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single_end_mini_example.sam
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single_end_mini_example.sam
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@HD VN:1.6 SO:coordinate
@SQ SN:chr1 LN:610
read001 0 chr1 1 60 50M * 0 0 CGCCCATGCAACTAGCGATGCTAGCTAGCTAGCTTACGACTGGCCATGCG * AS:i:50 NM:i:0
read002 0 chr1 2 60 50M * 0 0 GCCCATGCAACTAGCGATGCTAGCTAGCTAGCTTACGACTGGCCATGCGG * AS:i:50 NM:i:0
read003 0 chr1 3 60 50M * 0 0 CCCATGCAACTAGCGATGCTAGCTAGCTAGCTTACGACTGGCCATGCGGC * AS:i:50 NM:i:0
read004 0 chr1 4 60 50M * 0 0 CCATGCAACTAGCGATGCTAGCTAGCTAGCTTACGACTGGCCATGCGGCG * AS:i:50 NM:i:0
read005 0 chr1 5 60 50M * 0 0 CATGCAACTAGCGATGCTAGCTAGCTAGCTTACGACTGGCCATGCGGCGG * AS:i:50 NM:i:0
read006 0 chr1 6 60 50M * 0 0 ATGCAACTAGCGATGCTAGCTAGCTAGCTTACGACTGGCCATGCGGCGGC * AS:i:50 NM:i:0
read007 0 chr1 7 60 50M * 0 0 TGCAACTAGCGATGCTAGCTAGCTAGCTTACGACTGGCCATGCGGCGGCA * AS:i:50 NM:i:0
read008 0 chr1 8 60 50M * 0 0 GCAACTAGCGATGCTAGCTAGCTAGCTTACGACTGGCCATGCGGCGGCAT * AS:i:50 NM:i:0
read009 0 chr1 9 60 49M1S * 0 0 CAACTAGCGATGCTAGCTAGCTAGCTTACGACTGGCCATGCGGCGGCATA * AS:i:49 NM:i:0
read010 0 chr1 10 60 48M13D2M * 0 0 AACTAGCGATGCTAGCTAGCTAGCTTACGACTGGCCATGCGGCGGCATAT * AS:i:46 NM:i:13
read011 0 chr1 11 60 47M13D3M * 0 0 ACTAGCGATGCTAGCTAGCTAGCTTACGACTGGCCATGCGGCGGCATATA * AS:i:46 NM:i:13
read051 2048 chr1 11 60 27S23M * 0 0 CTGGGACGCTGTGACTGTACGGGGGGGACTAGCGATGCTAGCTAGCTAGC * AS:i:23 NM:i:0
read052 2048 chr1 11 60 21S24M5S * 0 0 CGCTGTGACTGTACGGGGGGGACTAGCGATGCTAGCTAGCTAGCTCGGGC * AS:i:24 NM:i:0
read012 0 chr1 12 60 46M13D4M * 0 0 CTAGCGATGCTAGCTAGCTAGCTTACGACTGGCCATGCGGCGGCATATAC * AS:i:46 NM:i:13
read013 0 chr1 51 60 7M13D43M * 0 0 GCGGCATATACATAAGGGGCTCATCGATCGATTTCGGATCGGGGGGCCCC * AS:i:46 NM:i:13
read014 0 chr1 52 60 6M13D44M * 0 0 CGGCATATACATAAGGGGCTCATCGATCGATTTCGGATCGGGGGGCCCCC * AS:i:46 NM:i:13
read015 0 chr1 53 60 5M13D45M * 0 0 GGCATATACATAAGGGGCTCATCGATCGATTTCGGATCGGGGGGCCCCCA * AS:i:46 NM:i:13
read016 0 chr1 54 60 4M13D46M * 0 0 GCATATACATAAGGGGCTCATCGATCGATTTCGGATCGGGGGGCCCCCAT * AS:i:46 NM:i:13
read017 0 chr1 55 60 3M13D47M * 0 0 CATATACATAAGGGGCTCATCGATCGATTTCGGATCGGGGGGCCCCCATT * AS:i:46 NM:i:13
read018 0 chr1 56 60 2M13D48M * 0 0 ATATACATAAGGGGCTCATCGATCGATTTCGGATCGGGGGGCCCCCATTT * AS:i:46 NM:i:13
read019 0 chr1 71 60 1S49M * 0 0 TATACATAAGGGGCTCATCGATCGATTTCGGATCGGGGGGCCCCCATTTT * AS:i:49 NM:i:0
read020 0 chr1 71 60 50M * 0 0 ATACATAAGGGGCTCATCGATCGATTTCGGATCGGGGGGCCCCCATTTTA * AS:i:50 NM:i:0
read021 0 chr1 80 60 46M4S * 0 0 GGGCTCATCGATCGATTTCGGATCGGGGGGCCCCCATTTTAAACGGCCCC * AS:i:46 NM:i:0 SA:Z:chr1,108,+,44S6M,60,0;
read022 0 chr1 91 60 35M15S * 0 0 TCGATTTCGGATCGGGGGGCCCCCATTTTAAACGGCCCCGGGGCCAATTT * AS:i:35 NM:i:0
read027 2048 chr1 94 60 4M46S * 0 0 ATTTGGATCTTGACTCTGGAAAACTTTTAACGCCGGGAATCGGTAGTCCT * AS:i:4 NM:i:0
read023 0 chr1 101 60 25M15I10M * 0 0 ATCGGGGGGCCCCCATTTTAAACGGCCCCGGGGCCAATTTGGATCTTGACT * AS:i:31 NM:i:15
read024 0 chr1 102 60 24M15I11M * 0 0 TCGGGGGGCCCCCATTTTAAACGGCCCCGGGGCCAATTTGGATCTTGACTC * AS:i:31 NM:i:15
read025 0 chr1 103 60 23M15I12M * 0 0 CGGGGGGCCCCCATTTTAAACGGCCCCGGGGCCAATTTGGATCTTGACTCT * AS:i:31 NM:i:15
read025a 0 chr1 104 60 22M28S * 0 0 GGGGGGCCCCCATTTTAAACGGCCCCGGGGCCAATTTGGATCTTGACTCTG * AS:i:22 NM:i:0 SA:Z:chr1,126,+,37S13M,60,0;
read025b 0 chr1 105 60 21M29S * 0 0 GGGGGCCCCCATTTTAAACGGCCCCGGGGCCAATTTGGATCTTGACTCTGG * AS:i:21 NM:i:0 SA:Z:chr1,126,+,36S14M,60,0;
read025c 0 chr1 106 60 20M30S * 0 0 GGGGCCCCCATTTTAAACGGCCCCGGGGCCAATTTGGATCTTGACTCTGGA * AS:i:20 NM:i:0 SA:Z:chr1,126,+,35S15M,60,0;
read021 2048 chr1 108 60 44S6M * 0 0 GGGCTCATCGATCGATTTCGGATCGGGGGGCCCCCATTTTAAACGGCCCC * AS:i:6 NM:i:0
read026 0 chr1 126 60 15S35M * 0 0 CCCCGGGGCCAATTTGGATCTTGACTCTGGAAAACTTTTAACGCCGGGAA * AS:i:35 NM:i:0
read027 0 chr1 126 60 4S46M * 0 0 ATTTGGATCTTGACTCTGGAAAACTTTTAACGCCGGGAATCGGTAGTCCT * AS:i:46 NM:i:0 SA:Z:chr1,94,+,4M46S,60,0;
read025a 2048 chr1 126 60 37S13M * 0 0 GGGGGGCCCCCATTTTAAACGGCCCCGGGGCCAATTTGGATCTTGACTCTG * AS:i:13 NM:i:0
read025b 2048 chr1 126 60 36S14M * 0 0 GGGGGCCCCCATTTTAAACGGCCCCGGGGCCAATTTGGATCTTGACTCTGG * AS:i:14 NM:i:0
read025c 2048 chr1 126 60 35S15M * 0 0 GGGGCCCCCATTTTAAACGGCCCCGGGGCCAATTTGGATCTTGACTCTGGA * AS:i:15 NM:i:0
read028 0 chr1 139 60 50M * 0 0 GGAAAACTTTTAACGCCGGGAATCGGTAGTCCTTTCGCGGGGATATATTT * AS:i:50 NM:i:0
read029 0 chr1 146 60 43M7S * 0 0 TTTTAACGCCGGGAATCGGTAGTCCTTTCGCGGGGATATATTTATATATT * AS:i:43 NM:i:0 SA:Z:chr1,181,+,43S7M,60,0;
read029 256 chr1 146 60 35M8I7M * 0 0 TTTTAACGCCGGGAATCGGTAGTCCTTTCGCGGGGATATATTTATATATT * AS:i:38 NM:i:8
read030 0 chr1 147 60 42M8S * 0 0 TTTAACGCCGGGAATCGGTAGTCCTTTCGCGGGGATATATTTATATATTT * AS:i:42 NM:i:0 SA:Z:chr1,181,+,42S8M,60,0;
read030 256 chr1 147 60 34M8I8M * 0 0 TTTAACGCCGGGAATCGGTAGTCCTTTCGCGGGGATATATTTATATATTT * AS:i:38 NM:i:8
read031 0 chr1 151 60 30M8I12M * 0 0 ACGCCGGGAATCGGTAGTCCTTTCGCGGGGATATATTTATATATTTTACG * AS:i:38 NM:i:8
read031 256 chr1 151 60 38M8I4M * 0 0 ACGCCGGGAATCGGTAGTCCTTTCGCGGGGATATATTTATATATTTTACG * AS:i:38 NM:i:8
read032 256 chr1 180 60 9M8I33M * 0 0 GATATATTTATATATTTTACGGGATATAACGATCGGATCGGATCGATAAT * AS:i:38 NM:i:8
read029 2048 chr1 181 60 43S7M * 0 0 TTTTAACGCCGGGAATCGGTAGTCCTTTCGCGGGGATATATTTATATATT * AS:i:7 NM:i:0
read030 2048 chr1 181 60 42S8M * 0 0 TTTAACGCCGGGAATCGGTAGTCCTTTCGCGGGGATATATTTATATATTT * AS:i:8 NM:i:0
read032 0 chr1 181 60 9S41M * 0 0 GATATATTTATATATTTTACGGGATATAACGATCGGATCGGATCGATAAT * AS:i:41 NM:i:0
read033 0 chr1 181 60 8S42M * 0 0 ATATATTTATATATTTTACGGGATATAACGATCGGATCGGATCGATAATA * AS:i:42 NM:i:0 SA:Z:chr1,181,+,8M42S,60,0;
read033 2048 chr1 181 60 8M42S * 0 0 ATATATTTATATATTTTACGGGATATAACGATCGGATCGGATCGATAATA * AS:i:8 NM:i:0
read033 256 chr1 181 60 8M8I34M * 0 0 ATATATTTATATATTTTACGGGATATAACGATCGGATCGGATCGATAATA * AS:i:38 NM:i:8
read034 0 chr1 181 60 7S43M * 0 0 TATATTTATATATTTTACGGGATATAACGATCGGATCGGATCGATAATAG * AS:i:43 NM:i:0 SA:Z:chr1,182,+,7M43S,60,0;
read035 0 chr1 181 60 1S49M * 0 0 TATATATTTTACGGGATATAACGATCGGATCGGATCGATAATAGGTCTCG * AS:i:49 NM:i:0
read036 0 chr1 181 60 50M * 0 0 ATATATTTTACGGGATATAACGATCGGATCGGATCGATAATAGGTCTCGG * AS:i:50 NM:i:0
read034 256 chr1 182 60 7M8I35M * 0 0 TATATTTATATATTTTACGGGATATAACGATCGGATCGGATCGATAATAG * AS:i:38 NM:i:8
read034 2048 chr1 182 60 7M43S * 0 0 TATATTTATATATTTTACGGGATATAACGATCGGATCGGATCGATAATAG * AS:i:7 NM:i:0
read035 256 chr1 189 60 9S41M * 0 0 TATATATTTTACGGGATATAACGATCGGATCGGATCGATAATAGGTCTCG * AS:i:41 NM:i:0
read037 0 chr1 222 60 45M20D5M * 0 0 AGGTCTCGGTTGCCAACTGATCGTACCAAATATTTCTGCGGGGCTTCGGC * AS:i:46 NM:i:20
read038 0 chr1 223 60 44M20D6M * 0 0 GGTCTCGGTTGCCAACTGATCGTACCAAATATTTCTGCGGGGCTTCGGCT * AS:i:46 NM:i:20
read039 0 chr1 251 60 16M34S * 0 0 ATATTTCTGCGGGGCTTCGGCTAACGGTTAGAGCGCCCCTCCGCGATTAC * AS:i:16 NM:i:0 SA:Z:chr1,287,+,16S13M21S,60,0;chr1,283,+,29S4M17S,60,0;chr1,267,+,33S16M1S,60,0;
read040 0 chr1 252 60 15M35S * 0 0 TATTTCTGCGGGGCTTCGGCTAACGGTTAGAGCGCCCCTCCGCGATTACA * AS:i:15 NM:i:0 SA:Z:chr1,287,+,15S13M22S,60,0;chr1,283,+,28S4M18S,60,0;chr1,267,+,32S16M2S,60,0;
read039 2048 chr1 267 60 33S16M1S * 0 0 ATATTTCTGCGGGGCTTCGGCTAACGGTTAGAGCGCCCCTCCGCGATTAC * AS:i:16 NM:i:0
read040 2048 chr1 267 60 32S16M2S * 0 0 TATTTCTGCGGGGCTTCGGCTAACGGTTAGAGCGCCCCTCCGCGATTACA * AS:i:16 NM:i:0
read041 0 chr1 267 60 11S16M17D23M * 0 0 AACGGTTAGAGCGCCCCTCCGCGATTACACCCATGCGGATTATAAACGGG * AS:i:34 NM:i:20 SA:Z:chr1,283,+,7S4M39S,60,0;chr1,293,+,7M43S,60,0;
read039 2048 chr1 283 60 29S4M17S * 0 0 ATATTTCTGCGGGGCTTCGGCTAACGGTTAGAGCGCCCCTCCGCGATTAC * AS:i:4 NM:i:0
read040 2048 chr1 283 60 28S4M18S * 0 0 TATTTCTGCGGGGCTTCGGCTAACGGTTAGAGCGCCCCTCCGCGATTACA * AS:i:4 NM:i:0
read041 2048 chr1 283 60 7S4M39S * 0 0 AACGGTTAGAGCGCCCCTCCGCGATTACACCCATGCGGATTATAAACGGG * AS:i:4 NM:i:0
read039 2048 chr1 287 60 16S13M21S * 0 0 ATATTTCTGCGGGGCTTCGGCTAACGGTTAGAGCGCCCCTCCGCGATTAC * AS:i:13 NM:i:0
read040 2048 chr1 287 60 15S13M22S * 0 0 TATTTCTGCGGGGCTTCGGCTAACGGTTAGAGCGCCCCTCCGCGATTACA * AS:i:13 NM:i:0
read041 2048 chr1 293 60 7M43S * 0 0 AACGGTTAGAGCGCCCCTCCGCGATTACACCCATGCGGATTATAAACGGG * AS:i:7 NM:i:0
read042 0 chr1 301 60 36M14D14M * 0 0 ACCCATGCGGATTATAAACGGGATATTAAGGGCTTTAGGGCTAGCTAGGT * AS:i:46 NM:i:14
read042 256 chr1 301 60 22M14D28M * 0 0 ACCCATGCGGATTATAAACGGGATATTAAGGGCTTTAGGGCTAGCTAGGT * AS:i:46 NM:i:14
read043 0 chr1 302 60 35M14D15M * 0 0 CCCATGCGGATTATAAACGGGATATTAAGGGCTTTAGGGCTAGCTAGGTC * AS:i:46 NM:i:14
read043 256 chr1 302 60 21M14D29M * 0 0 CCCATGCGGATTATAAACGGGATATTAAGGGCTTTAGGGCTAGCTAGGTC * AS:i:46 NM:i:14
read044 0 chr1 303 60 34M14D16M * 0 0 CCATGCGGATTATAAACGGGATATTAAGGGCTTTAGGGCTAGCTAGGTCC * AS:i:46 NM:i:14
read044 256 chr1 303 60 20M14D30M * 0 0 CCATGCGGATTATAAACGGGATATTAAGGGCTTTAGGGCTAGCTAGGTCC * AS:i:46 NM:i:14
read045 0 chr1 305 60 32M14D18M * 0 0 ATGCGGATTATAAACGGGATATTAAGGGCTTTAGGGCTAGCTAGGTCCAA * AS:i:46 NM:i:14
read045 256 chr1 305 60 18M14D32M * 0 0 ATGCGGATTATAAACGGGATATTAAGGGCTTTAGGGCTAGCTAGGTCCAA * AS:i:46 NM:i:14
read046 0 chr1 337 60 32M11I7M * 0 0 ATATTAAGGGCTTTAGGGCTAGCTAGGTCCAAGGTAACGTGTAAGCTTTC * AS:i:35 NM:i:16
read047 0 chr1 338 60 31M11I8M * 0 0 TATTAAGGGCTTTAGGGCTAGCTAGGTCCAAGGTAACGTGTAAGCTTTCG * AS:i:35 NM:i:16
read048 0 chr1 339 60 30M11I9M * 0 0 ATTAAGGGCTTTAGGGCTAGCTAGGTCCAAGGTAACGTGTAAGCTTTCGG * AS:i:35 NM:i:16
read049 0 chr1 340 60 29M11I10M * 0 0 TTAAGGGCTTTAGGGCTAGCTAGGTCCAAGGTAACGTGTAAGCTTTCGGA * AS:i:35 NM:i:16
read050 0 chr1 351 60 18M11I16M11D5M * 0 0 AGGGCTAGCTAGGTCCAAGGTAACGTGTAAGCTTTCGGAACGTACCGGTA * AS:i:40 NM:i:11
read050 256 chr1 351 60 18M11I16M5S * 0 0 AGGGCTAGCTAGGTCCAAGGTAACGTGTAAGCTTTCGGAACGTACCGGTA * AS:i:35 NM:i:0
read051 0 chr1 445 60 27M23S * 0 0 CTGGGACGCTGTGACTGTACGGGGGGGACTAGCGATGCTAGCTAGCTAGC * AS:i:27 NM:i:0 SA:Z:chr1,11,+,27S23M,60,0;
read052 0 chr1 451 60 21M29S * 0 0 CGCTGTGACTGTACGGGGGGGACTAGCGATGCTAGCTAGCTAGCTCGGGC * AS:i:24 NM:i:0 SA:Z:chr1,11,+,21S24M5S,60,0;chr1,472,+,45S5M,60,0;
read052 256 chr1 451 60 21M24I5M * 0 0 CGCTGTGACTGTACGGGGGGGACTAGCGATGCTAGCTAGCTAGCTCGGGC * AS:i:21 NM:i:0
read052 2048 chr1 472 60 45S5M * 0 0 CGCTGTGACTGTACGGGGGGGACTAGCGATGCTAGCTAGCTAGCTCGGGC * AS:i:24 NM:i:0
read053 0 chr1 501 60 29M21S * 0 0 GGCCCGGCGTAACCCGGGTAACCCGGGTAACCCGGGTAACCCGGGTAACC * AS:i:29 NM:i:0 SA:Z:chr1,509,+,17S21M12S,60,0;chr1,509,+,35S15M,60,0;
read053 2048 chr1 509 60 17S21M12S * 0 0 GGCCCGGCGTAACCCGGGTAACCCGGGTAACCCGGGTAACCCGGGTAACC * AS:i:21 NM:i:0
read053 2048 chr1 509 60 35S15M * 0 0 GGCCCGGCGTAACCCGGGTAACCCGGGTAACCCGGGTAACCCGGGTAACC * AS:i:15 NM:i:0
read054 2048 chr1 509 60 26S24M * 0 0 TAACCCGGGTAACCCGGGTAACCCGGGTAACCCGGGTAACCCGGGTACGA * AS:i:24 NM:i:0
read055 2048 chr1 509 60 7S43M * 0 0 AACCCGGGTAACCCGGGTAACCCGGGTACGAACGCTTTACGCTAGGCAAA * AS:i:44 NM:i:0
read054 0 chr1 510 60 20M30S * 0 0 TAACCCGGGTAACCCGGGTAACCCGGGTAACCCGGGTAACCCGGGTACGA * AS:i:20 NM:i:0 SA:Z:chr1,509,+,26S24M,60,0;
read055 0 chr1 511 60 19M31S * 0 0 AACCCGGGTAACCCGGGTAACCCGGGTACGAACGCTTTACGCTAGGCAAA * AS:i:20 NM:i:0 SA:Z:chr1,509,+,7S43M,60,0;
read056 0 chr1 556 60 25M25S * 0 0 CTTCTTCGGGTTAATAAAAGGCCACTAGCAACTCTCCAAAACGTACGTAC * AS:i:25 NM:i:0 SA:Z:chr1,581,-,8S17M25S,60,0;chr1,598,+,42S8M,60,0;
read057 0 chr1 557 60 24M26S * 0 0 TTCTTCGGGTTAATAAAAGGCCACTAGCAACTCTCCAAAACGTACGTACG * AS:i:24 NM:i:0 SA:Z:chr1,581,-,9S17M24S,60,0;chr1,598,+,41S9M,60,0;
read058 0 chr1 558 60 23M27S * 0 0 TCTTCGGGTTAATAAAAGGCCACTAGCAACTCTCCAAAACGTACGTACGA * AS:i:23 NM:i:0 SA:Z:chr1,581,-,10S17M23S,60,0;chr1,598,+,40S10M,60,0;
read059 0 chr1 559 60 22M28S * 0 0 CTTCGGGTTAATAAAAGGCCACTAGCAACTCTCCAAAACGTACGTACGAG * AS:i:22 NM:i:0 SA:Z:chr1,581,-,11S17M22S,60,0;chr1,598,+,39S11M,60,0;
read060 0 chr1 560 60 21M29S * 0 0 TTCGGGTTAATAAAAGGCCACTAGCAACTCTCCAAAACGTACGTACGAGC * AS:i:21 NM:i:0 SA:Z:chr1,581,-,12S17M21S,60,0;chr1,598,+,38S12M,60,0;
read056 2064 chr1 581 60 8S17M25S * 0 0 CTTCTTCGGGTTAATAAAAGGCCACTAGCAACTCTCCAAAACGTACGTAC * AS:i:17 NM:i:0
read057 2064 chr1 581 60 9S17M24S * 0 0 TTCTTCGGGTTAATAAAAGGCCACTAGCAACTCTCCAAAACGTACGTACG * AS:i:17 NM:i:0
read058 2064 chr1 581 60 10S17M23S * 0 0 TCTTCGGGTTAATAAAAGGCCACTAGCAACTCTCCAAAACGTACGTACGA * AS:i:17 NM:i:0
read059 2064 chr1 581 60 11S17M22S * 0 0 CTTCGGGTTAATAAAAGGCCACTAGCAACTCTCCAAAACGTACGTACGAG * AS:i:17 NM:i:0
read060 2064 chr1 581 60 12S17M21S * 0 0 TTCGGGTTAATAAAAGGCCACTAGCAACTCTCCAAAACGTACGTACGAGC * AS:i:17 NM:i:0
read056 2048 chr1 598 60 42S8M * 0 0 CTTCTTCGGGTTAATAAAAGGCCACTAGCAACTCTCCAAAACGTACGTAC * AS:i:8 NM:i:0
read057 2048 chr1 598 60 41S9M * 0 0 TTCTTCGGGTTAATAAAAGGCCACTAGCAACTCTCCAAAACGTACGTACG * AS:i:9 NM:i:0
read058 2048 chr1 598 60 40S10M * 0 0 TCTTCGGGTTAATAAAAGGCCACTAGCAACTCTCCAAAACGTACGTACGA * AS:i:10 NM:i:0
read059 2048 chr1 598 60 39S11M * 0 0 CTTCGGGTTAATAAAAGGCCACTAGCAACTCTCCAAAACGTACGTACGAG * AS:i:11 NM:i:0
read060 2048 chr1 598 60 38S12M * 0 0 TTCGGGTTAATAAAAGGCCACTAGCAACTCTCCAAAACGTACGTACGAGC * AS:i:12 NM:i:0