Mercurial > repos > iuc > samtools_fastx
diff test-data/bam2fq.005.sam @ 1:a8d69aee190e draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_fastx commit 60257e09a1aadf54bb2f06cbe1e88db6fd835e83
| author | iuc |
|---|---|
| date | Fri, 28 Sep 2018 04:39:19 -0400 |
| parents | |
| children |
line wrap: on
line diff
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/bam2fq.005.sam Fri Sep 28 04:39:19 2018 -0400 @@ -0,0 +1,65 @@ +@HD VN:1.4 SO:queryname +@RG ID:grp1 DS:Group 1 LB:Library 1 SM:Sample +@RG ID:grp2 DS:Group 2 LB:Library 2 SM:Sample +@RG ID:grp3 DS:Group 3 LB:Library 3 SM:Sample +@PG ID:prog1 PN:emacs CL:emacs VN:23.1.1 +@CO The MIT License +@CO +@CO Copyright (c) 2014, 2015 Genome Research Ltd. +@CO +@CO Permission is hereby granted, free of charge, to any person obtaining a copy +@CO of this software and associated documentation files (the "Software"), to deal +@CO in the Software without restriction, including without limitation the rights +@CO to use, copy, modify, merge, publish, distribute, sublicense, and/or sell +@CO copies of the Software, and to permit persons to whom the Software is +@CO furnished to do so, subject to the following conditions: +@CO +@CO The above copyright notice and this permission notice shall be included in +@CO all copies or substantial portions of the Software. +@CO +@CO THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR +@CO IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, +@CO FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE +@CO AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER +@CO LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, +@CO OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN +@CO THE SOFTWARE. +@SQ SN:ref1 LN:56 M5:08c04d512d4797d9ba2a156c1daba468 +@SQ SN:ref2 LN:60 M5:7c35feac7036c1cdef3bee0cc4b21437 +ref1_grp1_p001 99 ref1 1 0 10M = 25 34 CGAGCTCGGT !!!!!!!!!! MD:Z:10 NM:i:0 RG:Z:grp1 BC:Z:AC-GT H0:i:1 aa:A:! ab:A:~ fa:f:3.14159 za:Z:Hello world! ha:H:DEADBEEF ba:B:c,-128,0,127 bb:B:C,0,127,255 bc:B:s,-32768,0,32767 bd:B:S,0,32768,65535 be:B:i,-2147483648,0,2147483647 bf:B:I,0,2147483648,4294967295 bg:B:f,2.71828,6.626e-34,2.9979e+09 +ref1_grp1_p001 147 ref1 25 12 10M = 1 -34 TAGAGTCGAC ---------- MD:Z:10 NM:i:0 RG:Z:grp1 +ref1_grp1_p002 99 ref1 5 2 10M = 29 34 CTCGGTACCC ########## MD:Z:10 NM:i:0 RG:Z:grp1 BC:Z:AATT+CCGG H0:i:1 aa:A:a ab:A:z fa:f:4.3597e-18 za:Z:Another string ha:H:2000AD +ref1_grp1_p002 147 ref1 29 14 10M = 5 -34 GTCGACCTGC ////////// MD:Z:10 NM:i:0 RG:Z:grp1 +ref1_grp1_p003 99 ref1 9 4 10M = 33 34 GTACCCGGGG %%%%%%%%%% MD:Z:10 NM:i:0 fa:f:1.66e-27 RG:Z:grp1 +ref1_grp1_p003 147 ref1 33 16 10M = 9 -34 ACCTGCAGGC 1111111111 MD:Z:10 NM:i:0 RG:Z:grp1 +ref1_grp1_p004 99 ref1 13 6 10M = 37 34 CCGGGGATCC '''''''''' MD:Z:10 NM:i:0 fa:f:1.38e-23 za:Z:xRG:Z:grp2 RG:Z:grp1 +ref1_grp1_p004 147 ref1 37 18 10M = 13 -34 GCAGGCATGC 3333333333 MD:Z:10 NM:i:0 RG:Z:grp1 +ref1_grp1_p005 99 ref1 