| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP000730 | 1,929,941 | A→T | 53.7% | intergenic (‑1024/‑144) | USA300HOU_1794 ← / → USA300HOU_1796 | hypothetical protein/hypothetical protein |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP000730 | 1,929,941 | 0 | A | T | 53.7% | ‑3.8 / 50.3 | 41 | intergenic (‑1024/‑144) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (10/9); new base T (15/7); total (25/16) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 3.52e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.23e-01 | |||||||||||
ATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTT > CP000730/1929801‑1930077 | agcatatAATAGGAGAGTCGCCTATCTCTCAGGCGTCAATTTAGCCGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTa < 2:215536/138‑1 (MQ=255) tggtataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATCCTTATTGGCTTAg > 1:220004/4‑141 (MQ=255) tggtataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTA‑CTTT‑GCTACTCATTTTCGTTCACGTCATAGCACCTGTCATCAGTGGCTGTGCTGCTGCGTATTATACTTATTGGCTTAg < 2:275815/138‑1 (MQ=255) tgatATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCACCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTaa > 2:238635/1‑141 (MQ=255) ggtataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAgg > 2:291720/3‑140 (MQ=255) ggtataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGt > 2:319625/3‑141 (MQ=255) ataataataGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTaaa > 1:313259/1‑139 (MQ=255) taataaTAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAAGATCGGCA‑TTACT‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTaaac < 1:30533/141‑4 (MQ=255) gaataatAGGGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGCGCA‑TTACT‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTCTTGGCTTAGTaaac < 2:272455/140‑4 (MQ=255) ataatagAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTATTAAACGc > 2:159873/5‑141 (MQ=255) ataGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACg > 1:335014/1‑141 (MQ=255) ataGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCCCTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACg > 1:290362/1‑141 (MQ=255) taatagAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCa < 1:297687/138‑1 (MQ=255) caatatagTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCa < 2:196202/135‑1 (MQ=255) atagAGTCGCCTATCTCTCAGGCGTCAATT‑‑GAGGAAGAGAGGAGGTGCATTAC‑T‑GT‑GCTAATCATTTTCGTTCGCATCATAGCACCAGTCATCAGTCGCTGTGCTGTGGCGTCTTATACTTATTGGCTTAGTCAACGCaac > 2:301096/2‑140 (MQ=255) gTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACaa < 1:24325/141‑1 (MQ=255) gTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacgaata > 1:12308/1‑135 (MQ=255) gTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaata > 2:286085/1‑135 (MQ=255) tCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataa > 2:314126/1‑134 (MQ=255) gcctttccgtcAGGCTTCAATTTAAGCGCAGAGGGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATGTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTGTTTCTTATTGGCTAAGTAGACGCAATACAAAAt < 2:77131/132‑1 (MQ=255) gCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAATCATCAGTGGCTTTGCTGTTGCGTATCATACTTATTGGCTTAGTAAACGCaacaaatgatt > 2:102184/1‑132 (MQ=255) gCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTA‑CTTT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataatt > 1:21717/1‑132 (MQ=255) gCCTATCTCGCAGGCGTCAAGT‑‑GGCGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTGCGTTCACATCATAGCACCAGTCATCCGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataatt < 1:76933/141‑10 (MQ=255) cTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaa < 1:312343/141‑12 (MQ=255) cTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTCAATGGCTTAGTAAACGCaacaaataattaa > 1:187558/1‑130 (MQ=255) tATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTAATTGGCTTAGTAAACGCaacaaataattaaa > 2:105831/1‑129 (MQ=255) tATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGCAGGTGCA‑TTA‑C‑TTGGCTAATCATTTTCACTCACAACATAGCACAAGTCATGAGTGGCTGTGCTGATGCGTATTATACTTATTGGCTTAGTAAACGCaacaactaattaat > 2:149117/1‑129 (MQ=255) tctctcAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTA‑CTTT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaatag > 2:295300/1‑127 (MQ=255) tcAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCCTTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATaacatacct > 2:278132/1‑133 (MQ=255) tcAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACat < 1:93331/141‑1 (MQ=255) cAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGc > 2:352045/1‑141 (MQ=255) gaggTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAAGACAAAATAGGTGCCATATAGCCGCACCAATAAAAATcccccc > 2:28321/1‑139 (MQ=255) cTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCCCACTACCGCAAATAGTGAg < 1:211986/141‑1 (MQ=255) ttATATTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGACTAAGTAGACGCAATAAAAAATAGGTGAAATATAGCCGCACCAATAAAAATCACCTCACTACAGAAAATAATGAgg > 1:167631/1‑141 (MQ=255) atAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTa > 1:102260/1‑141 (MQ=255) catcaGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAACTAGTGAGGGGCTTGGTGTATAAGTAAATACTAAttt > 2:152766/1‑141 (MQ=255) caGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGAGTGGTGTATAAGTAAACACTTATTTTCg > 2:156389/1‑141 (MQ=255) cagtGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATta < 1:51878/138‑1 (MQ=255) tttCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTCAATACTTATTTTCGTTGTCTTAATTATACTGCTAAtt < 2:44754/141‑1 (MQ=255) tttCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAAtt < 1:160986/141‑1 (MQ=255) tgtCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATAGAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAAtt < 2:177470/139‑1 (MQ=255) ttttcttttcTAAGTCGAAGAAATACCAAATCGGTGACAGATAGCCGCACCAATAAAAATCCGCTCACTACCGAAAATAGTCAGGCGATTGGTGTATAAGTAAACACTTATTCTCAGCAGCTTACTTATACAGATAAtttt > 2:232616/10‑141 (MQ=255) ggCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGGAAATACTTATTTTCGTTGTCTTAATTATACTTCTAATTTTTCttttt < 1:295689/141‑1 (MQ=255) | ATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTT > CP000730/1929801‑1930077 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |