YAbR10-OD1-MTB-1 (352+359) (+ 5621492 6436240) 12057732 15:IonXpressRNA_005 YAbR10-OD1-MTB-1 842,454,438 706,458,318 5,621,492 150 bp /data/images/proton2/run352/tophat_005/accepted_hits.bam 44:IonXpressRNA_005 YAbR10-OD1-MTB-1 916,026,602 742,556,395 6,436,240 142 bp UBAM BAM BAI /data/images/proton2/run359/tophat_005/accepted_hits.bam YAbR17-OD1-PACS2-2 (352+359) (+ 5200769 5585120) 10785889 19:IonXpressRNA_009 YAbR17-OD1-PACS2-2 937,928,414 739,172,823 5,200,769 180 bp /data/images/proton2/run352/tophat_009/accepted_hits.bam 45:IonXpressRNA_009 YAbR17-OD1-PACS2-2 943,778,267 723,979,546 5,585,120 169 bp UBAM BAM BAI /data/images/proton2/run359/tophat_009/accepted_hits.bam YAbR18-OD1-PACS2-3 (352+359) (+ 6041241 6175134) 12216375 20:IonXpressRNA_010 YAbR18-OD1-PACS2-3 1,103,179,850 873,462,269 6,041,241 183 bp /data/images/proton2/run352/tophat_010/accepted_hits.bam 46:IonXpressRNA_010 YAbR18-OD1-PACS2-3 1,061,274,850 818,346,022 6,175,134 172 bp UBAM BAM BAI /data/images/proton2/run359/tophat_010/accepted_hits.bam YAbR20r-OD3-B133-2 (353+361) (+ 4479662 7851693) 12331355 25:IonXpressRNA_007 YAbR20r-OD3-B133-2 918,107,710 740,392,660 4,479,662 205 bp /data/images/proton2/run353/tophat_007/accepted_hits.bam 56:IonXpressRNA_007 YAbR20r-OD3-B133-2 1,658,525,609a 1,388,801,776 7,851,693 211 bp UBAM BAM BAI /data/images/proton2/run361/tophat_007/accepted_hits.bam YAbR22-OD3-C3719-1 (353+361) (+ 6938805 7576328) 14515133 26:IonXpressRNA_008 YAbR22-OD3-C3719-1 1,283,465,716 1,012,475,955 6,938,805 185 bp /data/images/proton2/run353/tophat_008/accepted_hits.bam 57:IonXpressRNA_008 YAbR22-OD3-C3719-1 1,440,942,048 1,160,657,018 7,576,328 190 bp UBAM BAM BAI /data/images/proton2/run361/tophat_008/accepted_hits.bam YAbR24-OD3-C3719-3 (347+362) (+ 5,292,837 3575891) 4:IonXpress_005 YAbR24-OD3-C3719-3 456,214,990 422,243,062 5,292,837 86 bp /data/images/proton2/run347/tophat_005/accepted_hits.bam 64:IonXpress_005 YAbR24-OD3-C3719-3 315,450,068 278,622,155 3,575,891 88 bp UBAM BAM BAI /data/images/proton2/run362/tophat_005/accepted_hits.bam YAbR28r-OD3-MTB-1 (353+361) (+ 3920724 20022066) 23942790 27:IonXpressRNA_009 YAbR28r-OD3-MTB-1 768,856,172 596,886,364 3,920,724 196 bp /data/images/proton2/run353/tophat_009/accepted_hits.bam 58:IonXpressRNA_009 YAbR28r-OD3-MTB-1 4,083,251,110 3,273,823,106 20,022,066 204 bp UBAM BAM BAI /data/images/proton2/run361/tophat_009/accepted_hits.bam YAbR3-OD1-B133-3 (352+361) (+ 6309153 4625031) 10934184 14:IonXpressRNA_002 YAbR3-OD1-B133-3 1,101,577,253 902,232,736 6,309,153 175 bp /data/images/proton2/run352/tophat_002/accepted_hits.bam 49:IonXpressRNA_002 YAbR3-OD1-B133-3 783,296,198 585,756,624 6,484,474 121 bp UBAM BAM BAI /data/images/proton2/run360/tophat_002/accepted_hits.bam YAbR30-OD3-MTB-3 (353+361) (+ 6267070 12349936) 18617006 28:IonXpressRNA_010 YAbR30-OD3-MTB-3 1,308,594,915 1,041,947,369 6,267,070 209 bp /data/images/proton2/run353/tophat_010/accepted_hits.bam 59:IonXpressRNA_010 YAbR30-OD3-MTB-3 2,636,618,553 2,168,428,874 12,349,936 213 bp UBAM BAM BAI /data/images/proton2/run361/tophat_010/accepted_hits.bam YAbR32-OD3-PA14-2 (353+361) (+ 6325292 9723368) 16048660 29:IonXpressRNA_011 YAbR32-OD3-PA14-2 1,213,067,393 929,876,702 6,325,292 192 bp /data/images/proton2/run353/tophat_011/accepted_hits.bam 60:IonXpressRNA_011 YAbR32-OD3-PA14-2 1,931,830,134 1,521,971,519 9,723,368 199 bp UBAM BAM BAI /data/images/proton2/run361/tophat_011/accepted_hits.bam YAbR33-OD3-PA14-3 (353+361) (+ 5422618 9305188) 14727806 30:IonXpressRNA_012 YAbR33-OD3-PA14-3 1,046,247,351 837,226,768 5,422,618 193 bp /data/images/proton2/run353/tophat_012/accepted_hits.bam 61:IonXpressRNA_012 YAbR33-OD3-PA14-3 1,857,275,330 1,514,294,519 9,305,188 200 bp UBAM BAM BAI /data/images/proton2/run361/tophat_012/accepted_hits.bam YAbR8-OD1-CF5-2 (353+361) (+ 5664178 13040284) 18704462 23:IonXpressRNA_005 YAbR8-OD1-CF5-2 1,164,510,433 920,067,232 5,664,178 206 bp /data/images/proton2/run353/tophat_005/accepted_hits.bam 54:IonXpressRNA_005 YAbR8-OD1-CF5-2 2,735,073,563 2,229,450,791 13,040,284 210 bp UBAM BAM BAI /data/images/proton2/run361/tophat_005/accepted_hits.bam YAbR9-OD1-CF5-3 (353+361) (+ 6238363 5795544) 12033907 24:IonXpressRNA_006 YAbR9-OD1-CF5-3 1,163,543,255 938,795,291 6,238,363 187 bp /data/images/proton2/run353/tophat_006/accepted_hits.bam 55:IonXpressRNA_006 YAbR9-OD1-CF5-3 1,105,588,496 913,936,368 5,795,544 191 bp UBAM BAM BAI /data/images/proton2/run361/tophat_006/accepted_hits.bam /data/images/proton2/external/Apidianakis/run362/bam-files/ samtools merge merged.bam in.1.bam in.2.bam samtools merge /data/images/proton2/external/Apidianakis/run362/bam-files/YAbR10-OD1-MTB-1.bam /data/images/proton2/run352/tophat_005/accepted_hits.bam /data/images/proton2/run359/tophat_005/accepted_hits.bam samtools merge /data/images/proton2/external/Apidianakis/run362/bam-files/YAbR17-OD1-PACS2-2.bam /data/images/proton2/run352/tophat_009/accepted_hits.bam /data/images/proton2/run359/tophat_009/accepted_hits.bam samtools merge /data/images/proton2/external/Apidianakis/run362/bam-files/YAbR18-OD1-PACS2-3.bam /data/images/proton2/run352/tophat_010/accepted_hits.bam /data/images/proton2/run359/tophat_010/accepted_hits.bam samtools merge /data/images/proton2/external/Apidianakis/run362/bam-files/YAbR20r-OD3-B133-2.bam /data/images/proton2/run353/tophat_007/accepted_hits.bam /data/images/proton2/run361/tophat_007/accepted_hits.bam samtools merge /data/images/proton2/external/Apidianakis/run362/bam-files/YAbR22-OD3-C3719-1.bam /data/images/proton2/run353/tophat_008/accepted_hits.bam /data/images/proton2/run361/tophat_008/accepted_hits.bam samtools merge /data/images/proton2/external/Apidianakis/run362/bam-files/YAbR24-OD3-C3719-3.bam /data/images/proton2/run347/tophat_005b/accepted_hits.bam /data/images/proton2/run362/tophat_005/accepted_hits.bam samtools merge /data/images/proton2/external/Apidianakis/run362/bam-files/YAbR28r-OD3-MTB-1.bam /data/images/proton2/run353/tophat_009/accepted_hits.bam /data/images/proton2/run361/tophat_009/accepted_hits.bam samtools merge /data/images/proton2/external/Apidianakis/run362/bam-files/YAbR3-OD1-B133-3.bam /data/images/proton2/run352/tophat_002/accepted_hits.bam /data/images/proton2/run360/tophat_002/accepted_hits.bam samtools merge /data/images/proton2/external/Apidianakis/run362/bam-files/YAbR30-OD3-MTB-3.bam /data/images/proton2/run353/tophat_010/accepted_hits.bam /data/images/proton2/run361/tophat_010/accepted_hits.bam samtools merge /data/images/proton2/external/Apidianakis/run362/bam-files/YAbR32-OD3-PA14-2.bam /data/images/proton2/run353/tophat_011/accepted_hits.bam /data/images/proton2/run361/tophat_011/accepted_hits.bam samtools merge /data/images/proton2/external/Apidianakis/run362/bam-files/YAbR33-OD3-PA14-3.bam /data/images/proton2/run353/tophat_012/accepted_hits.bam /data/images/proton2/run361/tophat_012/accepted_hits.bam samtools merge /data/images/proton2/external/Apidianakis/run362/bam-files/YAbR8-OD1-CF5-2.bam /data/images/proton2/run353/tophat_005/accepted_hits.bam /data/images/proton2/run361/tophat_005/accepted_hits.bam samtools merge /data/images/proton2/external/Apidianakis/run362/bam-files/YAbR9-OD1-CF5-3.bam /data/images/proton2/run353/tophat_006/accepted_hits.bam /data/images/proton2/run361/tophat_006/accepted_hits.bam #/data/images/proton2/run347/tophat_005/accepted_hits.bam #reczko@max:/data/images/proton2/run353$ [bam_merge_core] different target sequence name: 'NZ_CH482383.1' != 'NC_008463.1' in file '/data/images/proton2/run362/tophat_005/accepted_hits.bam' ln -s /data/images/proton2/run352/tophat_001/accepted_hits.bam YAbR1-OD1-B133-1.bam ln -s /data/images/proton2/run352/tophat_006/accepted_hits.bam YAbR11-OD1-MTB-2.bam ln -s /data/images/proton2/run352/tophat_007/accepted_hits.bam YAbR13-OD1-PA14-.bam ln -s /data/images/proton2/run352/tophat_008/accepted_hits.bam YAbR14-OD1-PA14-.bam ln -s /data/images/proton2/run347/tophat_003b/accepted_hits.bam YAbR21-OD3-B133-3.bam ln -s /data/images/proton2/run354/tophat_011/accepted_hits.bam YAbR25-OD3-CF5-1.bam ln -s /data/images/proton2/run354/tophat_012/accepted_hits.bam YAbR27-OD3-CF5-.bam ln -s /data/images/proton2/run354/tophat_013/accepted_hits.bam YAbR34r-OD3-PACS2-.bam ln -s /data/images/proton2/run354/tophat_014/accepted_hits.bam YAbR36-OD3-PACS2-.bam ln -s /data/images/proton2/run354/tophat_003/accepted_hits.bam YAbR4-OD1-C3719-1.bam ln -s /data/images/proton2/run354/tophat_014/accepted_hits.bam YAbR36-OD3-PACS2-3.bam ln -s /data/images/proton2/run354/tophat_004/accepted_hits.bam YAbR5r-OD1-C3719-.bam #/data/images/proton2/run347/wwwDrApidianakis