17 8 10M = 41 34 GGATCCTCTA )))))))))) MD:Z:10 NM:i:0 RG:Z:grp1 ia:i:40000 +ref1_grp1_p005 147 ref1 41 20 10M = 17 -34 GCATGCAAGC 5555555555 MD:Z:10 NM:i:0 RG:Z:grp1 +ref1_grp1_p006 99 ref1 21 10 10M = 45 34 CCTCTAGAGT ++++++++++ MD:Z:10 NM:i:0 RG:Z:grp1 ia:i:255 +ref1_grp1_p006 147 ref1 45 22 10M = 21 -34 GCAAGCTTGA 7777777777 MD:Z:10 NM:i:0 RG:Z:grp1 +ref1_grp2_p001 99 ref1 3 1 8M2S = 27 34 AGCTCGGTAC """""""""" MD:Z:8 NM:i:0 RG:Z:grp2 BC:Z:TG+CA QT:Z:ab+cd H0:i:1 aa:A:A ab:A:Z fa:f:6.67e-11 za:Z:!"$%^&*() ha:H:CAFE +ref1_grp2_p001 2147 ref1 11 1 8H2M = 27 34 AC "" MD:Z:2 NM:i:0 RG:Z:grp2 BC:Z:TG-CA H0:i:1 aa:A:A ab:A:Z fa:f:6.67e-11 za:Z:!"$%^&*() ha:H:CAFE +ref1_grp2_p001 147 ref1 27 13 10M = 3 -34 GAGTCGACCT .......... MD:Z:10 NM:i:0 RG:Z:grp2 +ref1_grp2_p002a 99 ref1 7 3 10M = 31 34 CGGTACCCGG $$$$$$$$$$ MD:Z:10 NM:i:0 fa:f:6.022e+23 RG:Z:grp2 +ref1_grp2_p002 99 ref1 7 3 10M = 31 34 CGGTACCCGG $$$$$$$$$$ MD:Z:10 NM:i:0 fa:f:6.022e+23 RG:Z:grp2 +ref1_grp2_p002 147 ref1 31 15 10M = 7 -34 CGACCTGCAG 0000000000 MD:Z:10 NM:i:0 RG:Z:grp2 +ref1_grp2_p003 99 ref1 11 5 10M = 35 34 ACCCGGGGAT &&&&&&&&&& MD:Z:10 NM:i:0 RG:Z:grp2 ia:i:4294967295 +ref1_grp2_p003 147 ref1 35 17 10M = 11 -34 CTGCAGGCAT 2222222222 MD:Z:10 NM:i:0 RG:Z:grp2 +ref1_grp2_p004 99 ref1 15 7 10M = 39 34 GGGGATCCTC (((((((((( MD:Z:10 NM:i:0 RG:Z:grp2 ia:i:-2147483648 +ref1_grp2_p004 147 ref1 39 19 10M = 15 -34 AGGCATGCAA 4444444444 MD:Z:10 NM:i:0 RG:Z:grp2 +ref1_grp2_p005 99 ref1 19 9 10M = 43 34 ATCCTCTAGA ********** MD:Z:10 NM:i:0 RG:Z:grp2 ia:i:-1000 +ref1_grp2_p005 147 ref1 43 21 10M = 19 -34 ATGCAAGCTT 6666666666 MD:Z:10 NM:i:0 RG:Z:grp2 +ref1_grp2_p006 99 ref1 23 11 10M = 47 34 TCTAGAGTCG ,,,,,,,,,, MD:Z:10 NM:i:0 RG:Z:grp2 ia:i:-1 +ref1_grp2_p006 147 ref1 47 23 10M = 23 -34 AAGCTTGAGT 8888888888 MD:Z:10 NM:i:0 RG:Z:grp2 +ref2_grp3_p001 83 ref2 1 99 15M = 31 45 ATTCTATAGTGTCAC ~~~~~~~~~~~~~~~ MD:Z:15 NM:i:0 RG:Z:grp3 +ref2_grp3_p001 163 ref2 31 99 15M = 1 -45 CTGTTTCCTGTGTGA ||||||||||||||| MD:Z:0T0A0A1C0A0T0G0G0T0C0A1A0G0 NM:i:13 RG:Z:grp3 +ref2_grp3_p002 99 ref2 46 99 15M = 16 -45 CTGTTTCCTGTGTGA {{{{{{{{{{{{{{{ MD:Z:15 NM:i:0 RG:Z:grp3 +ref2_grp3_p002 147 ref2 16 99 15M = 46 45 CTAAATAGCTTGGCG }}}}}}}}}}}}}}} MD:Z:15 NM:i:0 RG:Z:grp3 +ref2_grp3_p003 99 ref2 1 99 15M = 1 15 ACGTMRWSYKVHDBN 0123456789abcd! MD:Z:1T0T0C0T0A0T0A0G0T0G0T0C0A0C0 NM:i:14 RG:Z:grp3 +ref2_grp3_p003 147 ref2 1 99 15M = 1 -15 NVHDBMRSWYKACGT !dcba9876543210 MD:Z:0A0T0T0C0T0A0T0A0G0T0G0T1A0C0 NM:i:14 RG:Z:grp3 +ref12_grp1_p001 97 ref1 36 50 10M ref2 2 0 TGCAGGCATG AAAAAAAAAA MD:Z:10 NM:i:0 RG:Z:grp1 +ref12_grp1_p001 145 ref2 2 50 10M ref1 36 0 TTCTATAGTG BBBBBBBBBB MD:Z:10 NM:i:0 RG:Z:grp1 +ref12_grp2_p001 97 ref1 46 50 10M ref2 12 0 CAAGCTTGAG AAAAAAAAAA MD:Z:10 NM:i:0 RG:Z:grp2 +ref12_grp2_p001 145 ref2 12 50 10M ref1 46 0 TCACCTAAAT BBBBBBBBBB MD:Z:10 NM:i:0 RG:Z:grp2 +unaligned_grp3_p001 77 * 0 0 * * 0 0 CACTCGTTCATGACG 0123456789abcde RG:Z:grp3