sequence.
This is what the same file looked like. Is it supposed to look like this? I tried to google the sam format and I wasn't too sure what went wrong or if I did it right.
This is what the same file looked like. Is it supposed to look like this? I tried to google the sam format and I wasn't too sure what went wrong or if I did it right.
Code:
2010 147 Serratia 4602318 54 74M = 4601933 -459 GGCATCGGCGACCGCACCCTCGACGTTGTGCGCCAGGCGGCGCGCGATCGCCAACTGACGTTGTGGCGGGCGAC @@9)):D@=0+<)D:3))<)3<5C+BCCCDCDE5+*>555+55+CE+C7EC>A86++A<@9<5+5++++<55<< NM:i:5 AS:i:49 XS:i:0 M00532:8:000000000-A17VF:1:1101:15815:2019 99 Serratia 5016228 60 227M = 5016443 403 GTGCTGGCCGCCGCCGGCGCGCGCGTGATCCTCAACGGCTTCGGCGATGTGGAAGCGGCGAAGACGCAGGTTGCCCGGCTGGGCGCCGCGCCGGGGTATCACGGCGCCGATCTCGGCGATGCGGCCCAGATAGCGGACATGATGCAGTATGCCGAACGTGAGTTCGGCGGCGTGGACATTCTGGTGAACAACGCCGGCATTCAGCACGTGGCGCCGCTGGATCAGTT ??<??<9?BB@BBB<BCCCCCCHHAC7EF;FDGHHHEHEHHFC:CC:DDD@;;@@DEE@@7??EE8:6;;CEE?EEE?;;?AAE62;;;2;;?;??4?EEEE?8;????;??EEAEE;?;882;???EEEEEEE;?;8'??CEAEEEA:A:?C88;?;8ACE?:C)'8.2;2''48A*//?C::/:??AECE;;'';828CEE****.*.)'5?2;;;4;C?EEA0A NM:i:16 AS:i:147 XS:i:0 M00532:8:000000000-A17VF:1:1101:15815:2019 147 Serratia 5016443 60 188M = 5016228 -403 GCTGGATCAGTTCCCGGTGGAGAAATGGAACGCCATCCTCGCCATCAACCTGTCGGCGGTGTTCCACACTTGCCGATTGGCGCTGCCGGGCATGCGCGAGCGCCACTGGGGGCGCATCATCAACGTAGCGTCGGTGCACGGGCTGGTGGCGTCGAAAGACAAGTCGGCCTATGTGGCGGCCAAGCACG CEE:?*:**.';8'8AC?0E?*::*??EDE>:)CA2;4'5:::*?:CC?2DD?D?DDEEEE?:):C?:82?;EECE8E8D>?'DD?EC:?))''8EEE<EBECEEEBEEEEEEHHHHFHHHHHHHDDHEECHHDFE@HHHFHFFHHEHEADFDHHGGHF?HCCCEFC>AFFFDD@@7DBDBB?????? NM:i:6 AS:i:158 XS:i:19 M00532:8:000000000-A17VF:1:1101:13390:2020 99 Serratia 4718589 60 252M = 4719007 534 AAATTGCTGCAGGGGCGTTGGATGCAGGGCGAGGTGCAAACCTGCGACGGCCAAAGCATGAAACCGGGACTGGATGCCGCCTCCATCGTCTGGATCGAGAAGCGTGCCCGCAGCAGCAGCCGGCCGGTGAGCGTCGCCTGGCTGGAAGCGCCGGAAGGCAGCGAACTGCTGCTGGTGGCGAACGACGATTTCTGCAGCTGGTGACCGACAGAAGACCCACTATAAACAAGACCCCGCGCTGCGGAGCCTCTT ?????BBBD<B9B@DBFCCFFFFHFHF->EECAC+CCFHHHHH,?>CCHHBCHHHFHHFDFFHDFCEB>@EF@DDB??)@BEEFF;CAAA?AAEEFEEFFECEDEEEEFEDD8DFCCCE*?'8;DDD4'?*:;;EDDE88?AECEEEFF>DDDDD8AEEFE?DD>8C:C:**:*::*??>?D?;?;>;8AEFFFF?A***0**110;;'.'1??*?A*..00:**?*1?0*00..5'4;''.''....:*1: NM:i:24 AS:i:132 XS:i:0 M00532:8:000000000-A17VF:1:1101:13390:2020 147 Serratia 4719007 60 116M = 4718589 -534 GCCGCTGGTGACGACGTCATCGCCCTGCAGGCGCGTACCGGCGTGGAAGACCTTACCGTCGGCGCTTTCCTGCTGCGGTAGCCCCTGGATAACCTCACCGTTGCGATAGTCGCCCG <;8<(=;<96''666;6(2<<?29;E9<<;83@@@:8:=DEDEED@9ED;+D@CD5CCCC=CDEEEEEEDEC>CCCE@ECCCCEFGEEEEC8,CC+>@CC@@@@@@7@=<7==,9= NM:i:7 AS:i:83 XS:i:0 M00532:8:000000000-A17VF:1:1101:17000:2031 77 * 0 0 * * 0 0 AGGGCAACCACAACCCTCTGATGCAAATGCTCTAATGATCGTCCCTCATCCGATTTAAGAGCATTGATTAAGAGAGGTAGCTCAAGAGACTTGTTAAGAGGACCACCTTCGGGATCTTC ????????DDDDEEDDGGGGGGIIHIIHIIIIHHIIGHHIIHIHHIIIIHIHHHHHHHIHIHIIIFGHHIIIIIHHHHHDHHIHDGFFEEGHIIIIIIHHDFFHHHHGHHHHHHHGGGG AS:i:0 XS:i:0 M00532:8:000000000-A17VF:1:1101:17000:2031 141 * 0 0 * * 0 0 AACTCCGAAATCAGAGAATCGTTCAAAGGTCATGTTGCCGACCGACTTAAACGAATATCGACCCATGCGGGCTATGCAGTGTATCAGGATGTCTGGAGAGAGGTGCTGAGACATTGGGGTAACCCAGCACCTCAAGTTGATACAGAGTCACACCTAATAGATCTGTTTGAAATCGCTATCAATCGTGCTCGTTCACAAAAAAGGTTAT ?A??AB?ADDDBDDBBFGGGGGHHHIIHIEFFHHHIIIHHHHHHHHHHIHEFHHHIIFHIHHHHHIHHEHEHBFHHHHHD,4CFGEFGGGDFGFGEDDD@E@D4A>C->ACGGGGGGGG@CEEGCC8CEGGGCE??C*0:?CEGECCCEGCEGCEGG?CGECEEG:CEGGCC?*8C9CCCE:**.0CCC:C289??CGGCC288:::: AS:i:0 XS:i:0 M00532:8:000000000-A17VF:1:1101:14261:2037 83 Serratia 3418147 60 148M106S = 3418067 -228 TGATTTCTCACCAATCAATACCTCTGGGATCACCTACTCTAGAGAGATGGCGTGCAGGAAACTACCGCCGAATCGCAAGAGTTCTGCTCCAAATGCAACCAGCTGTAAATTTCCCGCGATCTGCTGTAATAACTCAATGAAACTTAAACCTTCCCGCAGCGACGAAAATAAATATAACAACGACGAGCCAGTGACCCAGACGTGAAATCTTCACTCATCGCGCGCTGACCTCGACCAGGCAGCTCATGGCGTTC :1*:1*0*)***:*A:CA::C8??:A1::***00110*::EAA?AEEE?2)A0**EFEC:182..'DE?FFFD>EAFEEECFEFEA??*CEFFEFEFFFFEC:?AEFFEA8?D>DEFFFFEEECEEEFFEEEEA?CEC:CCAEECCC=BE@@EBE@:EEFEFADDFHHHHHHHHFFFBEDED=HHHHHHHHHFFHHFHHHHHGFHHHFHHHFGHHHHHEHEHHHFHHHHHHHFFFFFFDBBBDBBD?@?????? NM:i:3 AS:i:133 XS:i:0 M00532:8:000000000-A17VF:1:1101:14261:2037 163 Serratia 3418067 60 149M = 3418147 228 ACTATATGGCAGGCAAAAAAAAACCTACGCATCCGCGTAGGTTGGTGCAATTGAAAATGGCTTCAACATACAGAGTATGCTGATTTCTCACCAATCAATACCTCTGGGATCACCTACTCTAGAGAGATGGCGTGCAGGAAACTACCGCC ?????BBBDDDDDDDEGGGGGGHHHIHFEHHEHIEHE>FHDCGFCH;GHFHHGFIIIIIIBFFFHFDDC,@FDFDCFHHHHHHHHHFHFGGGGGFFFGEGGG.4D>D=EGGGGGGGGCEGGCCCE8;A->C8C2CE?CGCCGGGG:28A NM:i:1 AS:i:144 XS:i:0 M00532:8:000000000-A17VF:1:1101:14313:2053 99 Serratia 293636 60 15S208M = 294091 552 TTTGCGTGCAGCTGATGAGGTTGCATTTTATTACAACTGTGTCTGCCGCTTTCGGAATCATGTTAATGATTACTTAAGAAATTCGGCTCACATTGAGGGCTTAACCCAAGGAGGCCTCAATGTTAAATGCGACCCGGCTGCAACTGATGAATCACTTCGCTTACCTGCAGCAATTTATGGCTTCACCGCGCACCGTCGGTACGCTGGCACCTTCTTCCCCGTG ?????@=?D-5<BDBBFCFFC;CFFF;>EAEFFFGHHHFBD?EGFGGC+>EFH@7EDFHHFGHFHHHHHDEHFHHHGGHHHHHGFDEHHGCEEHGHHHEEHFHHHHHHHFDD;D:FF,B?4DDFEEEEBDE@@<@BEBEBEEEE:EEC:A**::AAAEEAEEEEEE??CEECE:*::?AAC:8*0?*).8;8;''8?2>8?))58A2):C)?0::EE0:C8?A NM:i:4 AS:i:188 XS:i:0 M00532:8:000000000-A17VF:1:1101:14313:2053 147 Serratia 294091 60 97M = 293636 -552 CTGCCTCTGCTGTCGATCCCGGTCAGGATCAGCGTGCGCATTCTTCAGCAGGCCCGGCAGCGGCTGCTGGCGCGCAACGGCACGCTGGTGCTGTTCC 9?::*7EE@:::*:8*@@@8+<+;+@:DC9;CCDDEEEEEEDEECA=EEDDC>C5ECC7CC@E;DA+@CCCC79EC+CA+E@<-@@@@@>>9===<= NM:i:3 AS:i:85 XS:i:0 M00532:8:000000000-A17VF:1:1101:11897:2065 99 Serratia 4185170 60 243M11S = 4185331 352 TTTCCCTGAAAAGATAACGTATTGAGGATTCACCATGAGCATCAAAAATATTTTACCCGGCAAGATCGGTTTGGGCGGCGCGCCGCTCGGCAATATGTACCGCGCCATTCCAGAAGAAGAAGCGCGGGCTACCGTAACCAGCGCCTGGGACTTGGGCATCCGCTACTTCGACACCGCGCCGCTTTACGGTTCCGGCCTGTCGGAAATTCGCATGGGCGAAGCGCTTTCTCAGTACCCACGCGATGAGTTCGTAC AAAAABBBDDDDDDDDGFEFGFFHHHFFHIFCFGHHFFHIIIHIIHHIHHHIIIIHHIHHHHHHFHIFFCFHEEHHHHHHEGGGEGGGGGGGGGGGGEGCCC'8>>EGGGGGCCGGGGGGGGEGGGGGGGCEC>EGGEGEEGGGDEEGGGGEEG?EGGGGGGGEDDGG?EGECAG8>A>DDGGGGGGEECECEC<>AG8:*8.48<*?EEEGECCEEA<24<G<)8??EGCC:::?C?C8C8<8CEG1:*08:C NM:i:28 AS:i:103 XS:i:0 M00532:8:000000000-A17VF:1:1101:11897:2065 147 Serratia 4185331 60 191M = 4185170 -352 GCTACTTCGACACCGCGCCGCTTTACGGGTCCGGCCTGTCGGAAATTCGCATGGGCGAAGCGCTTTCTCAGTACCCACGCGATGAGTTCGTACTGAGCACTAAAGTGGGCCGCATCATGCTGGACGAAATGGAAGATCCCGCCGCCCGCGATCTGGGTGAGAAAGGCGGCCTGTTCGAACACGGTTTGAAA ::C?ECCC:88.428>D<C?C8)>8<85'>D<C80'88??CCEEADGGEEEEGGE>GGGGEECGGEEECECE>DGG>DEGGGGGGGGEEEC:GGGC?CEGGGGGGGGGG>DCGEGGGGGEGEE?ECC;GEGGGGGGGGGHDHHHHDHHHHHHHIIIIHIHGIHHFEEIIGGGGGGDDDDDDDDBBB????? NM:i:22 AS:i:85 XS:i:0 M00532:8:000000000-A17VF:1:1101:18758:2082 121 Serratia 2219275 60 247M = 2219275 0 GTAGCTCCATGCCAACCCCAAGGCCAGAAAGCCGTTGTACAGCCCCTGATTGGCGGCCAACNCCCGCGTGGCTGCGGCGAACTCCGCCGTTGTGCCGAATGCGCGCCTGCCGAGTGGCGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNATGNAGCGCTGCGATGAGCAGCAGCAANATATCNGCAAAGAACTTCATGGTGGTNCCAGTCGTTTNTTGAAGATGTCATCAATTATAAACT :CCCEC?9?C:'2..88::CCC:0*:E:.4'..*C:CCECAGDC:**GE><4'<?:?.000#5DDE<EGE<A>D>CDC:?8GGGG>GGGGGGDGGGGGGGGGGGGGGGGGEGEC??444#####################################F?6#HHHHHHHIIIIIIIHIIIHFCA5#EFEA5#IHHIIHHHIHHIHIHFFFA7#HHEHHHFFA7#HFHGGGGGGDDDDDDDDBBBA???? NM:i:56 AS:i:100 XS:i:0
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