Multiz Alignments of 60 Vertebrates
 

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Alignment block 1 of 732 in window, 56698642 - 56698655, 14 bps 
B D             Mouse  actgca-a-agaccag
B D               Rat  acggca-g-caaatag
B D      Kangaroo rat  aaggca-a-agagagt
B D    Naked mole-rat  aaggca-a-agaaagt
B D        Guinea pig  aaggcaga-aaagagt
B D          Squirrel  aaggca-a-agaac-t
B D            Rabbit  aaggca-a-ggagaga
B D              Pika  agggca-atggggaga
B D             Human  aaggca-a-agacaga
B D             Chimp  aaggca-a-agacaga
B D           Gorilla  aaggca-a-----aga
B D         Orangutan  aaggca-a-agacaga
B D            Gibbon  aaggca-a-agataga
B D            Rhesus  aaggca-a-agacaga
B D            Baboon  aaggca-a-agacaga
B D          Marmoset  aaggca-a-aaacaga
B D   Squirrel monkey  aaggca-a-agacaga
B D           Tarsier  aaggca-a-agagaga
B D       Mouse lemur  aaggca-a-agagaga
B D          Bushbaby  aaggca-a-agagaga
B D        Tree shrew  aaggca-g-ag--aga
B D               Pig  aaggca-a-ggagaga
B D           Dolphin  aaggca-a-gaagaga
B D             Sheep  aaggca-a-ggaaaga
B D               Cow  aaggca-a-ggaaaga
B D               Cat  aaggca-a-agagaga
B D               Dog  aaggca-a-agagaga
B D             Panda  aaggca-a-agagaga
B D             Horse  aaggca-a-agagaga
  D  Little brown bat  aaggca-a-agagaga
B D           Megabat  aaggcc-a-agagaga
B D          Hedgehog  aaggca-a-agagaaa
B D             Shrew  aaggca-a-aaagaga
B D          Elephant  aaggta-a---agaga
B D        Rock hyrax  agggt------agaga
B D            Tenrec  aaagca-a-ctagaga
B D           Manatee  aaggta-a-agagaga
B D         Armadillo  aaggca-a-agagaga
B D             Sloth  aaggca-a-agagaga
B D           Opossum  aagacg-a-agagata
B D   Tasmanian devil  aagacg-a-agagata
B D           Wallaby  aagacg-a-agagata
B D          Platypus  aaagcg-a-ggcgaga
B D           Chicken  gagccg----------
B D        Budgerigar  gaaccg----------
B D    Painted turtle  gag-------------
B D            Alpaca  NNNNNNNNNNNNNNNN
B D       Stickleback  ================
B D         Tetraodon  ================
B D              Fugu  ================
B D            Medaka  ================
B D      Atlantic cod  ================
B D      Nile tilapia  ================
B D     X. tropicalis  ================
B D            Turkey  ================
B D        Coelacanth  ================
B D            Lizard  ================
B D       Zebra finch  ================

Inserts between block 1 and 2 in window
B D       Budgerigar 764bp

Alignment block 2 of 732 in window, 56698656 - 56698662, 7 bps 
B D             Mouse  ca------ggcag
B D               Rat  cgtcagacagtag
B D      Kangaroo rat  ca-----------
B D    Naked mole-rat  ga------ggcag
B D        Guinea pig  ca------ggcag
B D          Squirrel  ca------ggcag
B D            Rabbit  ca------ggcag
B D              Pika  tg------agggg
B D             Human  ca------ggcag
B D             Chimp  ca------ggcag
B D           Gorilla  ca------ggcag
B D         Orangutan  ca------ggcag
B D            Gibbon  ca------ggcag
B D            Rhesus  ca------ggcag
B D            Baboon  ca------ggcag
B D          Marmoset  ca------ggcag
B D   Squirrel monkey  ca------ggcag
B D           Tarsier  ca------ggcag
B D       Mouse lemur  ca------ggcag
B D          Bushbaby  ca------ggcag
B D        Tree shrew  ca------ggcag
B D               Pig  tt------ggcaa
B D           Dolphin  ct------ggcag
B D             Sheep  ct------ggcag
B D               Cow  ct------ggcag
B D               Cat  ct------ggcag
B D               Dog  tt------ggcag
B D             Panda  ct------ggcag
B D             Horse  ct------ggcag
  D  Little brown bat  ct------ggccg
B D           Megabat  ct------ggcag
B D          Hedgehog  ct------ggaag
B D             Shrew  ca------ggcag
B D          Elephant  ta------ggcag
B D        Rock hyrax  ca------ggcag
B D            Tenrec  ca------ggcac
B D           Manatee  ca------ggcag
B D         Armadillo  ca------gacag
B D             Sloth  ca------gacag
B D           Opossum  ta------gaaag
B D   Tasmanian devil  ta------gacag
B D           Wallaby  ta------gacag
B D          Platypus  ca------ggcag
B D           Chicken  ct------cgcag
B D    Painted turtle  -a------ggtag
B D            Alpaca  NNNNNNNNNNNNN
B D       Stickleback  =============
B D         Tetraodon  =============
B D              Fugu  =============
B D            Medaka  =============
B D      Atlantic cod  =============
B D      Nile tilapia  =============
B D     X. tropicalis  =============
B D            Turkey  =============
B D        Coelacanth  =============
B D            Lizard  =============
B D        Budgerigar  =============
B D       Zebra finch  =============

Inserts between block 2 and 3 in window
B D          Chicken 534bp

Alignment block 3 of 732 in window, 56698663 - 56698664, 2 bps 
B D             Mouse  tt
B D               Rat  tt
B D    Naked mole-rat  tt
B D        Guinea pig  tt
B D          Squirrel  tt
B D            Rabbit  tt
B D              Pika  tt
B D             Human  tt
B D             Chimp  tt
B D           Gorilla  tt
B D         Orangutan  tt
B D            Gibbon  tt
B D            Rhesus  tt
B D            Baboon  tt
B D          Marmoset  tt
B D   Squirrel monkey  tt
B D           Tarsier  ct
B D       Mouse lemur  tt
B D          Bushbaby  ta
B D        Tree shrew  tt
B D               Pig  tt
B D           Dolphin  tt
B D             Sheep  tt
B D               Cow  tt
B D               Cat  tt
B D               Dog  tt
B D             Panda  tt
B D             Horse  tt
  D  Little brown bat  tt
B D           Megabat  tt
B D          Hedgehog  tt
B D             Shrew  tt
B D          Elephant  tt
B D        Rock hyrax  ct
B D            Tenrec  tt
B D           Manatee  tt
B D         Armadillo  tt
B D             Sloth  tt
B D           Opossum  cc
B D   Tasmanian devil  ct
B D           Wallaby  ct
B D          Platypus  ct
B D    Painted turtle  ct
B D            Alpaca  NN
B D       Stickleback  ==
B D         Tetraodon  ==
B D              Fugu  ==
B D            Medaka  ==
B D      Atlantic cod  ==
B D      Nile tilapia  ==
B D     X. tropicalis  ==
B D            Turkey  ==
B D        Coelacanth  ==
B D            Lizard  ==
B D        Budgerigar  ==
B D       Zebra finch  ==
B D           Chicken  ==
B D      Kangaroo rat  --

Inserts between block 3 and 4 in window
B D         Platypus 1713bp

Alignment block 4 of 732 in window, 56698665 - 56698675, 11 bps 
B D             Mouse  -gg-gaatc---------agt-g
B D               Rat  -gt-gaatc---------agt-c
B D      Kangaroo rat  ----gaccc---------aaa-c
B D    Naked mole-rat  -ct-ggacc---------aaa--
B D        Guinea pig  -tt-gtacc---------aaa--
B D          Squirrel  -ct-ggacc---------caa--
B D            Rabbit  -ct-ggacc---------taaac
B D              Pika  -tt-ggacc---------caaac
B D             Human  -ct-ggacc---------aaaac
B D             Chimp  -ct-ggacc---------aaaac
B D           Gorilla  -ct-ggacc---------aaaac
B D         Orangutan  -ct-ggacc---------aaaac
B D            Gibbon  -ct-ggacc---------aaaac
B D            Rhesus  -ct-ggacc---------aaaac
B D            Baboon  -ct-ggacc---------aaa--
B D          Marmoset  -tt-gaacc---------aaaac
B D   Squirrel monkey  -ct-ggacc---------aaaac
B D           Tarsier  -ct-ggacc---------caaac
B D       Mouse lemur  -ct-ggacc---------aaaac
B D          Bushbaby  -at-ggacc---------aaaac
B D        Tree shrew  -tt-agacc---------aaa--
B D               Pig  -ct-gggcc---------aagg-
B D           Dolphin  -ct-gggcc---------aaaa-
B D             Sheep  -ct-gggcc---------aaaa-
B D               Cow  -ct-gggcc---------aaaa-
B D               Cat  -ct-gcgcc---------aaaa-
B D               Dog  -ct-ttgcc---------aaaa-
B D             Panda  -ct-tcgtc---------aaaa-
B D             Horse  -ca-gcacc---------aaaa-
  D  Little brown bat  -ct-gggcc---------aaaa-
B D           Megabat  -ct-gggcca--------aaaa-
B D          Hedgehog  -gg-ggggggggggaggcaaag-
B D             Shrew  -ct-gggca---------aaaa-
B D          Elephant  -ct-gggac---------aaaac
B D        Rock hyrax  -ct-gggcca--------aaaac
B D            Tenrec  -ct-gggcc---------caaac
B D           Manatee  -ct-gggcc---------taaac
B D         Armadillo  -ct-gggcc---------aaaac
B D             Sloth  -ctggggcc---------aaaac
B D           Opossum  -ct-gagct---------ggaa-
B D   Tasmanian devil  -ct-gtgct---------ggaa-
B D           Wallaby  -ct-gagct---------ggaa-
B D    Painted turtle  tct-gaaca---------gaa--
B D            Alpaca  NNNNNNNNNNNNNNNNNNNNNNN
B D       Stickleback  =======================
B D         Tetraodon  =======================
B D              Fugu  =======================
B D            Medaka  =======================
B D      Atlantic cod  =======================
B D      Nile tilapia  =======================
B D     X. tropicalis  =======================
B D          Platypus  =======================
B D            Turkey  =======================
B D        Coelacanth  =======================
B D            Lizard  =======================
B D        Budgerigar  =======================
B D       Zebra finch  =======================
B D           Chicken  =======================

Inserts between block 4 and 5 in window
B D              Pig 1bp
B D          Dolphin 1bp
B D            Sheep 1bp
B D              Cow 1bp
B D              Cat 1bp
B D              Dog 1bp
B D            Panda 1bp
B D            Horse 1bp
  D Little brown bat 1bp
B D          Megabat 1bp
B D         Hedgehog 1bp
B D            Shrew 1bp
B D          Opossum 5bp
B D  Tasmanian devil 1bp
B D          Wallaby 1bp

Alignment block 5 of 732 in window, 56698676 - 56698770, 95 bps 
B D             Mouse  atggc-tttctggtac--aaaaatagg-agcac--aatc-t------------acttc-tttg-g-a---
B D               Rat  atggc-ttcctggtac--aaaaatggg-aacac--aatc-t------------ttgtc-tttg-g-a---
B D      Kangaroo rat  gtggt-ttcctggtgcaaaaaaatcgg-agcac--aatc-t------------atttc-tttg-g-a---
B D    Naked mole-rat  acagt-ttcctggtgt--aaacatagg-agcac--agt-----------------tga-tttg-g-g---
B D        Guinea pig  acagt-ttcctggtgc-aaaaaatagg-aacac--aat-----------------ttc-ttgg-g-a---
B D          Squirrel  acagt-ctcttggtgc-aaaaaatagg-agcac--aatc-t------------atttc-tttg-gaa---
B D            Rabbit  acccc-atcctggtgc--aaaaatggg-aacac--agtc-t------------aatc--tttg-a-g---
B D              Pika  accct-ttcctggtac--aaaactggg-agcccggagtt-t------------agtttgttta-g-t---
B D             Human  acagt-ttcctggtgc----aaatggg-a-ctc--aatc-t------------aattc-ttgg-g-g--g
B D             Chimp  acagt-ttcctggtgc----aaatggg-a-ctc--aatc-t------------aattc-ttgg-g-g--g
B D           Gorilla  acagt-ttcctggtgc----aaatggg-a-ctc--aatc-t------------aattc-ttgg-g-g--g
B D         Orangutan  acagt-ttcctggtgc----aaatggg-a-ctc--aatc-t------------aattc-ttgg-g-g--g
B D            Gibbon  acagt-ttcctggtgc----aaatggg-a-ctc--aatc-t------------agttc-ttgg-g-g--g
B D            Rhesus  acagt-ttcctggtgc----aaatggg-a-ctc--aatc-c------------aattc-ttgg-g-g--g
B D            Baboon  acagt-ttcctggtgc----aaatggg-a-ctc--aatc-t------------aattc-ttgg-g-g--g
B D          Marmoset  acagt-ttcctggtgc----aaatggg-a-ctc--aatc-t------------aattc-ttga-g-g--g
B D   Squirrel monkey  acagt-tttctggtgc----aaatggg-a-ctc--agtc-t------------aattc-ttgg-g-g--g
B D           Tarsier  acaga-ttcctggtgc----aaatagg-a-atc--catt-t------------aattc-ttgg-a-g--g
B D       Mouse lemur  atggt-ttcctggtgc----aaatggg-a-atc--aatc-t------------aattc-tagg-g-ggtg
B D          Bushbaby  acagt-ttcttggtgc----aaatggg-a-atc--aatc-t------------agttc-tttg-g-g--g
B D        Tree shrew  acagt-ttcctggtgc----aaatgggaa-cgc--aatc-t------------aattc-tttg-g-a--g
B D               Pig  acagt-ttcctggtgc----aaactgg-aacac--aatc-t------------aattc-tttg-g-a---
B D            Alpaca  acggt-ttcctggtgc----aaattgt-aacac--aacc-t------------aattc-tctg-g-a---
B D           Dolphin  acagt-ttcctggtgc----aaattgg-aacac--aatc-t------------aattc-tttg-g-a---
B D             Sheep  actat-ttcctggtgc----aaattgg-aacac--aatctt------------aattc-tttg-g-c---
B D               Cow  cctgt-ttcctggtgc----aaattgg-aacac--aatctt------------aattc-ttcg-g-c---
B D               Cat  atggt-ttcctggtgc----aaattgg-aacat--aatc-t------------aatcc-tttg-g-a---
B D               Dog  acggt-ttcctggtgc----aaattgg-aacac--aatc-t------------gattc-tttg-g-a---
B D             Panda  acagt-ttcctggtgc----aaactgg-aacac--aatc-t------------aattc-tttg-g-a---
B D             Horse  actgt-ttcctggtgc----aaattag-aacac--aatc-t------------aattc-tttg-g-a---
  D  Little brown bat  gcagtggtcctggtgc----aaattgg-aacac--aatc-t------------aattc-tttg-g-a---
B D           Megabat  acaat-ttcctgatgc----aaactgg-aacac--aata-t------------aattc-tttg-g-a---
B D          Hedgehog  acagc-ttcctggtgc----aaattgg-aaccc--aatc-t------------aatta-tttg-g-a---
B D             Shrew  acaat-ttcctggtac----aaaacgg-aatac--aacc-t------------aattc-tttg-g-a---
B D          Elephant  atggt-ttcctggtgc----aaatagg-aacac--aatc-t------------aat----------g---
B D        Rock hyrax  atagt-ttcctggtgc----aaacaga-aacac--agtc-t------------aattc-tttg-g-a---
B D            Tenrec  atgct-ttcttggtgc----aaataag-aacac--attc-a------------attct-ttag-g-g---
B D           Manatee  aaggt-ttcctggtgc----aaatagg-aacac--aatc-t------------aattc-ttcg-g-a---
B D         Armadillo  acggt-ttcctggtgc----aaatagg-aatac--aatc-t------------aatta-tttg-g-a---
B D             Sloth  atggg-ttcctggtgc----gaatagg-aatac--aatc-t------------aatta-tttgcg-a---
B D           Opossum  agagc-ctc--aatcc----aaatgag-aacac--gacc-t------------aatta-aatt-g-t---
B D   Tasmanian devil  gtaga-ctc--aatcc----aaatggg-aactc--gact-t------------aatta-attt-a-t---
B D           Wallaby  atagc-ctc--agtcc----aaatggg-aacac--gact-t------------aattc-attt-a-t---
B D    Painted turtle  acagt-tta-----------acacgag-agctc--gatc-ttgctcccactcaagtca-atcg-g-a---
B D       Stickleback  ======================================================================
B D         Tetraodon  ======================================================================
B D              Fugu  ======================================================================
B D            Medaka  ======================================================================
B D      Atlantic cod  ======================================================================
B D      Nile tilapia  ======================================================================
B D     X. tropicalis  ======================================================================
B D          Platypus  ======================================================================
B D            Turkey  ======================================================================
B D        Coelacanth  ======================================================================
B D            Lizard  ======================================================================
B D        Budgerigar  ======================================================================
B D       Zebra finch  ======================================================================
B D           Chicken  ======================================================================

                Mouse  -------gggggagac----------agtg----------------------------------------
                  Rat  -------gggggagaca--------aaatg----------------------------------------
         Kangaroo rat  -------gcaggaggcg--------tcgtg----------------------------------------
       Naked mole-rat  -------ggagggagta--------tgctt----------------------------------------
           Guinea pig  -------gggggggtaa--------tggtg----------------------------------------
             Squirrel  -------gggggagaca--------tagtg----------------------------------------
               Rabbit  -------gggggaggca--------tggtg----------------------------------------
                 Pika  -------gtgggaggca--------cggtg----------------------------------------
                Human  tggtagaggaggagaca--------tagtg----------------------------------------
                Chimp  tggtagaggaggagaca--------tagtga---------------------------------------
              Gorilla  tggtagaggaggagaca--------cagtg----------------------------------------
            Orangutan  tggtagaggaggagaca--------tagtg----------------------------------------
               Gibbon  tggtagaggaggagaca--------tagtg----------------------------------------
               Rhesus  tggtagaggaggaaaca--------tagtg----------------------------------------
               Baboon  tggtagaggaggaaaca--------tagtg----------------------------------------
             Marmoset  tggtagaggaggagaca--------tagtg----------------------------------------
      Squirrel monkey  tggtagaggaggagaca--------tagtg----------------------------------------
              Tarsier  -------ggggggagca--------tagtg----------------------------------------
          Mouse lemur  tg-----ggggaagata--------tagtg----------------------------------------
             Bushbaby  tt-----gggaaaaata--------tagtg----------------------------------------
           Tree shrew  -------gagggaggca--------tagtgaaaagacaaaagaaaagaaaagaagagaaaaggaaagaaa
                  Pig  -----gagggggaggca--------gagtg----------------------------------------
               Alpaca  -----gaaggagaggca--------tagtg----------------------------------------
              Dolphin  -----gagggggaggca--------tagtg----------------------------------------
                Sheep  -----gagggggaggca--------tagtg----------------------------------------
                  Cow  -----gagggggaggca--------tagtg----------------------------------------
                  Cat  -----aaggaggaggaa----tagttaaaa----------------------------------------
                  Dog  -----gagggggaggaa----ggggcgggg----------------------------------------
                Panda  -----gagggggaggaa------tatagaa----------------------------------------
                Horse  -----gagg-ggaggaa--------taatg----------------------------------------
     Little brown bat  -----gagggggaggga--------cagtg----------------------------------------
              Megabat  -----gagggggaagaa--------tagtg----------------------------------------
             Hedgehog  -----gaaggggaccct--------taatg----------------------------------------
                Shrew  -----gagggggaagca--------tagtg----------------------------------------
             Elephant  ----ggtgggggcggtc------atagtgg----------------------------------------
           Rock hyrax  ----ggtgggggcgggc---------ggta----------------------------------------
               Tenrec  ----ggagagggcaaag--------tgggg----------------------------------------
              Manatee  ----ggtgggggaggggggaagcatagtga----------------------------------------
            Armadillo  ----gaggggaggtata------gtggggg----------------------------------------
                Sloth  ----agcggaaaggata------gc----a----------------------------------------
              Opossum  -------gggggaaact--------cattc----------------------------------------
      Tasmanian devil  -------gaggaaaact--------cattc----------------------------------------
              Wallaby  -------ggggaaaact--------cattc----------------------------------------
       Painted turtle  -------ggggttgatt-ttgatttcagcg----------------------------------------
          Stickleback  ======================================================================
            Tetraodon  ======================================================================
                 Fugu  ======================================================================
               Medaka  ======================================================================
         Atlantic cod  ======================================================================
         Nile tilapia  ======================================================================
        X. tropicalis  ======================================================================
             Platypus  ======================================================================
               Turkey  ======================================================================
           Coelacanth  ======================================================================
               Lizard  ======================================================================
           Budgerigar  ======================================================================
          Zebra finch  ======================================================================
              Chicken  ======================================================================

                Mouse  ------------------------ag--aat-a-------agctgacag--ttgaaaag-aaaac-tttc
                  Rat  ------------------------aa--aat-a-------ggctgacag--tagaaaaa-aaaac-tttt
         Kangaroo rat  ------------------------aa--aataa-------ggttgacag---agttgaa-aaacc-tttt
       Naked mole-rat  ------------------------aa--aaa-a-------ggctgacag---ggatgaa-aagtt-tt--
           Guinea pig  ------------------------ac--aaa-a-------ggctgacag---agatgaa-aagtt-tt--
             Squirrel  ------------------------aa--aaa-a-------ggctgatggagttgaaaag-aaaac-tttt
               Rabbit  ------------------------aa--aac-a-------gactgacagagttgcaaag-aaaaa-tttt
                 Pika  -----------------------------------------------------gggggg-aaaaa-gtct
                Human  ---------aaaaaaaaaaaaaaaaa--aaa-a-------ggctgacagagtttaaaag-aaaac-tttt
                Chimp  ----aaaaaaaaaaaaaaaaaaaaaa--aaa-a-------ggctgacagagtttaaaag-aaaac-tttt
              Gorilla  -----aaaaaaaaaaaaaaaaaaaaa--aaa-a-------ggctgacagagtttaaaag-aaaac-tttt
            Orangutan  -------gaaaaaaaaaaaaaaaaaa--aaa-a-------ggctgacagagtttaaaag-aaaac-tttt
               Gibbon  ----------------gaaaaaaaaa--aaa-a-------ggctgacagagtttaaaag-aaaac-tttt
               Rhesus  ------------gaaaaaaaaaaaaa--aaa-a-------gactgacagagttgaaaat-aaaac-tttt
               Baboon  ------------g--aaaaaaaaaaa--aaa-a-------gactgacagcgttgaaaat-aaaac-tttt
             Marmoset  --------------------gaaaaa--aaa-a-------ggctgac--agttgaaaag-aaaac-tttt
      Squirrel monkey  -----------------------aaa--aaa-a-------ggctgacagagttgaaaag-aaaac-tttt
              Tarsier  ------------------------ac--aaa-a-------ggctgacagaattgaaaag-aaaac-tttt
          Mouse lemur  ------------------------aa--aaa-a-------ggctgacagaattgaaa----aaac-ttct
             Bushbaby  ------------------------gacgaaa-a-------agctgacagaattgaaaag-caaac-tttt
           Tree shrew  aaagaaaagaaagaagagaagaaaag--gaa-a-------ggttgacagagttgaaaag-aaaac-tttt
                  Pig  ------------------------aa--aaa-a-------gactgacagacttgaaaag-aaaac-tttt
               Alpaca  ------------------------aa--aag-a-------aactgacagggttaaaaag-aaaac-tttt
              Dolphin  ------------------------aa--aaa-a-------gactgacagagttgaaaag-aaaac-tttt
                Sheep  ------------------------aa--aaa-a-------gactgacagagttgaaaag-aaaac-cttt
                  Cow  ------------------------aa--aaa-a-------gactgacagagttgaaaag-aaaac-cttt
                  Cat  ------------------------aa--aaa-aaaaaaaagactgacagatttgaaaag-acaac-tgtt
                  Dog  ------------------------gg--aga-g------------------ttgaaaag-acaac-cgtg
                Panda  ------------------------aa--aag-a------------------ctgacag----agt-tgat
                Horse  ------------------------aa--aaa-a-------gactgacagagttgaaaag-aaaac-tttc
     Little brown bat  ------------------------ag--aga-a-------gactgacagagttg-aaag-aaaac-tttt
              Megabat  ------------------------aa--aga-a-------gactgacagggttgaaaag-aaaac-tttt
             Hedgehog  -----------------ggaaaaaaa--aaa-a-------gactgacagagttgaaaag-aaaac-tttt
                Shrew  ------------------------aa--aaa-a-------gactgacagaattgaaaag-aaaac-tttt
             Elephant  ------------------------aa--aaa-a-------gtctgacagagttgaaaag-aaaacttttt
           Rock hyrax  ------------------------aa--aaa-a-------ggctgacagagttgaaaag-aaaac-tttt
               Tenrec  ------------------------aa--aaa-a-------gcctgatggagttgaaaag-agaac-ttgt
              Manatee  ------------------------aa--aac-a-------ggctaacagagttgaaaag-aaaac-tttt
            Armadillo  ------------------------ga--aaa-a-------ggctggcagagttgtaaag-aaaac-tttt
                Sloth  ------------------------aa--aaa-a-------ggctggcagaattgaaaagaaaaac-cttt
              Opossum  ------------------------aa--gg--g-------ggtagacaaaatttaaaag-aaa----gtt
      Tasmanian devil  ------------------------aa--cag-g-------ggtagacaaaattgaaaaa-aaaaa-tgtt
              Wallaby  ------------------------aa--ca-----------gtagacaaagttgaaaag-aaaac-tgtt
       Painted turtle  ------------------------gg--aac-a-------ggctcgggatcccagcaag-cacac-ttcc
          Stickleback  ======================================================================
            Tetraodon  ======================================================================
                 Fugu  ======================================================================
               Medaka  ======================================================================
         Atlantic cod  ======================================================================
         Nile tilapia  ======================================================================
        X. tropicalis  ======================================================================
             Platypus  ======================================================================
               Turkey  ======================================================================
           Coelacanth  ======================================================================
               Lizard  ======================================================================
           Budgerigar  ======================================================================
          Zebra finch  ======================================================================
              Chicken  ======================================================================

                Mouse  cacct
                  Rat  cacct
         Kangaroo rat  cttcc
       Naked mole-rat  ---cc
           Guinea pig  ---ct
             Squirrel  cttct
               Rabbit  cttct
                 Pika  cctct
                Human  cctgc
                Chimp  cctgc
              Gorilla  cctgc
            Orangutan  cctgc
               Gibbon  cctgc
               Rhesus  cttgc
               Baboon  cttgc
             Marmoset  cct-c
      Squirrel monkey  cctgc
              Tarsier  cttgc
          Mouse lemur  cttgc
             Bushbaby  cttgc
           Tree shrew  cttcc
                  Pig  cctcc
               Alpaca  cttcc
              Dolphin  cttcc
                Sheep  cttcc
                  Cow  cttcc
                  Cat  cttcc
                  Dog  cttcc
                Panda  tttcc
                Horse  cttcc
     Little brown bat  cttcc
              Megabat  cttcc
             Hedgehog  ctcaa
                Shrew  ttccc
             Elephant  ttccc
           Rock hyrax  tcccc
               Tenrec  cttcc
              Manatee  ttccc
            Armadillo  cttcc
                Sloth  cttcc
              Opossum  cttcc
      Tasmanian devil  ctcct
              Wallaby  ctccc
       Painted turtle  cagct
          Stickleback  =====
            Tetraodon  =====
                 Fugu  =====
               Medaka  =====
         Atlantic cod  =====
         Nile tilapia  =====
        X. tropicalis  =====
             Platypus  =====
               Turkey  =====
           Coelacanth  =====
               Lizard  =====
           Budgerigar  =====
          Zebra finch  =====
              Chicken  =====

Inserts between block 5 and 6 in window
B D         Elephant 1bp
B D       Rock hyrax 1bp
B D           Tenrec 1bp
B D          Manatee 1bp
B D            Sloth 225bp
B D  Tasmanian devil 1bp

Alignment block 6 of 732 in window, 56698771 - 56698775, 5 bps 
B D             Mouse  ctggg
B D               Rat  ctgca
B D      Kangaroo rat  ccagg
B D    Naked mole-rat  ttaag
B D        Guinea pig  ctagg
B D          Squirrel  ctagg
B D            Rabbit  tgaga
B D              Pika  ctgga
B D             Human  ctagg
B D             Chimp  ctagg
B D           Gorilla  ctagg
B D         Orangutan  ctagg
B D            Gibbon  ctagg
B D            Rhesus  ctagg
B D            Baboon  ctagg
B D          Marmoset  ctagg
B D   Squirrel monkey  ctggg
B D           Tarsier  ctagg
B D       Mouse lemur  ctagg
B D          Bushbaby  ctcag
B D        Tree shrew  ccagg
B D               Pig  ctagg
B D            Alpaca  ctagg
B D           Dolphin  ctagg
B D             Sheep  ctagg
B D               Cow  ctagg
B D               Cat  ccagg
B D               Dog  ctagg
B D             Panda  ctggg
B D             Horse  ctagg
  D  Little brown bat  ctagg
B D           Megabat  ctagg
B D          Hedgehog  ctagg
B D             Shrew  ctagg
B D          Elephant  caggg
B D        Rock hyrax  caggg
B D            Tenrec  taggg
B D           Manatee  taggg
B D         Armadillo  ctagg
B D             Sloth  ctgaa
B D           Opossum  acaga
B D   Tasmanian devil  acagg
B D           Wallaby  acaag
B D    Painted turtle  cgggg
B D       Stickleback  =====
B D         Tetraodon  =====
B D              Fugu  =====
B D            Medaka  =====
B D      Atlantic cod  =====
B D      Nile tilapia  =====
B D     X. tropicalis  =====
B D          Platypus  =====
B D            Turkey  =====
B D        Coelacanth  =====
B D            Lizard  =====
B D        Budgerigar  =====
B D       Zebra finch  =====
B D           Chicken  =====

Inserts between block 6 and 7 in window
B D   Painted turtle 1424bp

Alignment block 7 of 732 in window, 56698776 - 56698801, 26 bps 
B D             Mouse  gaatcctgcaaccagaccaaa-tgtca
B D               Rat  tagtcctgcaaccagaccgaa-tgtca
B D      Kangaroo rat  ga-tcctgaagtcagaacaaa-tgtca
B D    Naked mole-rat  ga-tcctacaatcagaccaag-tgtca
B D        Guinea pig  ga-gcctacaatcggaccaac-tatca
B D          Squirrel  ga-tcctacaatcagaccaaa-tgtca
B D            Rabbit  ga-ttctgcagtcagaccaaa-tgtca
B D              Pika  ga-ttctacagacagatcaaa-agtca
B D             Human  ga-tcctaccatcagagcaaa-tgtca
B D             Chimp  ga-tcctaccatcagagcaaa-tgtca
B D           Gorilla  ga-tcctaccatcagagcaaa-tgtca
B D         Orangutan  ga-tcctaccatcagagcaaa-tgtca
B D            Gibbon  ga-tcctaccgtcagagcaaa-tgtca
B D            Rhesus  ga-tattaccatcagagcaaa-cgtca
B D            Baboon  ga-tattaccatcagagcaaa-cgtca
B D          Marmoset  ga-ttctcccatcagagcgaa-tgtca
B D   Squirrel monkey  ga-ttctcccatcagagcgaa-tgtca
B D           Tarsier  ga-tcctgcaaccagaccaaa-tgtca
B D       Mouse lemur  ga-tcctacaatcataccaaa-tgtca
B D          Bushbaby  ga-tcctacaatcagactaaa-ggtca
B D        Tree shrew  ga-tcttacagtcagaccaaa-ggtca
B D               Pig  ga-tcctacaatcagaccaaa-tgtca
B D            Alpaca  ga-tcctacaatcagactaaa-tgtca
B D           Dolphin  ga-gcctacaatcagaccaaa-tgtca
B D             Sheep  ga-acctacaatcagaccaga-tgtca
B D               Cow  ga-gcctacaatcagaccaaa-tgtca
B D               Cat  ga-tcctacaatcagaccaaa-tatca
B D               Dog  gg-tcctatagtcagaccaac-tatcc
B D             Panda  ga-tcctacaatcagaccaag-tatca
B D             Horse  ga-tcctacaatcagaccaaa-tgtca
  D  Little brown bat  ga-tcctgcagtcagatcaaa-tgtca
B D           Megabat  ga-tcctacaatcagaccaaa-tgtca
B D          Hedgehog  aa-tcctacagccagagcaaa-tatca
B D             Shrew  ga-ccctacaaaaagaccata-tggta
B D          Elephant  ac-tcctacaatcagagtaaa-tgtca
B D        Rock hyrax  ac-tcctacaattagagcaaa-tgtca
B D            Tenrec  ac-tcccacaagcagagcaaa-tgcca
B D           Manatee  ac-tactacaatcagagcaaa-tgtca
B D         Armadillo  ga-tcctacaatcaggtcaaa-tgtca
B D             Sloth  gc-tcc-------------aa-tgt--
B D           Opossum  aa-tc--atagttagactaag-tgtca
B D   Tasmanian devil  aa-tc--acagttagactaagatgtcg
B D           Wallaby  aa-tc--atagttagaataag-tgtca
B D       Stickleback  ===========================
B D         Tetraodon  ===========================
B D              Fugu  ===========================
B D            Medaka  ===========================
B D      Atlantic cod  ===========================
B D      Nile tilapia  ===========================
B D     X. tropicalis  ===========================
B D          Platypus  ===========================
B D            Turkey  ===========================
B D        Coelacanth  ===========================
B D            Lizard  ===========================
B D        Budgerigar  ===========================
B D       Zebra finch  ===========================
B D           Chicken  ===========================
B D    Painted turtle  ===========================

Inserts between block 7 and 8 in window
B D          Wallaby 641bp

Alignment block 8 of 732 in window, 56698802 - 56698925, 124 bps 
B D             Mouse  ggtcgggaagaatcggat--ta-----tagaaggcagtggtgc-ctccacgt-agat-a---ct------
B D               Rat  ggtagggaggaattggag--ta-----gagaaggcagtgatgc-ttccgggt-agataa---gt------
B D      Kangaroo rat  gttggggcagtgttgggt--tg-----tggaaaagagcaactc-tttattgt-agatat---tt------
B D    Naked mole-rat  gttgggaaagcattgtat--ta-----tggagaagagcaaccc-tccactgt-agct-a---tt------
B D        Guinea pig  gtcgaggaaatattggat--ta-----tagagaagagcaactc-ttccctgt-tgct-a---tt------
B D          Squirrel  attaggaaagtataggat--ca-----tggagaggcacaactt-ttc-----------a---tt------
B D            Rabbit  gttggcaaaggattggct--ta----ctggagag-agcaaatc-ttcatggc-agat-a---ct------
B D              Pika  gctggagaagtgttggat--tg-----tggtg------aaaac-ttcactgt-agtg-a---ct------
B D             Human  gttgggaaagtattggag--aa-----tggaaaggagcaactt-ttcctttc-agat-a---tt------
B D             Chimp  gttgggaaagtattggag--aa-----tggaaaggagcaactt-ttcctttc-agat-a---tt------
B D           Gorilla  gttgggaaagtattggag--aa-----tggaaaggagcaactt-ttcctttc-agat-a---tt------
B D         Orangutan  gttgggaaagtattggag--aa-----tggaaaggagcaactt-ttcctttt-agat-a---tt------
B D            Gibbon  gttgggaaagtattggag--aa-----tggaaaggagcaactt-ttcctttt-aga-------t------
B D            Rhesus  gttgggaaagcattggac--aa-----tggaaaggagcaactt-ttcctttt-agat-a---tt------
B D            Baboon  gttgggaaagcattggac--aa-----tggaaaggagcaactt-ttcctttt-agat-a---tt------
B D          Marmoset  gctgggaaagtactggag--aa-----tggaaaggagcaactc-ttccttat-agac-a---tt------
B D   Squirrel monkey  gctgggaaagtattggag--aa-----tggaaaggagcaactc-ttccttat-agat-a---tt------
B D           Tarsier  gttaggaaatgtttgaag--ta-----tggagaggagcagctgactcctcgt-agat-a---tt------
B D       Mouse lemur  cttgggaaactattggat--ta-----gggagaggagcaactc-ttcattgt-agat-g---t-------
B D          Bushbaby  cttggaaaacgattggat--tg-----tggaaaggaacaactc-ttccttgt-agat-g---t-------
B D        Tree shrew  gttggaaaggtattggat--ta----------aggaacaactc-ttctttgg-agat-a---gt------
B D               Pig  gctgaaaaggtattagat--ca-----tggagaggagcaactc-ttcattct-acat-g---tt------
B D            Alpaca  gttggaaaagtattagat--ta-----tggagaggagcaactc-ttcattct-acat-g---ct------
B D           Dolphin  gttgaaaaagtattagat--ta-----tggagaggagcaactc-ttcattct-acat-g---tt------
B D             Sheep  gttggaaaagtattagat--ta-----tggagagaagcaactc-ttcattct-acat-a---tt------
B D               Cow  gtcggaaaagtattagat--ta-----tggagagaagcaaccc-ttcgttct-acat-a---tg------
B D               Cat  gttggaaaagtaatggagtata-----tggagaggagcaactg-ttcgttct-aga-------t------
B D               Dog  gctggaaaagtagtggattata-----tggagaggagtaactc-ttcattct-aga-------t------
B D             Panda  gttggaaaagtaatggattata-----tggagaggagcaactt-ttcttact-agat-g---tt------
B D             Horse  gttggaaaagtattggct--ta-----tggagaggagcaactt-ttcattct-agat-g---tt------
  D  Little brown bat  gttgtaaatgtattgggt--tg-----ttgagaccagtaactc-ttcatt-g-agat-g---tt------
B D           Megabat  gttggaaaactattgaat--ta-----cggagaggagtaactc-cttattct-agat-g---tt------
B D          Hedgehog  gctaggaaagtactgggt--ta------gcaaaggagcaactc-agaagggt-gga-------t------
B D             Shrew  gatgggaaag-attgg--------------------gcaactc-tttatact-aga--------------
B D          Elephant  gttgagacagtatcggat--ta-----tggtgaggagcaactc---aattcc-agat-attgtt------
B D        Rock hyrax  gttgagaaagtattggac--tg-----tggagaggagccactc---aattcc-agat-act-ct------
B D            Tenrec  gtccagaaagtattggat--ta-----tggttcgatgcaactc-ttaattcc-agat-atggtt------
B D           Manatee  gttgagaaagtattggat--ta-----tggagaggagcaagtc---aattct-agat-a---tt------
B D         Armadillo  gttggaaaagtactggat--ta-----tggagaagagcacttc-ttcattct-acct-c---tt------
B D             Sloth  ggtggaattctattggat--aa-----tggagaggagcaattc-ttcattct-gtac-c---tt------
B D           Opossum  gttggcagtttctttgac--tagtgagcgaggagggtaaaatc-ttcattttgatgt-a---tt------
B D   Tasmanian devil  cttggcagtttctctgat--tagtgagtggggaggggaagatc-t---ttgtgatgt-a---tttgttgt
B D           Wallaby  ======================================================================
B D       Stickleback  ======================================================================
B D         Tetraodon  ======================================================================
B D              Fugu  ======================================================================
B D            Medaka  ======================================================================
B D      Atlantic cod  ======================================================================
B D      Nile tilapia  ======================================================================
B D     X. tropicalis  ======================================================================
B D          Platypus  ======================================================================
B D            Turkey  ======================================================================
B D        Coelacanth  ======================================================================
B D            Lizard  ======================================================================
B D        Budgerigar  ======================================================================
B D       Zebra finch  ======================================================================
B D           Chicken  ======================================================================
B D    Painted turtle  ======================================================================

                Mouse  ----gttgtctgtttgtgatgtca--cctttaaacaaa-----cag------------------gtttct
                  Rat  ----gttgtctatttgtgatgtca--cttttaaacaag-----cag------------------ggttct
         Kangaroo rat  ----gttgatagt---ggatgtta--accctaaacaat-----ctg------------------gtttct
       Naked mole-rat  ----gttgatgattctgggtgcta--gcgctaaacatc-----ttg------------------atttct
           Guinea pig  ----gctgatgattctggagactg--gctctaagcaac-----ttg------------------cttact
             Squirrel  ----gttgttgattgtggatgtca--gcgttgaacaac-----atg------------------gtttca
               Rabbit  ----tgtgttgactctgggtgcca--gctttaaacaag-----gtg------------------gtt---
                 Pika  ----ttggttggttctggg---ca--gctttaggcagt-----gtg------------------gtttct
                Human  ----attg-tgattttggatgcca--gctttaaacaac-----cca------------------gtttgt
                Chimp  ----attg-tgattttggatgcca--gctttaaacaac-----cca------------------gtttgt
              Gorilla  ----attg-tgattttggatgcca--gctttaaacaac-----cca------------------gtttgt
            Orangutan  ----gttg-tgattttggatgcca--gctttaaataac-----cca------------------gtttgt
               Gibbon  ----gttg-tgattttggatgcca--gctttaaacaac-----cca------------------gtttgt
               Rhesus  ----gttg-tgattttggatgcca--gctttaaacaac-----cca------------------gcttgt
               Baboon  ----gttg-tgattttggatgcca--gctttaaacaac-----cca------------------gcttgt
             Marmoset  ----gttg-tgattttcgatgcca--gctttaaacaac-----cca------------------gattct
      Squirrel monkey  ----gttg-tgatgttcgatgcca--acttgaaacaac-----cca------------------gattcc
              Tarsier  ----gttgttgattttggacacca--actttgaacaac-----ctg------------------gtttct
          Mouse lemur  ---------tgattctggatgcca--gctttaaacaac-----ctgatttttagacaaccacagatttct
             Bushbaby  ---------tgattctggatgtca--gctttaaacaac-----tagatttttagacaaccacatattttt
           Tree shrew  ----gtgcttgattctgggtgcca--actttaaac-ac-----tag------------------gtttct
                  Pig  ----gt---tgattctagatgcca--gctttaaacaac-----ctg------------------ttttct
               Alpaca  ----gt---tgattctgggtgcca--gctttaagcaac-----ctg------------------ttttct
              Dolphin  ----gt---tgattctggatacca--gctttaaacaac-----ctg------------------ttttct
                Sheep  ----gt---tgattctgggtgcca--gctttaaacaac-----ctg------------------ttttct
                  Cow  ----gt---tgattctgggtgcca--gctttaaacaac-----ctg------------------ttttct
                  Cat  ----gt---tgattctggatgcca--gctttaaaca--------tg------------------ttttct
                  Dog  ----gt---tgattctggatgcca--gctttaaacgac-----ctg------------------ttctct
                Panda  ----gt---tgattctggatgcca--gctttaaacaac-----ctg------------------ttttct
                Horse  ----gt---tgattctgcatgcca--gctttaaacaac-----ctg------------------ttttct
     Little brown bat  ----gt---tgattctggatgcca--gctttaaacaac-----ccg------------------ttttct
              Megabat  ----at---tgattctggatgcca--gc-ttaaacaac-----ctg------------------ttttct
             Hedgehog  ----gt---tgattctgaatgcca--gctt---acagcataaccta------------------ttttct
                Shrew  ---------tgattctggatgcca--actttaaacagc------------------------------ct
             Elephant  ----gt---taattctgagtgcca--gctttaaacaac-----ctg------------------gttttt
           Rock hyrax  ----gt---tgatcctaaatgcca--gctttaaacaac-----cta------------------gtgttt
               Tenrec  ----gt---tgcttctgagtgcca--acttcatacaac-----cca------------------acttca
              Manatee  ----gt---tgattctgaatgcca--gctttaaacaac-----ccc------------------gttttt
            Armadillo  ----gt---tgacttggaatgcca--gctttaaacaag-----ctt------------------gtttct
                Sloth  ----gt---tgattctgaatgcca--gctttaaataac-----ctt------------------gtttct
              Opossum  ----gt---tttt----aatactc--gtgttcaa-aat-----ttt------------------gcttgt
      Tasmanian devil  tgtggt---tttttttaaatgctctaacattgaa-aat-----ctt------------------gcttgt
              Wallaby  ======================================================================
          Stickleback  ======================================================================
            Tetraodon  ======================================================================
                 Fugu  ======================================================================
               Medaka  ======================================================================
         Atlantic cod  ======================================================================
         Nile tilapia  ======================================================================
        X. tropicalis  ======================================================================
             Platypus  ======================================================================
               Turkey  ======================================================================
           Coelacanth  ======================================================================
               Lizard  ======================================================================
           Budgerigar  ======================================================================
          Zebra finch  ======================================================================
              Chicken  ======================================================================
       Painted turtle  ======================================================================

                Mouse  gac-aaatctgtgcatat-aagaaggtaa---tttct
                  Rat  gac-aaatctgtgcatgt-aaaagggtaa---tttct
         Kangaroo rat  gga-aaatctgtaaatat-aaaaagatac---tttct
       Naked mole-rat  gac-aaatctgtgaatat-aaaacactga---tttgt
           Guinea pig  gac-aaatctgcgaacat-aaaacaagga---tttgt
             Squirrel  gac-aaatctgtaaacac-agaatgataa---tttct
               Rabbit  ---------tgtgaacat-aaaatgatca---tttct
                 Pika  gac-acatctgtgaaagg-aaaatgatca---tttct
                Human  gac-acatttgtgattataaaaatgatca---tttct
                Chimp  gac-acatttgtgattataaaaatgatca---tttct
              Gorilla  gac-acatttgtgattataaaaatgatca---tttct
            Orangutan  gac-aaatttgtgattataaaaatgatca---tttct
               Gibbon  gac-aaatttgtgattataaaaatgatca---tttct
               Rhesus  gac-aaatttgtgattataaaaatgatca---tttct
               Baboon  gac-aaatttgtgattataaaaatgatca---tttct
             Marmoset  gac-aaatttgtgactat-aaaatgatga---tttct
      Squirrel monkey  gac-aagttcctgactat-aaaatgatga---tttct
              Tarsier  gac-taatctaggaatat-gaaatgatca---tttct
          Mouse lemur  gac-a-atctgtgaatat-aaaatgattg---tttgt
             Bushbaby  gac-agatctgtgaatat-gaaatcat-----tttgt
           Tree shrew  gac-aaatttgtgaacac-caaatgataa---ttttt
                  Pig  gacaaaaattgtgaatat-aagatgattc---tttcc
               Alpaca  gac-aaatctgtgaatat-aaaatgatta---tttcc
              Dolphin  gac-aagtctgtgaatat-aaaatgatta---gttct
                Sheep  gac-aaatctgtgaatat-aaaatgatta---tttct
                  Cow  gac-aaatctatgaatat-aaaatgatta---tttct
                  Cat  gac-aaatccatgaacat-aagatgatta---tttct
                  Dog  gac-aaatctatgaatat-aaaatgatta---tttct
                Panda  gac-aaatctgtgactat-a-----------------
                Horse  gac-aaatctgtgaatct-aaaatgatta---t----
     Little brown bat  gac-aagtctgtgaatat-aaaaagattg---tttct
              Megabat  gat-aaacgtgtgactat-aaaatgatta---gttct
             Hedgehog  gac-aagtcttagagtac-aaaataatga---tttct
                Shrew  aac-aaatttgtatatgt-aaaataatta---ttttt
             Elephant  gac-aaatttgtgaatat-agcac--------tttgt
           Rock hyrax  gac-aaatttgtg-atat-aatacttttttgtttttt
               Tenrec  gac-acatttgtgactag-agc----------tttct
              Manatee  tac-aaatttgtgaatat-aacgc--------tttct
            Armadillo  gat-aactc--tgaacat-cacac--------cttct
                Sloth  gac-tactttgtgaatat-aacgc--------cttct
              Opossum  gaa-aaatc----aatat-tcca--------------
      Tasmanian devil  gaa-aaaca----attat-tcta--------------
              Wallaby  =====================================
          Stickleback  =====================================
            Tetraodon  =====================================
                 Fugu  =====================================
               Medaka  =====================================
         Atlantic cod  =====================================
         Nile tilapia  =====================================
        X. tropicalis  =====================================
             Platypus  =====================================
               Turkey  =====================================
           Coelacanth  =====================================
               Lizard  =====================================
           Budgerigar  =====================================
          Zebra finch  =====================================
              Chicken  =====================================
       Painted turtle  =====================================

Inserts between block 8 and 9 in window
B D     Kangaroo rat 1bp
B D   Naked mole-rat 1bp
B D       Guinea pig 1bp
B D         Squirrel 1bp
B D           Rabbit 1bp
B D             Pika 1bp
B D            Human 1bp
B D            Chimp 1bp
B D          Gorilla 1bp
B D        Orangutan 1bp
B D           Gibbon 1bp
B D           Rhesus 1bp
B D           Baboon 1bp
B D         Marmoset 1bp
B D  Squirrel monkey 1bp
B D          Tarsier 1bp
B D      Mouse lemur 1bp
B D         Bushbaby 1bp
B D       Tree shrew 1bp
B D              Pig 17bp
B D           Alpaca 17bp
B D          Dolphin 17bp
B D            Sheep 16bp
B D              Cow 16bp
B D              Cat 17bp
B D              Dog 17bp
B D            Panda 17bp
  D Little brown bat 17bp
B D          Megabat 17bp
B D            Shrew 17bp
B D         Elephant 1bp
B D       Rock hyrax 1bp
B D           Tenrec 1bp
B D          Manatee 1bp
B D        Armadillo 1bp
B D            Sloth 1bp

Alignment block 9 of 732 in window, 56698926 - 56698996, 71 bps 
B D             Mouse  ccaa-gtgactgctc--t--ttg-aag-cacctgtatcag---------aggg-------------aag-
B D               Rat  ccaa-atgaccgctc--t--ttg-aaa-cacctgtatcag---------atgg-------------gag-
B D      Kangaroo rat  caaa-acaatcaccc--tc-ttg-aag-caca-gtatcag---------atga-------------aag-
B D    Naked mole-rat  caaa-atgaacatcc--c--ttc-tag-accctttatcag---------atgg-------------aag-
B D        Guinea pig  caaa-atgaacatcc--c--ttc-taa-gctctttatcag---------atga-------------aag-
B D          Squirrel  tgaa-atgatcaccc--c--ttt-aaa-acactgttttgg---------atgg-------------aag-
B D            Rabbit  taaa-atgatcaccc--c--ctc-aaa-gcactaggtcac---------atgg-------------aag-
B D              Pika  taaa-atgatcaccc--c--tac-aaatgccctgtgg------------atggaaggaagtgcttaaag-
B D             Human  caaaaatgctcactc--t--ttt-aaa-gcactgtgttag---------atgg-------------aag-
B D             Chimp  caaaaatgctcactc--t--ttt-aaa-acactgtgttag---------atga-------------aag-
B D           Gorilla  caaaaatgctcacac--t--ttt-aaa-gcactgtgttag---------atgg-------------aag-
B D         Orangutan  caaaaatgctcactc--t--ctt-aaa-gcactgtgttag---------atga-------------aag-
B D            Gibbon  caaaaatgctcactc--t--ctt-aaa-gcactgtggtag---------atgg-------------aag-
B D            Rhesus  caaaaatgatcactc--t--ctt--aa-gcactgtgttag---------atgg-------------acg-
B D            Baboon  caaaaatgatcactc--t--ctt--aa-gcactgtgttag---------atgg-------------acg-
B D          Marmoset  caaaaatgatcactc--t--ctt-aaa-gcact-tgtcag---------atgg-------------aag-
B D   Squirrel monkey  caaaaatgatcactc--t--ctt-aag-gcactgtgtcac---------atgg-------------aag-
B D           Tarsier  caagat-------------------ga-ttactgtgtcgg---------atgg-------------aagc
B D       Mouse lemur  gaaa------------------------------tgtcag---------atgg-------------aag-
B D          Bushbaby  gaaa------------------------------tgtcag---------atgg-------------aag-
B D        Tree shrew  c------------tc--c--ttc-aaa-gcactgcatcag---------atgg-------------aag-
B D               Pig  caaa-atgactgccc--c--ttt-gaa-gcactgtgttag---------atgg-------------aag-
B D            Alpaca  caaa-atgattgccc--c--ttt-gaa-gcactgtgtcag---------atgg-------------aat-
B D           Dolphin  caaa-atgattgccc--c--ttt-gaa-gcactgtatcag---------atgg-------------aag-
B D             Sheep  caaa-atgattgccctgc--ttt-gaa-gctcagtatcag---------atgg-------------aag-
B D               Cow  caaa-atgattgccctgc--ttt-gaa-gctcagtatcag---------atgg-------------aag-
B D               Cat  caaa-atgattgctc--c--ttc-aaa-gcactgtgtcag---------atgg-------------aag-
B D               Dog  caaa-atgattgccc--t--ttcaaaa-gcactgtgtcag---------atgg-------------aag-
B D             Panda  caat-atgattgccc--c--ttc-aaa-gcactgtgtcag---------atgg-------------aag-
B D             Horse  -----atgatcaccc--c--gtg-gaa-gcactgtgtcag---------atgc-------------aaa-
  D  Little brown bat  caaa-atgatcactg--c--ttc-cag-gcactgtgtcag---------ttag-------------aag-
B D           Megabat  taaa-atgatcactg--c--ttc-caa-gcactgtgtcag---------atgg-------------atg-
B D          Hedgehog  caaa-atcatgacca--ccatcc-tgt-gaagtgcatc--------------------------------
B D             Shrew  caaa-aggattttca--t--ttc-tga-gga---------------------------------------
B D          Elephant  taaa-atgatcatcc--t--gtt-gaa-gcaccgtgtcag---------atgg-------------aag-
B D        Rock hyrax  ttta-aagatcatcc--c--ttg-gaa-gcactgtgtcag---------atgg-------------aaa-
B D            Tenrec  caca-gtggccatct--t--ttc-tga-gcacagtgtcag---------atgg-------------aga-
B D           Manatee  caaa-atgatcatcc--c--ttt-gaa-ccaccgtgtccg---------atgg-------------aag-
B D         Armadillo  caaa-atgattgccc--c--tta-gaa-gcactgtgtcag---------atgg-------------aag-
B D             Sloth  ccaa-ctgattgccc--c--ttc-gaa-gccctgtgtcag---------atgg-------------aag-
B D           Opossum  ----cttaatcattg--c--tct-tta-acattccttcattgtttatatgtat-------------atg-
B D   Tasmanian devil  ----tctaatcattg--c--tcc-taa-acattctctcgttg-------gtat-------------att-
B D           Wallaby  ======================================================================
B D       Stickleback  ======================================================================
B D         Tetraodon  ======================================================================
B D              Fugu  ======================================================================
B D            Medaka  ======================================================================
B D      Atlantic cod  ======================================================================
B D      Nile tilapia  ======================================================================
B D     X. tropicalis  ======================================================================
B D          Platypus  ======================================================================
B D            Turkey  ======================================================================
B D        Coelacanth  ======================================================================
B D            Lizard  ======================================================================
B D        Budgerigar  ======================================================================
B D       Zebra finch  ======================================================================
B D           Chicken  ======================================================================
B D    Painted turtle  ======================================================================

                Mouse  --------------tg-tgtaaaacca-agta-----------------------taa-acggcactgtc
                  Rat  --------------tg-tataaaatca-agta-----------------------taa-aagacactgtc
         Kangaroo rat  --------------tg-tttaaaataa-agat-----------------------aaa-gtggtgttgtc
       Naked mole-rat  --------------t--tttaaaatca-agtc-----------------------atg-gt-gttttgtc
           Guinea pig  --------------tg-tttaaaatca-aatc-----------------------ata----gttttgtc
             Squirrel  --------------tg-tttaaaatta-agct-----------------------atg-gtggctttgtc
               Rabbit  --------------tg-tttaaaacca-agtt-----------------------ttaagtgccttggtc
                 Pika  --------------tg-tttaaaacca-gatt-----------------------ataagggacttcctc
                Human  --------------tg-tttaaaatca-agtt-----------------------aca-atggctttgcc
                Chimp  --------------tg-tttaaaatta-agtt-----------------------aca-atggctttgcc
              Gorilla  --------------tg-tttaaaatca-agtt-----------------------aca-atggctttgcc
            Orangutan  --------------tg-tttaaaatca-agtt-----------------------aca-atggctttgcc
               Gibbon  --------------tg-tttaaaatca-agtt-----------------------aca-atggctttgcc
               Rhesus  --------------tg-tttaaaatca-agtt-----------------------aca-atggctttgcc
               Baboon  --------------tg-tttaaaatca-agtt-----------------------aca-atggctttgcc
             Marmoset  --------------tg-tttaaaatca-agtt-----------------------aca-atggctttgtc
      Squirrel monkey  --------------tg-tttaaaatca-agtt-----------------------aca-atggctttgtc
              Tarsier  tagctatagtgacttg-ttaaaaatta-agct-----------------------ata-gtggctttgtc
          Mouse lemur  --------------tg-ttt-aaatca-tg-t-----------------------ata-gtggctttgtc
             Bushbaby  --------------tg-tttaaaatca-agtt-----------------------aca-gtggctttgtc
           Tree shrew  --------------tg-ttt-aaatcc-agtt-----------------------ata-atggctttatc
                  Pig  --------------ta-tttaaaatca-agtt-----------------------gta-ctagctttgtc
               Alpaca  --------------ta-tttaaaatca-agtt-----------------------gta-atagcttggtt
              Dolphin  --------------ta-tttaaaatca-agtt-----------------------gta-gtagttttgtc
                Sheep  --------------tg-tttaagatc---ata-----------------------gta-gtagctttgtc
                  Cow  --------------tgttttaagatc---gta-----------------------gta-gtagctttgtc
                  Cat  --------------ta-tttaaaatca-agtt-----------------------gta-gcggctttatc
                  Dog  --------------ta-tttaaactca-agtt-----------------------gtg-gtggctttgtc
                Panda  --------------ta-tttaaaatca-agtt-----------------------gta-gtggctttgtc
                Horse  --------------tg-tttaaaatca-agtt-----------------------gta-gtggctttgtc
     Little brown bat  --------------tg-tttgaaatca-aatt-----------------------gtg-gtggctctgtc
              Megabat  --------------tg-tttaaaatca-agtt-----------------------gta-gtggctttgtc
             Hedgehog  ---------------------caatca-ggtt-----------------------gta-gcagcgttgtc
                Shrew  ----------------------aatca-agtt-----------------------ata-gtggctttgtc
             Elephant  --------------ta-tttaaaatca-agtt-----------------------cca-gtggctttgtc
           Rock hyrax  --------------tg-tttagaatca-aatt-----------------------aca-gtggctttgtc
               Tenrec  --------------ta-ttta-aatca-ggtt-----------------------gcc-gaggcttggtc
              Manatee  --------------tg-tttcaaatca-agtt-----------------------aca-gtggctttgtc
            Armadillo  --------------tg-tttaaaatca-agtt-----------------------aca-gtagctttatc
                Sloth  --------------ta-cttaaaatca-agtt-----------------------aca-gtggctttgtc
              Opossum  --------------ta-tatatatatatagttactgggaagagttggggtggggggag-gaagtctaa--
      Tasmanian devil  --------------tg-tgtgtgtcta-aatttctaaaaaaa-------------gaa-aaagtccaa--
              Wallaby  ======================================================================
          Stickleback  ======================================================================
            Tetraodon  ======================================================================
                 Fugu  ======================================================================
               Medaka  ======================================================================
         Atlantic cod  ======================================================================
         Nile tilapia  ======================================================================
        X. tropicalis  ======================================================================
             Platypus  ======================================================================
               Turkey  ======================================================================
           Coelacanth  ======================================================================
               Lizard  ======================================================================
           Budgerigar  ======================================================================
          Zebra finch  ======================================================================
              Chicken  ======================================================================
       Painted turtle  ======================================================================

                Mouse  --a
                  Rat  --a
         Kangaroo rat  --a
       Naked mole-rat  --a
           Guinea pig  --a
             Squirrel  --a
               Rabbit  --a
                 Pika  --a
                Human  --a
                Chimp  --a
              Gorilla  --a
            Orangutan  --a
               Gibbon  --a
               Rhesus  --a
               Baboon  --a
             Marmoset  --a
      Squirrel monkey  --a
              Tarsier  --a
          Mouse lemur  --a
             Bushbaby  --a
           Tree shrew  --a
                  Pig  --a
               Alpaca  -aa
              Dolphin  --a
                Sheep  --a
                  Cow  --a
                  Cat  --a
                  Dog  --a
                Panda  aaa
                Horse  --a
     Little brown bat  --a
              Megabat  --a
             Hedgehog  --a
                Shrew  --a
             Elephant  --a
           Rock hyrax  --a
               Tenrec  --a
              Manatee  --a
            Armadillo  --a
                Sloth  --a
              Opossum  ---
      Tasmanian devil  ---
              Wallaby  ===
          Stickleback  ===
            Tetraodon  ===
                 Fugu  ===
               Medaka  ===
         Atlantic cod  ===
         Nile tilapia  ===
        X. tropicalis  ===
             Platypus  ===
               Turkey  ===
           Coelacanth  ===
               Lizard  ===
           Budgerigar  ===
          Zebra finch  ===
              Chicken  ===
       Painted turtle  ===

Inserts between block 9 and 10 in window
B D            Human 5bp
B D            Chimp 5bp
B D          Gorilla 5bp
B D        Orangutan 7bp
B D           Gibbon 7bp
B D           Rhesus 7bp
B D           Baboon 7bp
B D         Marmoset 7bp
B D  Squirrel monkey 7bp
B D          Tarsier 7bp
B D      Mouse lemur 227bp
B D         Bushbaby 7bp
B D       Tree shrew 5bp
B D              Pig 5bp
B D           Alpaca 5bp
B D          Dolphin 9bp
B D            Sheep 5bp
B D              Cow 5bp
B D              Cat 5bp
B D              Dog 5bp
B D            Panda 5bp
B D            Horse 5bp
  D Little brown bat 5bp
B D          Megabat 5bp
B D         Hedgehog 5bp
B D            Shrew 3bp

Alignment block 10 of 732 in window, 56698997 - 56699002, 6 bps 
B D             Mouse  ca------------cttc
B D               Rat  aa------------cttc
B D      Kangaroo rat  aa------------cttt
B D    Naked mole-rat  aaacaccatgacttcttc
B D        Guinea pig  aa----tgtgg-tccttc
B D          Squirrel  aa----cgtcact-cttc
B D            Rabbit  ca------------cttc
B D              Pika  ca------------tttc
B D             Human  -----------ct-cctc
B D             Chimp  -----------ct-cctc
B D           Gorilla  -----------ct-cctc
B D         Orangutan  -----------ct-cctt
B D            Gibbon  -----------gt-cctc
B D            Rhesus  -----------ct-cctc
B D            Baboon  -----------ct-cctc
B D          Marmoset  -----------at-cctc
B D   Squirrel monkey  -----------at-cctt
B D           Tarsier  -----------ct-cctc
B D          Bushbaby  -----------ct-cctc
B D        Tree shrew  -----------ct-cctc
B D               Pig  cg---------gt-tctc
B D            Alpaca  ca---------gt-cctc
B D           Dolphin  ca---------gt-cctc
B D             Sheep  cc---------gt-cctc
B D               Cow  ca---------gt-cgtc
B D               Cat  ca---------gt-cctc
B D               Dog  ca---------gt-cctc
B D             Panda  ca---------gt-tctc
B D             Horse  ag---------gt-ccta
  D  Little brown bat  tg---------gt-cctc
B D           Megabat  tg---------gt-cctc
B D          Hedgehog  tg---------tt-cctt
B D             Shrew  tg---------ct-tctc
B D          Elephant  ----aacttcgct-cctt
B D        Rock hyrax  ----aacttcact-cttc
B D            Tenrec  ----aacttgagt-cctc
B D           Manatee  ----aacttcgct-cctc
B D         Armadillo  ----aacattgct-cttc
B D             Sloth  ----aaca-tgct-cttc
B D           Opossum  -----------tt-cttc
B D   Tasmanian devil  -----------cc-tttc
B D           Wallaby  ==================
B D       Stickleback  ==================
B D         Tetraodon  ==================
B D              Fugu  ==================
B D            Medaka  ==================
B D      Atlantic cod  ==================
B D      Nile tilapia  ==================
B D     X. tropicalis  ==================
B D          Platypus  ==================
B D            Turkey  ==================
B D        Coelacanth  ==================
B D            Lizard  ==================
B D        Budgerigar  ==================
B D       Zebra finch  ==================
B D           Chicken  ==================
B D    Painted turtle  ==================
B D       Mouse lemur  ==================

Inserts between block 10 and 11 in window
B D           Rabbit 7bp
B D             Pika 309bp

Alignment block 11 of 732 in window, 56699003 - 56699064, 62 bps 
B D             Mouse  tatgcgcggagtcca-----gaag-cagaactaga-tgaa----tgt---agtc------------ttca
B D               Rat  tatacatggggccca-----gaag-cagaattaga-tgca----tgc---aatc------------ttca
B D      Kangaroo rat  caccactagaatcca-----gaaa-caaaaatgca-taac----tt-----gtc------------ttct
B D    Naked mole-rat  tgcccataggaccta-----gaga-caataatatatttct----tct---agtc------------ttca
B D        Guinea pig  tgcccataggacctg-----gaga-taataatatattgtg----tct---agtc------------ttca
B D          Squirrel  aatccctagctccaaaataggaaa-caaaaagacatcact----tgt---ggtc------------t--a
B D            Rabbit  catccgtaggactca-----aaga-cgaaaatatattg---------------c------------ttca
B D             Human  cacccataggaccca-----aaga-caaacatacattgtt----tgt---agcc------------ttca
B D             Chimp  cacccataggaccca-----aaga-caaacatacattgtt----tgt---agcc------------ttca
B D           Gorilla  cacccataggaccca-----aaga-caaacatacattgtt----tgt---agcc------------ttca
B D         Orangutan  cacccatgggaccca-----aaga-caaacatacattgtt----tgt---agcc------------ttca
B D            Gibbon  cacccataggaccca-----aaga-caaacatacattgtt----tgt---agct------------ttca
B D            Rhesus  catccataggaccca-----aaga-caaacatacattgtt----tgt---agcc------------ttca
B D            Baboon  catccataggaccca-----aaga-caaacatacattgtt----tgt---agcc------------ttca
B D          Marmoset  cacccataggaccca-----aaga-caaaaatacattgtt----tgt---agcc------------ttca
B D   Squirrel monkey  cacccataggaccca-----aaga-caaaaatactttgtt----tgt---agcc------------ttca
B D           Tarsier  cacccatgggaccct-----aaaa-tgaaaatatattgct----tgt---agcc------------ttca
B D          Bushbaby  cacccaaagtaccca-----aaga-taaaaacatcatcttcaaatgt---ctcctctttgaaattattca
B D        Tree shrew  cacccgtagacccca-----tgga-cacaaatgcatttct----tgg---agcc------------ttca
B D               Pig  -acccacaggttcca-----aaga-caa------actgct----cat---agtc------------ttca
B D            Alpaca  cacccataggtccca-----aaga-caa------actgct----cag---ggtc------------ttca
B D           Dolphin  tacccatgggtccca-----aaga-cca------actgct----cat---agtt------------ttca
B D             Sheep  cacccatgggtccca-----aaga-caa------actgct----cct---agtt------------ttca
B D               Cow  cacccatgggtccca-----aaga-caa------actgct----cct---agtt------------ttca
B D               Cat  cacccataggtccca-----aaga-caaaaacacattgct----cat---agtc------------ttca
B D               Dog  cacccataggtccca-----aaga-caaaaacacattgct----cat---agtc------------ttca
B D             Panda  cacctataggttcca-----aaga-ccgaaacacattgca----tat---agtc------------ttca
B D             Horse  cacccataggtccca-----aaga-caaaaacacattgct----tcc---agtc------------ttta
  D  Little brown bat  cagccatgggtccca-----aaga-caagaacatgctgcg----cat---agtt------------ttca
B D           Megabat  caaccatagatccca-----gaga-caaaaacacactgct----cat---agtc------------ttca
B D          Hedgehog  catccctagagccca-----caga-gaaaaacaaattgct----gat---agtt------------ttca
B D             Shrew  cacctatagaaccca-----caaattcaaaacaaactgct----gac---tgtt------------ttca
B D          Elephant  tacccacaggtacca-----ggca-caaaaatacattcct----tgt---aatc------------ttca
B D        Rock hyrax  tacccataggtacca-----agca-caaaaattcattctt----tat---agtc------------ttca
B D            Tenrec  catccataggtgcca-----aaca-caaaaatacattcct----ggt---agcc------------ttta
B D           Manatee  tacccataggtacca-----agca-caaaaatacattcct----c-t---agtc------------ttca
B D         Armadillo  cacctatatgtacca-----aaga-caaaaatagacaacc----agg---agtc------------tttc
B D             Sloth  cagctataggtcaca-----gaga-caaaaatagactgct----ggt---agtc------------tttc
B D           Opossum  aatccgtgtcacttc-----aaaa-taaaattatgtgaag----tgcctttgtc------------ttta
B D   Tasmanian devil  agtccatatcactga-----aaaa-taatatgatgtgaag----tatgcaagtc------------ctaa
B D           Wallaby  ======================================================================
B D              Pika  ======================================================================
B D       Stickleback  ======================================================================
B D         Tetraodon  ======================================================================
B D              Fugu  ======================================================================
B D            Medaka  ======================================================================
B D      Atlantic cod  ======================================================================
B D      Nile tilapia  ======================================================================
B D     X. tropicalis  ======================================================================
B D          Platypus  ======================================================================
B D            Turkey  ======================================================================
B D        Coelacanth  ======================================================================
B D            Lizard  ======================================================================
B D        Budgerigar  ======================================================================
B D       Zebra finch  ======================================================================
B D           Chicken  ======================================================================
B D    Painted turtle  ======================================================================
B D       Mouse lemur  ======================================================================

                Mouse  a----atat---ct--tt----------------------------------------------------
                  Rat  a----atat---ct--tt----------------------------------------------------
         Kangaroo rat  a----gcat---ct--gc----------------------------------------------------
       Naked mole-rat  a----atat---tt--cc----------------------------------------------------
           Guinea pig  a----atat---tt--cc----------------------------------------------------
             Squirrel  a----gtat---ct--cc----------------------------------------------------
               Rabbit  a----atac---ct--cc----------------------------------------------------
                Human  c----atat---ct--ct----------------------------------------------------
                Chimp  c----atat---ct--ct----------------------------------------------------
              Gorilla  c----atat---ct--ct----------------------------------------------------
            Orangutan  c----atat---ct--ct----------------------------------------------------
               Gibbon  c----atat---ct--ct----------------------------------------------------
               Rhesus  c----atat---ct--ct----------------------------------------------------
               Baboon  c----atat---ct--ct----------------------------------------------------
             Marmoset  c----caat---ct--ct----------------------------------------------------
      Squirrel monkey  c----aaat---ct--ct----------------------------------------------------
              Tarsier  a----atag---ct--cc----------------------------------------------------
             Bushbaby  a----atat---ct--cc----------------------------------------------------
           Tree shrew  a----atatcccct--ct----------------------------------------------------
                  Pig  a----atat---cc--tc----------------------------------------------------
               Alpaca  a----ctat---ct--tc----------------------------------------------------
              Dolphin  a----atat---ct--tc----------------------------------------------------
                Sheep  a----atat---ct--tt----------------------------------------------------
                  Cow  a----atat---ct--tc----------------------------------------------------
                  Cat  a----atat---ct--ct----------------------------------------------------
                  Dog  a----atat---ct--tt----------------------------------------------------
                Panda  a----aagt---ct--tg----------------------------------------------------
                Horse  a----gtat---ct--tc----------------------------------------------------
     Little brown bat  a----acat---ct--tc----------------------------------------------------
              Megabat  a----acat---ct--tc----------------------------------------------------
             Hedgehog  t----a-ac---ctctct----------------------------------------------------
                Shrew  g----atat---cttatt----------------------------------------------------
             Elephant  a----atac---ct--tctttgaaattacacttggtcacaaaaaagatgccaatgattcaaaacttcgct
           Rock hyrax  a----gtat---ct--tc----------------------------------------------------
               Tenrec  a----a------------------attacacctgatc----------------------------tctct
              Manatee  a----ata--------------------------------------------------------------
            Armadillo  a----atat---ct--t-----------------------------------------------------
                Sloth  a----atat---ct--tc----------------------------------------------------
              Opossum  actttgtgt---ct--ct----------------------------------------------------
      Tasmanian devil  accctgtgt---ct--ct----------------------------------------------------
              Wallaby  ======================================================================
                 Pika  ======================================================================
          Stickleback  ======================================================================
            Tetraodon  ======================================================================
                 Fugu  ======================================================================
               Medaka  ======================================================================
         Atlantic cod  ======================================================================
         Nile tilapia  ======================================================================
        X. tropicalis  ======================================================================
             Platypus  ======================================================================
               Turkey  ======================================================================
           Coelacanth  ======================================================================
               Lizard  ======================================================================
           Budgerigar  ======================================================================
          Zebra finch  ======================================================================
              Chicken  ======================================================================
       Painted turtle  ======================================================================
          Mouse lemur  ======================================================================

                Mouse  --------------------------------------------------------t---t-t-------
                  Rat  --------------------------------------------------------t---t-t-------
         Kangaroo rat  --------------------------------------------------------t---c-t-ttaa--
       Naked mole-rat  --------------------------------------------------------t---t-t-ttat--
           Guinea pig  --------------------------------------------------------t---t-t-ttaa--
             Squirrel  --------------------------------------------------------t---t-t---aa--
               Rabbit  --------------------------------------------------------t---c-t-ttga--
                Human  --------------------------------------------------------t---t-----ga--
                Chimp  --------------------------------------------------------t---t-----ga--
              Gorilla  --------------------------------------------------------t---t-----ga--
            Orangutan  --------------------------------------------------------t---t-----ga--
               Gibbon  --------------------------------------------------------t---t-----ga--
               Rhesus  --------------------------------------------------------t---t-----ga--
               Baboon  --------------------------------------------------------t---t-----ga--
             Marmoset  --------------------------------------------------------t---t-----gaaa
      Squirrel monkey  --------------------------------------------------------t---t-----ga--
              Tarsier  --------------------------------------------------------t---t-t-tgga--
             Bushbaby  --------------------------------------------------------tctat-----ga--
           Tree shrew  --------------------------------------------------------t---t-----aa--
                  Pig  --------------------------------------------------------t---c-t-ttta--
               Alpaca  --------------------------------------------------------t---c-t-taaa--
              Dolphin  --------------------------------------------------------t---c-t-ttaa--
                Sheep  --------------------------------------------------------t---c-t-ttaa--
                  Cow  --------------------------------------------------------t---c-t-ttaa--
                  Cat  --------------------------------------------------------t---c-t-ttaa--
                  Dog  --------------------------------------------------------t---c-t-ttaa--
                Panda  --------------------------------------------------------t---ctt-ttaa--
                Horse  --------------------------------------------------------c---t-t-ttaa--
     Little brown bat  --------------------------------------------------------t---c-t-ttaa--
              Megabat  --------------------------------------------------------t---c-t-ttaa--
             Hedgehog  --------------------------------------------------------t---c-t-ctaa--
                Shrew  --------------------------------------------------------t---t-t-taaa--
             Elephant  cctttacccacaggtaccaggcacaaaaatacattccttgtagtcttcaaatacctt---c-t-ttaa--
           Rock hyrax  --------------------------------------------------------t---c-t-ttaa--
               Tenrec  ctctctctc-------------------------tctctctctctctctctctctct---c-t-ct----
              Manatee  --------------------------------------------------------t---c-t-ttaa--
            Armadillo  --------------------------------------------------------------c-ttaa--
                Sloth  --------------------------------------------------------c---c-c-ttaa--
              Opossum  --------------------------------------------------------t---t-t-aaag--
      Tasmanian devil  --------------------------------------------------------t---t-taaaag--
              Wallaby  ======================================================================
                 Pika  ======================================================================
          Stickleback  ======================================================================
            Tetraodon  ======================================================================
                 Fugu  ======================================================================
               Medaka  ======================================================================
         Atlantic cod  ======================================================================
         Nile tilapia  ======================================================================
        X. tropicalis  ======================================================================
             Platypus  ======================================================================
               Turkey  ======================================================================
           Coelacanth  ======================================================================
               Lizard  ======================================================================
           Budgerigar  ======================================================================
          Zebra finch  ======================================================================
              Chicken  ======================================================================
       Painted turtle  ======================================================================
          Mouse lemur  ======================================================================

                Mouse  ----------------------------------cca--------ata
                  Rat  -------------------c-----c--------ccc--------ata
         Kangaroo rat  --aattatac-acggccaat-----t--------tca--------ata
       Naked mole-rat  --aattacac-ttggtcact-----taaaagaagccagcaatttgata
           Guinea pig  --aattacac-ttggtcact-----t-aaagaagtca-----------
             Squirrel  --aattttat-ttggtcact-----t-aaagatgccactaattcaata
               Rabbit  --aattacactttagtcact-----t-aaagatgccaatgatttaata
                Human  --aactatac-ctggtcact-----g-aaaaatgccaataattcaata
                Chimp  --aactatac-ctggtcact-----g-aaaaacgccaataattcaata
              Gorilla  --aactatac-ctggtcact-----g-aaaaacgccaataattcaata
            Orangutan  --aactatac-ctggtcaat-----g-aaaaatgccaataattcaata
               Gibbon  --aactatac-ttggtcact-----g--aaaatgccaataattcaata
               Rhesus  --aactacac-ctggacacc-----g-aaaaatgccaataattcaata
               Baboon  --aactacac-ctggacacc-----g-aaaaatgccaataattcaata
             Marmoset  ctaactatac-ctggtcact-----g-aaaaatggcaatgattcaata
      Squirrel monkey  --aactatac-ctggtcact-----g-aaaaatggcagtgattcaata
              Tarsier  --aattatac-ctgggcact-----g-aaaaatgtcagtgactcagta
             Bushbaby  --aattactc-ctggccact-----g-aaaaacaccagtgattcaata
           Tree shrew  --aattacac--tggtttct-----t-taaaataccaatgattcaata
                  Pig  --aa--------------------------------------------
               Alpaca  --at--------------------------------------------
              Dolphin  --aa--------------------------------------------
                Sheep  --aa--------------------------------------------
                  Cow  --aa--------------------------------------------
                  Cat  --aa--------------------------------------------
                  Dog  --aa--------------------------------------------
                Panda  --aa--------------------------------------------
                Horse  --aa--------------------------------------------
     Little brown bat  --aa--------------------------------------------
              Megabat  --aa--------------------------------------------
             Hedgehog  --aa--------------------------------------------
                Shrew  --aa--------------------------------------------
             Elephant  --aattacac-ttggtcaca-----aaaaagatgccaatgattcaata
           Rock hyrax  --aattacac-ttggtcaca-----aaaaagatgccagtgatttcata
               Tenrec  -------ctc-tctctcacacacacacacacaccccaatgatccaata
              Manatee  --aattacac-ttggtcaca-----aaaaagatgccaatgattcacta
            Armadillo  --aattacat-ttggtctc------ataaagatgtcagtgatccaata
                Sloth  --aattacac-ttggtctc------ataaagatgccagtgattcaata
              Opossum  --aagtagac------taat-----agaa-----------aatgaata
      Tasmanian devil  --aagcatac------taat-----aaaaaagtgataacgaatgaata
              Wallaby  ================================================
                 Pika  ================================================
          Stickleback  ================================================
            Tetraodon  ================================================
                 Fugu  ================================================
               Medaka  ================================================
         Atlantic cod  ================================================
         Nile tilapia  ================================================
        X. tropicalis  ================================================
             Platypus  ================================================
               Turkey  ================================================
           Coelacanth  ================================================
               Lizard  ================================================
           Budgerigar  ================================================
          Zebra finch  ================================================
              Chicken  ================================================
       Painted turtle  ================================================
          Mouse lemur  ================================================

Inserts between block 11 and 12 in window
B D              Pig 37bp
B D           Alpaca 36bp
B D          Dolphin 37bp
B D            Sheep 142bp
B D              Cow 37bp
B D              Cat 37bp
B D              Dog 37bp
B D            Panda 37bp
B D            Horse 37bp
  D Little brown bat 37bp
B D          Megabat 37bp
B D         Hedgehog 37bp
B D            Shrew 36bp

Alignment block 12 of 732 in window, 56699065 - 56699097, 33 bps 
B D             Mouse  tgcataactgtagat---attat-tattattattt--------gg-------------
B D               Rat  tgca-aactgtagat---gttat-gaaaatcttttaggggg--gg-------------
B D      Kangaroo rat  tgtacaagcataggt---attgtgggccatcattt-----t--ac-------------
B D    Naked mole-rat  tacacaaccctaggt---gtcgt-ggtaatcatcctataca--gt-------------
B D        Guinea pig  -------------gt---gattt-ggta-------tgtacaacat-------------
B D          Squirrel  tgcacaacaatcgat---attgt-ggtaatcacct-----t--ac-------------
B D            Rabbit  tggacaactctgtgt---acagt-agtaatcacct-----t--at-------------
B D             Human  ttctcaaccccaggt---attat-agtaattactt-----t--a--------------
B D             Chimp  ttctcaaccccaggt---attat-agtaattactt-----t--a--------------
B D           Gorilla  ttctcaaccccaggt---attat-agtaattactt-----t--a--------------
B D         Orangutan  ttctcaaccccaggt---attat-agtaattactt-----t--a--------------
B D            Gibbon  ttctcaaccccaggt---attat-aatcattactt-----t--a--------------
B D            Rhesus  tgcacaaccctaggt---attat-agtaatcattt-----t--a--------------
B D            Baboon  tgcacaaccctaggt---attat-agtaattgctt-----t--a--------------
B D          Marmoset  tgcacaactccaagt---atcat-agtaatt------------a--------------
B D   Squirrel monkey  tgcacgattctaagt---atcat-agtaatc------------a--------------
B D           Tarsier  tgcacaaacctacgt---attct-agtaatctgtg-----t--a--------------
B D          Bushbaby  tgcacaaccccaagt---actgt-ggtaatcactt-----g--a--------------
B D        Tree shrew  tgcacaaccctgtat---attgc-ggtaatcaccc-----c--a--------------
B D               Pig  tgcatacttttagg------------taatcagtt-----t--a--------------
B D            Alpaca  ggcacacctctaggc---attga-gctaatcattt-----t--a--------------
B D           Dolphin  tgtacacctctaggt---atcgt-ggtaatcagtt-----t--a--------------
B D               Cow  tgcacacctcttggt---attgt-ggtaatcggtt-----t--a--------------
B D               Cat  ggcacacctttaggt---attgt-ggtaatcattt-----t--a--------------
B D               Dog  ggcacacttctaggt---attgt-ggtcatcagtt-----t--a--------------
B D             Panda  ggcacacttctaggt---attgt-ggtaatcagtt-----t--a--------------
B D             Horse  tgcacaaccctaagt---attgt-ggtaatcactt-----t--a--------------
  D  Little brown bat  ggcaca-ccctaggt---acagt-ggtaatcagtt-----t--a--------------
B D           Megabat  tgcacacccctaggt---attgt-ggtaatcagtt-----c--a--------------
B D          Hedgehog  tacacaaccctaggc---attgt-ggtaagcagtt-----t--a--------------
B D             Shrew  tgcacaactatatgt---attgt-ggtaatcgata-----t--g--------------
B D          Elephant  tccacaaccctcagt---attgt-aataatcagtt-----t--a--------------
B D        Rock hyrax  tgcataaccctcagg---attgt-aataatcactt-----c--a--------------
B D            Tenrec  tgcacaaacttcagc---attgt-ggtaattattt-----c--a--------------
B D           Manatee  tgcacaaccctcagt---attgt-aataatcactt-----t--a--------------
B D         Armadillo  tgtgcaaccttaggt---gtcat-ggcaatcgttt-----t--a--------------
B D             Sloth  tgcacagccctaggt---gtcat-ggtaatcactt-----t--a--------------
B D           Opossum  agcattgccttaggc----tttt-ag-aat--ttt-----t--a-tcgcttatatttg
B D   Tasmanian devil  agcatagctttaggttaaatttt-ag-aattgttt-----t--g-tcac-tatatttg
B D           Wallaby  ==========================================================
B D              Pika  ==========================================================
B D             Sheep  ==========================================================
B D       Stickleback  ==========================================================
B D         Tetraodon  ==========================================================
B D              Fugu  ==========================================================
B D            Medaka  ==========================================================
B D      Atlantic cod  ==========================================================
B D      Nile tilapia  ==========================================================
B D     X. tropicalis  ==========================================================
B D          Platypus  ==========================================================
B D            Turkey  ==========================================================
B D        Coelacanth  ==========================================================
B D            Lizard  ==========================================================
B D        Budgerigar  ==========================================================
B D       Zebra finch  ==========================================================
B D           Chicken  ==========================================================
B D    Painted turtle  ==========================================================
B D       Mouse lemur  ==========================================================

Inserts between block 12 and 13 in window
B D            Human 15bp
B D            Chimp 15bp
B D          Gorilla 15bp
B D        Orangutan 15bp
B D           Gibbon 15bp
B D           Rhesus 15bp
B D           Baboon 15bp
B D         Marmoset 15bp
B D  Squirrel monkey 15bp
B D          Tarsier 15bp
B D         Bushbaby 15bp
B D       Tree shrew 15bp
B D              Pig 15bp
B D           Alpaca 15bp
B D          Dolphin 16bp
B D              Cow 15bp
B D              Cat 15bp
B D              Dog 15bp
B D            Panda 15bp
B D            Horse 15bp
  D Little brown bat 15bp
B D          Megabat 15bp
B D         Hedgehog 15bp
B D            Shrew 16bp
B D         Elephant 15bp
B D       Rock hyrax 15bp
B D           Tenrec 15bp
B D          Manatee 15bp
B D        Armadillo 15bp
B D            Sloth 15bp

Alignment block 13 of 732 in window, 56699098 - 56699161, 64 bps 
B D             Mouse  tctgt--------atttccttt-------------aagaacagagag------------------tttgg
B D               Rat  tctgt--------atctccttt-------------aagaacagaaag------------------attgg
B D      Kangaroo rat  actgt-------aattttctttgcttctc---c--aagaacagagaa------------------ggtaa
B D    Naked mole-rat  actgttctatgtaattttccttacatctccatc--aagaacaggaaa------------------ggtaa
B D        Guinea pig  actgtactatgtaggtttccttacatctccagc--aagaaaagaaaa------------------ggtaa
B D          Squirrel  actat-----ataattttctttgcatctccatc--aagaaataaaag------------------ggtaa
B D            Rabbit  aacac-----ataattttctttgcttttctatc--aagaacagagag------------------gataa
B D             Human  -------------------tttgcatctccacc--aagaacagaaag------------------aataa
B D             Chimp  -------------------tttgcatctccacc--aagaacagaaag------------------aataa
B D           Gorilla  -------------------tttgcatctccacc--aagaacagaaag------------------aataa
B D         Orangutan  -------------------tttgcatctccacc--aagaacagaaag------------------aataa
B D            Gibbon  -------------------tttgcatctccacc--aagaacagaaag------------------aataa
B D            Rhesus  -------------------tttgcatctccacc--aagaacagaaag------------------aataa
B D            Baboon  -------------------tttgcatctccacc--aagaacagaaag------------------aataa
B D          Marmoset  -------------------tttgcatctccaac--aagaacagaaag------------------aataa
B D   Squirrel monkey  -------------------tttgcatctccaac--aagaacaga---------------------aataa
B D           Tarsier  -------------------tttgcatcttcatc--aagttcaggaag------------------aataa
B D       Mouse lemur  -------------------tttgcatctccatc--aagaacagaaag------------------gataa
B D          Bushbaby  -------------------tttccatcttcatt--aagaagagaaag------------------ggcaa
B D        Tree shrew  -------------------tttgtgtctttatg--aagaacagaaag------------------ggtaa
B D               Pig  -------------------tttgcatctctgct--aagaacataaag------------------gagag
B D            Alpaca  -------------------tctgcatctctatt--gagaacataaag------------------gataa
B D           Dolphin  -------------------tttgcatctctatt--aaaaacataaag------------------gatag
B D               Cow  -------------------tttgcgtctctata--aagagaataaag------------------gatag
B D               Cat  -------------------tttgtttctctatt--aagaacataaag------------------gataa
B D               Dog  -------------------tttatatctctattaaaaaaacataaag------------------gataa
B D             Panda  -------------------tttgtatctccatt--aagaacataaag------------------gataa
B D             Horse  -------------------ttcgcatctctgtt--aagaacataaag------------------gataa
  D  Little brown bat  -------------------tttgcatctctatt--aaaaacacaaaggagtaaaaaaaaaaataagataa
B D           Megabat  -------------------tttgcatctctagc--aagaacataaag------------------gataa
B D          Hedgehog  -------------------ttttcatttgtgtt--aggaatggaaag------------------aataa
B D             Shrew  -------------------tttgcatct-tatt--aaggacaataag------------------gaaa-
B D          Elephant  -------------------tttgcatctccatt--aagaacagaaag------------------gataa
B D        Rock hyrax  -------------------tttgcatttccatt--aaagacagaaaaac----------------agtaa
B D            Tenrec  -------------------tttgcatctcc-tt--aagaactgaaag------------------ttcaa
B D           Manatee  -------------------tttgaatctccatt--acgatcagaaag------------------gataa
B D         Armadillo  -------------------tttgcatctccact--aagaacagaaag-------------------ataa
B D             Sloth  -------------------tttgtatctctatt--aaca--gaaaag-------------------ataa
B D           Opossum  ---------------------tgtatgttgatt--ggaaaccaaaag------------------aattc
B D   Tasmanian devil  ---------------------tgattgtcaatt--agaaacaaaaaa------------------gattt
B D           Wallaby  ======================================================================
B D              Pika  ======================================================================
B D             Sheep  ======================================================================
B D       Stickleback  ======================================================================
B D         Tetraodon  ======================================================================
B D              Fugu  ======================================================================
B D            Medaka  ======================================================================
B D      Atlantic cod  ======================================================================
B D      Nile tilapia  ======================================================================
B D     X. tropicalis  ======================================================================
B D          Platypus  ======================================================================
B D            Turkey  ======================================================================
B D        Coelacanth  ======================================================================
B D            Lizard  ======================================================================
B D        Budgerigar  ======================================================================
B D       Zebra finch  ======================================================================
B D           Chicken  ======================================================================
B D    Painted turtle  ======================================================================

                Mouse  cagatggctt-ggct----ttgctcttttttt-----tttaaa-
                  Rat  taga-----t-ggtt----ttgctccctttct-----t---aa-
         Kangaroo rat  caga-----t-ggtt----atactccctttct-----t---aa-
       Naked mole-rat  c--------t-tct-------actccttttct-----t---aa-
           Guinea pig  c--------t-gttt----taactccttttct-----t---aa-
             Squirrel  ctgg-----t-ggct----tccccccttttct-----t---aa-
               Rabbit  ccta-----t-ggct----ttcttcccttcct-----t---aa-
                Human  ctga-----t-ggca----ttacacc-----t-----t---aa-
                Chimp  ctga-----t-ggca----ttacacc-----t-----t---aa-
              Gorilla  ctga-----t-ggca----ttacacc-----t-----t---aa-
            Orangutan  ctga-----t-ggca----ttacacc-----t-----t---aa-
               Gibbon  ctga-----t-agca----ttacacc-----t-----t---aa-
               Rhesus  caga-----a-agaa----aaaaat-------------------
               Baboon  ctga-----t-ggca----ttacacc-----t-----t---aa-
             Marmoset  ctga-----t-gaca----ttacacc-----t-----t---aa-
      Squirrel monkey  ctga-----t-ggca----ttacacc-----t-----t---aa-
              Tarsier  ctca-----t-ggta----tcacact-----g-----t---aa-
          Mouse lemur  ctga-----t-ggct----ttactcc-tttct-----t---aa-
             Bushbaby  ctga-----t-ttct----ttactccttttct-----t---aa-
           Tree shrew  ctga-----tgggtt----ttactccttttct-----t---aa-
                  Pig  ctga-----t-ggct----ttacttcttttcc-----a---aa-
               Alpaca  ctga-----t-ggct----ttccttcttttcc-----a---aa-
              Dolphin  ctga-----c-ggct----ttacttcttttcc-----a---aa-
                  Cow  ttga-----c-agct----ttagctcttttcc-----a---aa-
                  Cat  ctga-----t-ggtt----ttactcc--tttc-----a---aa-
                  Dog  ctga-----c-agct----ttactcctttttc-----a---aa-
                Panda  ctga-----c-agct----ttactccttttta-----a---aa-
                Horse  ctga-----t-gattttacttactcctgtttc-----a---aa-
     Little brown bat  ttga-----c-aact----ttactcttttttttaaaga---aa-
              Megabat  ttga-----t-ggct----ttactactttttc-----a---aa-
             Hedgehog  cgga-----c-gatt----ttactcctttttc-----a---aa-
                Shrew  ---a-----t-tatt----ttactcctttttc-----a---aa-
             Elephant  ctga-----t-ggct----tgactcctttttt-----a---aa-
           Rock hyrax  ctaa-----t-ggct----ttactccttttct-----a---aa-
               Tenrec  ctaa-----t-ggc-----------------c-----a---aa-
              Manatee  tcga-----t-ggct----ttagtccttttct-----a---aa-
            Armadillo  ctga-----atggct----ttactccttttct-----t---aa-
                Sloth  ctga-----g-ggct----ttactccttttgt-----t---aa-
              Opossum  ctga-----a-cctc----tagatcctttccc-----t---aaa
      Tasmanian devil  gtaa-----a-cctt----tcgttcatcctcc-----t---aaa
              Wallaby  ============================================
                 Pika  ============================================
                Sheep  ============================================
          Stickleback  ============================================
            Tetraodon  ============================================
                 Fugu  ============================================
               Medaka  ============================================
         Atlantic cod  ============================================
         Nile tilapia  ============================================
        X. tropicalis  ============================================
             Platypus  ============================================
               Turkey  ============================================
           Coelacanth  ============================================
               Lizard  ============================================
           Budgerigar  ============================================
          Zebra finch  ============================================
              Chicken  ============================================
       Painted turtle  ============================================

Inserts between block 13 and 14 in window
B D              Pig 1bp
B D           Alpaca 1bp
B D          Dolphin 1bp
B D              Cow 1bp
B D              Cat 1bp
B D              Dog 1bp
B D            Panda 2bp
B D            Horse 1bp
  D Little brown bat 1bp
B D          Megabat 1bp
B D         Hedgehog 1bp
B D            Shrew 1bp
B D          Opossum 9bp
B D  Tasmanian devil 9bp

Alignment block 14 of 732 in window, 56699162 - 56699171, 10 bps 
B D             Mouse  tgttaaa-----ttc
B D               Rat  cgttaaa-----ttc
B D      Kangaroo rat  caccgaa-----ttc
B D    Naked mole-rat  catttaa-----ttc
B D        Guinea pig  cacttaa-----ttt
B D          Squirrel  tacttga-----ttc
B D            Rabbit  catttaa-----ttc
B D             Human  cacttaa-----ttt
B D             Chimp  cacctaa-----ttt
B D           Gorilla  cacttaa-----ttt
B D         Orangutan  cacttaa-----ttt
B D            Gibbon  cacttaa-----ttt
B D            Rhesus  aacttaa-----ttt
B D            Baboon  cacttaa-----ttt
B D          Marmoset  cacttaa-----ttc
B D   Squirrel monkey  cacttaa-----ttc
B D           Tarsier  cacttaa-----ttc
B D       Mouse lemur  tatttaa-----ttc
B D          Bushbaby  cacttca-----ttc
B D        Tree shrew  tgcttaa-----ttc
B D               Pig  tacgtaa-----ttc
B D            Alpaca  tacttaa-----ttc
B D           Dolphin  ----tac-----tta
B D             Sheep  nncttaa-----ttc
B D               Cow  cacttaa-----ttc
B D               Cat  tacttaa-----ttc
B D               Dog  cacttaa-----ttc
B D             Panda  cacttaa-----ttg
B D             Horse  cacttaa-----tcc
  D  Little brown bat  cacttag-----ttc
B D           Megabat  cactcag-----ttc
B D          Hedgehog  cacttga-----ttc
B D             Shrew  caattaa-----ttt
B D          Elephant  cacttaa-----tag
B D        Rock hyrax  caatt---------g
B D            Tenrec  cacttca-----ctc
B D           Manatee  cacttaa-----ttg
B D         Armadillo  cacttaa-----gtc
B D             Sloth  cacttaa-----gtc
B D           Opossum  tattaaaacgtcttt
B D   Tasmanian devil  tattgaacatgtttt
B D           Wallaby  ===============
B D              Pika  ===============
B D       Stickleback  ===============
B D         Tetraodon  ===============
B D              Fugu  ===============
B D            Medaka  ===============
B D      Atlantic cod  ===============
B D      Nile tilapia  ===============
B D     X. tropicalis  ===============
B D          Platypus  ===============
B D            Turkey  ===============
B D        Coelacanth  ===============
B D            Lizard  ===============
B D        Budgerigar  ===============
B D       Zebra finch  ===============
B D           Chicken  ===============
B D    Painted turtle  ===============

Alignment block 15 of 732 in window, 56699172 - 56699173, 2 bps 
B D             Mouse  ta
B D               Rat  ta
B D      Kangaroo rat  ta
B D    Naked mole-rat  ta
B D        Guinea pig  ta
B D          Squirrel  ta
B D            Rabbit  ta
B D             Human  ta
B D             Chimp  ta
B D           Gorilla  ta
B D         Orangutan  ta
B D            Gibbon  ta
B D            Rhesus  ta
B D            Baboon  ta
B D          Marmoset  ta
B D   Squirrel monkey  ta
B D           Tarsier  ta
B D       Mouse lemur  ta
B D          Bushbaby  ta
B D        Tree shrew  ca
B D               Pig  ta
B D            Alpaca  ta
B D           Dolphin  ta
B D             Sheep  ct
B D               Cow  ca
B D               Cat  ta
B D               Dog  ta
B D             Panda  ta
B D             Horse  ta
  D  Little brown bat  ta
B D           Megabat  tg
B D          Hedgehog  ta
B D             Shrew  ga
B D          Elephant  ta
B D        Rock hyrax  ta
B D            Tenrec  ta
B D           Manatee  ta
B D         Armadillo  ca
B D             Sloth  ta
B D           Opossum  ca
B D   Tasmanian devil  ta
B D         Zebrafish  ta
B D           Wallaby  ==
B D              Pika  ==
B D       Stickleback  ==
B D         Tetraodon  ==
B D              Fugu  ==
B D            Medaka  ==
B D      Atlantic cod  ==
B D      Nile tilapia  ==
B D     X. tropicalis  ==
B D          Platypus  ==
B D            Turkey  ==
B D        Coelacanth  ==
B D            Lizard  ==
B D        Budgerigar  ==
B D       Zebra finch  ==
B D           Chicken  ==
B D    Painted turtle  ==

Inserts between block 15 and 16 in window
B D            Shrew 63bp

Alignment block 16 of 732 in window, 56699174 - 56699200, 27 bps 
B D             Mouse  ctttcattttcttaa----catttt----atttca-
B D               Rat  ctttcattttcttta----cacttt----atttca-
B D      Kangaroo rat  tgtttattgccttca----cctttt----attttt-
B D    Naked mole-rat  ctttcattttcttaa----catttt----atttaa-
B D        Guinea pig  cttccattttcttaa----catttt----atttaa-
B D          Squirrel  ctttcatt--------------ttt----atttca-
B D            Rabbit  ctttcgttttgttaa----ccttgt----attcaa-
B D             Human  ctttcattttcttaa----cct-------atttca-
B D             Chimp  ctttcattttcttaa----cct-------atttca-
B D           Gorilla  ctttcattttcttaa----cct-------atttca-
B D         Orangutan  ctttcattttcttaa----cct-------atttca-
B D            Gibbon  ctttcattttcttaa----cct-------atttca-
B D            Rhesus  ctttcattttcttaa----cct-------atttca-
B D            Baboon  ctttcattttcttaa----cct-------atttca-
B D          Marmoset  ctttcattttcttaa----ccg-------atttca-
B D   Squirrel monkey  ctttcattttcttaa----cct-------atttta-
B D           Tarsier  ctttcattttcttaa----gcgtta----atttca-
B D       Mouse lemur  ctttcattttcttaa----catttt----atttca-
B D          Bushbaby  ctttcattttcttaa----cctttt----atttca-
B D        Tree shrew  ctttcattttcttaa----catttt----atttca-
B D               Pig  ctatcattttcttac----cctttt----attgca-
B D            Alpaca  ctttcatttccttaa----cctttt----atttca-
B D           Dolphin  ctttaattatcctaa----cctttt----gtttca-
B D             Sheep  ctttaattttcctaa----cctttt----gtttca-
B D               Cow  ctttaattttcctaa----cctttt----gtttca-
B D               Cat  ccttcattttcttaa----cttttt----atttca-
B D               Dog  ccttcattttcttaa-----ctttt----atttca-
B D             Panda  ccttcatttccttaa----cctttt----atttca-
B D             Horse  ctttcattttcttaa----tcgtct----gtttca-
  D  Little brown bat  ctttcattttcttaa----cctttt----atagca-
B D           Megabat  ttttcattttcttaa----actttt----ata----
B D          Hedgehog  c-----tcctcttag----catttc----actt---
B D          Elephant  ttttctgtttcttaa----cctt-------------
B D        Rock hyrax  ctttcagtttcttta----cctttt----ac-----
B D            Tenrec  cttgcactggtttgc----actt-------------
B D           Manatee  ctttcagtttctcaa----cctttt----at-----
B D         Armadillo  ttttcagtttctcaa----tctatt-tccct-----
B D             Sloth  ctttcgttttctcaa----tctatt-tcctt-----
B D           Opossum  tttttattctcttcc----tctcgc----a------
B D   Tasmanian devil  tttctattctctttcccttccttgc----a------
B D              Fugu  -cctttttctcttta----tcgttt----gctctca
B D         Zebrafish  ----------cttta----tcaattataaacttgta
B D           Wallaby  ====================================
B D              Pika  ====================================
B D       Stickleback  ====================================
B D         Tetraodon  ====================================
B D            Medaka  ====================================
B D      Atlantic cod  ====================================
B D      Nile tilapia  ====================================
B D     X. tropicalis  ====================================
B D          Platypus  ====================================
B D            Turkey  ====================================
B D        Coelacanth  ====================================
B D            Lizard  ====================================
B D        Budgerigar  ====================================
B D       Zebra finch  ====================================
B D           Chicken  ====================================
B D    Painted turtle  ====================================
B D             Shrew  ====================================

Inserts between block 16 and 17 in window
B D         Hedgehog 9bp
B D          Opossum 4bp
B D  Tasmanian devil 4bp

Alignment block 17 of 732 in window, 56699201 - 56699235, 35 bps 
B D             Mouse  -----ttttttc----------ttt-------------ct------------------------------
B D               Rat  -----ttttctc----------tat-------------ct------------------------------
B D      Kangaroo rat  -----ctctttt----------tta-------------ca------------------------------
B D    Naked mole-rat  -----ttttctc----------ctt-------------ct------------------------------
B D        Guinea pig  -----ttttctc----------ttc-------------ct------------------------------
B D          Squirrel  -----ttttctc----------tt----------------------------------------------
B D            Rabbit  -----ttctttt----------ta---------------a------------------------------
B D             Human  -----ttttctc----------ttt-------------ct----------------------------tg
B D             Chimp  -----ttttctc----------ttt-------------ct----------------------------tg
B D           Gorilla  -----ttttctc----------ttt-------------ct----------------------------tg
B D         Orangutan  -----ttttctc----------ctt-------------ct----------------------------tg
B D            Gibbon  -----ttttccc----------ttt-------------ct----------------------------tg
B D            Rhesus  -----ttttctc----------ttt-------------ct----------------------------tg
B D            Baboon  -----ttttctc----------ttt-------------ct----------------------------tg
B D          Marmoset  -----ttttctc----------ttt-------------cttgtatatatatatatacaaatatatatata
B D   Squirrel monkey  -----ttttctt----------tct-------------------------------------------tg
B D           Tarsier  -----ttttctc----------ttt-------------tt----------------------------cg
B D       Mouse lemur  -----ttttctc----------ttt-------------ct----------------------------tg
B D          Bushbaby  -----ttttctc----------tgt-------------ct----------------------------tg
B D        Tree shrew  -----cattttt----------ctt-------------gt----------------------------at
B D               Pig  ----------------------------------------------------------------------
B D            Alpaca  ----------------------------------------------------------------------
B D           Dolphin  ----------------------------------------------------------------------
B D             Sheep  ----------------------------------------------------------------------
B D               Cow  ----------------------------------------------------------------------
B D               Cat  ----------------------------------------------------------------------
B D               Dog  ----------------------------------------------------------------------
B D             Panda  ----------------------------------------------------------------------
B D             Horse  ----------------------------------------------------------------------
  D  Little brown bat  ----------------------------------------------------------------------
B D           Megabat  ----------------------------------------------------------------------
B D          Elephant  ---------tta----------ttt-------------ct----------------------------tg
B D        Rock hyrax  -----ttcatta----------ttt-------------cc----------------------------tg
B D            Tenrec  ---------tta----------ttt-------------tc----------------------------ta
B D           Manatee  -----ttcatta----------ttt-------------ct----------------------------tg
B D         Armadillo  -----ttcttta----------ttt-------------ct----------------------------ca
B D             Sloth  -----ttc--------------ttt-------------ct----------------------------ta
B D           Opossum  -----cactctt----------tct-------------ca---------------------aaccctttc
B D   Tasmanian devil  -----cattctt----------ttt-------------ct---------------------aacattttc
B D              Fugu  ct-cactctttctaatca----tttgtgggccgcgactct------------------------------
B D         Zebrafish  ttgtattctttcagatagatatcttaaaaaccacaatatt------------------------------
B D           Wallaby  ======================================================================
B D              Pika  ======================================================================
B D       Stickleback  ======================================================================
B D         Tetraodon  ======================================================================
B D            Medaka  ======================================================================
B D      Atlantic cod  ======================================================================
B D      Nile tilapia  ======================================================================
B D     X. tropicalis  ======================================================================
B D          Platypus  ======================================================================
B D            Turkey  ======================================================================
B D        Coelacanth  ======================================================================
B D            Lizard  ======================================================================
B D        Budgerigar  ======================================================================
B D       Zebra finch  ======================================================================
B D           Chicken  ======================================================================
B D    Painted turtle  ======================================================================
B D             Shrew  ======================================================================
B D          Hedgehog  ======================================================================

                Mouse  --ga-----------tgtttt--------------aaaaaaa------a-c-----catt--ct
                  Rat  --ga-----------tgccta--------------aaaaaaag-----a-a-----catt--ct
         Kangaroo rat  --aa-------aaactgtctc--------------agtaacggt----g-c-----ca----ct
       Naked mole-rat  --ta-----------ggctt---------------aaaaaaa------c-c-----tttt--tc
           Guinea pig  --tg-----------tcctta--------------aaaaaaa------a-c-----atct--cc
             Squirrel  ---a-----------tactt---------------aaaaaaa------a-a-----cact--gt
               Rabbit  --aa-----------accctc--------------tataaac------c-c-----catt--c-
                Human  tata-----------tacatt--------------ttttaaa------c-t-----cttt--ca
                Chimp  tata-----------tatatt--------------ttttaaa------c-t-----cttt--ca
              Gorilla  tata-----------tatata--------------ttttaaa------c-t-----cttt--ca
            Orangutan  tata-----------tatata--------------ttttaaa------c-t-----cttt--ca
               Gibbon  tata-----------cgtata--------------ttttaaa------c-t-----cttt--ca
               Rhesus  tata-----------tacata--------------tttgaaa------ctt-----tttt--ca
               Baboon  tata-----------tacata--------------tttgaaa------ctt-----tttt--ca
             Marmoset  tata-----------tatata--------------tttaaaa------c-t-----cttt--ta
      Squirrel monkey  tata-----------tatata--------------ttttaaa------c-t-----cttt--ta
              Tarsier  tatg-----------cat-tt--------------ttaaaag------c-c-----ctgt--ct
          Mouse lemur  tata-----------tatttt--------------tttaaaa------g-c-----ccct----
             Bushbaby  tata-----------tg--tt--------------tttaaaa------c-t-----ctta----
           Tree shrew  taaa-----------aaaaaa--------------gaatgac------c-t-----ctct--c-
                  Pig  ----------------------------------------------------------tt--ga
               Alpaca  ----------------------------------------------------------tt--ga
              Dolphin  ----------------------------------------------------------tt--ga
                Sheep  ----------------------------------------------------------tt--ga
                  Cow  ----------------------------------------------------------tt--ga
                  Cat  ----------------------------------------------------------ttaaaa
                  Dog  ----------------------------------------------------------tt--aa
                Panda  ----------------------------------------------------------tt--ga
                Horse  ----------------------------------------------------------tt--aa
     Little brown bat  ----------------------------------------------------------tt--aa
              Megabat  -----------------------------------------------------------t--aa
             Elephant  tatt-----------aaaaaa--------------aaaaaaa------c-c-----ct------
           Rock hyrax  tatt--------------------------------aaaaaa------c-t-----cc------
               Tenrec  tatgtgtcggatttgaaaacagcagaagcagtagcaacaaaa------c-ccttctct------
              Manatee  catt---------taaaaaaa-----------aaaaaaaaaa------c-c-----ct------
            Armadillo  tatt-----------aaa------------aaagcaaaacac------c-t-----ct------
                Sloth  tatt-----------aaaaaa---aaaaacaaaacaaaacacaaacctc-t-----ct------
              Opossum  tata-----------aagcc--------------------------------------------
      Tasmanian devil  tata-----------aagcc--------------------------------------------
                 Fugu  ----------------------------------------------------------------
            Zebrafish  ----------------------------------------------------------------
              Wallaby  ================================================================
                 Pika  ================================================================
          Stickleback  ================================================================
            Tetraodon  ================================================================
               Medaka  ================================================================
         Atlantic cod  ================================================================
         Nile tilapia  ================================================================
        X. tropicalis  ================================================================
             Platypus  ================================================================
               Turkey  ================================================================
           Coelacanth  ================================================================
               Lizard  ================================================================
           Budgerigar  ================================================================
          Zebra finch  ================================================================
              Chicken  ================================================================
       Painted turtle  ================================================================
                Shrew  ================================================================
             Hedgehog  ================================================================

Inserts between block 17 and 18 in window
B D              Pig 12bp
B D           Alpaca 12bp
B D          Dolphin 11bp
B D            Sheep 11bp
B D              Cow 11bp
B D              Cat 23bp
B D              Dog 21bp
B D            Panda 23bp
B D            Horse 24bp
  D Little brown bat 23bp
B D          Megabat 19bp

Alignment block 18 of 732 in window, 56699236 - 56699239, 4 bps 
B D             Mouse  tt--------------------at
B D               Rat  tt--------------------ac
B D      Kangaroo rat  tc--------------------a-
B D    Naked mole-rat  at--------------------at
B D        Guinea pig  at--------------------aa
B D          Squirrel  ct--------------------at
B D             Human  gg--------------------aa
B D             Chimp  gg--------------------aa
B D           Gorilla  gg--------------------aa
B D         Orangutan  gg--------------------aa
B D            Gibbon  gg--------------------aa
B D            Rhesus  gg--------------------aa
B D            Baboon  gg--------------------aa
B D          Marmoset  gg--------------------at
B D   Squirrel monkey  gg--------------------gt
B D           Tarsier  ct--------------------at
B D       Mouse lemur  ----------------------at
B D          Bushbaby  ----------------------ac
B D        Tree shrew  -----------------------t
B D               Pig  at--------------------at
B D            Alpaca  -t--------------------ac
B D           Dolphin  -t--------------------at
B D             Sheep  -t--------------------at
B D               Cow  -t--------------------at
B D               Cat  ct--------------------at
B D               Dog  ct--------------------ac
B D             Panda  ct--------------------at
B D             Horse  ct--------------------ct
  D  Little brown bat  ctac------------------at
B D           Megabat  ct--------------------at
B D          Hedgehog  tc--------------------at
B D             Shrew  tt--------------------ag
B D          Elephant  ct--------------------gt
B D        Rock hyrax  at--------------------gt
B D            Tenrec  ct--------------------tt
B D           Manatee  tt--------------------gt
B D         Armadillo  ct--------------------at
B D             Sloth  ct--------------------at
B D           Opossum  ---cagaattttagggtgatggac
B D   Tasmanian devil  ---taggatttcagaatggtaaac
B D              Fugu  tc--------------------ag
B D         Zebrafish  tt--------------------at
B D            Rabbit  ------------------------
B D           Wallaby  ========================
B D              Pika  ========================
B D       Stickleback  ========================
B D         Tetraodon  ========================
B D            Medaka  ========================
B D      Atlantic cod  ========================
B D      Nile tilapia  ========================
B D     X. tropicalis  ========================
B D          Platypus  ========================
B D            Turkey  ========================
B D        Coelacanth  ========================
B D            Lizard  ========================
B D        Budgerigar  ========================
B D       Zebra finch  ========================
B D           Chicken  ========================
B D    Painted turtle  ========================

Inserts between block 18 and 19 in window
B D             Fugu 9bp

Alignment block 19 of 732 in window, 56699240 - 56699271, 32 bps 
B D             Mouse  --------aattctacc-attaac----aatta-cggtatttccag---------
B D               Rat  --------aattccacc-gttgac----aatcg-cggtatttccag---------
B D      Kangaroo rat  --------aattcattc-attgac----attta-caata-----ac---------
B D    Naked mole-rat  --------ga-cctgcc-attgac----actca-tggaatttacaa---------
B D        Guinea pig  --------gaccctgcc-attgcc----gctca-tggtattcacag---------
B D          Squirrel  --------atttctgcc-actggc----actaa-tgctatttacag---------
B D            Rabbit  ---------------ct-actgat----acttg-tggcattcacag---------
B D             Human  --------aaccctgcc-actaac----accca-tggcatgtatag---------
B D             Chimp  --------aaccctgcc-actaac----accca-tggcatgtatag---------
B D           Gorilla  --------aaccctgcc-actaac----accca-tggcatatatag---------
B D         Orangutan  --------aaccctgcc-actaac----accca-tggcatgtatag---------
B D            Gibbon  --------aaccctgcc-actagc----accca-tggcatgtatag---------
B D            Rhesus  --------aaccctgcc-actaac----accca-tggcatgtatag---------
B D            Baboon  --------aaccttgcc-actaac----accca-tggcatgtatag---------
B D          Marmoset  --------aaccctgcc-actgac----accca-tgacatgtagag---------
B D   Squirrel monkey  --------aaccctgcc-actgac----accca-tgacatgtaga----------
B D           Tarsier  --------aaccctgcc-actgac----accca-tggcatgaataa---------
B D       Mouse lemur  --------aaccccg-c-actg------------tggcatagatag---------
B D          Bushbaby  --------aaccctgcc-agta------------tggaatacatag---------
B D        Tree shrew  --------aaccctgcc-actgct----actgg-aggcgtttatag---------
B D               Pig  --------aacctcatc-actaac----actgg-tggcatttacag---------
B D            Alpaca  --------gagtttacc-gctgac----actag-tggcatttacag---------
B D           Dolphin  --------aaccttacc-tctgac----actgg-tggcatttacag---------
B D             Sheep  --------gaccttacc-tctgac----actgg-tggcacttacag---------
B D               Cow  --------gaccttacc-tctgac----actgg-tggcacttacag---------
B D               Cat  --------aaccttacc-actgtc----actgg-cggcatttacag---------
B D               Dog  --------aaccttgcc-actgac----actggttggcatttactg---------
B D             Panda  --------aaccttacc-actgac----gctgg-tggcatttacag---------
B D             Horse  --------aaccttacc-actgac----atagg-tggcatttacag---------
  D  Little brown bat  --------aaccttatc-actgac----acatg-tggcatttagag---------
B D           Megabat  --------aatcttacc-acgga--------------catttacaa---------
B D          Hedgehog  --------aacttcaca-agtgatactcattca-cggcatttt------------
B D             Shrew  --------ccttttacc-catgat----cttta-tggcattct-ac---------
B D          Elephant  --------atccctgcc-actgcc----atttg-tggggtttagag---------
B D        Rock hyrax  --------gaccctgccaactgcc----atttg-tg---------g---------
B D            Tenrec  --------aaccctgcc-actgct----gttgt-tgcggggcagag---------
B D           Manatee  --------aaccctgcc-gctgcg----atttg-cggcatttcgag---------
B D         Armadillo  --------aaccctgcc-actgac----acctg-tagcttttccag---------
B D             Sloth  --------aaccctgcc-aatgcc----actcg-tggcatttagag---------
B D           Opossum  --------aaattattc-attttc----ac-------------------------
B D   Tasmanian devil  --------aacttattt-attatc----ac-------------------------
B D              Fugu  aattgtctcgttcagtc-cctcag----ccttg-caataactgcaggatacaaga
B D           Wallaby  =======================================================
B D              Pika  =======================================================
B D       Stickleback  =======================================================
B D         Tetraodon  =======================================================
B D            Medaka  =======================================================
B D      Atlantic cod  =======================================================
B D      Nile tilapia  =======================================================
B D     X. tropicalis  =======================================================
B D          Platypus  =======================================================
B D            Turkey  =======================================================
B D        Coelacanth  =======================================================
B D            Lizard  =======================================================
B D        Budgerigar  =======================================================
B D       Zebra finch  =======================================================
B D           Chicken  =======================================================
B D    Painted turtle  =======================================================

Inserts between block 19 and 20 in window
B D   Naked mole-rat 2bp
B D       Guinea pig 43bp
B D              Pig 1bp
B D           Alpaca 1bp
B D          Dolphin 1bp
B D            Sheep 1bp
B D              Cow 1bp
B D              Cat 1bp
B D              Dog 1bp
B D            Panda 1bp
B D            Horse 1bp
  D Little brown bat 1bp
B D          Megabat 1bp
B D         Hedgehog 1bp
B D            Shrew 1bp

Alignment block 20 of 732 in window, 56699272 - 56699282, 11 bps 
B D             Mouse  aatta--------------------------ctatt-----------t
B D               Rat  acttag-------------------------ttatt-----------t
B D      Kangaroo rat  aatcag-------a-----------------ggact-----------a
B D    Naked mole-rat  -------------a----------------ttttct-----------t
B D          Squirrel  tgtcagcgacagaa----------------tttatt-----------t
B D            Rabbit  ------tggcaataacgta-----tttttttttttt-----------t
B D             Human  --------------------------------tggt------------
B D             Chimp  --------------------------------tggt------------
B D           Gorilla  --------------------------------tggt------------
B D         Orangutan  --------------------------------tggt------------
B D            Gibbon  --------------------------------tggt------------
B D            Rhesus  --------------------------------tggc------------
B D            Baboon  --------------------------------tggc------------
B D          Marmoset  --------------------------------tggt------------
B D   Squirrel monkey  ----------------------------------gt------------
B D           Tarsier  --------------------------------tggt------------
B D       Mouse lemur  --------------------------------tgtt------------
B D          Bushbaby  --------------------------------tgtt------------
B D        Tree shrew  --------------------------------tggtaattgcagttt-
B D               Pig  --------------------------ggtaattgt-------------
B D            Alpaca  --------------------------ggtaactgt-------------
B D           Dolphin  --------------------------gataactgt-------------
B D             Sheep  --------------------------ggtaattgt-------------
B D               Cow  --------------------------ggtaactgt-------------
B D               Cat  --------------------------ggtaattgt-------------
B D               Dog  --------------------------ggtaactgt-------------
B D             Panda  --------------------------ggcaattgt-------------
B D             Horse  --------------------------ggtaactgt-------------
  D  Little brown bat  --------------------------ggtaattat-------------
B D           Megabat  --------------------------agtaactgt-------------
B D          Hedgehog  --------------------------gggtgt----------------
B D             Shrew  --------------------------ggtaac----------------
B D          Elephant  -------------------------tggtaattgta------------
B D        Rock hyrax  -------------------------tgataattgca------------
B D            Tenrec  -------------------------tggtggcggtg------------
B D           Manatee  -------------------------tggtaattgta------------
B D         Armadillo  -------------------------tggcaattgtt------------
B D             Sloth  -------------------------tggcacctgta------------
B D           Opossum  ------------------aattccttattttct---------------
B D   Tasmanian devil  ------------------agtccctcacttttt---------------
B D              Fugu  ----------------------gctcacagtct---------------
B D        Guinea pig  ================================================
B D           Wallaby  ================================================
B D              Pika  ================================================
B D       Stickleback  ================================================
B D         Tetraodon  ================================================
B D            Medaka  ================================================
B D      Atlantic cod  ================================================
B D      Nile tilapia  ================================================
B D     X. tropicalis  ================================================
B D          Platypus  ================================================
B D            Turkey  ================================================
B D        Coelacanth  ================================================
B D            Lizard  ================================================
B D        Budgerigar  ================================================
B D       Zebra finch  ================================================
B D           Chicken  ================================================
B D    Painted turtle  ================================================

Inserts between block 20 and 21 in window
B D            Human 17bp
B D            Chimp 17bp
B D          Gorilla 17bp
B D        Orangutan 17bp
B D           Gibbon 16bp
B D           Rhesus 18bp
B D           Baboon 18bp
B D         Marmoset 11bp
B D  Squirrel monkey 11bp
B D          Tarsier 17bp
B D      Mouse lemur 18bp
B D         Bushbaby 18bp
B D       Tree shrew 39bp
B D          Opossum 1bp
B D  Tasmanian devil 1bp

Alignment block 21 of 732 in window, 56699283 - 56699302, 20 bps 
B D             Mouse  aaaaa----------------------caatatgcatat--------------------------aa---
B D               Rat  aaaaa----------------------gaataggcatat--------------------------ac---
B D      Kangaroo rat  aaaaa----------------------taatgttcacag--------------------------aa---
B D    Naked mole-rat  tttag----------------------tcacatacacat--------------------------ag---
B D          Squirrel  ctgag----------------------tcatacacatat--------------------------aa---
B D            Rabbit  ttgag----------------------tcagaggcacaa--------------------------aa---
B D             Human  ttaag----------------------tcatatgcacat--------------------------at---
B D             Chimp  ttaag----------------------tcatatgcacat--------------------------at---
B D           Gorilla  ttaag----------------------tcatatgcacat--------------------------at---
B D         Orangutan  ttaag----------------------ttatatgcacat--------------------------at---
B D            Gibbon  --------------------------------------t--------------------------at---
B D            Rhesus  ttaag----------------------tcatatgcacat--------------------------at---
B D            Baboon  ttaag----------------------tcgtatgcacat--------------------------at---
B D          Marmoset  ttaag----------------------tcatatgcactt--------------------------at---
B D   Squirrel monkey  ttaag----------------------tcatatacactt--------------------------ct---
B D           Tarsier  tt--g----------------------tcacgtgcacat--------------------------atcag
B D       Mouse lemur  ttgag----------------------tcatatgtacat-----------------------aacat---
B D          Bushbaby  ttgaa----------------------tcatatgtaggt-----------------------gacac---
B D               Pig  ----------------------------agtatttattt--ttcgagtcatatgcacataac--------
B D            Alpaca  ----------------------------agtatgtattt-------------------------------
B D           Dolphin  ----------------------------agtatttattt-tttaagtcattatgcacataac--------
B D             Sheep  ----------------------------actgtttgttta------------------------------
B D               Cow  ----------------------------actatttgttt-------------------------------
B D               Cat  ----------------------------aatatttattt-------------------------------
B D               Dog  ----------------------------agtctttattt-------------------------------
B D             Panda  ----------------------------agtatttattt-------------------------------
B D             Horse  ----------------------------agtatttgttt-------------------------------
  D  Little brown bat  ----------------------------agtattta-tt-------------------------------
B D           Megabat  ----------------------------agtatttgttt-------------------------------
B D          Hedgehog  ------------------------------tacttattt-------------------------------
B D             Shrew  ------------------------------tatttatct-------------------------------
B D          Elephant  -----------------------------aaatttattt-------------------------------
B D        Rock hyrax  -----------------------------caattt-ctt-------------------------------
B D            Tenrec  -----------------------------aaatgcattt-------------------------------
B D           Manatee  -----------------------------atacttattt-------------------------------
B D         Armadillo  -----------------------------gggtttattt-------------------------------
B D             Sloth  -----------------------------ggatttactt-------------------------------
B D           Opossum  ataaatacttctactat----------tcatatccgata-------------------------------
B D   Tasmanian devil  ataagtacttctactgt----------tcatatctaata-------------------------------
B D              Fugu  ------aatactgataccacagcaatatactatata----------------------------------
B D        Guinea pig  ======================================================================
B D           Wallaby  ======================================================================
B D              Pika  ======================================================================
B D        Tree shrew  ======================================================================
B D       Stickleback  ======================================================================
B D         Tetraodon  ======================================================================
B D            Medaka  ======================================================================
B D      Atlantic cod  ======================================================================
B D      Nile tilapia  ======================================================================
B D     X. tropicalis  ======================================================================
B D          Platypus  ======================================================================
B D            Turkey  ======================================================================
B D        Coelacanth  ======================================================================
B D            Lizard  ======================================================================
B D        Budgerigar  ======================================================================
B D       Zebra finch  ======================================================================
B D           Chicken  ======================================================================
B D    Painted turtle  ======================================================================

                Mouse  c
                  Rat  c
         Kangaroo rat  c
       Naked mole-rat  c
             Squirrel  c
               Rabbit  c
                Human  c
                Chimp  c
              Gorilla  c
            Orangutan  c
               Gibbon  c
               Rhesus  c
               Baboon  c
             Marmoset  c
      Squirrel monkey  c
              Tarsier  c
          Mouse lemur  c
             Bushbaby  t
                  Pig  -
               Alpaca  -
              Dolphin  -
                Sheep  -
                  Cow  -
                  Cat  -
                  Dog  -
                Panda  -
                Horse  -
     Little brown bat  -
              Megabat  -
             Hedgehog  -
                Shrew  -
             Elephant  -
           Rock hyrax  -
               Tenrec  -
              Manatee  -
            Armadillo  -
                Sloth  -
              Opossum  -
      Tasmanian devil  -
                 Fugu  -
           Guinea pig  =
              Wallaby  =
                 Pika  =
           Tree shrew  =
          Stickleback  =
            Tetraodon  =
               Medaka  =
         Atlantic cod  =
         Nile tilapia  =
        X. tropicalis  =
             Platypus  =
               Turkey  =
           Coelacanth  =
               Lizard  =
           Budgerigar  =
          Zebra finch  =
              Chicken  =
       Painted turtle  =

Inserts between block 21 and 22 in window
B D            Human 1bp
B D            Chimp 1bp
B D          Gorilla 1bp
B D        Orangutan 1bp
B D           Gibbon 1bp
B D           Rhesus 1bp
B D           Baboon 1bp
B D         Marmoset 1bp
B D  Squirrel monkey 1bp
B D          Tarsier 1bp
B D      Mouse lemur 1bp
B D         Bushbaby 1bp
B D              Pig 7bp
B D           Alpaca 7bp
B D            Sheep 6bp
B D              Cow 6bp
B D              Cat 7bp
B D              Dog 7bp
B D            Panda 7bp
B D            Horse 7bp
  D Little brown bat 7bp
B D          Megabat 7bp
B D         Hedgehog 7bp
B D            Shrew 7bp
B D         Elephant 7bp
B D       Rock hyrax 7bp
B D           Tenrec 7bp
B D          Manatee 7bp
B D        Armadillo 7bp
B D            Sloth 7bp
B D          Opossum 9bp
B D  Tasmanian devil 9bp

Alignment block 22 of 732 in window, 56699303 - 56699313, 11 bps 
B D             Mouse  tctaaattata-------
B D               Rat  ctta--------------
B D      Kangaroo rat  tttc--------------
B D    Naked mole-rat  ctca--------------
B D          Squirrel  ctca--------------
B D            Rabbit  caca--------------
B D             Human  cata--------------
B D             Chimp  cata--------------
B D           Gorilla  cata--------------
B D         Orangutan  cata--------------
B D            Gibbon  cata--------------
B D            Rhesus  catg--------------
B D            Baboon  catg--------------
B D          Marmoset  cata--------------
B D   Squirrel monkey  cata--------------
B D           Tarsier  cata--------------
B D       Mouse lemur  cata--------------
B D          Bushbaby  caac--------------
B D            Alpaca  catg--------------
B D             Sheep  cata--------------
B D               Cow  cata--------------
B D               Cat  cata--------------
B D               Dog  tatg--------------
B D             Panda  tata--------------
B D             Horse  cata--------------
  D  Little brown bat  cata--------------
B D           Megabat  cata--------------
B D          Hedgehog  caca--------------
B D             Shrew  cata--------------
B D          Elephant  tata--------------
B D        Rock hyrax  taca--------------
B D            Tenrec  ctta--------------
B D           Manatee  taca--------------
B D         Armadillo  cata--------------
B D             Sloth  cata--------------
B D           Opossum  ca----------------
B D   Tasmanian devil  ca----------------
B D              Fugu  tata-------tatcgtg
B D        Guinea pig  ==================
B D               Pig  ==================
B D           Wallaby  ==================
B D              Pika  ==================
B D        Tree shrew  ==================
B D       Stickleback  ==================
B D         Tetraodon  ==================
B D            Medaka  ==================
B D      Atlantic cod  ==================
B D      Nile tilapia  ==================
B D     X. tropicalis  ==================
B D          Platypus  ==================
B D            Turkey  ==================
B D        Coelacanth  ==================
B D            Lizard  ==================
B D        Budgerigar  ==================
B D       Zebra finch  ==================
B D           Chicken  ==================
B D    Painted turtle  ==================
B D           Dolphin  NNNNNNNNNNNNNNNNNN

Inserts between block 22 and 23 in window
B D       Rock hyrax 82bp
B D          Manatee 22bp
B D        Armadillo 12bp
B D            Sloth 12bp

Alignment block 23 of 732 in window, 56699314 - 56699318, 5 bps 
B D             Mouse  tgcat
B D          Elephant  ----t
B D            Tenrec  ----t
B D         Armadillo  ----t
B D             Sloth  ----t
B D           Opossum  tacac
B D   Tasmanian devil  caaac
B D              Fugu  tgtgt
B D            Rabbit  -----
B D        Guinea pig  =====
B D          Bushbaby  -----
B D               Cow  -----
B D           Manatee  =====
B D          Squirrel  -----
B D            Rhesus  -----
B D         Orangutan  -----
B D   Squirrel monkey  -----
B D               Pig  =====
B D             Horse  -----
B D             Panda  -----
B D               Dog  -----
B D          Marmoset  -----
B D            Gibbon  -----
B D           Gorilla  -----
B D             Chimp  -----
B D    Naked mole-rat  -----
B D             Human  -----
B D           Tarsier  -----
B D           Wallaby  =====
B D              Pika  =====
B D            Alpaca  -----
B D        Tree shrew  =====
B D             Sheep  -----
B D       Stickleback  =====
B D         Tetraodon  =====
B D            Medaka  =====
B D      Atlantic cod  =====
B D      Nile tilapia  =====
B D     X. tropicalis  =====
B D          Platypus  =====
B D            Turkey  =====
B D        Coelacanth  =====
B D            Lizard  =====
B D        Budgerigar  =====
B D       Zebra finch  =====
B D           Chicken  =====
B D    Painted turtle  =====
B D             Shrew  -----
  D  Little brown bat  -----
B D            Baboon  -----
B D               Cat  -----
B D       Mouse lemur  -----
B D          Hedgehog  -----
B D      Kangaroo rat  -----
B D        Rock hyrax  =====
B D           Megabat  -----
B D           Dolphin  NNNNN
B D               Rat  -----

Inserts between block 23 and 24 in window
B D         Elephant 118bp
B D           Tenrec 8bp
B D        Armadillo 9bp
B D            Sloth 9bp

Alignment block 24 of 732 in window, 56699319 - 56699337, 19 bps 
B D             Mouse  atatat---------aaatatgcatata-
B D               Rat  -------------------------ctt-
B D      Kangaroo rat  -------------------------tag-
B D    Naked mole-rat  -------------------------ctt-
B D          Squirrel  -------------------------tat-
B D            Rabbit  -------------------------cgg-
B D             Human  -------------------------tgt-
B D             Chimp  -------------------------tgt-
B D           Gorilla  -------------------------tgt-
B D         Orangutan  -------------------------cgt-
B D            Gibbon  -------------------------tgt-
B D            Rhesus  -------------------------tgt-
B D            Baboon  -------------------------tgt-
B D          Marmoset  -------------------------tgt-
B D   Squirrel monkey  -------------------------tgt-
B D           Tarsier  -------------------------ttt-
B D       Mouse lemur  -------------------------ttt-
B D          Bushbaby  -------------------------tta-
B D            Alpaca  -------------------------tgc-
B D             Sheep  -------------------------tgc-
B D               Cow  -------------------------tgc-
B D               Cat  -------------------------tgc-
B D               Dog  -------------------------tgc-
B D             Panda  -------------------------tgc-
B D             Horse  -------------------------tgc-
  D  Little brown bat  -------------------------tgc-
B D           Megabat  -------------------------tgc-
B D          Hedgehog  ---------------------------c-
B D             Shrew  -------------------------tgc-
B D           Manatee  atg----------------------tgt-
B D         Armadillo  atg----------------------tgt-
B D             Sloth  atg----------------------tgt-
B D           Opossum  ----attccggtaggtattcccaatcat-
B D   Tasmanian devil  ----atctcgacattaccttccatctgt-
B D              Fugu  ----------gtgtgtgtgtgtgtgtgtg
B D        Guinea pig  =============================
B D          Elephant  =============================
B D               Pig  =============================
B D            Tenrec  =============================
B D           Wallaby  =============================
B D              Pika  =============================
B D        Tree shrew  =============================
B D       Stickleback  =============================
B D         Tetraodon  =============================
B D            Medaka  =============================
B D      Atlantic cod  =============================
B D      Nile tilapia  =============================
B D     X. tropicalis  =============================
B D          Platypus  =============================
B D            Turkey  =============================
B D        Coelacanth  =============================
B D            Lizard  =============================
B D        Budgerigar  =============================
B D       Zebra finch  =============================
B D           Chicken  =============================
B D    Painted turtle  =============================
B D        Rock hyrax  =============================
B D           Dolphin  NNNNNNNNNNNNNNNNNNNNNNNNNNNNN

Inserts between block 24 and 25 in window
B D            Human 1bp
B D            Chimp 1bp
B D          Gorilla 1bp
B D        Orangutan 1bp
B D           Gibbon 1bp
B D           Rhesus 1bp
B D           Baboon 1bp
B D         Marmoset 1bp
B D  Squirrel monkey 1bp
B D          Tarsier 1bp
B D      Mouse lemur 1bp
B D         Bushbaby 1bp
B D           Alpaca 14bp
B D            Sheep 13bp
B D              Cow 13bp
B D              Cat 14bp
B D              Dog 14bp
B D            Panda 14bp
B D            Horse 14bp
  D Little brown bat 14bp
B D          Megabat 14bp
B D         Hedgehog 14bp
B D            Shrew 14bp
B D          Manatee 9bp
B D        Armadillo 4bp
B D            Sloth 4bp
B D          Opossum 5bp
B D  Tasmanian devil 3bp

Alignment block 25 of 732 in window, 56699338 - 56699347, 10 bps 
B D             Mouse  atttagcagg----
B D               Rat  atttagcagg----
B D      Kangaroo rat  attta---------
B D    Naked mole-rat  atttaatgt-----
B D          Squirrel  atttaatgtg----
B D            Rabbit  atttagtgtg----
B D             Human  atgt----------
B D             Chimp  atgt----------
B D           Gorilla  atgt----------
B D         Orangutan  atgt----------
B D            Gibbon  atgt----------
B D            Rhesus  atgt----------
B D            Baboon  atgt----------
B D          Marmoset  atgt----------
B D   Squirrel monkey  atgt----------
B D           Tarsier  acgt----------
B D       Mouse lemur  atgt----------
B D          Bushbaby  aggc----------
B D        Tree shrew  atgt----------
B D               Pig  atttaatgtg----
B D            Alpaca  atttcatgta----
B D             Sheep  atttaatgtg----
B D               Cow  atttaacgtg----
B D               Cat  atttaacgtg----
B D               Dog  atttaacgtg----
B D             Panda  atttaatgtg----
B D             Horse  atttagtgtg----
  D  Little brown bat  atttaatgta----
B D           Megabat  atttaatgta----
B D          Hedgehog  atttaatacg----
B D             Shrew  acttattgta----
B D            Tenrec  accttacgta----
B D           Manatee  accctacggg----
B D         Armadillo  atatagc-------
B D             Sloth  atatagc-------
B D           Opossum  atgt----------
B D   Tasmanian devil  at-t----------
B D              Fugu  ----tgtgtgtgtg
B D        Guinea pig  ==============
B D          Elephant  ==============
B D           Wallaby  ==============
B D              Pika  ==============
B D       Stickleback  ==============
B D         Tetraodon  ==============
B D            Medaka  ==============
B D      Atlantic cod  ==============
B D      Nile tilapia  ==============
B D     X. tropicalis  ==============
B D          Platypus  ==============
B D            Turkey  ==============
B D        Coelacanth  ==============
B D            Lizard  ==============
B D        Budgerigar  ==============
B D       Zebra finch  ==============
B D           Chicken  ==============
B D    Painted turtle  ==============
B D        Rock hyrax  ==============
B D           Dolphin  NNNNNNNNNNNNNN

Inserts between block 25 and 26 in window
B D           Tenrec 8bp
B D          Manatee 34bp
B D          Opossum 1bp
B D  Tasmanian devil 1bp

Alignment block 26 of 732 in window, 56699348 - 56699352, 5 bps 
B D             Mouse  --cagag
B D               Rat  --cagtg
B D          Squirrel  --tacag
B D            Rabbit  --tggag
B D               Pig  --cagag
B D            Alpaca  --tagag
B D             Sheep  --tagag
B D               Cow  --tagag
B D               Cat  --tagac
B D               Dog  --tagac
B D             Panda  --tagac
B D             Horse  --tagag
  D  Little brown bat  --tagag
B D           Megabat  --tagag
B D          Hedgehog  --tagag
B D             Shrew  --tggag
B D           Opossum  --ta---
B D   Tasmanian devil  --ta---
B D              Fugu  tgtg---
B D        Guinea pig  =======
B D          Bushbaby  -------
B D          Elephant  =======
B D           Manatee  =======
B D            Rhesus  -------
B D         Orangutan  -------
B D   Squirrel monkey  -------
B D          Marmoset  -------
B D            Gibbon  -------
B D           Gorilla  -------
B D             Chimp  -------
B D    Naked mole-rat  -------
B D             Human  -------
B D           Tarsier  -------
B D            Tenrec  =======
B D           Wallaby  =======
B D              Pika  =======
B D        Tree shrew  -------
B D       Stickleback  =======
B D         Tetraodon  =======
B D            Medaka  =======
B D      Atlantic cod  =======
B D      Nile tilapia  =======
B D     X. tropicalis  =======
B D          Platypus  =======
B D            Turkey  =======
B D        Coelacanth  =======
B D            Lizard  =======
B D        Budgerigar  =======
B D       Zebra finch  =======
B D           Chicken  =======
B D    Painted turtle  =======
B D            Baboon  -------
B D             Sloth  -------
B D         Armadillo  -------
B D       Mouse lemur  -------
B D      Kangaroo rat  -------
B D        Rock hyrax  =======
B D           Dolphin  NNNNNNN

Inserts between block 26 and 27 in window
B D           Rabbit 2bp

Alignment block 27 of 732 in window, 56699353 - 56699385, 33 bps 
B D             Mouse  gcagaagcaga----gaaa-gtaaggaagtc---------ctgtagg
B D               Rat  gc--------------gat-gtagggtagtc---------ctgaatc
B D      Kangaroo rat  -c--------------tgt-gcggggaagtc---------ttgtgtg
B D    Naked mole-rat  gtagaggcaga----gcat-gcaaggtagac---------ccaggca
B D        Guinea pig  gtagaggcaaa----gctt-gcagagtagac---------ctaggca
B D          Squirrel  --------aga----gcacagaagaatagtc---------ccttgct
B D            Rabbit  --------gga----gcat--cagggtagtc---------ctatgta
B D             Human  gtagaggtagt----gtat-caaggggagcc---------ctatgca
B D             Chimp  gtagaggtagt----gtat-caaggggagcc---------ctatgca
B D           Gorilla  gtagaggtaga----gtat-caaggggagcc---------ctatgca
B D         Orangutan  gtagagataga----gtat-caaggggaacc---------ctatgca
B D            Gibbon  gtagaggtaga----gtat-caaggggagcc---------ctatgca
B D            Rhesus  gtagaggtaga----gtat-caaggggagcc---------ctatgca
B D            Baboon  gtagaggtaga----gtat-caaggggagcc---------ctatgca
B D          Marmoset  gtagaggtaga----gtat-caaggggagcc---------ctatgca
B D   Squirrel monkey  ---gaggtaga----gtat-caaggggagtc---------ctatgca
B D           Tarsier  gtagccacaga----gaac-ccaggggggtc---------ccttgca
B D       Mouse lemur  gtagagctagg----gta--tcaggctagtc-----------ttctg
B D          Bushbaby  agagagctagg----gtac-ccaggctaggc-----------aggca
B D        Tree shrew  gctgagataca----gcag-caagggcagtc---------c------
B D               Pig  ------atgga----gcat-caagggtagt--cacacacggtagacg
B D            Alpaca  ------acaga----gcac-ccaaggcaag----------gtaggcg
B D             Sheep  ------ataga----gcac-gaagggtagtcacacacaaggtaggca
B D               Cow  ------ataga----gcgc-ggagggtagt---------------ca
B D               Cat  ------ataga----gcat-caagggtagtcacacacaagttaggca
B D               Dog  ------ataga----gcat-taagggcagtcacatatgaattacgca
B D             Panda  ------ataga----gcat-caagggtcatcacaaat-aattttgca
B D             Horse  ------ataga----gcat-caagggtt-tgacccacacagtacaca
  D  Little brown bat  ------agagatagggaat-ccaggttggtcaca-------------
B D           Megabat  ------aga------gcat-tgaggttggtcacacacaagatatgca
B D          Hedgehog  ------ctcaa----gtat-caagggtagtcacacaggggttatgta
B D             Shrew  ------ct--a----gtag-caagg----------------tatgta
B D        Rock hyrax  ----------------------------------------ttgagtc
B D            Tenrec  --------------------------------------------gtc
B D           Manatee  ----------------------------------------ttgagtc
B D         Armadillo  --------------------------------------------atc
B D             Sloth  --------------------------------------------atc
B D           Opossum  actgtatcaga----caat-cta------------------------
B D   Tasmanian devil  acagtatcaga----aagt-ccagatcaggcg---------------
B D              Fugu  gtgataccagt----ggat-gtgtgtatatt---------ttatagg
B D          Elephant  ===============================================
B D           Wallaby  ===============================================
B D              Pika  ===============================================
B D       Stickleback  ===============================================
B D         Tetraodon  ===============================================
B D            Medaka  ===============================================
B D      Atlantic cod  ===============================================
B D      Nile tilapia  ===============================================
B D     X. tropicalis  ===============================================
B D          Platypus  ===============================================
B D            Turkey  ===============================================
B D        Coelacanth  ===============================================
B D            Lizard  ===============================================
B D        Budgerigar  ===============================================
B D       Zebra finch  ===============================================
B D           Chicken  ===============================================
B D    Painted turtle  ===============================================
B D           Dolphin  NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN

Inserts between block 27 and 28 in window
B D       Rock hyrax 31bp
B D           Tenrec 7bp
B D          Manatee 31bp
B D        Armadillo 16bp
B D            Sloth 17bp

Alignment block 28 of 732 in window, 56699386 - 56699386, 1 bps 
B D             Mouse  c
B D               Rat  c
B D      Kangaroo rat  c
B D    Naked mole-rat  c
B D        Guinea pig  c
B D          Squirrel  c
B D            Rabbit  c
B D             Human  c
B D             Chimp  c
B D           Gorilla  c
B D         Orangutan  c
B D            Gibbon  c
B D            Rhesus  c
B D            Baboon  c
B D          Marmoset  c
B D   Squirrel monkey  c
B D           Tarsier  c
B D       Mouse lemur  c
B D          Bushbaby  c
B D        Tree shrew  c
B D               Pig  c
B D            Alpaca  c
B D             Sheep  c
B D               Cow  c
B D               Cat  c
B D               Dog  c
B D             Panda  c
B D             Horse  t
B D           Megabat  c
B D          Hedgehog  c
B D             Shrew  c
B D          Elephant  t
B D        Rock hyrax  c
B D            Tenrec  t
B D           Manatee  t
B D         Armadillo  c
B D             Sloth  t
B D   Tasmanian devil  t
B D              Fugu  c
B D           Wallaby  =
B D              Pika  =
B D       Stickleback  =
B D         Tetraodon  =
B D            Medaka  =
B D      Atlantic cod  =
B D      Nile tilapia  =
B D     X. tropicalis  =
B D          Platypus  =
B D            Turkey  =
B D        Coelacanth  =
B D           Opossum  -
B D            Lizard  =
B D        Budgerigar  =
B D       Zebra finch  =
B D           Chicken  =
B D    Painted turtle  =
  D  Little brown bat  -
B D           Dolphin  N

Alignment block 29 of 732 in window, 56699387 - 56699393, 7 bps 
B D             Mouse  acacaac
B D               Rat  atacaat
B D      Kangaroo rat  aaacaaa
B D    Naked mole-rat  acataaa
B D        Guinea pig  acacaag
B D          Squirrel  aaacaag
B D            Rabbit  acacaag
B D             Human  acacaaa
B D             Chimp  acacaaa
B D           Gorilla  acacaaa
B D         Orangutan  acacaaa
B D            Gibbon  acacaaa
B D            Rhesus  gcacaaa
B D            Baboon  gcacaaa
B D          Marmoset  atacaaa
B D   Squirrel monkey  atacaaa
B D           Tarsier  acacaaa
B D       Mouse lemur  acacaaa
B D          Bushbaby  cctcaaa
B D        Tree shrew  ccacaag
B D               Pig  acacagg
B D            Alpaca  acaca--
B D             Sheep  acac---
B D               Cow  acac---
B D               Cat  acacaag
B D               Dog  acacaag
B D             Panda  gcacaag
B D             Horse  acacaag
  D  Little brown bat  --gcaag
B D           Megabat  acacaag
B D          Hedgehog  acgcagg
B D             Shrew  acacagg
B D          Elephant  actctag
B D        Rock hyrax  acccaag
B D            Tenrec  accttct
B D           Manatee  accttag
B D         Armadillo  actcggg
B D             Sloth  acccagg
B D   Tasmanian devil  acata--
B D           Wallaby  =======
B D              Pika  =======
B D       Stickleback  =======
B D         Tetraodon  =======
B D              Fugu  =======
B D            Medaka  =======
B D      Atlantic cod  =======
B D      Nile tilapia  =======
B D     X. tropicalis  =======
B D          Platypus  =======
B D            Turkey  =======
B D        Coelacanth  =======
B D           Opossum  -------
B D            Lizard  =======
B D        Budgerigar  =======
B D       Zebra finch  =======
B D           Chicken  =======
B D    Painted turtle  =======
B D           Dolphin  NNNNNNN

Inserts between block 29 and 30 in window
B D  Tasmanian devil 8bp

Alignment block 30 of 732 in window, 56699394 - 56699412, 19 bps 
B D             Mouse  gtggg--aatctatgtactta--------
B D               Rat  gcggg--aatctgtgtactta--------
B D      Kangaroo rat  tcaga--gatctatgcacatg--------
B D    Naked mole-rat  gagga--aattcatacatgta--------
B D        Guinea pig  gcaga--gatccacgcatgta--------
B D          Squirrel  ttgga--aatct-------tg--------
B D            Rabbit  gtgga--aatctgtgcacata--------
B D             Human  gcaga--aatctgtgcatgta--------
B D             Chimp  gcaga--aatctgtgcatgta--------
B D           Gorilla  gcaga--aatctgtgcatgta--------
B D         Orangutan  gcaga--aatctgtgcacgta--------
B D            Gibbon  gcaga--aatctgtgcacata--------
B D            Rhesus  gcaga--aatctgtgcacgta--------
B D            Baboon  gcaga--aatctgtgcacgta--------
B D          Marmoset  gcaga--aatctgtgaacata--------
B D   Squirrel monkey  gcaga--aatctgtgaacgta--------
B D           Tarsier  gcag---aatctacgcatgta--------
B D       Mouse lemur  gcaga--aatctatgcacgta--------
B D          Bushbaby  acaga--aatctatgcacata--------
B D        Tree shrew  gcaga--cacccactccggtg--------
B D               Pig  aggcagaaacctacacaccta--------
B D            Alpaca  ----------ctaagcaccta--------
B D             Sheep  ----------ctatgcactca--------
B D               Cow  ----------ctatgcatttc--------
B D               Cat  acag---aaactatgcatgta--------
B D               Dog  ac-----aaactacgcatgtc--------
B D             Panda  ac-----aaactgtgcatgta--------
B D             Horse  gcaga-aaacctacgcactta--------
  D  Little brown bat  gcaaa--aacctatgcacata--------
B D           Megabat  gcaga--atcctatgcacata--------
B D          Hedgehog  -cagg--aatctatgcaggta--------
B D             Shrew  acaga--agcctttgcaggga--------
B D          Elephant  gcaga--aacctatgcacgtg--------
B D        Rock hyrax  gcaga--aacctatgcacgtg--------
B D            Tenrec  gcaga--aaccgaagcaagca--------
B D           Manatee  gcaga--aacctatgcacgtg--------
B D         Armadillo  gcaaa--tacctaatcatata--------
B D             Sloth  acaga--aacctaatc--aca--------
B D           Opossum  ----------gtgggcactaatataatct
B D   Tasmanian devil  ----------atgggcactcatatt--ca
B D           Wallaby  ----------gtgggcactcatgtcaaca
B D              Pika  =============================
B D       Stickleback  =============================
B D         Tetraodon  =============================
B D              Fugu  =============================
B D            Medaka  =============================
B D      Atlantic cod  =============================
B D      Nile tilapia  =============================
B D     X. tropicalis  =============================
B D          Platypus  =============================
B D            Turkey  =============================
B D        Coelacanth  =============================
B D            Lizard  =============================
B D        Budgerigar  =============================
B D       Zebra finch  =============================
B D           Chicken  =============================
B D    Painted turtle  =============================
B D           Dolphin  NNNNNNNNNNNNNNNNNNNNNNNNNNNNN

Alignment block 31 of 732 in window, 56699413 - 56699429, 17 bps 
B D             Mouse  gattttgcatatgtatt
B D               Rat  cattttgcataggtatt
B D      Kangaroo rat  tattttgcaagtttatc
B D    Naked mole-rat  tattttgcatgtgtact
B D        Guinea pig  tattttgcacgtgtatt
B D          Squirrel  cattttgcatgtgtatt
B D            Rabbit  tattttgcatgtgtatt
B D              Pika  gattttgcacgcgcatt
B D             Human  tattttgcac-tgtatc
B D             Chimp  tattttgcac-tgtatc
B D           Gorilla  tattttgcac-tgtatc
B D         Orangutan  tattttgcac-tgtatc
B D            Gibbon  tattttgcac-tgtatc
B D            Rhesus  tattttgcac-cgtatc
B D            Baboon  tattttgcac-cgtatc
B D          Marmoset  tcttttgcac-tgaatt
B D   Squirrel monkey  tcttttgcac-tgcatt
B D           Tarsier  tattctgcatgcgtatt
B D       Mouse lemur  tattttgcatgtgtatt
B D          Bushbaby  tattttgcatgtatatt
B D        Tree shrew  tagtctgcatgtgtatt
B D               Pig  tgttttgcat-------
B D            Alpaca  tgttttgcatacatatt
B D             Sheep  tgctttgcatgtatatt
B D               Cow  tgctttgcatgtatatt
B D               Cat  tattttgcatgtgcatt
B D               Dog  tattttgcgtgtgtatt
B D             Panda  tattttgcatgtgtatt
B D             Horse  tatttagcatatgtatt
  D  Little brown bat  gactttgcatatgtatt
B D           Megabat  tattttgcatgtgtatt
B D          Hedgehog  tattgtgtgtgtatatt
B D             Shrew  tagtttgcatgtgtatt
B D          Elephant  tacttggcatgtgtatt
B D        Rock hyrax  tacttagcgtgtgtatt
B D            Tenrec  gactttgcatgtatatt
B D           Manatee  tacttagcatgtgtatt
B D         Armadillo  tattttgcatgtagatc
B D             Sloth  tattttgcatgtatatt
B D           Opossum  -gttctacatatgtata
B D   Tasmanian devil  -attctaactatgcgtt
B D           Wallaby  -attctaaacatgtata
B D       Stickleback  =================
B D         Tetraodon  =================
B D              Fugu  =================
B D            Medaka  =================
B D      Atlantic cod  =================
B D      Nile tilapia  =================
B D     X. tropicalis  =================
B D          Platypus  =================
B D            Turkey  =================
B D        Coelacanth  =================
B D            Lizard  =================
B D        Budgerigar  =================
B D       Zebra finch  =================
B D           Chicken  =================
B D    Painted turtle  =================
B D           Dolphin  NNNNNNNNNNNNNNNNN

Inserts between block 31 and 32 in window
B D            Sheep 422bp

Alignment block 32 of 732 in window, 56699430 - 56699442, 13 bps 
B D             Mouse  gtg-----ggcatcactt
B D               Rat  gtg-----ggcatcgctc
B D      Kangaroo rat  aca-----cacatccctt
B D    Naked mole-rat  gtg-----tgcatcattt
B D        Guinea pig  gtg-----cacatcattt
B D          Squirrel  gtg-----tgcatcattt
B D            Rabbit  gtg-----ggcatcgttt
B D              Pika  gtg-----ggcatccttg
B D             Human  gtg-----ggaataattt
B D             Chimp  gtg-----ggaatagttt
B D           Gorilla  gtg-----ggaataattt
B D         Orangutan  gtg-----ggaataattt
B D            Gibbon  atg-----ggaataattt
B D            Rhesus  gtg-----ggaataattt
B D            Baboon  gtg-----ggaataattt
B D          Marmoset  gtg-----ggaatcattt
B D   Squirrel monkey  gtg-----ggaatcattt
B D           Tarsier  gtg-----ggcatcgttt
B D       Mouse lemur  gtg-----ggcatcatgt
B D          Bushbaby  atg-----gacatcgttt
B D        Tree shrew  acg-----ggcatcattt
B D               Pig  gtg-----ggcatccttt
B D            Alpaca  gtg-----ggcatctttt
B D               Cow  gtg-----ggcatccttt
B D               Cat  gtg-----gccatcacgt
B D               Dog  gtg-----ggcatcatgc
B D             Panda  gt------ggcatcttgt
B D             Horse  gca-----ggcatcattt
  D  Little brown bat  gtg-----ggcagcattt
B D           Megabat  gtg-----ggtagcattt
B D          Hedgehog  gtg-----ggcatctttt
B D             Shrew  gtgcatgtggcatcattt
B D          Elephant  gta-----ggcaacgttt
B D        Rock hyrax  gta-----ggcagcatct
B D            Tenrec  gta-----ggcttcggtt
B D           Manatee  gta-----ggcatcattt
B D         Armadillo  gtg-----ggtatcattt
B D             Sloth  gtg-----ggcatcattt
B D           Opossum  att-----ca-------t
B D   Tasmanian devil  att-----cttgttattt
B D           Wallaby  att-----tctattattt
B D             Sheep  ==================
B D       Stickleback  ==================
B D         Tetraodon  ==================
B D              Fugu  ==================
B D            Medaka  ==================
B D      Atlantic cod  ==================
B D      Nile tilapia  ==================
B D     X. tropicalis  ==================
B D          Platypus  ==================
B D            Turkey  ==================
B D        Coelacanth  ==================
B D            Lizard  ==================
B D        Budgerigar  ==================
B D       Zebra finch  ==================
B D           Chicken  ==================
B D    Painted turtle  ==================
B D           Dolphin  NNNNNNNNNNNNNNNNNN

Alignment block 33 of 732 in window, 56699443 - 56699485, 43 bps 
B D             Mouse  agt--t-atttgtttgcaaaggacttt-gcggg-tc-ttttgttctgtc
B D               Rat  agt--t-atttgtttgcaaaggacttt-gcggg-cc-ttttgttctgtc
B D      Kangaroo rat  agt--t-atttgtttgcaaaggacttg-gcaggttc-ttctgccttatc
B D    Naked mole-rat  agt--t-ctttgtttgcaaaggacttt-g-agg-tc-ttttgttccatc
B D          Squirrel  agg--t-atttgtttgcaaaggacttt-gcagg-tc-tttcgccctatt
B D            Rabbit  agt--t-atttgtttgcaaaggacttt-gcaga-t--ctttgttttgtt
B D              Pika  ggc--t-a----tttgcaaaatatttt-gcagg-tc-ctttgttttgtc
B D             Human  agt--t-atttgtttgcaaaggacagt-gcagg-tctttttgttct--c
B D             Chimp  agt--t-atttgtttgcaaaggactgt-gcagg-tctttttgttct--c
B D           Gorilla  agt--t-atttgtttgcaaaggactgt-gcagg-tctttttgttcg--c
B D         Orangutan  agt--t-atttgtttgcaaaggacagt-gc-gg-tctttttgttct--c
B D            Gibbon  agt--t-atttgtttgcaaaggactgt-gcagg-cctttttgttct--c
B D            Rhesus  agt--t-atttgtttgcaaaggacttt-gcagg-tcgttttgttct--c
B D            Baboon  agt--t-atttgtttgcaaaggacttt-gcagg-tctttttgttct--c
B D          Marmoset  ag-------ttgtttgcaaaggacttt-gcagg-tcattttgttct--t
B D   Squirrel monkey  agt--t-atttgtttgcaaaggacttt-gcagg-tctttttgttct--c
B D           Tarsier  agt--t-acttgtttgcaaaggtcttt-gcaag-tcttcttg-------
B D       Mouse lemur  agt--t-atttgtttgcaaaagactt------g-tc-ttttgttctaac
B D          Bushbaby  agt--t-a--tgtttgcaaaagacttt-gcagg-tc-ttttgtt----c
B D        Tree shrew  agt--t-acttgtttgcaaaggacttt-acagc-tc-ttttgttctgtc
B D               Pig  agt--t-atttgtttgcaaaggacttt-gcagg-tc-ttttgtt-cgtc
B D            Alpaca  agt--t-atttgtttgcaaagcacttt-gcagg-tc-ttttgttccatc
B D               Cow  agt--c-atttgtttgcaaaagacttt-acagg-tc-ttttgttccatc
B D               Cat  agt--t-atttgcttgcaaaggacttt-gcagg-tc-ttttgtctcatc
B D               Dog  agt--t-atttgtttgcaaaggacttt-gcagg-tc-tttggtc---tc
B D             Panda  agt--t-atttgtttgcaaaggacttt-gcagg-tc-ttttgtctcatc
B D             Horse  agt--taatttgtatg-aaaggactta-gcaag-tctttttgttccctc
  D  Little brown bat  tgt--c-g--tgtttgcaaagaacttt-gcagg-tc-ttttgttccatc
B D           Megabat  agt--t-atttgtttgcaaagaatttt-gcagg-tc-ttttgttccatc
B D          Hedgehog  agttct-acttgtttgcaaaggatttt-gcaaa-tc-ttttgttccaac
B D             Shrew  agt--t-atttgtttgcaaaggacttt-gcagg-tc-ttttg-tccatc
B D          Elephant  agt--t-atttgtttgcaaatgat-ct-gtggg-tc-ttttattctatc
B D        Rock hyrax  agt--c-gtctgtttgc-aatgat-ct-gtggg-tc-ttttgttctatt
B D            Tenrec  agt--g-gttggtttgcaaatgac-ccagcgga-tc-ttttgttcggtc
B D           Manatee  agt--t-atttgtttgcagatgat-ct-gtggg-tc-ttttgttctatc
B D         Armadillo  agt--t-atctgtttgcaaagggc--t-gtagg-tc-ttttgttctatc
B D             Sloth  agt--t-atttgtttgcaaaggacttt-gtagg-tc-ttttgttccatc
B D           Opossum  gtc--t-atatgctttcaggggatttt-gaaag-ta-tttgtatcagta
B D   Tasmanian devil  gtt--c-gtaggct----------ttt-caaag-ta-------------
B D           Wallaby  gtt--t-atatgctttcaagggacttt-gagag-ta-tttatttatatc
B D        Guinea pig  NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
B D             Sheep  =================================================
B D       Stickleback  =================================================
B D         Tetraodon  =================================================
B D              Fugu  =================================================
B D            Medaka  =================================================
B D      Atlantic cod  =================================================
B D      Nile tilapia  =================================================
B D     X. tropicalis  =================================================
B D          Platypus  =================================================
B D            Turkey  =================================================
B D        Coelacanth  =================================================
B D            Lizard  =================================================
B D        Budgerigar  =================================================
B D       Zebra finch  =================================================
B D           Chicken  =================================================
B D    Painted turtle  =================================================
B D           Dolphin  NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN

Inserts between block 33 and 34 in window
B D          Opossum 1bp
B D          Wallaby 779bp

Alignment block 34 of 732 in window, 56699486 - 56699496, 11 bps 
B D             Mouse  ttattga-----c-----------ata
B D               Rat  ttattga-----c-----------ata
B D      Kangaroo rat  -tattga-----t-----------gta
B D    Naked mole-rat  -tgttga-----c-----------cta
B D          Squirrel  -tgttga-----c-----------ata
B D            Rabbit  -tcttgg-----c-----------gtc
B D              Pika  -ttttgg-----t-----------ata
B D             Human  -tattga-----c-----------ata
B D             Chimp  -tattga-----c-----------ata
B D           Gorilla  -tattga-----c-----------ata
B D         Orangutan  -tattga-----c-----------ata
B D            Gibbon  -tattga-----c-----------ata
B D            Rhesus  -tattga-----c-----------ata
B D            Baboon  -tattga-----c-----------ata
B D          Marmoset  -tattga-----c-----------aaa
B D   Squirrel monkey  -tattga-----c-----------gca
B D           Tarsier  -ggttga-----c-----------ata
B D       Mouse lemur  -tattga-----c-----------ata
B D          Bushbaby  -tattga-----c-----------ata
B D        Tree shrew  -ttttga-----c-----------gta
B D               Pig  -tgttga-----c-----------aaa
B