacgctgaagtgaattgctatgcctttggaagcc-ttgttgaagttcatc
                Domestic goat  ggtgttcttcaaattctcccaacgctgaagtgaattgctatgcctttggaagcc-ttgttgaagttcatc
B D                     Horse  tgccttcttcaaatactcccaacgctgaagtgaactgtgatgcttttggaagtt-ctgttgaaggtcatt
B D          White rhinoceros  ggctttcttcaattcctcccaacgctgaagtgaattgtgatgcttttggaagct-ttgttgaagttcacc
B D                       Cat  ggttttcttcaaatactcccaacgctgaagtgaattgtgatgcttttggaagtt-ttgttgaagtttctc
B D                       Dog  ggctttctttaaacactcccaacgctgaagtgaattgtgatgcttctggaagtt-ttgttgaagtttctc
B D                   Ferret   ggctttcatcaaatattcccaacgctgaagtgaattgtgatacttcgggaagtt-ttgctgaagtgtctc
B D                     Panda  gccttgcttcaaatattcccaacgctgaagtgaactgtgacacttctggaagtt-ttgctgaagtttctc
               Pacific walrus  ggctttcttcaaatattcccaacgctgaagtgaattgtgatacttctggaagtt-ttgctgaagtttctc
                 Weddell seal  ggctttcttcaaatattcccaacgctgaagtgaattgtgatgcttctggaagtt-ttgctgaagattctc
             Black flying-fox  tactttcttcaaatgctcccaacgctgaagtgaactgtgatgattttggaagac-ttgttgaagttcatc
B D                   Megabat  tactttcttcaaatgctcccaacgctgaagtgaactgtgatgattttggaagactttgttgaagttcatc
                Big brown bat  cactttcttcaaatgctcccaacgctgaagtgaactgtgatgcttttggaagat-tggttgaaggtcatc
         David's myotis (bat)  ctttttcttcaaatgctcccaacgctgaagtgaactgtgaggcttttggaagat-ttcttgaaggccatc
  D          Little brown bat  ctttttcttcaaatgctcccaacgctgaagtgaactgtgaggcttttggaagat-ttcttgaaggccatc
B D                  Hedgehog  cactttcttcaaatactcccaacgctgaagtgagttgtgctgcttttggaagct-ttgttgaagttcatc
B D                     Shrew  tactttcttcaaatactcccaacgctgaagtgagctatgacacttctggaaatt-acgttgaagatcatc
              Star-nosed mole  tgttttctttaaatgctcccaacgttgaagtgaattgtgatgcttttgaaagcc-acacagaagttcttc
B D                  Elephant  tactttcttgaaatattcccaacgctgaagcgaactgtgatacttctggaagcc-ttgttgaaggtcatc
          Cape elephant shrew  tattttcctcaaatattcccatcgctgaagtgaattgtgacatttttggaagcc-ttgctgaagttcatc
B D                   Manatee  tacttccttcaaatgttcccaacgctgaagtgaactgtgacacttctggaagcc-ttgttgaagctcatc
             Cape golden mole  tactgtcttcaaatatttccaccgctgaagtgaattgtgacatttttggaagcc-ttcttgaagtttatc
B D                    Tenrec  tgatttcttcaaatgttcccaacgctgaagtgaactgtggcacgtctggaagcg-ttcttgaagttcacc
                     Aardvark  tgtgtccttcaaatgttcccaacgctgaagtgaactctgacatttttggaagtc-tctttgaagttcatc
B D                 Armadillo  tactttcttcaagtactcccaacgctgaagtgagttgtgatgcttttggaaggc-ttgctgaagatcatc
B D                   Opossum  tactttcttcaaatattcccaatgctggactgaattgtgacatctttggaatcc-ttgctaaagatcagc
B D           Tasmanian devil  tacttgtttcaaatgttcccaacgctgaacagaattatgaaatttctggaatcc-ttgctgaagctcagc
B D                   Wallaby  tactttcttcaaatgttcccagcgctggactgaatcatgacacttctggaatcc-ttgctgaaggtcagc
B D                  Platypus  caccttcttcaggtgatgccagcgctgccgggagccggggagcttgggcaagtc-gctctgcagggtctc
  D            Painted turtle  cttctttttcaggagctcccagcgctggactgaatcatgctttttggggaattc-ccgcagcaggctctc
B D               Stickleback  atgatccttcaccagtttccaacgggtctctggtttcttctcgttttggaagac-ctgctgtaattcttt
B D                   Lamprey  ======================================================================
B D                Coelacanth  ======================================================================
B D              Atlantic cod  ======================================================================
                 Spotted gar  ======================================================================
          Southern platyfish  ======================================================================
      Yellowbelly pufferfish  ======================================================================
B D                      Fugu  ======================================================================
B D                    Turkey  ======================================================================
B D                   Chicken  ======================================================================
          Tibetan ground jay  ======================================================================
B D               Zebra finch  ======================================================================
    Mexican tetra (cavefish)  ======================================================================
B D                 Zebrafish  ======================================================================
B D                    Medaka  ======================================================================
         Pundamilia nyererei  ======================================================================
                 Zebra mbuna  ======================================================================
       Burton's mouthbreeder  ======================================================================
         Princess of Burundi  ======================================================================
B D              Nile tilapia  ======================================================================
B D             X. tropicalis  ======================================================================
  D           Green seaturtle  ======================================================================
B D        American alligator  ======================================================================
  D             Scarlet macaw  ======================================================================
  D               Rock pigeon  ======================================================================
  D       Collared flycatcher  ======================================================================
B D       Medium ground finch  ======================================================================
B D                    Lizard  ======================================================================
  D          Peregrine falcon  ======================================================================
  D              Saker falcon  ======================================================================
  D                    Parrot  ======================================================================
  D  Chinese softshell turtle  ======================================================================

                        Human  atg-aattgg
                        Chimp  atg-aattgg
                      Gorilla  atg-aattgg
                    Orangutan  atg-aattgg
                       Gibbon  atg-aattgg
                       Rhesus  atg-aattag
          Crab-eating macaque  atg-aattag
                       Baboon  atg-aattag
                 Green monkey  atg-aattag
                     Marmoset  acg-aattgg
              Squirrel monkey  atg-aattgg
                     Bushbaby  atg-aattgg
           Chinese tree shrew  atg-attagg
                     Squirrel  atg-aatagg
       Lesser Egyptian jerboa  atg-aattgg
                 Prairie vole  atg-aattgg
              Chinese hamster  gtg-aatggg
               Golden hamster  gtg-aatggg
                        Mouse  atg-aattgg
                          Rat  atg-aactgg
               Naked mole-rat  atg-aattgg
                   Guinea pig  atg-aattgg
                   Chinchilla  atg-aattgg
             Brush-tailed rat  atg-aattgg
                       Rabbit  atg-aattgg
                         Pika  atg-aattgg
                          Pig  atg-cattgg
                       Alpaca  atg-cattgg
               Bactrian camel  atg-cattgg
                      Dolphin  atg-cattgg
                 Killer whale  atg-cattgg
             Tibetan antelope  acg-cattgg
                          Cow  acg-cactgg
                        Sheep  acg-cattgg
                Domestic goat  acg-cattgg
                        Horse  atg-cattgg
             White rhinoceros  atg-aattgg
                          Cat  atg-aattgg
                          Dog  atg-aattgg
                      Ferret   atg-aattgg
                        Panda  atg-aattgg
               Pacific walrus  atg-aattgg
                 Weddell seal  atg-aattgg
             Black flying-fox  atg-aattag
                      Megabat  atgaaattag
                Big brown bat  atg-catcgg
         David's myotis (bat)  atg-cattgg
             Little brown bat  atg-cattgg
                     Hedgehog  atg-aactgg
                        Shrew  atg-cagtgg
              Star-nosed mole  atg-aattgg
                     Elephant  atg-cattgg
          Cape elephant shrew  atg-aatcgg
                      Manatee  atg-cattgg
             Cape golden mole  atg-cattgg
                       Tenrec  att-cattgg
                     Aardvark  atg-catcag
                    Armadillo  atg-aattgg
                      Opossum  atg-aagaga
              Tasmanian devil  atg-aagagg
                      Wallaby  atg-aatagg
                     Platypus  gcg-cagcgg
               Painted turtle  tcg-aaccgg
                  Stickleback  tct-cacatg
                      Lamprey  ==========
                   Coelacanth  ==========
                 Atlantic cod  ==========
                  Spotted gar  ==========
           Southern platyfish  ==========
       Yellowbelly pufferfish  ==========
                         Fugu  ==========
                       Turkey  ==========
                      Chicken  ==========
           Tibetan ground jay  ==========
                  Zebra finch  ==========
     Mexican tetra (cavefish)  ==========
                    Zebrafish  ==========
                       Medaka  ==========
          Pundamilia nyererei  ==========
                  Zebra mbuna  ==========
        Burton's mouthbreeder  ==========
          Princess of Burundi  ==========
                 Nile tilapia  ==========
                X. tropicalis  ==========
              Green seaturtle  ==========
           American alligator  ==========
                Scarlet macaw  ==========
                  Rock pigeon  ==========
          Collared flycatcher  ==========
          Medium ground finch  ==========
                       Lizard  ==========
             Peregrine falcon  ==========
                 Saker falcon  ==========
                       Parrot  ==========
     Chinese softshell turtle  ==========

Alignment block 2 of 1078 in window, 56741839 - 56741840, 2 bps 
B D                     Human  tg
B D                     Chimp  tg
B D                   Gorilla  tg
B D                 Orangutan  tg
B D                    Gibbon  tg
B D                    Rhesus  tg
B D       Crab-eating macaque  tg
B D                    Baboon  tg
B D              Green monkey  tg
B D                  Marmoset  tg
B D           Squirrel monkey  tg
B D                  Bushbaby  tg
           Chinese tree shrew  tg
B D                  Squirrel  tg
       Lesser Egyptian jerboa  tg
                 Prairie vole  tg
B D           Chinese hamster  tg
               Golden hamster  tg
B D                     Mouse  tg
B D                       Rat  tg
B D            Naked mole-rat  tg
B D                Guinea pig  tg
                   Chinchilla  tg
             Brush-tailed rat  tg
B D                    Rabbit  tg
B D                      Pika  tg
B D                       Pig  tg
B D                    Alpaca  tg
               Bactrian camel  tg
B D                   Dolphin  tg
                 Killer whale  tg
             Tibetan antelope  tg
B D                       Cow  tg
B D                     Sheep  tg
                Domestic goat  tg
B D                     Horse  tg
B D          White rhinoceros  tg
B D                       Cat  tg
B D                       Dog  ta
B D                   Ferret   tg
B D                     Panda  tg
               Pacific walrus  tg
                 Weddell seal  tg
             Black flying-fox  tg
B D                   Megabat  tg
                Big brown bat  tg
         David's myotis (bat)  tg
  D          Little brown bat  tg
B D                  Hedgehog  ta
B D                     Shrew  tg
              Star-nosed mole  ta
B D                  Elephant  tg
          Cape elephant shrew  tg
B D                   Manatee  tg
             Cape golden mole  ta
B D                    Tenrec  ta
                     Aardvark  tg
B D                 Armadillo  tg
B D           Tasmanian devil  tg
B D                   Wallaby  tg
B D                  Platypus  tg
  D            Painted turtle  tg
B D               Stickleback  tg
B D                   Lamprey  ==
B D                Coelacanth  ==
B D              Atlantic cod  ==
                 Spotted gar  ==
          Southern platyfish  ==
      Yellowbelly pufferfish  ==
B D                      Fugu  ==
B D                    Turkey  ==
B D                   Chicken  ==
          Tibetan ground jay  ==
B D               Zebra finch  ==
    Mexican tetra (cavefish)  ==
B D                 Zebrafish  ==
B D                    Medaka  ==
         Pundamilia nyererei  ==
                 Zebra mbuna  ==
       Burton's mouthbreeder  ==
         Princess of Burundi  ==
B D              Nile tilapia  ==
B D             X. tropicalis  ==
  D           Green seaturtle  ==
B D        American alligator  ==
  D             Scarlet macaw  ==
B D                   Opossum  --
  D               Rock pigeon  ==
  D       Collared flycatcher  ==
B D       Medium ground finch  ==
B D                    Lizard  ==
  D          Peregrine falcon  ==
  D              Saker falcon  ==
  D                    Parrot  ==
  D  Chinese softshell turtle  ==

Inserts between block 2 and 3 in window
B D                 Platypus 95bp

Alignment block 3 of 1078 in window, 56741841 - 56741857, 17 bps 
B D                     Human  --atgggtc---attaaggaac
B D                     Chimp  --atgggtc---attaaggaac
B D                   Gorilla  --atgggtc---attaaggaac
B D                 Orangutan  --atgggtc---attaaggaac
B D                    Gibbon  --atgggtc---attaaggaac
B D                    Rhesus  --atgggtc---attaaggaac
B D       Crab-eating macaque  --atgggtc---attaaggaac
B D                    Baboon  --atgggtc---attaaggaac
B D              Green monkey  --atgggtc---attaaggaac
B D                  Marmoset  --atgggtc---attaaggaac
B D           Squirrel monkey  --atgggtc---attaagga--
B D                  Bushbaby  --atgggtc---attaaggaac
           Chinese tree shrew  --atgggtc---attaaggaat
B D                  Squirrel  --acg-atc---attaaagaac
       Lesser Egyptian jerboa  --atata-c---attaaggaat
                 Prairie vole  --acgcatc---attaaggaac
B D           Chinese hamster  --gtgcagc---gttaaggaac
               Golden hamster  --atgcagc---gttaaggaac
B D                     Mouse  --atgcttc---attaaggagc
B D                       Rat  --atgcttc---attaaggacc
B D            Naked mole-rat  --atgtgac---attaaggaac
B D                Guinea pig  --atgtgac---attaaggaac
                   Chinchilla  --atatgac---attaaggaat
             Brush-tailed rat  --atacaat---gttaaggaac
B D                    Rabbit  --atggatc---attaaggaac
B D                      Pika  --atggatc---attaaggaac
B D                       Pig  --aggggtg---attaaggaac
B D                    Alpaca  --atgggtc---attaaggaac
               Bactrian camel  --atgggtc---attaaggaac
B D                   Dolphin  --atgggtc---attaaggaac
                 Killer whale  --atgggtc---attaaggaac
             Tibetan antelope  --atggatc---attaaggaac
B D                       Cow  --atggatc---attaaggaac
B D                     Sheep  --atggatc---attaaggaac
                Domestic goat  --atggatc---attaaggaac
B D                     Horse  --atgggtcttaattaaggaac
B D          White rhinoceros  --atgggcc---attaaggaac
B D                       Cat  --acgagtc---attaaggaac
B D                       Dog  --atgagtc---attaaggaa-
B D                   Ferret   --atgagtc---attaaggaac
B D                     Panda  --atgagtc---attaaggaac
               Pacific walrus  --atgaatc---attaaggaac
                 Weddell seal  --atgaatc---attaaggaac
             Black flying-fox  --ataggtc---attaaggaat
B D                   Megabat  --ataggtc---attaaggaat
                Big brown bat  --atgggtc---attaaggaac
         David's myotis (bat)  --atgggtc---attaaggaac
  D          Little brown bat  --atgggtc---attaaggaac
B D                  Hedgehog  --acgagtt---attaaggagc
B D                     Shrew  --agacgtc---attaaggaac
              Star-nosed mole  --agaggtc---attaaggaac
B D                  Elephant  --atgggtc---attaaggaac
          Cape elephant shrew  --acaggtc---attaaggaac
B D                   Manatee  --atgggtc---attaaggaac
             Cape golden mole  --atgggtc---attaaggaac
B D                    Tenrec  --acaggtc---tttaaggaac
                     Aardvark  --atgggtc---attaaggaac
B D                 Armadillo  --atgggtc---attaaggaac
B D           Tasmanian devil  --acaggaa---attaagaaac
B D                   Wallaby  --acaggca---gttaagaaac
  D            Painted turtle  --atcagct---gttaaggggt
B D               Stickleback  aaagctgga---gttaaggtc-
B D                   Lamprey  ======================
B D                Coelacanth  ======================
B D              Atlantic cod  ======================
                 Spotted gar  ======================
          Southern platyfish  ======================
      Yellowbelly pufferfish  ======================
B D                      Fugu  ======================
B D                    Turkey  ======================
B D                   Chicken  ======================
          Tibetan ground jay  ======================
B D               Zebra finch  ======================
    Mexican tetra (cavefish)  ======================
B D                 Zebrafish  ======================
B D                    Medaka  ======================
         Pundamilia nyererei  ======================
                 Zebra mbuna  ======================
       Burton's mouthbreeder  ======================
         Princess of Burundi  ======================
B D              Nile tilapia  ======================
B D             X. tropicalis  ======================
  D           Green seaturtle  ======================
B D        American alligator  ======================
  D             Scarlet macaw  ======================
B D                   Opossum  ----------------------
  D               Rock pigeon  ======================
  D       Collared flycatcher  ======================
B D       Medium ground finch  ======================
B D                    Lizard  ======================
  D          Peregrine falcon  ======================
  D              Saker falcon  ======================
  D                    Parrot  ======================
B D                  Platypus  ======================
  D  Chinese softshell turtle  ======================

Inserts between block 3 and 4 in window
B D          Tasmanian devil 4bp
B D                  Wallaby 525bp
  D           Painted turtle 7bp

Alignment block 4 of 1078 in window, 56741858 - 56741866, 9 bps 
B D                     Human  agact---c-----------att
B D                     Chimp  agact---c-----------att
B D                   Gorilla  agact---c-----------att
B D                 Orangutan  agact---c-----------att
B D                    Gibbon  agact---c-----------att
B D                    Rhesus  agact---c-----------att
B D       Crab-eating macaque  agact---c-----------att
B D                    Baboon  agact---c-----------att
B D              Green monkey  agact---c-----------att
B D                  Marmoset  agact---c-----------att
B D           Squirrel monkey  agact---c-----------att
B D                  Bushbaby  acact---c-----------att
           Chinese tree shrew  atact---c-----------agt
B D                  Squirrel  acact---c-----------att
       Lesser Egyptian jerboa  acact---c-----------att
                 Prairie vole  acact---gagtgtgttcatatg
B D           Chinese hamster  acgtg---a-----------atc
               Golden hamster  acacg---g-----------atc
B D                     Mouse  atggt---c-----------act
B D                       Rat  atgct---c-----------act
B D            Naked mole-rat  acatt---c-----------att
B D                Guinea pig  acatt---c-----------att
                   Chinchilla  acatt---c-----------att
             Brush-tailed rat  acatt---c-----------att
B D                    Rabbit  acacc---c-----------act
B D                      Pika  acaccttgc-----------ttt
B D                       Pig  atact---c-----------att
B D                    Alpaca  atact---c-----------att
               Bactrian camel  atact---c-----------att
B D                   Dolphin  acact---c-----------att
                 Killer whale  acact---c-----------att
             Tibetan antelope  acact---c-----------att
B D                       Cow  acact---c-----------att
B D                     Sheep  atact---c-----------att
                Domestic goat  acact---c-----------att
B D                     Horse  acact---c-----------att
B D          White rhinoceros  acgct---c-----------ttt
B D                       Cat  acact---c-----------att
B D                       Dog  acact---c-----------att
B D                   Ferret   acagt---c-----------att
B D                     Panda  acact---c-----------ttt
               Pacific walrus  acact---c-----------att
                 Weddell seal  acact---c-----------att
             Black flying-fox  ttact---c-----------att
B D                   Megabat  ttact---c-----------att
                Big brown bat  atact---c-----------att
         David's myotis (bat)  atatt---c-----------att
  D          Little brown bat  ataat---c-----------att
B D                  Hedgehog  acatt---c-----------att
B D                     Shrew  acatt---t-----------at-
              Star-nosed mole  acatt---t-----------att
B D                  Elephant  acgct---c-----------att
          Cape elephant shrew  atact---c-----------agt
B D                   Manatee  acact---c-----------att
             Cape golden mole  aca--------------------
B D                    Tenrec  acaca---c-----------att
                     Aardvark  acagt---c-----------att
B D                 Armadillo  acagt---c-----------att
B D           Tasmanian devil  acttt---a-----------gct
  D            Painted turtle  aggct---c-----------gcc
B D               Stickleback  aaatc---c-----------att
B D                   Lamprey  =======================
B D                Coelacanth  =======================
B D              Atlantic cod  =======================
                 Spotted gar  =======================
          Southern platyfish  =======================
      Yellowbelly pufferfish  =======================
B D                      Fugu  =======================
B D                    Turkey  =======================
B D                   Chicken  =======================
          Tibetan ground jay  =======================
B D               Zebra finch  =======================
    Mexican tetra (cavefish)  =======================
B D                 Zebrafish  =======================
B D                    Medaka  =======================
         Pundamilia nyererei  =======================
                 Zebra mbuna  =======================
       Burton's mouthbreeder  =======================
         Princess of Burundi  =======================
B D              Nile tilapia  =======================
B D             X. tropicalis  =======================
  D           Green seaturtle  =======================
B D        American alligator  =======================
  D             Scarlet macaw  =======================
B D                   Opossum  -----------------------
  D               Rock pigeon  =======================
  D       Collared flycatcher  =======================
B D       Medium ground finch  =======================
B D                    Lizard  =======================
  D          Peregrine falcon  =======================
  D              Saker falcon  =======================
  D                    Parrot  =======================
B D                  Platypus  =======================
B D                   Wallaby  =======================
  D  Chinese softshell turtle  =======================

Inserts between block 4 and 5 in window
B D         White rhinoceros 265bp
B D          Tasmanian devil 7bp

Alignment block 5 of 1078 in window, 56741867 - 56741867, 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  g
B D                  Bushbaby  t
           Chinese tree shrew  t
B D                  Squirrel  t
       Lesser Egyptian jerboa  t
                 Prairie vole  t
B D           Chinese hamster  t
               Golden hamster  t
B D                     Mouse  t
B D                       Rat  t
B D            Naked mole-rat  t
B D                Guinea pig  t
                   Chinchilla  t
             Brush-tailed rat  t
B D                    Rabbit  c
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
  D          Little brown bat  t
B D                  Hedgehog  t
              Star-nosed mole  t
B D                  Elephant  t
          Cape elephant shrew  t
B D                   Manatee  t
B D                    Tenrec  c
                     Aardvark  t
B D                 Armadillo  t
B D           Tasmanian devil  t
  D            Painted turtle  t
B D               Stickleback  t
B D                   Lamprey  =
B D                Coelacanth  =
B D                     Shrew  -
B D              Atlantic cod  =
                 Spotted gar  =
          Southern platyfish  =
      Yellowbelly pufferfish  =
B D                      Fugu  =
B D                    Turkey  =
B D                   Chicken  =
          Tibetan ground jay  =
B D               Zebra finch  =
    Mexican tetra (cavefish)  =
B D                 Zebrafish  =
B D                    Medaka  =
         Pundamilia nyererei  =
                 Zebra mbuna  =
       Burton's mouthbreeder  =
         Princess of Burundi  =
B D              Nile tilapia  =
B D             X. tropicalis  =
  D           Green seaturtle  =
B D        American alligator  =
  D             Scarlet macaw  =
B D                   Opossum  -
  D               Rock pigeon  =
  D       Collared flycatcher  =
B D       Medium ground finch  =
B D                    Lizard  =
  D          Peregrine falcon  =
  D              Saker falcon  =
  D                    Parrot  =
            Cape golden mole  -
B D                  Platypus  =
B D                   Wallaby  =
  D  Chinese softshell turtle  =

Inserts between block 5 and 6 in window
B D           Naked mole-rat 120bp
B D          Tasmanian devil 4bp
B D              Stickleback 80bp

Alignment block 6 of 1078 in window, 56741868 - 56741877, 10 bps 
B D                     Human  agggaacatc
B D                     Chimp  agggaacatc
B D                   Gorilla  agggaacatc
B D                 Orangutan  agggaacatc
B D                    Gibbon  agggaacgtc
B D                    Rhesus  aggggacatc
B D       Crab-eating macaque  aggggacatc
B D                    Baboon  aggggacatc
B D              Green monkey  aggggacatc
B D                  Marmoset  aggggacgtc
B D           Squirrel monkey  aagggacatc
B D                  Bushbaby  agggcacatc
           Chinese tree shrew  aggaaacatc
B D                  Squirrel  agggtacatc
       Lesser Egyptian jerboa  gggacacatt
                 Prairie vole  gggatacctg
B D           Chinese hamster  ggg-tagctc
               Golden hamster  ggg-tacctc
B D                     Mouse  gggatacctc
B D                       Rat  gggataattc
B D                Guinea pig  agggcatatc
                   Chinchilla  aaggcatatc
             Brush-tailed rat  -aggcatatc
B D                    Rabbit  agggcatata
B D                      Pika  agagtgtat-
B D                       Pig  agggcacata
B D                    Alpaca  agggcacatc
               Bactrian camel  agggcacatc
B D                   Dolphin  agggcacatc
                 Killer whale  agggcacatc
             Tibetan antelope  agggtacatc
B D                       Cow  agggtacatc
B D                     Sheep  agggtacatc
                Domestic goat  agggtacatc
B D                     Horse  agggcacatc
B D          White rhinoceros  agggcacatc
B D                       Cat  atgacacatt
B D                       Dog  agggcacatc
B D                   Ferret   acagc-cact
B D                     Panda  agagcacatc
               Pacific walrus  agagcgcact
                 Weddell seal  agagcacact
             Black flying-fox  agggcacatc
B D                   Megabat  agggcacatc
                Big brown bat  agggcatatc
         David's myotis (bat)  agggcacatc
  D          Little brown bat  agggcacatc
B D                  Hedgehog  aaaacatgtc
B D                     Shrew  --ggtacatt
              Star-nosed mole  agggcacatg
B D                  Elephant  agagcacatc
          Cape elephant shrew  agggtacatt
B D                   Manatee  agggcacatc
             Cape golden mole  --------tc
B D                    Tenrec  aaggcaagcc
                     Aardvark  agagcacagc
B D                 Armadillo  agggcacatc
B D           Tasmanian devil  aagataaatt
  D            Painted turtle  aggggccaac
B D                   Lamprey  ==========
B D                Coelacanth  ==========
B D              Atlantic cod  ==========
                 Spotted gar  ==========
B D               Stickleback  ==========
          Southern platyfish  ==========
      Yellowbelly pufferfish  ==========
B D                      Fugu  ==========
B D                    Turkey  ==========
B D                   Chicken  ==========
          Tibetan ground jay  ==========
B D               Zebra finch  ==========
    Mexican tetra (cavefish)  ==========
B D                 Zebrafish  ==========
B D                    Medaka  ==========
         Pundamilia nyererei  ==========
                 Zebra mbuna  ==========
       Burton's mouthbreeder  ==========
         Princess of Burundi  ==========
B D              Nile tilapia  ==========
B D             X. tropicalis  ==========
  D           Green seaturtle  ==========
B D        American alligator  ==========
  D             Scarlet macaw  ==========
B D                   Opossum  ----------
B D            Naked mole-rat  ==========
  D               Rock pigeon  ==========
  D       Collared flycatcher  ==========
B D       Medium ground finch  ==========
B D                    Lizard  ==========
  D          Peregrine falcon  ==========
  D              Saker falcon  ==========
  D                    Parrot  ==========
B D                  Platypus  ==========
B D                   Wallaby  ==========
  D  Chinese softshell turtle  ==========

Inserts between block 6 and 7 in window
  D           Painted turtle 1629bp

Alignment block 7 of 1078 in window, 56741878 - 56741895, 18 bps 
B D                     Human  aatgaacaattt-agttt-t
B D                     Chimp  aatgaacaattt-agttt-t
B D                   Gorilla  aatgaacaattt-agttt-t
B D                 Orangutan  aatgaacaattt-agttt-t
B D                    Gibbon  aatgaacaattt-agttt-t
B D                    Rhesus  aatgaacaactt-agttt-t
B D       Crab-eating macaque  aatgaacaactt-agttt-t
B D                    Baboon  aatgaacaactt-agttt-t
B D              Green monkey  aatgaacaactt-agttt-t
B D                  Marmoset  aatgaacaactt-agttt-t
B D           Squirrel monkey  aatgaacaagtt-aattt-t
B D                  Bushbaby  aatgaacaactt-agttt-t
           Chinese tree shrew  aatgaa-----t-agttt-t
B D                  Squirrel  agtgaacaacttaagttt-t
       Lesser Egyptian jerboa  aataaataactt-agt-t-t
                 Prairie vole  agtatgtc-----agtct-g
B D           Chinese hamster  agcaggtta----agtgt-g
               Golden hamster  agtaagtta----agtgt-g
B D                     Mouse  aatgagta-----agtct-t
B D                       Rat  aacgaata-----agtct-t
B D                Guinea pig  agcaaactactg-agttt-t
                   Chinchilla  aacaaacaactt-agttt-t
             Brush-tailed rat  aacaaataactt-agttt-t
B D                    Rabbit  cacgaacaactc-agttt-t
B D                      Pika  -------cagtg-agttt-t
B D                       Pig  aatgaacaactt-atttt--
B D                    Alpaca  aatgaacagctt-atttt--
               Bactrian camel  aatgaacagctt-atttt--
B D                   Dolphin  aacgaacaactt-atttt--
                 Killer whale  aacgaacaactt-atttt--
             Tibetan antelope  aatgaacaactt-atttt--
B D                       Cow  aacaaacaactt-atttt--
B D                     Sheep  aatgaacaactt-atttt--
                Domestic goat  aatgaacaactt-atttt--
B D                     Horse  agtgaacaactt-atttt--
B D          White rhinoceros  agtgaacaactt-atttt--
B D                       Cat  aatgaacaactt-atttc--
B D                       Dog  aacgaacaactt-gtttt--
B D                   Ferret   gatgaacaactt-atttt--
B D                     Panda  gatgaacaactt-atttt--
               Pacific walrus  gatgaacaactt-atttt--
                 Weddell seal  gatgaacaactt-agttt--
             Black flying-fox  aattaacaactt-atttt--
B D                   Megabat  aattaacaactt-atttt--
                Big brown bat  aacaaacaactt-atttt--
         David's myotis (bat)  aacaaacaactt-atttt--
  D          Little brown bat  aacaaacaactt-atttt--
B D                  Hedgehog  agttaacagctt-cttttt-
B D                     Shrew  aacgaacaagat-attttc-
              Star-nosed mole  agc-aacaattt-actttc-
B D                  Elephant  agtgaacaactc-agttt-t
          Cape elephant shrew  tgtgaacagctt-agttt-t
B D                   Manatee  agtgaacaactt-agttt-t
             Cape golden mole  agtgaacaactt-aattt-g
B D                    Tenrec  ggtgaacaacct-agctt-t
                     Aardvark  agtgaacaactt-agttt-t
B D                 Armadillo  aatgaagaactt-tgttt-t
B D           Tasmanian devil  cccaaaca---t-gattt--
B D                   Lamprey  ====================
B D                Coelacanth  ====================
B D              Atlantic cod  ====================
                 Spotted gar  ====================
B D               Stickleback  ====================
          Southern platyfish  ====================
      Yellowbelly pufferfish  ====================
B D                      Fugu  ====================
B D                    Turkey  ====================
B D                   Chicken  ====================
          Tibetan ground jay  ====================
B D               Zebra finch  ====================
    Mexican tetra (cavefish)  ====================
B D                 Zebrafish  ====================
B D                    Medaka  ====================
         Pundamilia nyererei  ====================
                 Zebra mbuna  ====================
       Burton's mouthbreeder  ====================
         Princess of Burundi  ====================
B D              Nile tilapia  ====================
B D             X. tropicalis  ====================
  D            Painted turtle  ====================
  D           Green seaturtle  ====================
B D        American alligator  ====================
  D             Scarlet macaw  ====================
B D                   Opossum  --------------------
B D            Naked mole-rat  ====================
  D               Rock pigeon  ====================
  D       Collared flycatcher  ====================
B D       Medium ground finch  ====================
B D                    Lizard  ====================
  D          Peregrine falcon  ====================
  D              Saker falcon  ====================
  D                    Parrot  ====================
B D                  Platypus  ====================
B D                   Wallaby  ====================
  D  Chinese softshell turtle  ====================

Inserts between block 7 and 8 in window
B D                 Hedgehog 891bp

Alignment block 8 of 1078 in window, 56741896 - 56741906, 11 bps 
B D                     Human  ---aagtatgtatt
B D                     Chimp  ---aagtatgtatt
B D                   Gorilla  ---aagtatgtatt
B D                 Orangutan  ---aagtatgtatt
B D                    Gibbon  ---aagtatgtatt
B D                    Rhesus  ---aagtatgtatt
B D       Crab-eating macaque  ---aagtatgtatt
B D                    Baboon  ---aagtatgtatt
B D              Green monkey  ---aagtatgtatt
B D                  Marmoset  ---caatatgtatt
B D           Squirrel monkey  ---caatatgtatt
B D                  Bushbaby  ---cagtatgtatt
           Chinese tree shrew  ---cagtatgtat-
B D                  Squirrel  ---tag-atgtatc
       Lesser Egyptian jerboa  ---tggtatgtagt
                 Prairie vole  ---tagtatgtatc
B D           Chinese hamster  ---cagtgtgtgct
               Golden hamster  ---caatatgtgtt
B D                     Mouse  ---tagtacatatt
B D                       Rat  ---tagtacatatt
B D                Guinea pig  ---tagtatgtatt
                   Chinchilla  ---tagtatgtatt
             Brush-tailed rat  ---tagta--tatt
B D                    Rabbit  ---cagtgtggatc
B D                      Pika  ---cagtgtacatt
B D                       Pig  ---cagtgtgtatt
B D                    Alpaca  ---ca-tatgcatt
               Bactrian camel  ---ca-tatgcatt
B D                   Dolphin  ---cagtatgtatt
                 Killer whale  ---cagtatgtatt
             Tibetan antelope  ---caatgtgtatt
B D                       Cow  ---caatgtgtatt
B D                     Sheep  ---caatgtgtatt
                Domestic goat  ---caatgtgtatt
B D                     Horse  ---cagtatgtatt
B D          White rhinoceros  ---cagtatgtatt
B D                       Cat  ---cagtatgtgtt
B D                       Dog  ---cagtatgtatt
B D                   Ferret   ---cagtatgtatt
B D                     Panda  ---cagtatgtatt
               Pacific walrus  ---cagtatgtatt
                 Weddell seal  ---cagtatatatt
             Black flying-fox  ---ccacatgtatt
B D                   Megabat  ---ccacatgtatt
                Big brown bat  ---ctgcgtgtatt
         David's myotis (bat)  ---ctgtatgtatt
  D          Little brown bat  ---ctgtatgtatt
B D                     Shrew  ----agta---att
              Star-nosed mole  ----agta---ata
B D                  Elephant  ---cagtatgtatt
          Cape elephant shrew  ---caatatatatt
B D                   Manatee  ---cagtatgtatt
             Cape golden mole  ---cagaatgtatc
B D                    Tenrec  ---cggtatgcatt
                     Aardvark  ---cagtatgtatt
B D                 Armadillo  ---cagtatgtatt
B D           Tasmanian devil  aaacaatggata--
B D                  Hedgehog  ==============
B D                   Lamprey  ==============
B D                Coelacanth  ==============
B D              Atlantic cod  ==============
                 Spotted gar  ==============
B D               Stickleback  ==============
          Southern platyfish  ==============
      Yellowbelly pufferfish  ==============
B D                      Fugu  ==============
B D                    Turkey  ==============
B D                   Chicken  ==============
          Tibetan ground jay  ==============
B D               Zebra finch  ==============
    Mexican tetra (cavefish)  ==============
B D                 Zebrafish  ==============
B D                    Medaka  ==============
         Pundamilia nyererei  ==============
                 Zebra mbuna  ==============
       Burton's mouthbreeder  ==============
         Princess of Burundi  ==============
B D              Nile tilapia  ==============
B D             X. tropicalis  ==============
  D            Painted turtle  ==============
  D           Green seaturtle  ==============
B D        American alligator  ==============
  D             Scarlet macaw  ==============
B D                   Opossum  --------------
B D            Naked mole-rat  ==============
  D               Rock pigeon  ==============
  D       Collared flycatcher  ==============
B D       Medium ground finch  ==============
B D                    Lizard  ==============
  D          Peregrine falcon  ==============
  D              Saker falcon  ==============
  D                    Parrot  ==============
B D                  Platypus  ==============
B D                   Wallaby  ==============
  D  Chinese softshell turtle  ==============

Inserts between block 8 and 9 in window
B D                   Rhesus 312bp

Alignment block 9 of 1078 in window, 56741907 - 56741907, 1 bps 
B D                     Human  -a
B D                     Chimp  -a
B D                   Gorilla  -a
B D                 Orangutan  -a
B D                    Gibbon  -a
B D                    Rhesus  -a
B D       Crab-eating macaque  -a
B D                    Baboon  -a
B D              Green monkey  -a
B D                  Marmoset  -a
B D           Squirrel monkey  -a
B D                  Bushbaby  -a
           Chinese tree shrew  -a
B D                  Squirrel  -a
       Lesser Egyptian jerboa  -a
                 Prairie vole  -a
B D           Chinese hamster  -a
               Golden hamster  -a
B D                     Mouse  -a
B D                       Rat  -a
B D                Guinea pig  -a
                   Chinchilla  -a
             Brush-tailed rat  -g
B D                    Rabbit  -a
B D                      Pika  -a
B D                       Pig  -a
B D                    Alpaca  -a
               Bactrian camel  -a
B D                   Dolphin  -a
                 Killer whale  -a
             Tibetan antelope  -a
B D                       Cow  -a
B D                     Sheep  -a
                Domestic goat  -a
B D                     Horse  -a
B D          White rhinoceros  -a
B D                       Cat  -a
B D                       Dog  -a
B D                   Ferret   -a
B D                     Panda  -a
               Pacific walrus  -a
                 Weddell seal  -a
             Black flying-fox  -a
B D                   Megabat  -a
                Big brown bat  -a
         David's myotis (bat)  -a
  D          Little brown bat  -a
B D                     Shrew  -c
              Star-nosed mole  -a
B D                  Elephant  -a
          Cape elephant shrew  -a
B D                   Manatee  -a
             Cape golden mole  -a
B D                    Tenrec  -a
                     Aardvark  -a
B D                 Armadillo  -a
B D           Tasmanian devil  c-
B D                  Hedgehog  ==
B D                   Lamprey  ==
B D                Coelacanth  ==
B D              Atlantic cod  ==
                 Spotted gar  ==
B D               Stickleback  ==
          Southern platyfish  ==
      Yellowbelly pufferfish  ==
B D                      Fugu  ==
B D                    Turkey  ==
B D                   Chicken  ==
          Tibetan ground jay  ==
B D               Zebra finch  ==
    Mexican tetra (cavefish)  ==
B D                 Zebrafish  ==
B D                    Medaka  ==
         Pundamilia nyererei  ==
                 Zebra mbuna  ==
       Burton's mouthbreeder  ==
         Princess of Burundi  ==
B D              Nile tilapia  ==
B D             X. tropicalis  ==
  D            Painted turtle  ==
  D           Green seaturtle  ==
B D        American alligator  ==
  D             Scarlet macaw  ==
B D                   Opossum  --
B D            Naked mole-rat  ==
  D               Rock pigeon  ==
  D       Collared flycatcher  ==
B D       Medium ground finch  ==
B D                    Lizard  ==
  D          Peregrine falcon  ==
  D              Saker falcon  ==
  D                    Parrot  ==
B D                  Platypus  ==
B D                   Wallaby  ==
  D  Chinese softshell turtle  ==

Inserts between block 9 and 10 in window
B D                 Marmoset 465bp
B D                    Shrew 3bp

Alignment block 10 of 1078 in window, 56741908 - 56741919, 12 bps 
B D                     Human  c-cacaagggtgt
B D                     Chimp  c-cacaagggtgt
B D                   Gorilla  c-cacaaggatgt
B D                 Orangutan  c-cacaagggtat
B D                    Gibbon  c-cacaagggtat
B D                    Rhesus  c-cacaagggtat
B D       Crab-eating macaque  c-cacaagggtat
B D                    Baboon  c-cacaggggtat
B D              Green monkey  c-cacaagggtat
B D                  Marmoset  c-cacaagggtat
B D           Squirrel monkey  c-cacaagggtat
B D                  Bushbaby  t-cacaaggatat
           Chinese tree shrew  c-cataaagttag
B D                  Squirrel  t-tacaagaatat
       Lesser Egyptian jerboa  t-cacaaggacat
                 Prairie vole  t-tacagggatgc
B D           Chinese hamster  t-cataaggatgc
               Golden hamster  t-cacaaggatgt
B D                     Mouse  t-tacaagaaggt
B D                       Rat  t-taccagaatgt
B D                Guinea pig  c-cacaaagatat
                   Chinchilla  c-cacaaggatat
             Brush-tailed rat  c-cataaggatat
B D                    Rabbit  t-catgt------
B D                      Pika  c-catgt------
B D                       Pig  t-cataagga-aa
B D                    Alpaca  c-cacaaagatgt
               Bactrian camel  c-cacaaagatgt
B D                   Dolphin  c-cacaaggatat
                 Killer whale  c-cacaaggatat
             Tibetan antelope  c-cacaaggatat
B D                       Cow  c-cacaaggatat
B D                     Sheep  c-cacaaggatat
                Domestic goat  c-cacaaggatat
B D                     Horse  c-cacaaggatat
B D          White rhinoceros  c-cacaaggatat
B D                       Cat  c-aacaaggataa
B D                       Dog  c-cacaaggattt
B D                   Ferret   ctcacaaggatac
B D                     Panda  c-cacaaggctat
               Pacific walrus  c-cacaaggatat
                 Weddell seal  c-cacaaggatat
             Black flying-fox  c-cacaaggatat
B D                   Megabat  c-cacaaggatat
                Big brown bat  c-cacaagaatat
         David's myotis (bat)  c-cacaagaatat
  D          Little brown bat  c-cacaagaatat
B D                     Shrew  a-cacagggatgg
              Star-nosed mole  c-cacaaggatat
B D                  Elephant  c-cacaaggatat
          Cape elephant shrew  g-cacagaaatat
B D                   Manatee  c-tgtaaggatat
             Cape golden mole  c-cacaagaatat
B D                    Tenrec  c-cacaagaatag
                     Aardvark  c-tataagaatat
B D                 Armadillo  t-cataagaatct
B D           Tasmanian devil  t-tataagaatat
B D                  Hedgehog  =============
B D                   Lamprey  =============
B D                Coelacanth  =============
B D              Atlantic cod  =============
                 Spotted gar  =============
B D               Stickleback  =============
          Southern platyfish  =============
      Yellowbelly pufferfish  =============
B D                      Fugu  =============
B D                    Turkey  =============
B D                   Chicken  =============
          Tibetan ground jay  =============
B D               Zebra finch  =============
    Mexican tetra (cavefish)  =============
B D                 Zebrafish  =============
B D                    Medaka  =============
         Pundamilia nyererei  =============
                 Zebra mbuna  =============
       Burton's mouthbreeder  =============
         Princess of Burundi  =============
B D              Nile tilapia  =============
B D             X. tropicalis  =============
  D            Painted turtle  =============
  D           Green seaturtle  =============
B D        American alligator  =============
  D             Scarlet macaw  =============
B D                   Opossum  -------------
B D            Naked mole-rat  =============
  D               Rock pigeon  =============
  D       Collared flycatcher  =============
B D       Medium ground finch  =============
B D                    Lizard  =============
  D          Peregrine falcon  =============
  D              Saker falcon  =============
  D                    Parrot  =============
B D                  Platypus  =============
B D                   Wallaby  =============
  D  Chinese softshell turtle  =============

Inserts between block 10 and 11 in window
B D          Squirrel monkey 176bp
          Chinese tree shrew 6bp
B D                 Squirrel 6bp
      Lesser Egyptian jerboa 6bp
                Prairie vole 6bp
B D          Chinese hamster 6bp
              Golden hamster 6bp
B D                    Mouse 6bp
B D                      Rat 6bp
B D               Guinea pig 8bp
                  Chinchilla 1384bp
            Brush-tailed rat 8bp
B D                   Rabbit 9bp
B D                     Pika 11bp
B D                    Horse 11bp
B D         White rhinoceros 11bp
B D                      Cat 11bp
B D                      Dog 10bp
B D                  Ferret  10bp
B D                    Panda 10bp
              Pacific walrus 9bp
                Weddell seal 9bp
            Black flying-fox 11bp
B D                  Megabat 147bp
               Big brown bat 9bp
        David's myotis (bat) 9bp
  D         Little brown bat 9bp

Alignment block 11 of 1078 in window, 56741920 - 56741922, 3 bps 
B D                     Human  ctt------
B D                     Chimp  ctt------
B D                   Gorilla  ctt------
B D                 Orangutan  ctt------
B D                    Gibbon  ctt------
B D                    Rhesus  ctt------
B D       Crab-eating macaque  ctt------
B D                    Baboon  ctt------
B D              Green monkey  ctt------
B D                  Marmoset  ctt------
B D           Squirrel monkey  ctt------
B D                  Bushbaby  ttt------
           Chinese tree shrew  ctt------
B D                  Squirrel  ttt------
       Lesser Egyptian jerboa  ctt------
                 Prairie vole  ttc------
B D           Chinese hamster  ttc------
               Golden hamster  ttc------
B D                     Mouse  ttc------
B D                       Rat  ttc------
B D                Guinea pig  ttc------
             Brush-tailed rat  tct------
B D                    Rabbit  ctt------
B D                      Pika  tct------
B D                       Pig  ata------
B D                    Alpaca  cta------
               Bactrian camel  cta------
B D                   Dolphin  cta------
                 Killer whale  cta------
             Tibetan antelope  cta------
B D                       Cow  cta------
B D                     Sheep  cta------
                Domestic goat  cta------
B D                     Shrew  cta------
              Star-nosed mole  aga------
B D                  Elephant  cta------
          Cape elephant shrew  cta------
B D                   Manatee  cta------
             Cape golden mole  cta------
B D                    Tenrec  cta------
                     Aardvark  cta------
B D                 Armadillo  cta------
B D           Tasmanian devil  ctaaaattt
B D                  Hedgehog  =========
B D                   Lamprey  =========
B D                Coelacanth  =========
B D              Atlantic cod  =========
                 Spotted gar  =========
B D               Stickleback  =========
          Southern platyfish  =========
      Yellowbelly pufferfish  =========
B D                      Fugu  =========
B D                    Turkey  =========
B D                   Chicken  =========
          Tibetan ground jay  =========
B D               Zebra finch  =========
    Mexican tetra (cavefish)  =========
B D                 Zebrafish  =========
B D                    Medaka  =========
         Pundamilia nyererei  =========
                 Zebra mbuna  =========
       Burton's mouthbreeder  =========
         Princess of Burundi  =========
B D              Nile tilapia  =========
B D             X. tropicalis  =========
  D            Painted turtle  =========
  D           Green seaturtle  =========
B D        American alligator  =========
  D             Scarlet macaw  =========
B D                   Opossum  ---------
                  Chinchilla  =========
B D            Naked mole-rat  =========
  D               Rock pigeon  =========
  D       Collared flycatcher  =========
B D       Medium ground finch  =========
B D                    Lizard  =========
  D          Peregrine falcon  =========
  D              Saker falcon  =========
  D                    Parrot  =========
B D                  Platypus  =========
B D                   Wallaby  =========
B D                       Cat  =========
B D                   Megabat  =========
  D  Chinese softshell turtle  =========
B D                   Ferret   =========
B D                     Panda  =========
              Pacific walrus  =========
            Black flying-fox  =========
B D          White rhinoceros  =========
B D                     Horse  =========
                Weddell seal  =========
        David's myotis (bat)  =========
               Big brown bat  =========
  D          Little brown bat  =========
B D                       Dog  =========

Inserts between block 11 and 12 in window
B D      Crab-eating macaque 1601bp
B D                 Elephant 6bp
         Cape elephant shrew 4bp
B D                  Manatee 6bp
            Cape golden mole 6bp
B D                   Tenrec 6bp
                    Aardvark 6bp
B D                Armadillo 6bp

Alignment block 12 of 1078 in window, 56741923 - 56741930, 8 bps 
B D                     Human  ac--a------aatat
B D                     Chimp  at--a------aatat
B D                   Gorilla  at--a------aatat
B D                 Orangutan  at--a------aatat
B D                    Gibbon  at--a------aatat
B D                    Rhesus  at--a------aatac
B D                    Baboon  at--a------aatac
B D              Green monkey  at--a------aatac
B D                  Marmoset  at--a------aatat
B D           Squirrel monkey  at--a------aatat
B D                  Bushbaby  at--a------aatac
           Chinese tree shrew  at--a------aatat
B D                  Squirrel  gc--a------cat--
       Lesser Egyptian jerboa  atcaa------cac--
                 Prairie vole  cc--a------cac--
B D           Chinese hamster  ac--a------tac--
               Golden hamster  ac----------ac--
B D                     Mouse  ac--a------cat--
B D                       Rat  gc--a------cat--
B D                Guinea pig  at--a------tat--
             Brush-tailed rat  at--a------tat--
B D                    Rabbit  ct--aactac------
B D                      Pika  at--a-----------
B D                       Pig  --------------aa
B D                    Alpaca  --------------aa
               Bactrian camel  --------------aa
B D                   Dolphin  --------------aa
                 Killer whale  --------------aa
             Tibetan antelope  --------------aa
B D                       Cow  --------------aa
B D                     Sheep  --------------aa
                Domestic goat  --------------aa
B D                     Shrew  --------------ca
              Star-nosed mole  --------------aa
B D                  Elephant  ------------ataa
          Cape elephant shrew  ------------acat
B D                   Manatee  ------------ataa
             Cape golden mole  ------------ataa
B D                    Tenrec  ------------ataa
                     Aardvark  ------------ataa
B D                 Armadillo  ------------ataa
B D           Tasmanian devil  --------gcaaatat
B D                  Hedgehog  ================
B D                   Lamprey  ================
B D                Coelacanth  ================
B D       Crab-eating macaque  ================
B D              Atlantic cod  ================
                 Spotted gar  ================
B D               Stickleback  ================
          Southern platyfish  ================
      Yellowbelly pufferfish  ================
B D                      Fugu  ================
B D                    Turkey  ================
B D                   Chicken  ================
          Tibetan ground jay  ================
B D               Zebra finch  ================
    Mexican tetra (cavefish)  ================
B D                 Zebrafish  ================
B D                    Medaka  ================
         Pundamilia nyererei  ================
                 Zebra mbuna  ================
       Burton's mouthbreeder  ================
         Princess of Burundi  ================
B D              Nile tilapia  ================
B D             X. tropicalis  ================
  D            Painted turtle  ================
  D           Green seaturtle  ================
B D        American alligator  ================
  D             Scarlet macaw  ================
B D                   Opossum  ----------------
                  Chinchilla  ================
B D            Naked mole-rat  ================
  D               Rock pigeon  ================
  D       Collared flycatcher  ================
B D       Medium ground finch  ================
B D                    Lizard  ================
  D          Peregrine falcon  ================
  D              Saker falcon  ================
  D                    Parrot  ================
B D                  Platypus  ================
B D                   Wallaby  ================
B D                       Cat  ================
B D                   Megabat  ================
  D  Chinese softshell turtle  ================
B D                   Ferret   ================
B D                     Panda  ================
              Pacific walrus  ================
            Black flying-fox  ================
B D          White rhinoceros  ================
B D                     Horse  ================
                Weddell seal  ================
        David's myotis (bat)  ================
               Big brown bat  ================
  D          Little brown bat  ================
B D                       Dog  ================

Inserts between block 12 and 13 in window
B D                 Squirrel 8bp
      Lesser Egyptian jerboa 2bp
                Prairie vole 2bp
B D          Chinese hamster 2bp
              Golden hamster 2bp
B D                    Mouse 2bp
B D                      Rat 2bp
B D               Guinea pig 318bp
B D                      Pig 6bp
B D                   Alpaca 5bp
              Bactrian camel 5bp
B D                  Dolphin 6bp
                Killer whale 6bp
            Tibetan antelope 6bp
B D                      Cow 6bp
B D                    Sheep 6bp
               Domestic goat 6bp
B D                    Shrew 4bp
             Star-nosed mole 5bp
B D                 Elephant 4bp
         Cape elephant shrew 4bp
B D                  Manatee 4bp
            Cape golden mole 4bp
B D                   Tenrec 4bp
                    Aardvark 4bp
B D                Armadillo 4bp

Alignment block 13 of 1078 in window, 56741931 - 56741952, 22 bps 
B D                     Human  tcagaaagtagtta-ttaacatt
B D                     Chimp  tcagaaagtagtta-ttaacatt
B D                   Gorilla  tcagaaagtagtta-ttaacatt
B D                 Orangutan  tcagaaagtagtta-ttaacatt
B D                    Gibbon  tcagaaagtagtta-ttaacatt
B D                    Rhesus  ttagaaagcagtta-ttaatgtt
B D                    Baboon  ttagaaagcagtta-ttaatgtt
B D              Green monkey  ttagaaagtagtta-ttaatgtt
B D                  Marmoset  ttagacagtaatta-ttaatgtt
B D           Squirrel monkey  ttagacagtaatta-ttaacgtt
B D                  Bushbaby  tt----agtaattg-ttaatgat
           Chinese tree shrew  ttaggaagtaatta-ttaacatt
B D                  Squirrel  atagaaagtaacta-ttactgtc
       Lesser Egyptian jerboa  ------agaaagtaactattaat
                 Prairie vole  ------aggaactatttaatgat
B D           Chinese hamster  ------agaagcta-ctagtgat
               Golden hamster  ------agaaacta-ttagtgat
B D                     Mouse  ------agaaacta-ttaatgat
B D                       Rat  ------agaaggta-ttaatgat
             Brush-tailed rat  ttatatatagcttt-gttttgtt
B D                    Rabbit  tgagaaagtaatta-ctaaggtc
B D                      Pika  ---------aatta-ttaagaca
B D                       Pig  ctagaaagctatta-ctatt---
B D                    Alpaca  -----aagtaatca-gtgtt---
               Bactrian camel  -----aagtaatca-gtgtt---
B D                   Dolphin  atagaaagtaatta-ttgtt---
                 Killer whale  atagaaattaatta-ttgtt---
             Tibetan antelope  atagcaagtaatta-ttgtt---
B D                       Cow  ac----agtaatta-ttgtc---
B D                     Sheep  atagaaagtaatta-ttatt---
                Domestic goat  atagaaagtaatta-ttgtt---
B D                     Horse  atagaaagtaatta-ttgtt---
B D          White rhinoceros  atagaaagtaatta-ttgtt---
B D                       Cat  ctagaa----atta-ttgtt---
B D                       Dog  ttagaaagtaatta-tggtt---
B D                   Ferret   ctagaaagtaatta-ttgtt---
B D                     Panda  ctagaaagtgatta-ttgtt---
               Pacific walrus  ctagaaagtaatta-tcgtt---
                 Weddell seal  ctagaaagtaatta-tcgtt---
             Black flying-fox  ataga----aatta-ttgtt---
                Big brown bat  atagaaaataatta-ctgtt---
         David's myotis (bat)  atagaaaataattc-ttgtt---
  D          Little brown bat  atagaaaataattc-ttgtt---
B D                     Shrew  --------caataa--tgtt---
              Star-nosed mole  tgagaaaacggtta--tatt---
B D                  Elephant  ttggaaagtaatta-ttaatgtt
          Cape elephant shrew  ttagaaaatagtta-t---tgtt
B D                   Manatee  ttagaaggtaatta-ttaatgtt
             Cape golden mole  tta-aaagtaatta-ttaatgtt
B D                    Tenrec  ttagaaagtaacta-ttaatgtt
                     Aardvark  ttagaaagtagttg-ttaatgtt
B D                 Armadillo  -tataaagtaatta-taagtggt
B D           Tasmanian devil  ttaggggataagtg-cacatttt
B D                  Hedgehog  =======================
B D                Guinea pig  =======================
B D                   Lamprey  =======================
B D                Coelacanth  =======================
B D       Crab-eating macaque  =======================
B D              Atlantic cod  =======================
                 Spotted gar  =======================
B D               Stickleback  =======================
          Southern platyfish  =======================
      Yellowbelly pufferfish  =======================
B D                      Fugu  =======================
B D                    Turkey  =======================
B D                   Chicken  =======================
          Tibetan ground jay  =======================
B D               Zebra finch  =======================
    Mexican tetra (cavefish)  =======================
B D                 Zebrafish  =======================
B D                    Medaka  =======================
         Pundamilia nyererei  =======================
                 Zebra mbuna  =======================
       Burton's mouthbreeder  =======================
         Princess of Burundi  =======================
B D              Nile tilapia  =======================
B D             X. tropicalis  =======================
  D            Painted turtle  =======================
  D           Green seaturtle  =======================
B D        American alligator  =======================
  D             Scarlet macaw  =======================
B D                   Opossum  -----------------------
                  Chinchilla  =======================
B D            Naked mole-rat  =======================
  D               Rock pigeon  =======================
  D       Collared flycatcher  =======================
B D       Medium ground finch  =======================
B D                    Lizard  =======================
  D          Peregrine falcon  =======================
  D              Saker falcon  =======================
  D                    Parrot  =======================
B D                  Platypus  =======================
B D                   Wallaby  =======================
B D                   Megabat  =======================
  D  Chinese softshell turtle  =======================

Inserts between block 13 and 14 in window
B D                 Squirrel 1bp
      Lesser Egyptian jerboa 2bp
                Prairie vole 1bp
B D          Chinese hamster 11bp
B D                    Mouse 1bp
B D                      Rat 1bp
            Brush-tailed rat 1bp
B D                   Rabbit 1bp
B D                     Pika 1bp
B D                      Pig 1bp
B D                   Alpaca 1bp
              Bactrian camel 1bp
B D                  Dolphin 1bp
                Killer whale 1bp
            Tibetan antelope 1bp
B D                      Cow 1bp
B D                    Sheep 1bp
               Domestic goat 1bp
B D                    Horse 1bp
B D         White rhinoceros 1bp
B D                      Cat 1bp
B D                      Dog 1bp
B D                  Ferret  1bp
B D                    Panda 1bp
              Pacific walrus 1bp
                Weddell seal 1bp
            Black flying-fox 1bp
               Big brown bat 1bp
        David's myotis (bat) 1bp
  D         Little brown bat 1bp
B D                    Shrew 1bp
             Star-nosed mole 1bp
B D                 Elephant 1bp
         Cape elephant shrew 1bp
B D                  Manatee 1bp
            Cape golden mole 1bp
B D                   Tenrec 1bp
                    Aardvark 1bp
B D                Armadillo 1bp

Alignment block 14 of 1078 in window, 56741953 - 56741956, 4 bps 
B D                     Human  -tc---tt
B D                     Chimp  -tc---tt
B D                   Gorilla  -tc---tt
B D                 Orangutan  -tc---tt
B D                    Gibbon  -tc---tt
B D                    Rhesus  -cc---tt
B D                    Baboon  -cc---tt
B D              Green monkey  -cc---tt
B D                  Marmoset  -tc---tt
B D           Squirrel monkey  -tc---tt
B D                  Bushbaby  -ct---tt
           Chinese tree shrew  -gt---at
B D                  Squirrel  -tc---t-
       Lesser Egyptian jerboa  --c---g-
                 Prairie vole  -cc---g-
               Golden hamster  -tc---c-
B D                     Mouse  -cc---t-
B D                       Rat  -cc---t-
             Brush-tailed rat  -tt---t-
B D                    Rabbit  -tc---t-
B D                      Pika  -tc---t-
B D                       Pig  -tcttat-
B D                    Alpaca  -tg---t-
               Bactrian camel  -tc---t-
B D                   Dolphin  -tc---t-
                 Killer whale  -tc---t-
             Tibetan antelope  -tc---t-
B D                       Cow  -tc---t-
B D                     Sheep  -tc---t-
                Domestic goat  -tc---t-
B D                     Horse  -tc---t-
B D          White rhinoceros  -tc---t-
B D                       Cat  -tc---t-
B D                       Dog  -tc---t-
B D                   Ferret   -tc---a-
B D                     Panda  -tc---t-
               Pacific walrus  -tc---t-
                 Weddell seal  -tc---t-
             Black flying-fox  -tc---t-
                Big brown bat  -tc---t-
         David's myotis (bat)  -tc---t-
  D          Little brown bat  -tc---t-
B D                     Shrew  -tc---t-
              Star-nosed mole  -tc---t-
B D                  Elephant  -tt---t-
          Cape elephant shrew  -tc---t-
B D                   Manatee  -tt---t-
             Cape golden mole  -tc---t-
B D                    Tenrec  -tc---c-
                     Aardvark  -tc---t-
B D                 Armadillo  -tc---t-
B D           Tasmanian devil  ttt---t-
B D                  Hedgehog  ========
B D                Guinea pig  ========
B D                   Lamprey  ========
B D                Coelacanth  ========
B D       Crab-eating macaque  ========
B D              Atlantic cod  ========
                 Spotted gar  ========
B D               Stickleback  ========
          Southern platyfish  ========
      Yellowbelly pufferfish  ========
B D                      Fugu  ========
B D                    Turkey  ========
B D                   Chicken  ========
          Tibetan ground jay  ========
B D               Zebra finch  ========
    Mexican tetra (cavefish)  ========
B D                 Zebrafish  ========
B D                    Medaka  ========
         Pundamilia nyererei  ========
                 Zebra mbuna  ========
       Burton's mouthbreeder  ========
         Princess of Burundi  ========
B D              Nile tilapia  ========
B D             X. tropicalis  ========
  D            Painted turtle  ========
  D           Green seaturtle  ========
B D        American alligator  ========
  D             Scarlet macaw  ========
B D                   Opossum  --------
                  Chinchilla  ========
B D            Naked mole-rat  ========
  D               Rock pigeon  ========
  D       Collared flycatcher  ========
B D       Medium ground finch  ========
B D                    Lizard  ========
  D          Peregrine falcon  ========
  D              Saker falcon  ========
  D                    Parrot  ========
B D                  Platypus  ========
B D                   Wallaby  ========
B D           Chinese hamster  ========
B D                   Megabat  ========
  D  Chinese softshell turtle  ========

Inserts between block 14 and 15 in window
B D                   Baboon 1bp
B D                 Squirrel 253bp

Alignment block 15 of 1078 in window, 56741957 - 56741960, 4 bps 
B D                     Human  -gaaa
B D                     Chimp  -gaaa
B D                   Gorilla  -gaaa
B D                 Orangutan  -gaaa
B D                    Gibbon  -gaaa
B D                    Rhesus  -aaaa
B D                    Baboon  -aaaa
B D              Green monkey  -aaaa
B D                  Marmoset  -aaaa
B D           Squirrel monkey  -aaaa
B D                  Bushbaby  -aaaa
           Chinese tree shrew  -aaaa
       Lesser Egyptian jerboa  -aaaa
                 Prairie vole  -aaaa
               Golden hamster  -aaaa
B D                     Mouse  -gaga
B D                       Rat  -aaaa
             Brush-tailed rat  -gaga
B D                    Rabbit  -aaaa
B D                      Pika  -aaga
B D                       Pig  -taaa
B D                    Alpaca  -aaaa
               Bactrian camel  -aaaa
B D                   Dolphin  -aaaa
                 Killer whale  -aaaa
             Tibetan antelope  -aaaa
B D                       Cow  -aaaa
B D                     Sheep  -aaaa
                Domestic goat  -aaaa
B D                     Horse  -aaaa
B D          White rhinoceros  -aaaa
B D                       Cat  -aaaa
B D                       Dog  -aaaa
B D                   Ferret   -aaaa
B D                     Panda  -aaaa
               Pacific walrus  -aaaa
                 Weddell seal  -aaaa
             Black flying-fox  -ataa
                Big brown bat  -aaaa
         David's myotis (bat)  -aaaa
  D          Little brown bat  -aaaa
B D                     Shrew  -aaaa
              Star-nosed mole  -aaaa
B D                  Elephant  -gaaa
          Cape elephant shrew  -gaaa
B D                   Manatee  -gaaa
             Cape golden mole  -gaaa
B D                    Tenrec  -aaag
                     Aardvark  -gaaa
B D                 Armadillo  -gcaa
B D           Tasmanian devil  taaa-
B D                  Hedgehog  =====
B D                Guinea pig  =====
B D                   Lamprey  =====
B D                Coelacanth  =====
B D       Crab-eating macaque  =====
B D              Atlantic cod  =====
                 Spotted gar  =====
B D               Stickleback  =====
          Southern platyfish  =====
      Yellowbelly pufferfish  =====
B D                      Fugu  =====
B D                    Turkey  =====
B D                   Chicken  =====
          Tibetan ground jay  =====
B D               Zebra finch  =====
    Mexican tetra (cavefish)  =====
B D                 Zebrafish  =====
B D                    Medaka  =====
         Pundamilia nyererei  =====
                 Zebra mbuna  =====
       Burton's mouthbreeder  =====
         Princess of Burundi  =====
B D              Nile tilapia  =====
B D             X. tropicalis  =====
  D            Painted turtle  =====
  D           Green seaturtle  =====
B D        American alligator  =====
  D             Scarlet macaw  =====
B D                   Opossum  -----
                  Chinchilla  =====
B D            Naked mole-rat  =====
  D               Rock pigeon  =====
  D       Collared flycatcher  =====
B D       Medium ground finch  =====
B D                    Lizard  =====
  D          Peregrine falcon  =====
  D              Saker falcon  =====
  D                    Parrot  =====
B D                  Platypus  =====
B D                   Wallaby  =====
B D           Chinese hamster  =====
B D                   Megabat  =====
  D  Chinese softshell turtle  =====
B D                  Squirrel  =====

Alignment block 16 of 1078 in window, 56741961 - 56741962, 2 bps 
B D                     Human  ta
B D                     Chimp  ta
B D                   Gorilla  ta
B D                 Orangutan  ta
B D                    Gibbon  ta
B D                    Rhesus  tg
B D                    Baboon  tg
B D              Green monkey  tg
B D                  Marmoset  ca
B D           Squirrel monkey  ca
B D                  Bushbaby  ca
           Chinese tree shrew  ta
       Lesser Egyptian jerboa  ca
                 Prairie vole  ca
               Golden hamster  ca
B D                     Mouse  ca
B D                       Rat  ca
             Brush-tailed rat  ca
B D                    Rabbit  ca
B D                      Pika  ca
B D                       Pig  ca
B D                    Alpaca  tg
               Bactrian camel  tg
B D                   Dolphin  tg
                 Killer whale  tg
             Tibetan antelope  ta
B D                       Cow  ta
B D                     Sheep  ta
                Domestic goat  ta
B D                     Horse  tg
B D          White rhinoceros  tg
B D                       Cat  tg
B D                       Dog  tg
B D                   Ferret   tg
B D                     Panda  tg
               Pacific walrus  ag
                 Weddell seal  ag
             Black flying-fox  ag
                Big brown bat  tg
         David's myotis (bat)  tg
  D          Little brown bat  tg
B D                     Shrew  tg
              Star-nosed mole  ta
B D                  Elephant  ca
          Cape elephant shrew  tg
B D                   Manatee  cg
             Cape golden mole  ca
B D                    Tenrec  aa
                     Aardvark  ca
B D                 Armadillo  tg
B D                  Hedgehog  ==
B D                Guinea pig  ==
B D                   Lamprey  ==
B D                Coelacanth  ==
B D       Crab-eating macaque  ==
B D              Atlantic cod  ==
                 Spotted gar  ==
B D               Stickleback  ==
          Southern platyfish  ==
      Yellowbelly pufferfish  ==
B D                      Fugu  ==
B D                    Turkey  ==
B D                   Chicken  ==
          Tibetan ground jay  ==
B D               Zebra finch  ==
B D           Tasmanian devil  --
    Mexican tetra (cavefish)  ==
B D                 Zebrafish  ==
B D                    Medaka  ==
         Pundamilia nyererei  ==
                 Zebra mbuna  ==
       Burton's mouthbreeder  ==
         Princess of Burundi  ==
B D              Nile tilapia  ==
B D             X. tropicalis  ==
  D            Painted turtle  ==
  D           Green seaturtle  ==
B D        American alligator  ==
  D             Scarlet macaw  ==
B D                   Opossum  --
                  Chinchilla  ==
B D            Naked mole-rat  ==
  D               Rock pigeon  ==
  D       Collared flycatcher  ==
B D       Medium ground finch  ==
B D                    Lizard  ==
  D          Peregrine falcon  ==
  D              Saker falcon  ==
  D                    Parrot  ==
B D                  Platypus  ==
B D                   Wallaby  ==
B D           Chinese hamster  ==
B D                   Megabat  ==
  D  Chinese softshell turtle  ==
B D                  Squirrel  ==

Inserts between block 16 and 17 in window
            Brush-tailed rat 255bp

Alignment block 17 of 1078 in window, 56741963 - 56741966, 4 bps 
B D                     Human  taaa
B D                     Chimp  taaa
B D                   Gorilla  taaa
B D                 Orangutan  taaa
B D                    Gibbon  taaa
B D                    Rhesus  taaa
B D                    Baboon  taaa
B D              Green monkey  taaa
B D                  Marmoset  taaa
B D           Squirrel monkey  taaa
B D                  Bushbaby  caaa
           Chinese tree shrew  taaa
       Lesser Egyptian jerboa  taaa
                 Prairie vole  aaaa
               Golden hamster  taaa
B D                     Mouse  cacg
B D                       Rat  caag
B D                    Rabbit  taaa
B D                      Pika  caca
B D                       Pig  cata
B D                    Alpaca  caaa
               Bactrian camel  caaa
B D                   Dolphin  caaa
                 Killer whale  caaa
             Tibetan antelope  caaa
B D                       Cow  caaa
B D                     Sheep  caca
                Domestic goat  caaa
B D                     Horse  caaa
B D          White rhinoceros  caaa
B D                       Cat  caaa
B D                       Dog  caaa
B D                   Ferret   caaa
B D                     Panda  caaa
               Pacific walrus  caaa
                 Weddell seal  caaa
             Black flying-fox  caaa
                Big brown bat  caaa
         David's myotis (bat)  caac
  D          Little brown bat  caac
B D                     Shrew  taaa
              Star-nosed mole  ttaa
B D                  Elephant  caaa
          Cape elephant shrew  caaa
B D                   Manatee  caaa
             Cape golden mole  taaa
B D                    Tenrec  aaaa
                     Aardvark  caaa
B D                 Armadillo  caaa
B D                  Hedgehog  ====
B D                Guinea pig  ====
B D                   Lamprey  ====
B D                Coelacanth  ====
B D       Crab-eating macaque  ====
            Brush-tailed rat  ====
B D              Atlantic cod  ====
                 Spotted gar  ====
B D               Stickleback  ====
          Southern platyfish  ====
      Yellowbelly pufferfish  ====
B D                      Fugu  ====
B D                    Turkey  ====
B D                   Chicken  ====
          Tibetan ground jay  ====
B D               Zebra finch  ====
B D           Tasmanian devil  ----
    Mexican tetra (cavefish)  ====
B D                 Zebrafish  ====
B D                    Medaka  ====
         Pundamilia nyererei  ====
                 Zebra mbuna  ====
       Burton's mouthbreeder  ====
         Princess of Burundi  ====
B D              Nile tilapia  ====
B D             X. tropicalis  ====
  D            Painted turtle  ====
  D           Green seaturtle  ====
B D        American alligator  ====
  D             Scarlet macaw  ====
B D                   Opossum  ----
                  Chinchilla  ====
B D            Naked mole-rat  ====
  D               Rock pigeon  ====
  D       Collared flycatcher  ====
B D       Medium ground finch  ====
B D                    Lizard  ====
  D          Peregrine falcon  ====
  D              Saker falcon  ====
  D                    Parrot  ====
B D                  Platypus  ====
B D                   Wallaby  ====
B D           Chinese hamster  ====
B D                   Megabat  ====
  D  Chinese softshell turtle  ====
B D                  Squirrel  ====

Inserts between block 17 and 18 in window
             Star-nosed mole 298bp

Alignment block 18 of 1078 in window, 56741967 - 56741967, 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                    Baboon  t
B D              Green monkey  t
B D                  Marmoset  t
B D           Squirrel monkey  t
B D                  Bushbaby  t
           Chinese tree shrew  t
       Lesser Egyptian jerboa  t
                 Prairie vole  t
               Golden hamster  t
B D                     Mouse  t
B D                       Rat  t
B D                    Rabbit  c
B D                      Pika  a
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
                Big brown bat  t
         David's myotis (bat)  t
  D          Little brown bat  t
B D                     Shrew  t
B D                  Elephant  t
          Cape elephant shrew  t
B D                   Manatee  t
             Cape golden mole  t
B D                    Tenrec  t
                     Aardvark  t
B D                 Armadillo  t
B D                  Hedgehog  =
B D                Guinea pig  =
B D                   Lamprey  =
B D                Coelacanth  =
B D       Crab-eating macaque  =
            Brush-tailed rat  =
B D              Atlantic cod  =
                 Spotted gar  =
B D               Stickleback  =
          Southern platyfish  =
      Yellowbelly pufferfish  =
B D                      Fugu  =
B D                    Turkey  =
B D                   Chicken  =
          Tibetan ground jay  =
B D               Zebra finch  =
B D           Tasmanian devil  -
    Mexican tetra (cavefish)  =
B D                 Zebrafish  =
B D                    Medaka  =
         Pundamilia nyererei  =
                 Zebra mbuna  =
       Burton's mouthbreeder  =
         Princess of Burundi  =
B D              Nile tilapia  =
B D             X. tropicalis  =
  D            Painted turtle  =
  D           Green seaturtle  =
B D        American alligator  =
  D             Scarlet macaw  =
B D                   Opossum  -
                  Chinchilla  =
B D            Naked mole-rat  =
  D               Rock pigeon  =
  D       Collared flycatcher  =
B D       Medium ground finch  =
B D                    Lizard  =
  D          Peregrine falcon  =
  D              Saker falcon  =
  D                    Parrot  =
B D                  Platypus  =
B D                   Wallaby  =
B D           Chinese hamster  =
B D                   Megabat  =
  D  Chinese softshell turtle  =
             Star-nosed mole  =
B D                  Squirrel  =

Inserts between block 18 and 19 in window
B D                      Pig 7bp
B D                    Shrew 1131bp

Alignment block 19 of 1078 in window, 56741968 - 56741968, 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                    Baboon  g
B D              Green monkey  g
B D                  Marmoset  g
B D           Squirrel monkey  g
B D                  Bushbaby  g
           Chinese tree shrew  a
       Lesser Egyptian jerboa  g
                 Prairie vole  g
               Golden hamster  g
B D                     Mouse  g
B D                       Rat  g
B D                    Rabbit  g
B D                      Pika  g
B D                    Alpaca  a
               Bactrian camel  a
B D                   Dolphin  a
                 Killer whale  a
             Tibetan antelope  a
B D                       Cow  a
B D                     Sheep  a
                Domestic goat  a
B D                     Horse  a
B D          White rhinoceros  a
B D                       Cat  a
B D                       Dog  t
B D                   Ferret   a
B D                     Panda  a
               Pacific walrus  a
                 Weddell seal  a
             Black flying-fox  a
                Big brown bat  a
         David's myotis (bat)  a
  D          Little brown bat  a
B D                  Elephant  g
          Cape elephant shrew  g
B D                   Manatee  g
             Cape golden mole  g
B D                    Tenrec  g
                     Aardvark  g
B D                 Armadillo  g
B D                  Hedgehog  =
B D                Guinea pig  =
B D                   Lamprey  =
B D                Coelacanth  =
B D                     Shrew  =
B D       Crab-eating macaque  =
            Brush-tailed rat  =
B D              Atlantic cod  =
                 Spotted gar  =
B D               Stickleback  =
          Southern platyfish  =
      Yellowbelly pufferfish  =
B D                      Fugu  =
B D                    Turkey  =
B D                   Chicken  =
          Tibetan ground jay  =
B D               Zebra finch  =
B D           Tasmanian devil  -
    Mexican tetra (cavefish)  =
B D                 Zebrafish  =
B D                    Medaka  =
         Pundamilia nyererei  =
                 Zebra mbuna  =
       Burton's mouthbreeder  =
         Princess of Burundi  =
B D              Nile tilapia  =
B D             X. tropicalis  =
  D            Painted turtle  =
  D           Green seaturtle  =
B D        American alligator  =
  D             Scarlet macaw  =
B D                   Opossum  -
                  Chinchilla  =
B D            Naked mole-rat  =
  D               Rock pigeon  =
  D       Collared flycatcher  =
B D       Medium ground finch  =
B D                    Lizard  =
  D          Peregrine falcon  =
  D              Saker falcon  =
  D                    Parrot  =
B D                  Platypus  =
B D                   Wallaby  =
B D           Chinese hamster  =
B D                   Megabat  =
B D                       Pig  =
  D  Chinese softshell turtle  =
             Star-nosed mole  =
B D                  Squirrel  =

Inserts between block 19 and 20 in window
            Cape golden mole 15bp

Alignment block 20 of 1078 in window, 56741969 - 56741969, 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                    Baboon  t
B D              Green monkey  t
B D                  Marmoset  t
B D           Squirrel monkey  t
B D                  Bushbaby  t
           Chinese tree shrew  t
       Lesser Egyptian jerboa  t
                 Prairie vole  a
               Golden hamster  c
B D                     Mouse  c
B D                       Rat  c
B D                    Rabbit  t
B D                      Pika  t
B D                    Alpaca  t
               Bactrian camel  t
B D                   Dolphin  t
                 Killer whale  t
             Tibetan antelope  t
B D                       Cow  t
B D                     Sheep  t
                Domestic goat  t
B D                     Horse  t
B D          White rhinoceros  t
B D                       Cat  t
B D                       Dog  t
B D                   Ferret   t
B D                     Panda  t
               Pacific walrus  t
                 Weddell seal  t
             Black flying-fox  t
                Big brown bat  t
         David's myotis (bat)  t
  D          Little brown bat  t
B D                  Elephant  t
          Cape elephant shrew  t
B D                   Manatee  t
B D                    Tenrec  t
                     Aardvark  t
B D                  Hedgehog  =
B D                Guinea pig  =
B D                   Lamprey  =
B D                Coelacanth  =
B D                     Shrew  =
B D       Crab-eating macaque  =
            Brush-tailed rat  =
B D              Atlantic cod  =
                 Spotted gar  =
B D               Stickleback  =
          Southern platyfish  =
      Yellowbelly pufferfish  =
B D                      Fugu  =
B D                    Turkey  =
B D                   Chicken  =
          Tibetan ground jay  =
B D               Zebra finch  =
B D           Tasmanian devil  -
    Mexican tetra (cavefish)  =
B D                 Zebrafish  =
B D                    Medaka  =
         Pundamilia nyererei  =
                 Zebra mbuna  =
       Burton's mouthbreeder  =
         Princess of Burundi  =
B D              Nile tilapia  =
B D             X. tropicalis  =
  D            Painted turtle  =
  D           Green seaturtle  =
B D        American alligator  =
  D             Scarlet macaw  =
B D                   Opossum  -
                  Chinchilla  =
B D            Naked mole-rat  =
  D               Rock pigeon  =
  D       Collared flycatcher  =
B D       Medium ground finch  =
B D                    Lizard  =
  D          Peregrine falcon  =
  D              Saker falcon  =
  D                    Parrot  =
            Cape golden mole  =
B D                  Platypus  =
B D                   Wallaby  =
B D           Chinese hamster  =
B D                   Megabat  =
B D                       Pig  =
  D  Chinese softshell turtle  =
             Star-nosed mole  =
B D                  Squirrel  =
B D                 Armadillo  -

Inserts between block 20 and 21 in window
B D                      Cat 208bp

Alignment block 21 of 1078 in window, 56741970 - 56741970, 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                    Baboon  t
B D              Green monkey  t
B D                  Marmoset  t
B D           Squirrel monkey  t
B D                  Bushbaby  t
           Chinese tree shrew  t
       Lesser Egyptian jerboa  c
                 Prairie vole  c
               Golden hamster  t
B D                     Mouse  t
B D                       Rat  t
B D                    Rabbit  t
B D                      Pika  t
B D                    Alpaca  t
               Bactrian camel  t
B D                   Dolphin  t
                 Killer whale  t
             Tibetan antelope  t
B D                       Cow  t
B D                     Sheep  t
                Domestic goat  t
B D                     Horse  t
B D          White rhinoceros  t
B D                       Dog  t
B D                   Ferret   t
B D                     Panda  t
               Pacific walrus  g
                 Weddell seal  t
             Black flying-fox  t
                Big brown bat  t
         David's myotis (bat)  c
  D          Little brown bat  t
B D                  Elephant  t
          Cape elephant shrew  t
B D                   Manatee  t
B D                    Tenrec  c
                     Aardvark  t
B D                 Armadillo  t
B D                  Hedgehog  =
B D                Guinea pig  =
B D                   Lamprey  =
B D                Coelacanth  =
B D                     Shrew  =
B D       Crab-eating macaque  =
            Brush-tailed rat  =
B D              Atlantic cod  =
                 Spotted gar  =
B D               Stickleback  =
          Southern platyfish  =
      Yellowbelly pufferfish  =
B D                      Fugu  =
B D                    Turkey  =
B D                   Chicken  =
          Tibetan ground jay  =
B D               Zebra finch  =
B D           Tasmanian devil  -
    Mexican tetra (cavefish)  =
B D                 Zebrafish  =
B D                    Medaka  =
         Pundamilia nyererei  =
                 Zebra mbuna  =
       Burton's mouthbreeder  =
         Princess of Burundi  =
B D              Nile tilapia  =
B D             X. tropicalis  =
  D            Painted turtle  =
  D           Green seaturtle  =
B D        American alligator  =
  D             Scarlet macaw  =
B D                   Opossum  -
                  Chinchilla  =
B D            Naked mole-rat  =
  D               Rock pigeon  =
  D       Collared flycatcher  =
B D       Medium ground finch  =
B D                    Lizard  =
  D          Peregrine falcon  =
  D              Saker falcon  =
  D                    Parrot  =
            Cape golden mole  =
B D                  Platypus  =
B D                   Wallaby  =
B D           Chinese hamster  =
B D                       Cat  =
B D                   Megabat  =
B D                       Pig  =
  D  Chinese softshell turtle  =
             Star-nosed mole  =
B D                  Squirrel  =

Inserts between block 21 and 22 in window
      Lesser Egyptian jerboa 13bp
                Prairie vole 34bp
              Golden hamster 23bp
B D                      Rat 5bp
B D                   Rabbit 1bp
B D                     Pika 6bp

Alignment block 22 of 1078 in window, 56741971 - 56741972, 2 bps 
B D                     Human  ga-
B D                     Chimp  ga-
B D                   Gorilla  ga-
B D                 Orangutan  ga-
B D                    Gibbon  ga-
B D                    Rhesus  gg-
B D                    Baboon  gg-
B D              Green monkey  gg-
B D                  Marmoset  gg-
B D           Squirrel monkey  gg-
           Chinese tree shrew  aa-
                 Prairie vole  g--
               Golden hamster  g--
B D                    Rabbit  a--
B D                    Alpaca  -a-
               Bactrian camel  -a-
B D                   Dolphin  -a-
                 Killer whale  -a-
             Tibetan antelope  -a-
B D                       Cow  -a-
B D                     Sheep  -a-
                Domestic goat  -a-
B D                     Horse  -a-
B D          White rhinoceros  -a-
B D                       Dog  -a-
B D                   Ferret   -a-
B D                     Panda  -a-
               Pacific walrus  -a-
                 Weddell seal  -a-
             Black flying-fox  -a-
                Big brown bat  -a-
         David's myotis (bat)  -a-
  D          Little brown bat  -a-
B D                  Elephant  -aa
          Cape elephant shrew  -aa
B D                   Manatee  -aa
B D                    Tenrec  -aa
                     Aardvark  -aa
B D                 Armadillo  -aa
B D                  Hedgehog  ===
B D                Guinea pig  ===
B D                      Pika  ===
B D                   Lamprey  ===
B D                Coelacanth  ===
B D                     Shrew  ===
B D       Crab-eating macaque  ===
            Brush-tailed rat  ===
B D              Atlantic cod  ===
                 Spotted gar  ===
B D               Stickleback  ===
          Southern platyfish  ===
      Yellowbelly pufferfish  ===
B D                      Fugu  ===
B D                    Turkey  ===
B D                   Chicken  ===
          Tibetan ground jay  ===
B D               Zebra finch  ===
B D           Tasmanian devil  ---
    Mexican tetra (cavefish)  ===
B D                 Zebrafish  ===
B D                    Medaka  ===
         Pundamilia nyererei  ===
                 Zebra mbuna  ===
       Burton's mouthbreeder  ===
         Princess of Burundi  ===
B D              Nile tilapia  ===
B D             X. tropicalis  ===
  D            Painted turtle  ===
  D           Green seaturtle  ===
B D        American alligator  ===
  D             Scarlet macaw  ===
B D                   Opossum  ---
                  Chinchilla  ===
B D            Naked mole-rat  ===
      Lesser Egyptian jerboa  ===
  D               Rock pigeon  ===
  D       Collared flycatcher  ===
B D       Medium ground finch  ===
B D                    Lizard  ===
  D          Peregrine falcon  ===
  D              Saker falcon  ===
  D                    Parrot  ===
            Cape golden mole  ===
B D                  Platypus  ===
B D                   Wallaby  ===
B D           Chinese hamster  ===
B D                       Cat  ===
B D                   Megabat  ===
B D                  Bushbaby  ---
B D                       Pig  ===
  D  Chinese softshell turtle  ===
B D                       Rat  ===
B D                     Mouse  ---
             Star-nosed mole  ===
B D                  Squirrel  ===

Inserts between block 22 and 23 in window
                Prairie vole 1bp
              Golden hamster 1bp
B D                   Rabbit 1bp
B D                   Alpaca 6bp
              Bactrian camel 6bp
B D                  Dolphin 6bp
                Killer whale 6bp
            Tibetan antelope 8bp
B D                      Cow 8bp
B D                    Sheep 8bp
               Domestic goat 8bp
B D                    Horse 22bp
B D         White rhinoceros 12bp
B D                      Dog 249bp
B D                  Ferret  1bp
B D                    Panda 1bp
              Pacific walrus 1bp
                Weddell seal 1bp
            Black flying-fox 1bp
               Big brown bat 15bp
        David's myotis (bat) 2bp
  D         Little brown bat 2bp
B D                 Elephant 4bp
         Cape elephant shrew 8bp
B D                   Tenrec 16bp
                    Aardvark 1bp
B D                Armadillo 1bp

Alignment block 23 of 1078 in window, 56741973 - 56741974, 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  -cc
B D                    Baboon  -cc
B D              Green monkey  -cc
B D                  Marmoset  -cc
B D           Squirrel monkey  -cc
           Chinese tree shrew  -gt
                 Prairie vole  -cg
               Golden hamster  -ca
B D                   Ferret   -tt
B D                     Panda  -tt
               Pacific walrus  -tt
                 Weddell seal  -tt
             Black flying-fox  -ct
B D                   Manatee  ac-
B D                  Hedgehog  ===
B D                Guinea pig  ===
B D                      Pika  ===
B D                    Rabbit  ===
B D                   Lamprey  ===
B D                Coelacanth  ===
B D                     Shrew  ===
B D       Crab-eating macaque  ===
            Brush-tailed rat  ===
B D              Atlantic cod  ===
                 Spotted gar  ===
B D               Stickleback  ===
          Southern platyfish  ===
      Yellowbelly pufferfish  ===
B D                      Fugu  ===
B D                    Turkey  ===
B D                   Chicken  ===
          Tibetan ground jay  ===
B D               Zebra finch  ===
B D           Tasmanian devil  ---
    Mexican tetra (cavefish)  ===
B D                 Zebrafish  ===
B D                    Medaka  ===
         Pundamilia nyererei  ===
                 Zebra mbuna  ===
       Burton's mouthbreeder  ===
         Princess of Burundi  ===
B D              Nile tilapia  ===
B D             X. tropicalis  ===
  D            Painted turtle  ===
  D           Green seaturtle  ===
B D        American alligator  ===
  D             Scarlet macaw  ===
B D                   Opossum  ---
                  Chinchilla  ===
B D            Naked mole-rat  ===
      Lesser Egyptian jerboa  ===
  D               Rock pigeon  ===
  D       Collared flycatcher  ===
B D       Medium ground finch  ===
B D                    Lizard  ===
  D          Peregrine falcon  ===
  D              Saker falcon  ===
  D                    Parrot  ===
            Cape golden mole  ===
         Cape elephant shrew  ===
B D                  Platypus  ===
B D                   Wallaby  ===
B D           Chinese hamster  ===
                    Aardvark  ===
B D                  Elephant  ===
B D                    Tenrec  ===
B D                       Cat  ===
B D                   Megabat  ===
B D                  Bushbaby  ---
B D                       Pig  ===
  D  Chinese softshell turtle  ===
B D                   Dolphin  ===
B D                       Rat  ===
B D                     Mouse  ---
               Domestic goat  ===
B D                     Sheep  ===
            Tibetan antelope  ===
             Star-nosed mole  ===
              Bactrian camel  ===
B D                    Alpaca  ===
B D          White rhinoceros  ===
B D                     Horse  ===
B D                  Squirrel  ===
B D                 Armadillo  ===
        David's myotis (bat)  ===
               Big brown bat  ===
  D          Little brown bat  ===
B D                       Dog  ===
B D                       Cow  ===
                Killer whale  ===

Inserts between block 23 and 24 in window
B D                  Ferret  9bp
            Black flying-fox 8bp
B D                  Manatee 586bp

Alignment block 24 of 1078 in window, 56741975 - 56741975, 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                    Baboon  g
B D              Green monkey  g
B D                  Marmoset  a
B D           Squirrel monkey  a
           Chinese tree shrew  g
                 Prairie vole  g
               Golden hamster  g
B D                     Panda  a
               Pacific walrus  a
                 Weddell seal  a
B D                  Hedgehog  =
B D                Guinea pig  =
B D                      Pika  =
B D                    Rabbit  =
B D                   Lamprey  =
B D                Coelacanth  =
B D                     Shrew  =
B D       Crab-eating macaque  =
            Brush-tailed rat  =
B D              Atlantic cod  =
                 Spotted gar  =
B D               Stickleback  =
          Southern platyfish  =
      Yellowbelly pufferfish  =
B D                      Fugu  =
B D                    Turkey  =
B D                   Chicken  =
          Tibetan ground jay  =
B D               Zebra finch  =
B D           Tasmanian devil  -
    Mexican tetra (cavefish)  =
B D                 Zebrafish  =
B D                    Medaka  =
         Pundamilia nyererei  =
                 Zebra mbuna  =
       Burton's mouthbreeder  =
         Princess of Burundi  =
B D              Nile tilapia  =
B D             X. tropicalis  =
  D            Painted turtle  =
  D           Green seaturtle  =
B D        American alligator  =
  D             Scarlet macaw  =
B D                   Opossum  -
                  Chinchilla  =
B D            Naked mole-rat  =
      Lesser Egyptian jerboa  =
  D               Rock pigeon  =
  D       Collared flycatcher  =
B D       Medium ground finch  =
B D                    Lizard  =
  D          Peregrine falcon  =
  D              Saker falcon  =
  D                    Parrot  =
            Cape golden mole  =
         Cape elephant shrew  =
B D                  Platypus  =
B D                   Wallaby  =
B D                   Manatee  =
B D           Chinese hamster  =
                    Aardvark  =
B D                  Elephant  =
B D                    Tenrec  =
B D                       Cat  =
B D                   Megabat  =
B D                  Bushbaby  -
B D                       Pig  =
  D  Chinese softshell turtle  =
B D                   Ferret   =
B D                   Dolphin  =
B D                       Rat  =
B D                     Mouse  -
               Domestic goat  =
B D                     Sheep  =
            Tibetan antelope  =
             Star-nosed mole  =
              Bactrian camel  =
B D                    Alpaca  =
            Black flying-fox  =
B D          White rhinoceros  =
B D                     Horse  =
B D                  Squirrel  =
B D                 Armadillo  =
        David's myotis (bat)  =
               Big brown bat  =
  D          Little brown bat  =
B D                       Dog  =
B D                       Cow  =
                Killer whale  =

Inserts between block 24 and 25 in window
          Chinese tree shrew 455bp

Alignment block 25 of 1078 in window, 56741976 - 56741978, 3 bps 
B D                     Human  ggc
B D                     Chimp  ggt
B D                   Gorilla  ggc
B D                 Orangutan  ggc
B D                    Gibbon  ggc
B D                    Rhesus  ggc
B D                    Baboon  ggg
B D              Green monkey  ggc
B D                  Marmoset  ggc
B D           Squirrel monkey  ggc
B D                  Bushbaby  agg
                 Prairie vole  gca
               Golden hamster  gca
B D                     Panda  aac
               Pacific walrus  aac
B D                  Hedgehog  ===
B D                Guinea pig  ===
B D                      Pika  ===
B D                    Rabbit  ===
B D                   Lamprey  ===
B D                Coelacanth  ===
B D                     Shrew  ===
B D       Crab-eating macaque  ===
            Brush-tailed rat  ===
B D              Atlantic cod  ===
                 Spotted gar  ===
B D               Stickleback  ===
          Southern platyfish  ===
      Yellowbelly pufferfish  ===
B D                      Fugu  ===
B D                    Turkey  ===
B D                   Chicken  ===
          Tibetan ground jay  ===
B D               Zebra finch  ===
B D           Tasmanian devil  ---
    Mexican tetra (cavefish)  ===
B D                 Zebrafish  ===
B D                    Medaka  ===
         Pundamilia nyererei  ===
                 Zebra mbuna  ===
       Burton's mouthbreeder  ===
         Princess of Burundi  ===
B D              Nile tilapia  ===
B D             X. tropicalis  ===
  D            Painted turtle  ===
  D           Green seaturtle  ===
B D        American alligator  ===
  D             Scarlet macaw  ===
B D                   Opossum  ---
                  Chinchilla  ===
B D            Naked mole-rat  ===
      Lesser Egyptian jerboa  ===
  D               Rock pigeon  ===
  D       Collared flycatcher  ===
B D       Medium ground finch  ===
B D                    Lizard  ===
  D          Peregrine falcon  ===
  D              Saker falcon  ===
  D                    Parrot  ===
            Cape golden mole  ===
          Chinese tree shrew  ===
         Cape elephant shrew  ===
B D                  Platypus  ===
B D                   Wallaby  ===
B D                   Manatee  ===
B D           Chinese hamster  ===
                    Aardvark  ===
B D                  Elephant  ===
B D                    Tenrec  ===
B D                       Cat  ===
B D                   Megabat  ===
B D                       Pig  ===
  D  Chinese softshell turtle  ===
B D                   Ferret   ===
B D                   Dolphin  ===
B D                       Rat  ===
B D                     Mouse  ---
               Domestic goat  ===
B D                     Sheep  ===
            Tibetan antelope  ===
             Star-nosed mole  ===
              Bactrian camel  ===
B D                    Alpaca  ===
            Black flying-fox  ===
B D          White rhinoceros  ===
B D                     Horse  ===
B D                  Squirrel  ===
B D                 Armadillo  ===
                Weddell seal  ---
        David's myotis (bat)  ===
               Big brown bat  ===
  D          Little brown bat  ===
B D                       Dog  ===
B D                       Cow  ===
                Killer whale  ===

Inserts between block 25 and 26 in window
B D                    Panda 4bp
              Pacific walrus 3bp

Alignment block 26 of 1078 in window, 56741979 - 56742022, 44 bps 
B D                     Human  gtggtggctcatgcctgtactcccagcactttgggaggcagagg
B D                     Chimp  gtggtggctcatgcctgtactcccagcactttgggaggctgagg
B D                   Gorilla  atggtggctcatgcctgtactcccagcactttgggaggctgagg
B D                 Orangutan  gtggtggctcatgcctgtactcccagcactttgggaggctgagg
B D                    Gibbon  gtggtggctcatgcctgtactcccagcactttgggaggctgagg
B D                    Rhesus  atggtggctcaagcctgtaatcccagcactttgggaggccgaga
B D                    Baboon  atggtggctcaagcctgtaatcccagcactttgggaggctgagg
B D              Green monkey  atggtggctcaagcctgtaatcccagcactttgggaggctgagg
B D                  Marmoset  atggt---------------------------------------
B D           Squirrel monkey  gtggt---------------------------------------
B D                  Bushbaby  gtggtgcct-----------------------------------
       Lesser Egyptian jerboa  -----------------------------cttgggctggagaga
                 Prairie vole  gtggtggcgcacacctttaatcccagca-ttagggatgcagagg
               Golden hamster  atggtgccacatgcatttaatcccagca-ctcggaaggcagagg
B D                  Hedgehog  ============================================
B D                Guinea pig  ============================================
B D                      Pika  ============================================
B D                    Rabbit  ============================================
B D                   Lamprey  ============================================
B D                Coelacanth  ============================================
B D                     Shrew  ============================================
B D       Crab-eating macaque  ============================================
            Brush-tailed rat  ============================================
B D              Atlantic cod  ============================================
                 Spotted gar  ============================================
B D               Stickleback  ============================================
          Southern platyfish  ============================================
      Yellowbelly pufferfish  ============================================
B D                      Fugu  ============================================
B D                    Turkey  ============================================
B D                   Chicken  ============================================
          Tibetan ground jay  ============================================
B D               Zebra finch  ============================================
B D           Tasmanian devil  --------------------------------------------
    Mexican tetra (cavefish)  ============================================
B D                 Zebrafish  ============================================
B D                    Medaka  ============================================
         Pundamilia nyererei  ============================================
                 Zebra mbuna  ============================================
       Burton's mouthbreeder  ============================================
         Princess of Burundi  ============================================
B D              Nile tilapia  ============================================
B D             X. tropicalis  ============================================
  D            Painted turtle  ============================================
  D           Green seaturtle  ============================================
B D        American alligator  ============================================
  D             Scarlet macaw  ============================================
B D                   Opossum  --------------------------------------------
                  Chinchilla  ============================================
B D            Naked mole-rat  ============================================
  D               Rock pigeon  ============================================
  D       Collared flycatcher  ============================================
B D       Medium ground finch  ============================================
B D                    Lizard  ============================================
  D          Peregrine falcon  ============================================
  D              Saker falcon  ============================================
  D                    Parrot  ============================================
            Cape golden mole  ============================================
          Chinese tree shrew  ============================================
         Cape elephant shrew  ============================================
B D                  Platypus  ============================================
B D                   Wallaby  ============================================
B D                   Manatee  ============================================
B D           Chinese hamster  ============================================
                    Aardvark  ============================================
B D                  Elephant  ============================================
B D                    Tenrec  ============================================
B D                       Cat  ============================================
B D                   Megabat  ============================================
B D                       Pig  ============================================
  D  Chinese softshell turtle  ============================================
B D                   Ferret   ============================================
B D                   Dolphin  ============================================
B D                       Rat  ============================================
B D                     Mouse  --------------------------------------------
B D                     Panda  ============================================
               Domestic goat  ============================================
B D                     Sheep  ============================================
            Tibetan antelope  ============================================
             Star-nosed mole  ============================================
              Bactrian camel  ============================================
B D                    Alpaca  ============================================
              Pacific walrus  ============================================
            Black flying-fox  ============================================
B D          White rhinoceros  ============================================
B D                     Horse  ============================================
B D                  Squirrel  ============================================
B D                 Armadillo  ============================================
                Weddell seal  --------------------------------------------
        David's myotis (bat)  ============================================
               Big brown bat  ============================================
  D          Little brown bat  ============================================
B D                       Dog  ============================================
B D                       Cow  ============================================
                Killer whale  ============================================

Inserts between block 26 and 27 in window
      Lesser Egyptian jerboa 13bp
              Golden hamster 17bp

Alignment block 27 of 1078 in window, 56742023 - 56742042, 20 bps 
B D                     Human  tgggtggatcac-gtgaggtc
B D                     Chimp  tgggtggatcac-gtgaggtc
B D                   Gorilla  tgggtggatcac-gtgaggtc
B D                 Orangutan  tgggtggatcac-gtgaggtc
B D                    Gibbon  tgggtggatcac-gtgaggtc
B D                    Rhesus  cgggcggatcac---gaggtc
B D                    Baboon  tgggtggatcac-gtgaggtc
B D              Green monkey  tgggtggatcac-gtgaggtc
B D                  Marmoset  -----ggatcac-ctgaggtc
B D           Squirrel monkey  -----ggatcac-ctgcagtc
B D                  Bushbaby  ---gtggctcag---------
       Lesser Egyptian jerboa  aaggcacttgcctgcaaagcc
                 Prairie vole  caggtagatctc---------
B D                  Hedgehog  =====================
B D                Guinea pig  =====================
B D                      Pika  =====================
B D                    Rabbit  =====================
B D                   Lamprey  =====================
B D                Coelacanth  =====================
B D                     Shrew  =====================
              Golden hamster  =====================
B D       Crab-eating macaque  =====================
            Brush-tailed rat  =====================
B D              Atlantic cod  =====================
                 Spotted gar  =====================
B D               Stickleback  =====================
          Southern platyfish  =====================
      Yellowbelly pufferfish  =====================
B D                      Fugu  =====================
B D                    Turkey  =====================
B D                   Chicken  =====================
          Tibetan ground jay  =====================
B D               Zebra finch  =====================
B D           Tasmanian devil  ---------------------
    Mexican tetra (cavefish)  =====================
B D                 Zebrafish  =====================
B D                    Medaka  =====================
         Pundamilia nyererei  =====================
                 Zebra mbuna  =====================
       Burton's mouthbreeder  =====================
         Princess of Burundi  =====================
B D              Nile tilapia  =====================
B D             X. tropicalis  =====================
  D            Painted turtle  =====================
  D           Green seaturtle  =====================
B D        American alligator  =====================
  D             Scarlet macaw  =====================
B D                   Opossum  ---------------------
                  Chinchilla  =====================
B D            Naked mole-rat  =====================
  D               Rock pigeon  =====================
  D       Collared flycatcher  =====================
B D       Medium ground finch  =====================
B D                    Lizard  =====================
  D          Peregrine falcon  =====================
  D              Saker falcon  =====================
  D                    Parrot  =====================
            Cape golden mole  =====================
          Chinese tree shrew  =====================
         Cape elephant shrew  =====================
B D                  Platypus  =====================
B D                   Wallaby  =====================
B D                   Manatee  =====================
B D           Chinese hamster  =====================
                    Aardvark  =====================
B D                  Elephant  =====================
B D                    Tenrec  =====================
B D                       Cat  =====================
B D                   Megabat  =====================
B D                       Pig  =====================
  D  Chinese softshell turtle  =====================
B D                   Ferret   =====================
B D                   Dolphin  =====================
B D                       Rat  =====================
B D                     Mouse  ---------------------
B D                     Panda  =====================
               Domestic goat  =====================
B D                     Sheep  =====================
            Tibetan antelope  =====================
             Star-nosed mole  =====================
              Bactrian camel  =====================
B D                    Alpaca  =====================
              Pacific walrus  =====================
            Black flying-fox  =====================
B D          White rhinoceros  =====================
B D                     Horse  =====================
B D                  Squirrel  =====================
B D                 Armadillo  =====================
                Weddell seal  ---------------------
        David's myotis (bat)  =====================
               Big brown bat  =====================
  D          Little brown bat  =====================
B D                       Dog  =====================
B D                       Cow  =====================
                Killer whale  =====================

Alignment block 28 of 1078 in window, 56742043 - 56742073, 31 bps 
B D                     Human  aggagatcgagaccagc-----ctg-------gccaacatggt
B D                     Chimp  aggagttcgagaccagc-----ctg-------gccaacatggt
B D                   Gorilla  aggagttcgagaccagc-----ctg-------gccaacatggt
B D                 Orangutan  aggagttcgagaccagc-----ctg-------gccaacatggt
B D                    Gibbon  aggagttcgagaccagc-----ctg-------gtcaacatggt
B D                    Rhesus  aggagatcgagaccatc-----ctggctaacagttaacgtggt
B D                    Baboon  aggagtttgagaccagc-----ctg-------gtgaacgtggt
B D              Green monkey  aggagtttgagaccagc-----ctg-------gtgaacgtggt
B D                  Marmoset  aggagttcaagaccagc-----ctg-------gccaacatggt
B D           Squirrel monkey  aggagttgaagaccagc-----ctg-------gccaacatggt
B D                  Bushbaby  -----------------------tg---------------ggt
       Lesser Egyptian jerboa  aaaggacccaggttcga-----ttc-------cccaaga----
                 Prairie vole  -tgagttccaggccagc-----ctg-------gtctacagagt
               Golden hamster  aagagttccaggacagccagagctg-------ttatacaga--
B D                  Hedgehog  ===========================================
B D                Guinea pig  ===========================================
B D                      Pika  ===========================================
B D                    Rabbit  ===========================================
B D                   Lamprey  ===========================================
B D                Coelacanth  ===========================================
B D                     Shrew  ===========================================
B D       Crab-eating macaque  ===========================================
            Brush-tailed rat  ===========================================
B D              Atlantic cod  ===========================================
                 Spotted gar  ===========================================
B D               Stickleback  ===========================================
          Southern platyfish  ===========================================
      Yellowbelly pufferfish  ===========================================
B D                      Fugu  ===========================================
B D                    Turkey  ===========================================
B D                   Chicken  ===========================================
          Tibetan ground jay  ===========================================
B D               Zebra finch  ===========================================
B D           Tasmanian devil  -------------------------------------------
    Mexican tetra (cavefish)  ===========================================
B D                 Zebrafish  ===========================================
B D                    Medaka  ===========================================
         Pundamilia nyererei  ===========================================
                 Zebra mbuna  ===========================================
       Burton's mouthbreeder  ===========================================
         Princess of Burundi  ===========================================
B D              Nile tilapia  ===========================================
B D             X. tropicalis  ===========================================
  D            Painted turtle  ===========================================
  D           Green seaturtle  ===========================================
B D        American alligator  ===========================================
  D             Scarlet macaw  ===========================================
B D                   Opossum  -------------------------------------------
                  Chinchilla  ===========================================
B D            Naked mole-rat  ===========================================
  D               Rock pigeon  ===========================================
  D       Collared flycatcher  ===========================================
B D       Medium ground finch  ===========================================
B D                    Lizard  ===========================================
  D          Peregrine falcon  ===========================================
  D              Saker falcon  ===========================================
  D                    Parrot  ===========================================
            Cape golden mole  ===========================================
          Chinese tree shrew  ===========================================
         Cape elephant shrew  ===========================================
B D                  Platypus  ===========================================
B D                   Wallaby  ===========================================
B D                   Manatee  ===========================================
B D           Chinese hamster  ===========================================
                    Aardvark  ===========================================
B D                  Elephant  ===========================================
B D                    Tenrec  ===========================================
B D                       Cat  ===========================================
B D                   Megabat  ===========================================
B D                       Pig  ===========================================
  D  Chinese softshell turtle  ===========================================
B D                   Ferret   ===========================================
B D                   Dolphin  ===========================================
B D                       Rat  ===========================================
B D                     Mouse  -------------------------------------------
B D                     Panda  ===========================================
               Domestic goat  ===========================================
B D                     Sheep  ===========================================
            Tibetan antelope  ===========================================
             Star-nosed mole  ===========================================
              Bactrian camel  ===========================================
B D                    Alpaca  ===========================================
              Pacific walrus  ===========================================
            Black flying-fox  ===========================================
B D          White rhinoceros  ===========================================
B D                     Horse  ===========================================
B D                  Squirrel  ===========================================
B D                 Armadillo  ===========================================
                Weddell seal  -------------------------------------------
        David's myotis (bat)  ===========================================
               Big brown bat  ===========================================
  D          Little brown bat  ===========================================
B D                       Dog  ===========================================
B D                       Cow  ===========================================
                Killer whale  ===========================================

Alignment block 29 of 1078 in window, 56742074 - 56742103, 30 bps 
B D                     Human  gaaaccccatctc---tactaaaaatagaaaaa
B D                     Chimp  gaaaccccatctc---tactaaaaatagaaaaa
B D                   Gorilla  gaaaccccatctc---tactaaaaatagaaaaa
B D                 Orangutan  gaaaccccacctc---cactaaaaatagaaaaa
B D                    Gibbon  gaaaccccatctc---tactaaaaatagaaaaa
B D                    Rhesus  gaaaccccatctc---tactaaaaatagaaaaa
B D                    Baboon  gaaaccccatctc---tactaaaaatagaaaaa
B D              Green monkey  gaaaccccatctc---tactaaaaatagaaaaa
B D                  Marmoset  gaaaccccatctc---tactaaaaatacaaaaa
B D           Squirrel monkey  aaaaccccatctc---tactaaaaatacaaaaa
B D                  Bushbaby  agggcaccagctc---cat---acattgag---
       Lesser Egyptian jerboa  ----ccca----catatgctaga----------
               Golden hamster  gaaacccggtctcaaaaactaaaaaccaaaaaa
B D                  Hedgehog  =================================
B D                Guinea pig  =================================
B D                      Pika  =================================
B D                    Rabbit  =================================
B D                   Lamprey  =================================
B D                Coelacanth  =================================
B D                     Shrew  =================================
B D       Crab-eating macaque  =================================
            Brush-tailed rat  =================================
B D              Atlantic cod  =================================
                 Spotted gar  =================================
B D               Stickleback  =================================
          Southern platyfish  =================================
      Yellowbelly pufferfish  =================================
B D                      Fugu  =================================
B D                    Turkey  =================================
B D                   Chicken  =================================
          Tibetan ground jay  =================================
B D               Zebra finch  =================================
B D           Tasmanian devil  ---------------------------------
    Mexican tetra (cavefish)  =================================
B D                 Zebrafish  =================================
B D                    Medaka  =================================
         Pundamilia nyererei  =================================
                 Zebra mbuna  =================================
       Burton's mouthbreeder  =================================
         Princess of Burundi  =================================
B D              Nile tilapia  =================================
B D             X. tropicalis  =================================
  D            Painted turtle  =================================
  D           Green seaturtle  =================================
B D        American alligator  =================================
  D             Scarlet macaw  =================================
B D                   Opossum  ---------------------------------
                  Chinchilla  =================================
B D            Naked mole-rat  =================================
  D               Rock pigeon  =================================
  D       Collared flycatcher  =================================
B D       Medium ground finch  =================================
B D                    Lizard  =================================
  D          Peregrine falcon  =================================
  D              Saker falcon  =================================
  D                    Parrot  =================================
            Cape golden mole  =================================
          Chinese tree shrew  =================================
         Cape elephant shrew  =================================
B D                  Platypus  =================================
B D                   Wallaby  =================================
B D                   Manatee  =================================
B D           Chinese hamster  =================================
                Prairie vole  ---------------------------------
                    Aardvark  =================================
B D                  Elephant  =================================
B D                    Tenrec  =================================
B D                       Cat  =================================
B D                   Megabat  =================================
B D                       Pig  =================================
  D  Chinese softshell turtle  =================================
B D                   Ferret   =================================
B D                   Dolphin  =================================
B D                       Rat  =================================
B D                     Mouse  ---------------------------------
B D                     Panda  =================================
               Domestic goat  =================================
B D                     Sheep  =================================
            Tibetan antelope  =================================
             Star-nosed mole  =================================
              Bactrian camel  =================================
B D                    Alpaca  =================================
              Pacific walrus  =================================
            Black flying-fox  =================================
B D          White rhinoceros  =================================
B D                     Horse  =================================
B D                  Squirrel  =================================
B D                 Armadillo  =================================
                Weddell seal  ---------------------------------
        David's myotis (bat)  =================================
               Big brown bat  =================================
  D          Little brown bat  =================================
B D                       Dog  =================================
B D                       Cow  =================================
                Killer whale  =================================

Inserts between block 29 and 30 in window
              Golden hamster 1bp

Alignment block 30 of 1078 in window, 56742104 - 56742127, 24 bps 
B D                     Human  tcagcagggcatggtggtgcacat
B D                     Chimp  tcagcagggcatggtggtgcacat
B D                   Gorilla  tcagcagggcatggtggtgcaaat
B D                 Orangutan  tcagcagggcatggtggtgcacat
B D                    Gibbon  tcagcagggcatggtggtgcacat
B D                    Rhesus  tcagcagggcatgatggctcacat
B D                    Baboon  tcagcagggcatggtggctcacat
B D              Green monkey  tcagcagggcatggtggctcacat
B D                  Marmoset  tcagctggggatggtgacacatat
B D           Squirrel monkey  tcagctggggatggtgacacagat
B D                  Bushbaby  ------------ggttgcaggcac
       Lesser Egyptian jerboa  -----tggacaaggtgacccacac
B D                  Hedgehog  ========================
B D                Guinea pig  ========================
B D                      Pika  ========================
B D                    Rabbit  ========================
B D                   Lamprey  ========================
B D                Coelacanth  ========================
B D                     Shrew  ========================
              Golden hamster  ========================
B D       Crab-eating macaque  ========================
            Brush-tailed rat  ========================
B D              Atlantic cod  ========================
                 Spotted gar  ========================
B D               Stickleback  ========================
          Southern platyfish  ========================
      Yellowbelly pufferfish  ========================
B D                      Fugu  ========================
B D                    Turkey  ========================
B D                   Chicken  ========================
          Tibetan ground jay  ========================
B D               Zebra finch  ========================
B D           Tasmanian devil  ------------------------
    Mexican tetra (cavefish)  ========================
B D                 Zebrafish  ========================
B D                    Medaka  ========================
         Pundamilia nyererei  ========================
                 Zebra mbuna  ========================
       Burton's mouthbreeder  ========================
         Princess of Burundi  ========================
B D              Nile tilapia  ========================
B D             X. tropicalis  ========================
  D            Painted turtle  ========================
  D           Green seaturtle  ========================
B D        American alligator  ========================
  D             Scarlet macaw  ========================
B D                   Opossum  ------------------------
                  Chinchilla  ========================
B D            Naked mole-rat  ========================
  D               Rock pigeon  ========================
  D       Collared flycatcher  ========================
B D       Medium ground finch  ========================
B D                    Lizard  ========================
  D          Peregrine falcon  ========================
  D              Saker falcon  ========================
  D                    Parrot  ========================
            Cape golden mole  ========================
          Chinese tree shrew  ========================
         Cape elephant shrew  ========================
B D                  Platypus  ========================
B D                   Wallaby  ========================
B D                   Manatee  ========================
B D           Chinese hamster  ========================
                Prairie vole  ------------------------
                    Aardvark  ========================
B D                  Elephant  ========================
B D                    Tenrec  ========================
B D                       Cat  ========================
B D                   Megabat  ========================
B D                       Pig  ========================
  D  Chinese softshell turtle  ========================
B D                   Ferret   ========================
B D                   Dolphin  ========================
B D                       Rat  ========================
B D                     Mouse  ------------------------
B D                     Panda  ========================
               Domestic goat  ========================
B D                     Sheep  ========================
            Tibetan antelope  ========================
             Star-nosed mole  ========================
              Bactrian camel  ========================
B D                    Alpaca  ========================
              Pacific walrus  ========================
            Black flying-fox  ========================
B D          White rhinoceros  ========================
B D                     Horse  ========================
B D                  Squirrel  ========================
B D                 Armadillo  ========================
                Weddell seal  ------------------------
        David's myotis (bat)  ========================
               Big brown bat  ========================
  D          Little brown bat  ========================
B D                       Dog  ========================
B D                       Cow  ========================
                Killer whale  ========================

Inserts between block 30 and 31 in window
      Lesser Egyptian jerboa 73bp

Alignment block 31 of 1078 in window, 56742128 - 56742206, 79 bps 
B D                     Human  ctgtaatcctagctactctggaggctgaggcaggaaaattgcttaaatctgcaaggtgaaggttgcagtg
B D                     Chimp  ctgtaatcctagctactctggaggctgaggcaggaaaattgcttaaacctgcaaggtgaaggttgcagtg
B D                   Gorilla  ctgtaatcctagctactctggaggctgaggcaggaaaattgcttaaacctgcaaggtgaaggttgcagtg
B D                 Orangutan  ctgtaatcctagttacactggaggctgaggcaggaaaattgcttaaacctgcaaggtgaaggttgcagtg
B D                    Gibbon  ctgtaatcctagctactctggaggctgaggcaggaaaattgcttaaacctgcaaggtgaaggttgcagtg
B D                    Rhesus  ctgtaatcgtacctactctggaggctgaggcaggaaaattgcttaaacccgcaaggtgaaggttgcagtg
B D                    Baboon  ctgtaatcgtagctactctggaggctgaggcaggaaaattgcttaaacccgcaaggtgaaggttgcagtg
B D              Green monkey  ctgtaatcgtagctactctagaggctgaggcaggaaaattgcttaaacccgcaaggtgaaggttgcagtg
B D                  Marmoset  ctgtaattccagctgcttgggaggcagaggcaggtgaaatgcttgaacttggaaggtataagttgcagtg
B D           Squirrel monkey  ctgtaattccagctacttgggaggcagaggcaggtgaaatgcttgaacccagaaggtatagattacagtg
B D                  Bushbaby  ctgtagttccagctacttgggatgctgaggcaagaggatcacttgagtcc-tgagttggagggtactgtg
B D                  Hedgehog  ======================================================================
B D                Guinea pig  ======================================================================
B D                      Pika  ======================================================================
B D                    Rabbit  ======================================================================
B D                   Lamprey  ======================================================================
B D                Coelacanth  ======================================================================
B D                     Shrew  ======================================================================
              Golden hamster  ======================================================================
B D       Crab-eating macaque  ======================================================================
            Brush-tailed rat  ======================================================================
B D              Atlantic cod  ======================================================================
                 Spotted gar  ======================================================================
B D               Stickleback  ======================================================================
          Southern platyfish  ======================================================================
      Yellowbelly pufferfish  ======================================================================
B D                      Fugu  ======================================================================
B D                    Turkey  ======================================================================
B D                   Chicken  ======================================================================
          Tibetan ground jay  ======================================================================
B D               Zebra finch  ======================================================================
B D           Tasmanian devil  ----------------------------------------------------------------------
    Mexican tetra (cavefish)  ======================================================================
B D                 Zebrafish  ======================================================================
B D                    Medaka  ======================================================================
         Pundamilia nyererei  ======================================================================
                 Zebra mbuna  ======================================================================
       Burton's mouthbreeder  ======================================================================
         Princess of Burundi  ======================================================================
B D              Nile tilapia  ======================================================================
B D             X. tropicalis  ======================================================================
  D            Painted turtle  ======================================================================
  D           Green seaturtle  ======================================================================
B D        American alligator  ======================================================================
  D             Scarlet macaw  ======================================================================
B D                   Opossum  ----------------------------------------------------------------------
                  Chinchilla  ======================================================================
B D            Naked mole-rat  ======================================================================
      Lesser Egyptian jerboa  ======================================================================
  D               Rock pigeon  ======================================================================
  D       Collared flycatcher  ======================================================================
B D       Medium ground finch  ======================================================================
B D                    Lizard  ======================================================================
  D          Peregrine falcon  ======================================================================
  D              Saker falcon  ======================================================================
  D                    Parrot  ======================================================================
            Cape golden mole  ======================================================================
          Chinese tree shrew  ======================================================================
         Cape elephant shrew  ======================================================================
B D                  Platypus  ======================================================================
B D                   Wallaby  ======================================================================
B D                   Manatee  ======================================================================
B D           Chinese hamster  ======================================================================
                Prairie vole  ----------------------------------------------------------------------
                    Aardvark  ======================================================================
B D                  Elephant  ======================================================================
B D                    Tenrec  ======================================================================
B D                       Cat  ======================================================================
B D                   Megabat  ======================================================================
B D                       Pig  ======================================================================
  D  Chinese softshell turtle  ======================================================================
B D                   Ferret   ======================================================================
B D                   Dolphin  ======================================================================
B D                       Rat  ======================================================================
B D                     Mouse  ----------------------------------------------------------------------
B D                     Panda  ======================================================================
               Domestic goat  ======================================================================
B D                     Sheep  ======================================================================
            Tibetan antelope  ======================================================================
             Star-nosed mole  ======================================================================
              Bactrian camel  ======================================================================
B D                    Alpaca  ======================================================================
              Pacific walrus  ======================================================================
            Black flying-fox  ======================================================================
B D          White rhinoceros  ======================================================================
B D                     Horse  ======================================================================
B D                  Squirrel  ======================================================================
B D                 Armadillo  ======================================================================
                Weddell seal  ----------------------------------------------------------------------
        David's myotis (bat)  ======================================================================
               Big brown bat  ======================================================================
  D          Little brown bat  ======================================================================
B D                       Dog  ======================================================================
B D                       Cow  ======================================================================
                Killer whale  ======================================================================

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

Alignment block 32 of 1078 in window, 56742207 - 56742242, 36 bps 
B D                     Human  tgtgccactgtgctacagcctgggcaacagagtgag
B D                     Chimp  tgtgccactgtgctacagcctgggcaacagagtgag
B D                   Gorilla  tgtgccactgcgctacagcctgggcaacagagtgag
B D                 Orangutan  tgtgccactgcgctacagcctgggcaacagagtgag
B D                    Gibbon  tgtgccactgcactacagcctgggcgacagagtgag
B D                    Rhesus  tgtgccactgcactacagcctgggtgacagagtgag
B D                    Baboon  tgtgccactgcactacagcctgggtgacagagtgag
B D              Green monkey  tgtgccactgcactacagcctgggtgacagagtgag
B D                  Marmoset  tgtgccattgcactacagcctgtgtgatagagtgag
B D           Squirrel monkey  tgtgcaattgcactacagcctgggtgatagggtgag
B D                  Bushbaby  --tgccattgcacactactgagggcgataaagtaag
             Brush-tailed rat  tgtgccactatgtgctgccacatttcttagggca--
B D                  Hedgehog  ====================================
B D                Guinea pig  ====================================
B D                      Pika  ====================================
B D                    Rabbit  ====================================
B D                   Lamprey  ====================================
B D                Coelacanth  ====================================
B D                     Shrew  ====================================
              Golden hamster  ====================================
B D       Crab-eating macaque  ====================================
B D              Atlantic cod  ====================================
                 Spotted gar  ====================================
B D               Stickleback  ====================================
          Southern platyfish  ====================================
      Yellowbelly pufferfish  ====================================
B D                      Fugu  ====================================
B D                    Turkey  ====================================
B D                   Chicken  ====================================
          Tibetan ground jay  ====================================
B D               Zebra finch  ====================================
B D           Tasmanian devil  ------------------------------------
    Mexican tetra (cavefish)  ====================================
B D                 Zebrafish  ====================================
B D                    Medaka  ====================================
         Pundamilia nyererei  ====================================
                 Zebra m