| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP000730 | 2,530,133 | T→A | 11.5% | intergenic (‑196/+99) | USA300HOU_2386 ← / ← USA300HOU_2387 | ABC superfamily ATP binding cassette transporter, binding protein/hypothetical protein |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP000730 | 2,530,133 | 0 | T | A | 11.5% | 135.6 / 4.4 | 55 | intergenic (‑196/+99) | USA300HOU_2386/USA300HOU_2387 | ABC superfamily ATP binding cassette transporter, binding protein/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (30/18); new base A (2/5); total (32/23) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.16e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
CAAGCACTGTTTTTATAAATAATATAAAGTCGAATCATACTTTAGGTATTTACCACTTTTCGTTTTATCTAATACATGACTATTGTACAAATATGATACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTCCTAAAATAACTTACCCTATTTTTATAGTGTGACTTTTAGATTTAATAATGGTATTTACATGATGCTATTTTTATATGAT > CP000730/2530000‑2530269 | cAAGCACTGTTTTTATAAATAATATAAAGTCGAATCATACTTTAGGTATTTACCAATTTTCGTTTTATCTAATACATGACTATTGTACAAATATGATACAGAAAACTTTATAGTATTTATGAACGTCATAATATAAGaag > 2:514772/1‑139 (MQ=255) agaaCTGTTTTTATAAATAATATAAAGTCGAATCATACTTTAGGTATTTACCACTTTTCGTTTTATCTAATACATGACTATTGTACAAATATGATACAGAAAACTTTATAGTATTTACGAACGTAATAATaaaaaaaaaa < 2:286336/137‑1 (MQ=255) cTGTTTTTATAAATAATATAAAGTCGAATCATACTTTAGGTATTTACCACTTTTCGTTTTATCTAATACATGACTATTGTACAAATATGATACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGa < 1:232561/140‑1 (MQ=255) cTGTTTTTAGAAATAATATAAAGTCCAATCATACTTTAGGTATTTACCACTTTTCGTTTTATCTAATACATGACTATTGTACAAATATGATACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGa < 2:421804/140‑1 (MQ=255) tttATAAATAATATAAAGTAGAATCATACTTTAGGTATTTACCAGTTTTCATTTTATCTAATAGATGAATATTTTAAAAATATGATAAATAAAACTTTATAGTATTTACGAAAGTCATAATATAAGAAAAAAAGACactg > 2:137864/1‑137 (MQ=255) ttATAAATAATATAAAGTCGAATCATACTTTAGGTATTTACCACTTTTCGTTTTATCTAATACATGACTATTGTACAAATATGATACAGAAAACTTTATAGTTTTTAGGAAAGTCATAAAAAAAGAAAAAAAGACaaatt > 2:409070/1‑137 (MQ=255) ttATAAATAATATAAAGTCGAATCATACTTTAGGTATTTACCACTTTTCGTTTTATCTAATACATGACTATTGTACAAATATGATACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAAtct > 1:473062/1‑140 (MQ=255) taaataaTATAAATGCGAATAATACTTTAGTTATTTAGCACTTTTCGTTTTAGCTAATACATGACTATTGTACAAATATGATCCAGAAACCTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTa < 2:185640/140‑1 (MQ=255) taaataaTATAAAGTCGAATCATACTTTAGGTATTTACCACTTTTCGTTTTATCTAATACATGACTATTGTACAAATATGATACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTa < 2:38454/140‑1 (MQ=255) taaataaTATAAAGTCGAATCATACTTTAGGTATTTACCACTTTTCGTTTTATCTAATACATGACTATTGTACAAATATGATACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTa < 2:36604/140‑1 (MQ=255) aaataaTATAAAGTCGAATCATACTTTAGGTATTTACCACTTTTCGTTTTATCTAATACATGACTATTGTACAAATATGATACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTAt < 1:507544/140‑1 (MQ=255) aaaGTCGAATCATACTTTAGGTATTTACCACTTTTCGTTTTATCTAATACATGACTATTGTACAAATATGATACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTATAATATTGCt > 1:419539/1‑140 (MQ=255) cccattaTACTTTAGGTATTTAACATTTGTCGTTTAAAAAAATACATGACTATTGTACAAATATAATACAAAAAAATTTATAGTATTTACGAACGTCAAAAAAAAAAAAAAAAAGACAATCTCTATCATATTGCTAATAg < 2:477067/134‑1 (MQ=255) ttaTACTTTAGTTATTTACCACTTTTCATATTATCTAAGAAATGACCATTGTACAAATAAGATACAGAAAACTTTATAGTATTTACGAACGTAAAAAAAAAAAAAAAAAAGACAATCTCTATCATATTGCTAATAGAAAt < 2:59188/138‑1 (MQ=255) tCATACTTTAGGTATTTACCACTTTTCGTTTTATCTAATACATGACTATTGTACAAATATGATACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTATCATATTGCTAATATAAAt > 1:403195/1‑140 (MQ=255) tACTTTAGGTATTTACCACTTTTCGTTTTATCTAATACATGACTATTGTACAAATATGATACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGc > 2:429723/1‑140 (MQ=255) aCTTTAGGTATTTATCACTTTTCGGTTTATCTAATACATGACTATTGTACAAATATGATACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGcc < 2:495314/140‑1 (MQ=255) aCTTTAGGTATTTACCACTTTTCGTTTTGTCTAATACATGACTATTGTACAAATATGGTTCAGAATACTTTATAGTATTTGCGAACTTCCTAATATGAGAAAAAAAGACAATCTTTATCATATTCCTAATAGAAATTGcc > 2:233/1‑140 (MQ=255) aCTTTAGGTATTTACCACTTTTCGTTTTATCTAATACATGACTATTGTACAAATATGATCCAGAAAACTTTATAGTATTTACGAACGTCATAATAAAAGAACAAACGACTATTTATATCATATTGCTAATCGaaagcaga > 1:208168/1‑135 (MQ=255) ttAGGTATTTACCACTTTTCGTTTTATCTAATACATGACTCTTGTACAAATATGATACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTATCATATTGCTAACAGAAATTGCCttt > 1:392612/1‑140 (MQ=255) aTTTACCACTTTTCGTTTTATCTAATACATGACTATTGTAAAAATATGAGACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGATAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCaaat > 2:334685/1‑140 (MQ=255) tttACCACTTTTCGTTTTATCTAATACATGACTCTTATCCAAATATGATAAAGAAAACGGTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCATAtt > 1:541684/1‑140 (MQ=38) ttACCACTTTTCGTTTTATCTAATACATGACTATTGTACAAATATGATACAGAAAACTTTCTCGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCTTAttt > 2:381747/1‑139 (MQ=255) cctgttttCGTTTTATCTAATAAATGAAAATTGTAATAATATGATACAGAAAACTTTATAGTATTTACGAACGTCATAATAAAAAAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTcc < 1:186276/136‑1 (MQ=37) ccACTTTTCGTTTTATCTAATACATGACTATTGTACAAATATGATACAGACAACTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTcc > 2:404960/1‑140 (MQ=255) ccACTTTTCGATTTATCTAATACATGACAATTGTACAAATATGATACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGAAAAAACGACAATATCTATCATATTGCTAATAGAAATTGCATTTCCATATAGTcc > 2:161214/1‑140 (MQ=255) cACTTTTCGTTTTATCTAATACATGACTATTGTACAAATATGATACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTCCt < 2:154478/140‑1 (MQ=255) aCTTTTCGTTTTATCTAATACATGACTATTGTACAAATATGATACCGAAAACTTTATAGTATTTACGAACGTCATAATATAAAAAAAAAAGACAATCTCTATCATATTACTAATAGAAATTGCCTTTTCATATTGTCCTa > 1:221911/1‑140 (MQ=255) aCTTTTCGTTTTATCTAATACATGACTATTGTACAAATATGATACAGACAACTTTATAGTATTTACGAACGTCATAATATAAGAACAAAAGACAATCTCTATCATATTGCTAATAGAACTTGCCTTTTCATATTTTCCTa > 2:433798/1‑140 (MQ=255) aCTTTTCGTTTTATCTAATACATGACTATTGTACAAATATGATACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTCCTa > 1:134458/1‑140 (MQ=255) aCTTTTCGTTTTATCTAATACATGACTATTGTACAAATATGATACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTCCTa > 2:85802/1‑140 (MQ=255) tttCGTTTTATCTAATACATGACTATTGTACAAATATGATACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACCATATTTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTCCTaaaa < 1:517712/140‑1 (MQ=255) tCGTTTTATGTAATAAATGACTATTGTACAAGCATGATACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGAACAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTCCTAAAATa < 2:307395/140‑1 (MQ=38) gTTTTATCTAATACATGACTATTGTACAAATATGATACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTCCTAAAATAAc < 2:391933/140‑1 (MQ=255) aaTACATGACTAATGCATGAAAATGAAACACAAAACTTTAGTGGATTTACGATCTTTATAAAATAAAAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTCTTAAAATAACTTACCCTAt < 2:306182/140‑1 (MQ=21) aaTACAAGACTATTGTACAAATATGATACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTCCTAAAATAACTTACCCTAt < 2:418835/140‑1 (MQ=255) gTACAAATATGATACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTCCTAAAATAACTTACCCTATTTTTATAGTGTGAc > 2:9315/1‑140 (MQ=255) aCAAATATGATACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCATAATGTCCTAAAATAACTTACCCTATTTTTATAGTGTGACtt > 1:372259/1‑140 (MQ=255) aaTATGATACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCACTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTCCTAAAATAACTTACCCTATTTTTATAGTGTGTCTTTTa > 1:276692/1‑140 (MQ=255) gATACAGAAAACTTTTTAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTCCTAAAATAACTTACCCTATTTTTATAGTGTGACTTTTAGAttt > 1:408785/1‑140 (MQ=255) aTACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTACTAAAATAACTTACCCTATTTTTATAGTGTGACTTATAGATTta > 2:24916/1‑140 (MQ=255) aTACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTATAATATTGCTAATAGAAATTGCCTTTTCATATTGTCCTAAAATAACTTACCCTATTTTTATAGTGTGACTTTTAGATTta > 2:471576/1‑140 (MQ=255) aaaaCTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTCCTAAAATAACTTACCCTATTTTTATAGTGTGACTTTTAGATTTAATAATg > 2:531252/1‑140 (MQ=255) tttATAGTATTTACGAACGTCATAATATAATAAAAAAAGACAATCTCTTTCATAGTGCTAATAGAAATTGCCTTTTCATATTGTCCGAAAATAACTTACCCTATTTTTATAGTGTGACTTTTAGATTTAATAATGGTAtt < 2:519814/140‑1 (MQ=255) tttATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTCCTAAAATAACTTACCCTATTTTTATAGTGTGACTTTTAGATTTAATAATGATAtt > 1:184465/1‑140 (MQ=255) tttATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGACTTTTCATATTATCCTAAAATAACTTACCCTATTTTTATAGTGTGACTTTTAGATTTAATAATAGTAtt > 1:184392/1‑140 (MQ=255) ttATAGTATTTACGAACGTCATAATAAAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTCCTAAAATAACTTACCCTATTTTTATAGTGTGACTTTTAGATTTACTAATGGTActt < 2:421297/140‑1 (MQ=255) taGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTCCTAAAATAACTTACCCTATTTTTATAGTTTGACTTTTAGATTTAATAATGGTATTTACa > 1:32422/1‑140 (MQ=255) aTTTACGAACGTCATAATATAAGAAAAAAAGACAATCCCTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTCCTAAAATAACTTACCCTATTTTTATAGTGTGACTTTTAGATTTAATAATGGTATTTACatgat < 2:18188/140‑1 (MQ=255) ttaacaaCCTCATAATATAAGAAAAAAATACAATCTTTATCATATTTCTAATAGAAATTTCCTTTTCATTTTTTCCTAAAATAACTTACCCTATTTTTATAGTGTGACTTTTAGATTTAATAATGGTATTTACATGATGc < 1:137864/135‑1 (MQ=255) tACGAACGTCATAATATAAGAAAAAGAGACAATGTCTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTCCTAAAATTACTTAGCCTATTTGTATAGTGTGACTTTTAGATTTAACAATGGTATTTACATGATGCt < 1:334685/140‑1 (MQ=38) aaCGTCATAATATAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTCCTAAAATAACTTACCCTATTTTTATAGTGTGACTTTTAGATTTAATAATGGTATTTACATGATGCTAttt > 2:256915/1‑140 (MQ=255) gcttCATAAAAAAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTCCTAAAATAACTTACCCTATTTTTATAGTGTGACTTTTAGATTTAATAATGGTATTTACATGATGCTAtttt < 2:218815/137‑1 (MQ=255) cATAATATAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTATTCAAAATGACCAAAAATAACTTACCCAATTTTTATAGTGTGACTTTTAGATTTAATAATGGTATTTACATGATGCTATTTTtata > 1:168878/1‑140 (MQ=38) ataataTAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTCCTAAAATAACTTACCCTATTTTTATAGTGTGACTTTTAGATTTAATAATGGTATTTACATGATGCTATTTTTatat < 2:246888/140‑1 (MQ=255) acaaaataAGAAAAAAAGACAAACTCAATCATATTGCTAATAGAAATTGCCGTTTCATATTGTCCTAAAATAACTTACCCTATTTTTATAGTGTGACTTTTAGATTTAATAATGGTATTTACATGATGCTATTTTTatat < 2:247067/135‑1 (MQ=255) aataTAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTCCTAAAATAACTTACCCTATTTTTATGATGTGACTTTTAGATTTAATAATGGTATTTACATGATGCTATTTTTATATGa > 2:109645/1‑140 (MQ=255) atatAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTCCTAAAATAACTTACCCTATTTTTATAGTGTGACTTTTAGATTTAATAATGGTATTTACATGATGCTATTTTTATATGAt < 2:134458/140‑1 (MQ=255) | CAAGCACTGTTTTTATAAATAATATAAAGTCGAATCATACTTTAGGTATTTACCACTTTTCGTTTTATCTAATACATGACTATTGTACAAATATGATACAGAAAACTTTATAGTATTTACGAACGTCATAATATAAGAAAAAAAGACAATCTCTATCATATTGCTAATAGAAATTGCCTTTTCATATTGTCCTAAAATAACTTACCCTATTTTTATAGTGTGACTTTTAGATTTAATAATGGTATTTACATGATGCTATTTTTATATGAT > CP000730/2530000‑2530269 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |