##maf version=1 scoring=roast.v3.3 a score=-324.000000 s galGal6.chrUn_NW_020110062v1 2700 88 + 13021 aggcgaggcaaggcaagttgaagcctgg--ccaggcaaggcaaatctaggcaaagcaaggccaggcaaggcc-------aggaaaagcaGGGAAATT s danRer11.chr10 3245016 97 - 45420867 AGGTGAATCAAACTAAATCTTAACGGGGATCCAAAAACATTGAGTCGATACTAAAAGTGATCAAACCGAACCTAACATGAGGAACTGGAGAACAAAA i danRer11.chr10 N 0 C 0 a score=6145.000000 s galGal6.chrUn_NW_020110062v1 2788 200 + 13021 CCTGGCCAGGCAGTGTAAAGCAAGGTAAAGCAAGGCTGGACAGAGCAAATCCATAACAAAAatggcaaggcatggcaaggccagtcaaggcaaggcaatgcatggaaagtccaggcaaggcacagcatgACAAAACAAGCCCAGGCCAGGCTAATCAtcactaggcaaggca-aggcctgtcaagggaaagcaaggcatgg- s oryLat2.chr17 5067312 193 + 31848461 cCAGGCTAAGCAACACCAAGCAAGGAAAAGTAAAGCTCATAAAGACTAAAAATGCTTGGCCAAAGCTGACTAAGGCTAATTAAGCCTAAGCAAGGCTGAACAATGTTAGTCTTCACA---CATATCTTGACAAGTTCAGACAAGACTGAGAGAAGT----CGGGG--AAGCATTGACATGGCTGGACAAGACTAAGCAAAGC i oryLat2.chr17 N 0 C 0 s danRer11.chr10 3245113 200 - 45420867 TAAAGCAGGACAGAGCAAAGCATGACAGAGCAAAGCAGGACAGAGCAAAGCAGGACAGAGCAAAACAGGACAGAGCAAAGTAGGACAGAGCAAAACAGGACAGAGCAAAACGGGACAGAGCAAAACAGGACAGAGCAAAGCAGGACAGAGCAAAGCATGACAGAGCAAAGCA-GGACAGAGCAAAACAGGACAGAGCAAAG- i danRer11.chr10 C 0 C 0 a score=1880.000000 s galGal6.chrUn_NW_020110062v1 2988 90 + 13021 cacgGTAAGCCCACACAAT-CCTAGGCAATGCTAGCCAAGTCCAGGCAAGGTTATGCAAGACAAACCAAGGCCTCTCCAGGcaaaggcatg s oryLat2.chr17 5067505 89 + 31848461 --TAACTAGTTTGCCCGTTGCTTGGGCAAGGATAGGCAGGGCCAAGCAACATTAGTTAAGGTTAACCAAGGCCAATTAAGGCTAAAGGCTG i oryLat2.chr17 C 0 I 1449 e danRer11.chr10 3245313 0 - 45420867 C a score=0.000000 s galGal6.chrUn_NW_020110062v1 3078 3953 + 13021 gccaggcccgtccaggcaaggctaggctaGTCAAGGCAAGGGCAGTGAAAGCAAGGTAAGTAAAGGtaaagcaaggcagggcaagtccaggccagtcacggcaaggcaaagaagtgcaaggcaagtccaggcaagataAAGCAAGGTCAAGCTAGGAAGGGCCACTAaaggccaagtaaggcaaggcaagttcaggcaatgaagggcaaggccagacaaggcaagttATATCTAGACGAAGAAGGGCTGGGCAacgcaaggccagtcaaggcaaggcaacgcatGCCAAATCTAGGCAcggccaggcaatgcaaggcaagaccagtcaaagccaggcaaggcaaggggacgctagcaaagttcaggcaaggcaaggcaaggcaaacagagcaaaacaacgccaggccaggcaaggcaacactaggcaaggccatgccatgcAAGGGAAGGATATGCAAGTTtaggccaggccaagcagtTCAAGGCAAGGTAAGACAAGGCTTGGCTTTGACTTTCCGTGCTTTGTCGTGCATGGCACGGATTTTCTatcctagccttgccttgcattgcactgcctgtccttgccttacCAGGGCCTTGCTATGCCTGTCCGGTCCTTAtttttcgttttttttgccttgcctgatattgcctggacttgccttgcattgccttgttttgcttggccttgccttgccatgcctttcctttcactgtttagcctggacttgcctgggcTTTTCTTGCCCTGTCTGGCCTTGTCTTGCTTACCTGTGacaggcctggacttgcctgtctTTTCCTGGCccatcctggccttgcctggtcttgccttgaattgccttgacttgcctggattggccttgcttggagtagccttgTCTTGCTGTATCACgcctggccgtgcctggcctagcttggcatggccttgccttggcttgccctgccttgtcctgcctggcctagcctggccttaccgttacttgccttgagtttcctagccttaccttgcctagagttgcctggacttgccttgccttgcctagagtCTCAAGTTGcaacttgcctggccttaccttgcatggccttgcctggcctagcgtTGCATTGGCTGTTTTGcgtttccttgccttgcctggctttgcctggactaGCCAAGCCGTGCTTGCTATCCCTGGCCCagacttgccttgtctggccatgcctgtacttgccttgcattgccttgcctggcctggacttttCTGGtcatgctttgccttgctgtgttttgcctGGCCCTTtctggcatggcctggccttgacatgctttgccttgtctggacttgccctgcctggcctggacatgcatTGCCTTACCTTATCTTACCTAGCCTTGctatgccttgctttgcctttgtttaCTATGACTCGCTttacctggcctggactggtttgGACAATTGCTGGTTAACCTGGCCTCTCTTGGCCTGGCCAGTTCTGGCGTTGAATTTCTGGGCATTCCTGGGCTTGCcttaccttttcttctcttaccttgattccttttgcattgccttgctctGTATGGCCTCGCCTTGTCACATCTCGCCGAAGCTGCCATAGcctgtcctttccaacctggacatttcttgtcttgcattgcagGGTCTTGattggccgggccttgcctggcctggattagcGTGGATTAGCCAGgcggttcaaggccaggtaagacAAGGCTTGTCTTTGACTTTCCGTTCTTTGCCATGCATGGCACGGACTTTCCTGGCCGtacattgcctggccttgcctatgccttgttttgcttggccttgcctggcgtggtcctgccttccctagctgtgactgtgctgggctagcctcgcctttcctgggcgtgccttgccttgcctgccgggcctggacatgcatggactttccttgccttgactggccttgccttgccctgccgtGACTAGCCTGgaaatgccttgccttgctctcccTGGCCTTAtgttgcatggccttgcctggcctggcattgaATTGGCTTATTTGCGTTTCCTTGtcctgcctggttttgcctggccttgccaagcCGCGCTTTGCCctccctggcctggacttgacttgtctggcctggctttgctttgtcttggctggccttgccttgactggccttgcattgccttgctttgccttgccttggtgtacttgcactcgccttacctggcctggactggtttggaattttctttttaacccggcctctcttggcctggcctgttctggCGATGACTTTCCTGGCATTTCTGGGCTTGCCTTAGGTTTCCTTCTCTTACCTGGATtcattttgccttgccttgctctgtatgGCCTCGCCTGGTCACATCTCGCCGAAGCTGCCATAGcctgtcctttccaacctggacATTTCTTGTCTTGCTTTGCAGAGCCTTGattggccgggccttgcctggcctggattagcCTGGAATGCTCAAGCCTGTCCTGCCCggtcctagcctggcctggcattcATAGgcgttaccttgcctggccttgcaatCATGGTAAGTgccggcaaggccaggccaggcacggcatggcaaaacaacgccaggagaggcaaggcaagttgaagcccggccaggcaaggcaaatctaggcaaagcaaggccacacaaggccagaaaaagcagggaagtctaggccaggcagtgctaggcgaggcaaagcaaggcttggcagggcaagtccaggcaaagcaaggcaagtccaggacaaacagggcaaggcacggcaagccCATACAAGCCTAGGCAGTGCTAgccaagtgcaggcaaggctaTGCAAGACAAACCAAGGCTAAGCCATGCAAAGGCAGgtccaggccaggccgggcaagggacggcaaggccagacaaggcatgGCAATGCACGGCAGGTCCAGGAAGTTCTTGCAAGGCATGGCACGCCAAAAGAATGCCAGGAATGGCATGAGAAGGCCGGGCCcagcctggcaaggcaacgtTAGTcaaaacaaggccagtcaaggcaaggaacggcaaggaaaagcaaggcaaggcaagtccaggcaagacaagcaagtccaagccaggccgggctacgcaacgccaagtaaggcaaggcaaatttaggcaatgcatggcaagtccaggcaaggcaaggcaacgctatccaagtccaggaaaggtcatgcaagacaaaacaaggccaggccaggcaaggcaatgccaggcacggccaggcaaggtaacgctaggcaaggcaaggccagtcaaggcaaggctaTGCATGCCAAatcgaggcaaggccaggcaatgcaagtcaagaccagtcaaagccaggcaaggaaaggcgacgctagcaaagttcaggcaaggcaaggcaagacatagcaaaacagcgccaggccaggcaaggcaacactaggcaaggccatgccatgcAAGGGAGGGACatgcaagttaaggccaggccaggcggttcaaggccaggtaagacAAGGCTTGTCTTTGACTTTCCGTGCTTTGCCCTGCATGGCACGGACTTTCCTGGCCGtacattgcctggccttgcctatgccttgttttgcttggccttgcctggcgtggtcctgccttccctagctgtgactgtgctgggctagcctcgcctttcctgggcgtgccttgccttgcctgccgggcctggacatgcatggactttccttgccttgactggccttgccttgccctgccgtGACTAGCCTGgaaatgccttgccttgctctcccTGGCCTTAtgttgcatggccttgcctggcctggcattgaATTGGCTTATTTGCGTTTCCTTGtcctgcctggttttgcctggccttgccaagcCGCGCTTTGCCctccctggcctggacttgacttgtctggcctggctttgctttgtcttggctggccttgccttgactgg e oryLat2.chr17 5067594 1449 + 31848461 I e danRer11.chr10 3245313 0 - 45420867 C a score=-343.000000 s galGal6.chrUn_NW_020110062v1 7031 336 + 13021 ccttgcattgcc-ttgctttgccttgccttggtgta-cttgcactcgccttacct-----ggcctggactggtttggaattt--tctttttaacccggcctctcttggcctggcctgttctggCGATGAATTTCTGGGCATTCCTGGGCTTGCCTTAGGTTTCCTTCTCTTACCTGGATTccttttgcattgccttgctctGTATGGCCTCGCCTGGTCACATCTCGCCGAGCTGCCATAGCCTGTCCTTTCCT--GCCTGgacatttcttgtcttgcattgcagGGTCTTGattggccgggccttgcctggcctggattagcCTGGAATGCTCAAGCCTATCCTGC s allMis1.JH734773 603904 299 - 1314287 TGCCTTCTTGCTGCTGCCGCTTCCCAGCCTGGTGCATCTGGCACTGGAAAAAGCAACAGAGGAAGGGCCAGGATGGGGATTTGGCCTTGGTGACCCATTCAATTCTGACGTGCCTC-------TGACGCACGGCTGGCCTTTACCCACCATG---GAGACTTCCTTG------CTGGAGTCCTTCTGC-----------CTGGAAGGGCTGCTCTGAGCTCTTGCGGTCCAGCTG----AGCTAGTCCTAACCTTCACCTGGGC--------TGGAGCATGGTGTAGTGCTCATGACCCCATCCCTCCC--------ATTAGCCAAGCA-GCTCAACCCTTTCCTGC i allMis1.JH734773 N 0 C 0 e oryLat2.chr17 5067594 1449 + 31848461 I e danRer11.chr10 3245313 0 - 45420867 C a score=1167.000000 s galGal6.chrUn_NW_020110062v1 7367 32 + 13021 CCGGTCGTAGCAAGGCCTGGCATTCCAGgcgt s allMis1.JH734773 604203 32 - 1314287 CCCGTCAGCGCAGGGCCTGGCACTGCCGGTAT i allMis1.JH734773 C 0 N 0 s danRer11.chr10 3245313 22 - 45420867 CAGGACAGAGCAAAGCAGGACA---------- i danRer11.chr10 C 0 C 0 e oryLat2.chr17 5067594 1449 + 31848461 I a score=367.000000 s galGal6.chrUn_NW_020110062v1 7399 28 + 13021 taccttgcctggcctagcaatgcatggc s danRer11.chr10 3245335 14 - 45420867 --------------GAGCAAAGCATGAC i danRer11.chr10 C 0 C 0 e oryLat2.chr17 5067594 1449 + 31848461 I a score=-4849.000000 s galGal6.chrUn_NW_020110062v1 7427 350 + 13021 acggcatggcaaaacaacgcgaggcgaggcaaggc-----------aagttgaagcctggccaggcaaggcaaatctaggcaaagcaaggccacacaaggccaggaAAAGCAGGGAAATTCCTGGCCAGGCAGTGTAAAGCAAGGTAAAGCAAGGCTGG----ACAGAGCAAATCCATAACAAAAa--tggcaaggca----tggcaaggccagt----caaggcaa-----ggcaatgcat-----------ggaaagtccaggcaaggcacag--catgACAAAACAAGCCCAGGCCAGGCTAAGCAtcactaggcaaggcaagg---cctgtcaagggaaagcaaggcatggcacgGTAAGCCCACACAAT--------CCTAGGCAATG-CTAGCCAAGTC s oryLat2.chr17 5069043 381 + 31848461 ACCACGTAGTATAAGACTGCAGGATAGAGTAGCGCTCATGGCTATTCAGCCAAGGTTCTGCAAAGCTGAGCAAGGCCAGTTAAAGATAGG-----CAAGTCTGGCTAAGGCAGGCCC-AGCCAGGCAAGGGTGCACAAGGCAAGGTAAGGCAGAACAAGAACCACTGAGT-AAGCAAACTTGATCAACAATTAGGACAAGTTAGGTTAACTGAGATTTTTAATGCAACCTTTCGCACTACTGCCtacctatgtagccacaaggg---gacccaagtctgggtcctcatgtgccggtccccagc---------ccggataataTACAGGGTTTTGTCAGGAAGGA--AATCT--GGcataaaactctctgccaaaccacctccgcagatcagtg-aaagctgattc i oryLat2.chr17 I 1449 I 147 s danRer11.chr10 3245349 310 - 45420867 -------AGAGCAAAA---CAGGACAGAGCAAAGC-----------AGGACAGAGCAAAGCAGGACAGAGCAAAACAGGACAGAGCAAAG-----TAGGACAGAGCAAAACAGGACAGAGCAAAGCAGGACAGAGCAAAGCAGGACAGAGCAAAGCAGG----ACAGAGCAAAGCAGGACAGAGCA--AAGCAGGACA----GAGCAAAGCGGGA----CAGAGCAA-----AGCGGGACAG-----------AGCAAAACGGGACAGAGCAAAG--CGGGACAGAGCAAAGCGGGACAGAGCAAAG-----CGGGACAGAGCAAAG--------CGGGACAGAGCAAAGC--GGGACAGAG--------CAAA--------GCGGGACAGAGCAAAGC------ i danRer11.chr10 C 0 C 0 a score=755.000000 s galGal6.chrUn_NW_020110062v1 7777 113 + 13021 CAGGCAAGGTTATGCAAGACAAACCAAGGCCTCTCCAGGcaaaggcatggccaggcccgtccaggcaaggctaggctaGTCAAGGCAAGGGCAGTGAAAGCAAGGTAAGTAAA s danRer11.chr10 3245659 97 - 45420867 GGGACAGAGCAAAGCGGGACAGAGCAAAACGGGACAGAGCAAAG----------------CGGGACAGAGCAAAGCGGGACAGAGCAAAGCGGGACAGAGCAAAGCGGGACAG i danRer11.chr10 C 0 C 0 e oryLat2.chr17 5069424 147 + 31848461 I a score=946.000000 s galGal6.chrUn_NW_020110062v1 7890 334 + 13021 GGtaaagcaaggcagggcaagtccaggccagtcacggcaaggcaaagaagtgcaaggcaagtccaggcaagataAAGCAAGGTCAAGCTAGGAAGGGCCACTAaaggccaagtaaggcaaggcaagttc--------aggcaatgaagggcaaggccagacaaggcaagttATATCTAGACGAAGAAGGGCTGGGCAacgcaaggccagtcaaggcaaggcaacgcatGCCAAATCTAGGCAcggccaggcaatgcaaggcaagaccagt--caaag-----ccaggcaaggcaaggggacgctagcaa-----------------------------agttcaggcaaggcaa-------------ggcaaggcaaacag------------agcaaaacaa s oryLat2.chr17 5069571 315 + 31848461 GCTACAACAAGCCCGCCCACATTGAGATGGTTAGAGATGTAATGGAAACA---GGAATACAACAGA---AGCCAAATCTTGGT-----------GGGTCA-----AGCTGAAAAGCCCAAAGAAGATTCTTTTATTTGAGTAAGACTAGACAAGGTTGAGCAATGCTAAACAAGTTTA-ATTAAGCAAAGCTGTCCAAAGCTTGGCTAACCAAAGATACTTAAAGGTTGGCAAGTTTAGAAGAGGATAAGCAAGACTGAGGAAGGATAAA--CAAAG-----CTAAGCATAGCCAGTTAATGTTTacaa-----------------------------agtctgg----agcaa-------------gactAAAGTTGCAG------------ACCAGGACCA i oryLat2.chr17 I 147 N 0 s danRer11.chr10 3245756 366 - 45420867 AGCAAAACGGGACAGAGCAAAGCGGGACAGAGCAAAGCGGGACAGAGAAAAGCGGGACAGAGCAAAGCGGGACAGAGCAAAGC-----------GGGACA----GAGCAAAACGGGACAGAGCA-------------AAGCGGGACAGAGCAAAGCGGGACAGAGCAAAGCGGG-----ACAGAGCAAAGCGGGACAGAGCAAAGCGGGACAGAGCAAAACGGGACAGAGCAAAGCGGGACAGAGCAAAGCGGGACAGAGCAAAGCAAAATCCAAAGGCAAACTAAGCACAACATGACAGGGCTTATAAAAGACAGAACCAATTAGACAACAAGGAACAGCTGGA----AACAAGGAGTGATCATGTGAGCAGGCATGCAGGAAATGAAAACAACCAAAACAA i danRer11.chr10 C 0 C 0 a score=44.000000 s galGal6.chrUn_NW_020110062v1 8224 4 + 13021 cgcc s danRer11.chr10 3246122 4 - 45420867 GACC i danRer11.chr10 C 0 N 0 a score=291.000000 s galGal6.chrUn_NW_020110062v1 8268 3 + 13021 AGG s cotJap2.chrUn_NW_015439959v1 18855 3 + 51021 AGG i cotJap2.chrUn_NW_015439959v1 N 0 N 0