| New junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP000730 | 2085296 = | 26 (0.820) | 30 (1.060) | 21/232 | NT | 56.5% | intergenic (‑558/‑400) | mapW2/USA300HOU_1944 | cell surface protein MapW2/hypothetical protein |
| ? | CP000730 | = 2128343 | 23 (0.810) | intergenic (+57/+1062) | int/USA300HOU_2011 | bacteriophage integrase/possible leukocidin subunit | |||||
TACATCCGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGC‑GCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCATCAGACAAATTATTAAGTAATGTGAAAA > CP000730/2128205‑2128478 | tACATCCGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACACAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtg < 1:253415‑M2/141‑3 (MQ=255) aCATCCGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGAATCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgt < 1:132945‑M2/141‑4 (MQ=255) aCATCCGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGAGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAAGATTCTAtgt < 2:118388‑M2/141‑4 (MQ=255) aTCCGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGAACCATTAGGGACTCCAAACACAATAAATACTGTTGTTACAAGGTTTCTAtgtat < 1:55647‑M2/141‑6 (MQ=255) ccGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatcc < 1:323772‑M2/141‑8 (MQ=255) gtATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaac > 1:144900‑M2/1‑130 (MQ=255) gtATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaac > 1:343572‑M2/1‑130 (MQ=255) tctcATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACACATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactgga < 2:227578‑M2/141‑16 (MQ=255) cATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactcgagac < 2:278184‑M2/141‑19 (MQ=255) ttAGAAGAAAAACTTAAAGAAAAAGACAAAAAAATAACTAAATTTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAAtata < 1:143118/141‑1 (MQ=255) agaaAAATTGAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAAcgc < 1:79022/141‑1 (MQ=255) gaaAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTGTGTAATTTAGGGACCCATTAGGGACTCCAAAACCAATAAATGCTATTGTTACAAGGTTTCTGtgtatgcaaactggagacttttaacataaa < 1:43537‑M2/141‑31 (MQ=255) aaaaTTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaat > 1:23905‑M2/1‑109 (MQ=255) tAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattactta > 1:212445‑M2/1‑103 (MQ=255) tGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatca < 1:291245‑M2/141‑42 (MQ=255) tGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatca > 2:4191‑M2/1‑100 (MQ=255) gAAGAGGAAAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcat > 2:188943‑M2/1‑99 (MQ=255) aaaaaCAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAAAGC‑GCTGATTTAATCGGACAAtcttct > 1:117507/1‑141 (MQ=255) aaaCAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGAAATATAATCTC‑GCCGCTTTAATTGGACAATCTTCTta > 2:173077/1‑141 (MQ=255) acTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGC‑GCTGATTTAATCGGACAATCTTCTTATATTa > 1:36592/1‑141 (MQ=255) aaTTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataata > 1:319080‑M2/1‑76 (MQ=255) aTTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGC‑GCTGATTTAATCGGACAATCTTCTTATATTAAAaata < 2:2733/141‑1 (MQ=255) tttAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatca < 2:47814‑M2/141‑69 (MQ=255) ttAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGC‑GCTGATTTAATCGGACAATCTTCTTATATTAAAAATAatg < 1:19367/141‑1 (MQ=255) aaaagTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacaacataatatcaaggt > 1:250133‑M2/2‑69 (MQ=255) aGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggttta > 2:339181‑M2/1‑66 (MQ=255) aGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggttta > 2:214512‑M2/1‑66 (MQ=255) gTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGC‑GCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAata > 2:33521/1‑141 (MQ=255) aaTTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGC‑GCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATAtt > 2:359449/1‑141 (MQ=255) ttAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatc < 1:366282‑M2/141‑86 (MQ=255) ttAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatc < 2:37674‑M2/141‑86 (MQ=255) ttAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcaaaatatcaaggtttataactttata < 2:307894‑M2/141‑86 (MQ=255) ggACCCATTAGGGACTCCAAACCCAATCAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattccaaaagtaaaacagcataatatcaaggtttataactttatcattt < 1:129519‑M2/141‑90 (MQ=255) ggACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattgaaaaagtaagacagcataatatcaaggtttataactttatcatta < 1:259427‑M2/141‑90 (MQ=255) ggACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGAGTTCTAGGTATCCAAACTGGGGGCAATATAAACGC‑GCTGATTTAATCGGACAATCTTCTTATATTAAAAATACTGAAGTCGTAATATAAAATGaa > 2:81029/1‑141 (MQ=255) gACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGC‑GCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAg > 1:136744/1‑141 (MQ=255) gACCCATTAGGGACTCCAAACCCAATAAAAACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGC‑GCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAg < 2:211957/141‑1 (MQ=255) gACCCATTAGGGACCCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTACGTATCCAAACTGGGGGCAATATAAACGC‑GCTGATTTAATCGGACAATCTTCTTATTTTAAGAATAATGATGTCGTAATATTCAATGAAg < 2:253052/141‑1 (MQ=255) aCCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatc < 1:152272‑M2/141‑92 (MQ=255) aCCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGATTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatc < 1:148751‑M2/141‑92 (MQ=255) ccATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttataactatcaa < 2:339538‑M2/141‑94 (MQ=255) ccATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGC‑GCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCAt > 1:321561/1‑141 (MQ=255) cATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaat > 2:13503‑M2/1‑47 (MQ=255) cATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattaccaat > 2:265020‑M2/1‑47 (MQ=255) ttAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataa < 1:17253‑M2/141‑97 (MQ=255) tAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggcgacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataat < 2:300874‑M2/141‑98 (MQ=255) tAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataat < 1:6769‑M2/141‑98 (MQ=255) ggACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGC‑GCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATaa < 1:186935/141‑1 (MQ=255) ggAATCCAAAACCAATAAATACTGTTGATACAAGGTTTCTAGGTATCCAAACTGGGGACAATATAAACGC‑GCTGATTTAATCAGACAAACATCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATaa < 1:14015/141‑1 (MQ=255) cAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGC‑GCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGc < 1:71642/141‑1 (MQ=255) aaaCCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataatacctcatata < 1:62574‑M2/141‑108 (MQ=255) aaCCGAATCAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGC‑GCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCAt < 1:316886/141‑1 (MQ=255) aaCCCAATAAATACTGTTGTTACAAGGTTTCTAtgtagtgatactggagcattggaacttaaaattacttatcattcaaaaagtaaaacagcataatatcaagatttataactttatcattatcaataatacctcatataa < 1:90066‑M2/141‑109 (MQ=255) aaCCCAATAAAAACTGTTGATACAAGGTTTCTAtgtatccaaactggagacttttaacaaaaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataatacctcatataa < 2:120386‑M2/141‑109 (MQ=255) aCCCAATAAATACTGTTGTTACAAGGTGTCTATGTATCCAAACTGGGGGCAATATAAACGC‑GCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCATc < 1:831/141‑1 (MQ=255) atatataCTGTTGTTACCAGGTTTCTTTGTAACCAAAATGAAAG‑TATATAACGACAGCTGATATAACCTGACAACCTTCTTATATTAAAAATAATGTTGTCGTAATATTCAATGAAGCATTTGATAATGGTGCATCAGACa < 2:269497/141‑1 (MQ=255) aCTGTTTCTACAAGGTTTACATGTATGGAAATTGGGTGGAACATAAACGC‑GCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTTGTAATATTCAATGAAGCATTTGATAATGGTGCATCAGACAAattat < 1:173077/141‑1 (MQ=255) aCTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataatacctcatataaaataaaatttta < 1:277060‑M2/141‑121 (MQ=255) aCTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataatacatcatataaaataaaatttta < 1:300805‑M2/141‑121 (MQ=255) gttACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataatacctcatataaaataaaattttagggact < 2:116063‑M2/141‑127 (MQ=255) aCAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGC‑GCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGACGCCCGTCAAAAGGAAGCATGTGATAATGGTGCATCAGACAAATTATTAAGTAAtg > 1:180179/1‑141 (MQ=255) cAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGC‑GCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAGTGGTGCATCAGACAAATTATTAAGTAAtgt > 1:119000/1‑141 (MQ=255) ttCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataatacctcatataaaataaaattttagggactttttagggac < 2:26421‑M2/141‑137 (MQ=255) | TACATCCGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGC‑GCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCATCAGACAAATTATTAAGTAATGTGAAAA > CP000730/2128205‑2128478 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
| Reads not counted as support for junction |
| read_name Not counted due to insufficient overlap past the breakpoint. |
| read_name Not counted due to not crossing MOB target site duplication. |