##maf version=1 a score=10542.0 s mm8.chr7 80082334 34 + 145134094 GGGCTGAGGGC--AGGGATGG---AGGGCGGTCC--------------CAGCA- s rn4.chr1 136011785 34 + 267910886 GGGCTGAGGGC--AGGGACGG---AGGGCGGTCC--------------CAGCA- s oryCun1.scaffold_199771 14021 43 - 75077 -----ATGGGC--AAGCGTGG---AGGGGAACCTCTCCTCCCCTCCGACAAAG- s hg18.chr15 88557580 27 + 100338915 --------GGC--AAGTGTGGA--AGGGAAGCCC--------------CAGAA- s panTro2.chr15 87959837 27 + 100063422 --------GGC--AAGTGTGGA--AGGGAAGCCC--------------CAGAA- s rheMac2.chr7 69864714 28 + 169801366 -------GGGC--AAGTATGGA--AGGGAAGCCC--------------CAGAA- s canFam2.chr3 56030570 39 + 94715083 AGGTTTAGGGCAGAGGGATGAAGGAGGAGAATCC--------------CTATG- s dasNov1.scaffold_106893 7435 34 + 9831 GGAACGAGGGC--ATGTGTGG---AGGGGGCTGC--------------CCACA- s loxAfr1.scaffold_8298 30264 38 + 78952 ATGATGAGGGG--AAGCGTGGAGGAGGGGAACCC--------------CTAGGA s echTel1.scaffold_304651 594 37 - 10007 -TGCTATGGCT--TTGTGTCTAGGAGGGGAATCC--------------CCAGGA a score=-33148.0 s mm8.chr7 80082368 103 + 145134094 TGAGAGGGCATGCT-GTGAAGGGACTGTGCT---CAGTTCAAGGCATAGTCCACTTCC--------CTTCCCTTGGTCATTCTGTTCGGTGTGTTTCCAGCAGATATGGAGAGT-------------------------------------C---- s rn4.chr1 136011819 86 + 267910886 TGAGAGGGCATGTT-ATGAAGGCACTGTGCT--------------------CACTTTC--------CATCCCATGGTCATTCTGTTGAGTGTGTTCCCAGCAGATACGGAAAGT-------------------------------------C---- s oryCun1.scaffold_199771 14064 74 - 75077 TAGGACTGCCTGGTGGGGGGGGCCCTGCACC--------------------TACTTCTGCAAGGCACGTCCCGCG----------TCTGTGCCTTCGCCGCA-----------T-------------------------------------C---- s hg18.chr15 88557607 128 + 100338915 GGGGAAAGCCTGGT-TAAGGGGCCCTTCACCCCCCTCTCCAAGGCACATTCCCCTTTC--------TGTCCCTTTGTCGTTTCATTCACTCTACTCCCAGCATGGCTGGAGGGC---TTGTGG---CTGGCTCGTTTGG---------AGGC---- s panTro2.chr15 87959864 116 + 100063422 GGGGAAAGCCTGGT-TAAGGGGCCCTTCACCCCCCTCTCCAAGGCACATTCCCCTTTC--------TGTCCCTTTGTCGTTTCATTCACTA------------GGCTAGAGGGC---TTGTGG---CTGGCTCGTTTGG---------AGGC---- s rheMac2.chr7 69864742 107 + 169801366 GGAGAAAGCCTGGT-TAAGGGGCCCTTCA-----CTCTCCAAGGCACATTCCACTTTC--------TGTCCCTTTGTCATTCCATTCACTCTACTCCCCGCATGGCTAGAGGGC----------------------TGG---------AGGC---- s canFam2.chr3 56030609 103 + 94715083 AGGGAATGCATGGTGTATGGGGGCCCCCGTC--------------------CACTTC---------TGTCCCGTTGCTATTTCCTTGACCATACTTCCAGTATGACTGGGGGAG---GTGCGG---TGGAGCAGGTTC------------------ s loxAfr1.scaffold_8298 30302 144 + 78952 --TGGATGCCTGGT-TTAAGGATCC-GCTCACCCACTTCTGAGTCACGTTACACTTTC--------TGCCCCTTTGCCATTTCATTTATGGTACTCCCAACACCGGGGGAGGGTGCGCTTTGGTTCTTGAGCAGTTTGTGTATATAGGGGGCTGAG s echTel1.scaffold_304651 631 67 - 10007 --TGGAGGGCTACT-TTAAGAAACC----CTCCCGTTTCTCAG-------------CC--------TGCTTC---------------------------------------------CTTTGGGTTTGAGGTACTTTGT----------------G a score=87527.0 s mm8.chr7 80082471 121 + 145134094 CTG-AGC---------------CGCTGGCCCCTGGGCTTCCCCTCCAGCCTGGCTTGACTTTGTCTGAGGGACCCTGGGCAGC-TTGCCATCCA---------CCCAGGCTGAAGTGGAGGGGGTGTTGAGCTGCCACCTGGGACTT s rn4.chr1 136011905 121 + 267910886 TCG-GAC---------------CGCTGGCACCCAGGCTTCCCCTCCAGCCTGGCCTGACTCTGTCTGAGGGACCCTGGGCAGC-TTGCCATCCA---------CGCAGGCAAAAGTGGAGGGGATGTTGAGCTGCCACCTGGAACTT s oryCun1.scaffold_199771 14138 103 - 75077 CCGCAGT---------------GGATCCCACCTCGGCTGTAGCAGTAGGCCAACCAGG----GCCCGACAGGCGCCCGGCTGTGCTGGCTTCCA-CACCCTCTCCCAGGC---------------------CTGCCACCCAGGC--- s hg18.chr15 88557735 127 + 100338915 CTG-GGCTGAACCAGGGACT--GGCTGGTCTATAGGTTTCCCCTCCAGCC-GGCTGCACTCTG----TAGTGCCCGAGGCAGG-TTTCCACCCC-----TTCTCCCAGGCGTAAGTGGG------ATTGAGTTGCCACCTGGGACTG s panTro2.chr15 87959980 127 + 100063422 CTG-GGCTGAACCAGGGACT--GGCTGGTCTATAGGTTTCCCCTCCAGCC-GGCTGCACTCTG----TAGTGCCCGTGGCAGG-TTTCCACCCC-----TTCTCCCAGGCGTAAGTGGG------ATTGAGTTGCCACCTGGGACTG s rheMac2.chr7 69864849 116 + 169801366 CTG-GGCTGAACCAGGGGCT--GGCTGGTCTGCAG----------------GGCTGCACTCTGTCTATAGTGCCCGAGGCAGG-TTTCCACCCC-----TTCTTCCAGTCGTAAGTGGG------GTTGAGCTGCCACCTGGGACTG s bosTau2.scaffold2397 93191 110 + 117874 CTG-GGC---------------AGCTGGCGCCTCGGCTGCCCCTCCCACCTGGCT-------------GTGACCCTTGGCAAG-TCTCCCCGCCCCCCATGCCCCCAGGCCTGAGCAAG------GCTGAGCTGCCACCT-GGACTA s canFam2.chr3 56030712 116 + 94715083 TCT-AGC---------------AGCTGGCGCCCCAGCTGTCCTTCCAACCTGGCTGTGCTCTGTCTACGTGACCTTTGGCAGA-TTGCCACTCC-------CTCCCAGGCCCGAGCAGG------GCCAAGCTGCCACCT-GGATGG s loxAfr1.scaffold_8298 30446 129 + 78952 CTG-AAC-----CAGGGACTGCAGCTAGTGCCTGGGCCACCGCTCCAGCCTGGCTGTGCTCTGTCTACAGGACGCATGGCAAG-TTGCCACCCC----CCTCTCCCAGG-CTAGGTGGG------GCTAAGCTGCCACTTGAAACTT s echTel1.scaffold_304651 698 101 - 10007 CTG-GAC-----CAGGAACTGCAGCT---------GCTGCCCCTCTAGCCTACCTGTGC---------------CTTGGCAGG-TTGCCAGCCC-------CTCCCAGGCCTAGGTGGG------GTGACGCTGCCTCCTGGGAC-- a score=185399.0 s mm8.chr7 80082592 121 + 145134094 GTGCTTATCTCGGACTCTTGGCATTTCTGTTTCTGGACAGAACCCAAGGGTGGCTTCCCGCTTAGAGCTGTAGGTCCC----ACCCAGGTGGAAATG--CCCTCCGGTGCAGGCAGATAAGCTCTGG s rn4.chr1 136012026 121 + 267910886 GTGCTTATCTTGGCCTCTTGGCATTTCTGTATCTGGACAGAATCCAAGGGTGGCTTCCCGCTTAGAGCTGTAGGTCCC----ACCCAGGTGGAAATG--CCCTCCGGAGCAGGCAGATAAGCTCTGG s oryCun1.scaffold_199771 14241 119 - 75077 ---CTTATCTCCGACTGCTGGCATTGCTGTGTCTGGGCAGAGGCCAAGGGCGGCCTCCCGCACAGACACTCGGGGCCC----GCCCAGGTAGAAGTG-CCCCTCCTGTGCAGGCAGATAAGCGCTGG s hg18.chr15 88557862 119 + 100338915 AGGCTTATCTCTGACTCTTGGCATTTCTTTGTCTGGACAGATTCCAAGGGCGGTCTGCTGCCCAGACTTACAGGGCCT----GCCCAGGTGGAAACG--CTCTTT--TGCAGGTAGATAAGCACGGG s panTro2.chr15 87960107 119 + 100063422 AGGCTTATCTCTGACTCTTGGCATTTCTTTGTCTGGACAGATTCCAAGGGCGGTCTGCTGCCCAGACTTACAGGGCCT----GCCCAGGTGGAAACG--CTCTTT--TGCAGGTAGATAAGCACGGG s rheMac2.chr7 69864965 114 + 169801366 AGGCTTATCTCTGATCCTTGGCATTTCTGTGTCTGGACAGATTCCAAGGGCGGTCTGCTGCCCAGACTTACAGGGCCC----GCCCAGGTG-----G--CTCTTC--TGCAGGTAGATAAGCATGGG s bosTau2.scaffold2397 93301 123 + 117874 AAGCTTATCTCTGACCTTTGGCATTCCTGTGTGTGGACAGATTGCAAGAGCAGCCTCT-GCCCAGGCTTACGGGGACCTGCTGCCTCGGTAGAAATG-CGCCTCCTCTGTAGGCAGATAAGCCCT-- s canFam2.chr3 56030828 121 + 94715083 CAACTTATCTTTGACCTTCGGCATTTCTATATCTGGATGGATCCTAAGTGCAGCCTCCAGCCTAGACTTCCAGGACCC----ACCCTGGGA-AGATG-CCCCTCCTGTGTGGGCAGATAAATGTTGG s echTel1.scaffold_304651 799 118 - 10007 ATGACAATCT--GACCTTTGACATT--TGTTTTAGGATAGGTTCCAAGTGAAGCCTCCTGCCTAGACTTCCTGATTCT-----CCCAGATAGAAGCGCCCCCTTCTTGGAAGACAGATAAGCGATAA a score=30120.0 s mm8.chr7 80082713 54 + 145134094 CAA-------ACCAAAGGCAGCCTGT-GCTTCCAGAAAACCTT-GAGGGGTGCAAGAGATAAA s rn4.chr1 136012147 54 + 267910886 CAA-------ACCAGAGGCAGCCTAC-GTTTCCAGAAAACCTT-GAGGGGTACAAGAGATAAA s hg18.chr15 88557981 62 + 100338915 CAACCAGCTTATCTGAACCAGCCCTT-GCTTCCAGAGAACTATGGAAAAATCCAAAAGATAAG s panTro2.chr15 87960226 62 + 100063422 CAACCAGCTTATCTGAACCAGCCCTT-GCTTCCAGAGAACTATGGAAAAATCCAAAAGATAAG s rheMac2.chr7 69865079 62 + 169801366 CAACCAGCTTATCTGAACCAGCCCTC-GTTTCCAGGTAACTCTGGAAAAATCCAAAAGATGAG s canFam2.chr3 56030949 40 + 94715083 -------CATATTTGACCCAGCCCTTGGCTTTCAGAAAACC------------ACAA----AG s echTel1.scaffold_304651 917 55 - 10007 CAA-------ATTCCATCCCACCCTT-CGTTCTGGACGGGCTGGGAGGGGTACAAAAGATAAA a score=58255.0 s mm8.chr7 80082767 128 + 145134094 GGGGTGCAGGAGCTGTG----TGTCTTGATCTCCCAGA----GTCTTCGTGAGCCT-----------CACTTTTTGTCTTATCCCT---GTGATACACACAGG-AAGCCACAGTGAATTCAGTGGGTGTCAT---------ACAGAAGGGCCTCC-TGGAG- s rn4.chr1 136012201 139 + 267910886 GGGGTACAGGAGCTGTG----TG-CTTGATGTCGCTGA----GCCTTCGTGAGGCTCCTGTGAGCTGCACTTTTTGTCTCGTCCCT---GTGATAGACACAAG-AAGCCACAGTGAATTCAGTGGGTATCAT---------ATGGAAGGGCCTCCTTGGAC- s hg18.chr15 88558043 143 + 100338915 AAGGGACCGCAG-TGTC----TGTCTTGGTCTCAC--------TCCTCTTGAGACTCCTGTGAT---CTTTATATGTCTCATTCCTCCCGTGACATGTATGAG-AAACTGCAGCTCATTGAGACGATGTCTCTGCTGCCTGACAGAAGGGCCTAC-TTGAG- s panTro2.chr15 87960288 143 + 100063422 AAGGGACCGCAG-TGTC----TGTCTTGGTCTCAC--------TCCTCTTGAGACTCCTGTGAT---CTTTATATGTCTCATTCCTCCCGTGACATGTATGAG-AAACTGCAGCTCATTGAGACGATGTCTCTGCTGCCTGACAGAAGGGCCTAC-TTGAG- s rheMac2.chr7 69865141 147 + 169801366 GAGGGACCACAG-TGTCTGTTTGTCCTGGTCTCAC--------TCCTCATGAGACTCCTGTGAT---CTTTGTATGTCTCATTCCTCCTGTGACATGTATGAG-AATGTACAGCTCAGTGAGATGATGTCTCTGCTGCCTGACAGAAGTGCCTAC-TTGAG- s bosTau2.scaffold2397 93775 133 + 117874 GGACTGCAGTGGCCATT----TGCTCTGGCCTCACTGA----CTCCTTGTGAGCCCGCTGTGAG---TTTTGTTT---TCATTATCCCCAT------TATGAGAAAACTCCAGTTTGGTGAGATGGCATCTACCCTGCCCT--------ACAAAC-ATGgtg s canFam2.chr3 56030989 153 + 94715083 GGGATGTGGAAGACGTT----TGCCCTCGTCTCACAGACTCCCTCCTTGTAAGGCTGCTGGGAG---TCATATTTTGCTCATTATCCCTGCGGTATGTATGAG-AAGCCAAAGGTCAGTGAGCTGGAGTTTGCACTGCCCTCCAGAGGGACCGAC-ATGgtg a score=2607.0 s mm8.chr7 80082895 114 + 145134094 CTTCTCAGAGTGTAGT-----------CCTTGGGCTACC-TCCTCCTAAGTCACTGGG-----------------------AGCTGGTCA-AGAGG------CTCAGACCAGCAGTTTCAGAATCTCTTGGGAGGGCCT--------GGAGTCCGGGTGATGTT s rn4.chr1 136012340 112 + 267910886 CTTCTCAGA--GTAGT-----------CCTTGGGCCACC-TCCTTCTAAGTTACTGAG-----------------------AGCTGGTCA-AGAGG------CTCAGACCAGCAGTTTCAGAATCTCTTGGGAGGGCCT--------GGAGTCAAGGTACTGTT s rheMac2.chr7 69865323 119 + 169801366 CTTCTTGTTGACTAGTGTCACCCCCACCCGAGGGCTTCCTTCCTCATTTGCTGCCAGGTGTAAAGCTGAGCTTC-------agctgggcgcagtgg------ctcacacccataatcctagca--ttttgggag------------------------------ s bosTau2.scaffold2397 93908 136 + 117874 cttctcaaagtgtgct-----------ccatgagcctcc-tacttcagaatcccctgg---------gagattcaaaaccttgcatgttc-tcaggccccatcacgggccagcatcgtcagagtcttcagggtcagctcgtggatctagagtgtaggt------ s canFam2.chr3 56031142 126 + 94715083 cttttcagagggtggt-----------ccctgggcctcc-cactttggaattgcctgg---------gag-ctcatagaattgcccgttg-tcagg--ccatcccagggcagtggcagcag-gcctctagggcaggcct------------ttcaggtgacttt a score=8132.0 s mm8.chr7 80083009 147 + 145134094 TAGGGAGGTTGGCATTGGTGCTGGAACTTTCCTTGGCCCCCCAATTTATCGAAGTACTAAGGGTTGGAAGTCTCTGGAGCTGCAGGAGTT--GAGTTTGAGAAAAGGCTCTTGGTGGTTTAAAGAGA----------------GGTTTCAACTGC--------------------------CTCTGGCCTC s rn4.chr1 136012452 190 + 267910886 TAGGGAGATTGGGATTGGTACTGGAACTTTCCTTGGCCTCCCAGTGTATT-CAGTACTAAGGGTTGGAAGTCTCGGGTGCTACAAGAATTAAGAGTTTGAGAAGAGGCTCTTGGTAGTTTAGAAAGAGAGAAGGACATCTTTGGGTTTCGACTACCTGTGGTGGCAGTGTCAGAATTCAGGCTCTGGCCTC