| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP000730 | 1,929,804 | A→G | 50.0% | intergenic (‑887/‑281) | 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 | 1,929,804 | 0 | A | G | 50.0% | ‑1.4 / 50.3 | 41 | intergenic (‑887/‑281) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (12/8); new base G (9/11); total (21/20) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 5.27e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.51e-01 | |||||||||||
AAAATCGCCTACTTTCTTAAATTAACAATATCTATTCTCATAGAATTTGTCCAATTAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGC‑CTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑GG‑TGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTA > CP000730/1929668‑1929941 | aaaaTCGCCTACTTTCTTAAATTAACAATATCTATTCTCATAGAATTTGTCCAATTAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGatat < 1:129154/140‑1 (MQ=255) tACTTGTTTAAATTAACAAGATCTATTCTCATAGAATTTGTCCATTTAAGTGTAGACGATTCAATCTATCAGCTGGAAGCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTaga < 2:160247/140‑1 (MQ=37) aaTTAACAATATCTATTCTCATAGAATTTGTCCAATTAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGACGATGATATAATAGTAGAGTCGC‑CTAtc > 1:135504/1‑140 (MQ=255) tATTCTCATAGAATTTGTCCAATTAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGC‑CTATCTCTCAGGCGTCaa > 1:63304/1‑140 (MQ=255) aaTTTGTCCAATTAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGC‑CTATCTCTCAGGCGTCAATTTAGACGCag < 1:287278/140‑1 (MQ=255) ttGTCCAATTAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATCATAGTAGAGTCGC‑CTATCTCTCAGGCGTCAATTTAAACGCacaga > 2:71650/1‑140 (MQ=255) gTCCAATTAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGC‑CTATCTCTCAGGCGTCAATTTAGACGCAGAgagg > 1:319219/1‑140 (MQ=255) tAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGC‑CTATCTCTCAGGCGTCAATTTAGACTCAGAGAGGAGGTGta < 1:238047/140‑1 (MQ=255) aGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCGAGTATATTTGCCGATGATATAATAGTAGAGTCGC‑CTCTCTCTCAGGCGTCAATTTCGACGCAGAGAGGAGGGGTA‑TAA‑GG‑Tg > 2:152419/1‑140 (MQ=255) tATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGC‑CTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑GG‑TGATGCTTATTTTCg < 1:51659/140‑1 (MQ=255) tCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGC‑CTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑GG‑TGATGCTTATTTTCGtt > 1:178377/1‑140 (MQ=255) aaTCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGC‑CTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑GG‑TGATGCTTATTTTCGTTCAcatcat < 2:297655/140‑1 (MQ=255) aaCTTATCAGAAGCAATTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTAGC‑CTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑GG‑TGATGCTTATTTTCGTTCACATCATAGCACCAg < 1:273982/140‑1 (MQ=255) cAGAAGCAAGTGACTGTGCTTGTATATTTACCGATGATATAATAGTAGAGTCGC‑CTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑GG‑TGATGCTTATTTTCGTTCACATCATAGAACCAGTCATCAg > 2:86032/1‑140 (MQ=255) ggaagtagatatgCTTGTATGTTCACAGCTGGTATAATAATAGAATCGC‑CTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑TT‑TGCTAATCATTTTCGTGCACATCATAGCACCAGTCATCAGTGGCtg > 2:175165/12‑140 (MQ=255) ggaagtagatatgCTTGTATGTTCACAGATGGTATAATAATAGATTCGC‑CTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑TT‑TGCTAATCATTGTCGTTCACAGCATAGCACCAGTCATCAGTGGcgg > 2:175161/12‑138 (MQ=255) ggaagtagatatgCTTGTATATTCACAGATGGTATAATAATCGAGTCGC‑ATATCTCTCGGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑TT‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCGGTGGCtg > 1:84332/12‑140 (MQ=255) ggaagtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGC‑CTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑TT‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCtg < 2:251844/129‑1 (MQ=255) ggaagtagataggCTTGTATATTCACAGATGGTATAATAATAGAGTCGC‑CTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑TT‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCtg < 2:122064/128‑1 (MQ=255) gCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGC‑CTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑GG‑TGATGCTTATTTACGTTCACATCATAGCACCAGTCATCAGTGGCt > 2:178940/1‑140 (MQ=255) gaagtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGC‑CTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑TT‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCtgt > 2:109822/11‑140 (MQ=255) gaagtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGC‑CTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑TT‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCtgt < 1:250714/130‑1 (MQ=255) gaagtagatatgCTTGTATATTCACAGATGGTATAAGAATAGAGGCGC‑CTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑TT‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCtgt < 2:44671/130‑1 (MQ=255) aagtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGC‑CTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑TT‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCtgtg < 2:221723/131‑1 (MQ=255) aagtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGC‑CTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACTT‑TGCTAATCATTTCCGTTCACATCATACCACCAGTCATCAGTGGCcgtg > 1:28533/10‑140 (MQ=255) aagtagatatgCTTGTATATTCACAGATGGTATAAAAATAGAG‑CGCTGAAGCTCCCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑TT‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCtgtg < 1:24688/131‑1 (MQ=255) aagtagatatgCTTGTATATTCACAGACGGTATAATAATAGAGGCGC‑CTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGAATTAC‑TT‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCtgtg < 1:295832/131‑1 (MQ=255) gtaggtatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGC‑CTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑TT‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGct > 2:194116/8‑139 (MQ=255) gtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGC‑CTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑TT‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGct < 1:40409/133‑2 (MQ=255) tatctatgCTTGTATATTCACACATGGTATAATAATAGAGTCGC‑CTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTA‑CTTTGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGctg < 2:289206/134‑3 (MQ=255) tatatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGC‑CTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑TT‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGctg < 2:57970/134‑3 (MQ=255) tGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGC‑CTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑GG‑TGATGGTTATTTTCGTTCACATCATAGCACCAGTCATCAATGGCTGTGcc > 2:51782/1‑140 (MQ=255) atatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGC‑CTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑TT‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGctgttg > 2:299884/4‑135 (MQ=255) tatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGC‑CTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑TT‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGctgttgc > 2:297183/3‑134 (MQ=255) aatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGC‑CTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑TT‑TGCTAATCATTTTCGTTCACATCATAGCAACAGTCATCAGTGGCTGTGctgtttc > 2:133674/3‑134 (MQ=255) gtttctataCTCGCAGATGCTAAAATCGTAGTGTCGC‑CTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑AG‑TGTTTCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGt < 1:139485/135‑1 (MQ=255) cTTGTATATTTGCCGATGATATAATAGTAGAGTCGC‑CTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGGGGTGTA‑TAA‑GG‑TGATGCTTATTTTCGTTCACATCATAGCACCCGTCATCATTGGCTGTGCCATTGCGtt > 2:106957/1‑140 (MQ=255) cTTGTATATTTGCCGATGATATAATAGTAGAGTCGC‑CTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑GG‑TGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGAGGATGTGCCATTGCGtt > 2:264549/1‑140 (MQ=255) ttGTATATTCACAGATGGTATAATAATAGAGTCGC‑CTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑TT‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGtatt < 2:164329/140‑4 (MQ=255) gTATATTTGCCGATGATATAATAGTAGAGTCGC‑CTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑GG‑TGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGttttt > 1:251582/1‑140 (MQ=255) atTTGCCGATGATATAATAGTATAGTCGC‑CTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑GG‑CGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCt < 1:81347/140‑1 (MQ=255) atTTGCCGAGGATACAATAGTAGAGTCGC‑CTATTTCACAGGCGTCAACTTAGACGCAGAGAGGAGGTGTA‑TAA‑GG‑GGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCt < 1:81341/140‑1 (MQ=255) tcacagatggtATAATAATAGAGTCGC‑CTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑TT‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTAt > 1:128815/6‑140 (MQ=255) acagatggtATAATAATAGAGACGC‑CTATCTCTCAGGCGTAAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑TT‑TGCTACTCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTCTGCTGTTGCGTATTCTAATTATTg > 2:266247/4‑140 (MQ=255) gatggtATAATAATAGAGTCGC‑CTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACTT‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGtttactaagccaataag < 2:196909/140‑15 (MQ=255) gatggtATAATAATAGAGTCGC‑CTAGCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑TT‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCt < 1:170002/140‑1 (MQ=255) gatgatATAATAGTAGAGGCGC‑CTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑GG‑TGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGc < 1:38697/140‑1 (MQ=255) atggtATAATAATAGAGTCGC‑CTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑TT‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCGGTGCTGTTGCGTATTATCCTTAATGGCtt > 2:11187/1‑139 (MQ=255) tgatATAATAGTAGAGTCGC‑CTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑GG‑TGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTa > 1:292239/1‑140 (MQ=255) | AAAATCGCCTACTTTCTTAAATTAACAATATCTATTCTCATAGAATTTGTCCAATTAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGC‑CTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑GG‑TGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTA > CP000730/1929668‑1929941 |
| 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: ‑ |