| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP000730 | 1,929,799 | C→A | 48.5% | intergenic (‑882/‑286) | 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 | 1,929,799 | 0 | C | A | 48.5% | 14.1 / 43.0 | 43 | intergenic (‑882/‑286) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (12/10); new base A (9/12); total (21/22) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 5.47e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
TCATAATAAAATCGCCTACTTTCTTAAATTAACAATATC‑TATTCTCATAGAATTTGTCCAATTAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGC‑CTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑GG‑TGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCT > CP000730/1929661‑1929932 | tCATAATAAAATCGCCTACTTACTCAAACTAACAATATCTTCTTATCAT‑GAATTTTGCCAATTAAGTGTCGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCg < 1:231249/140‑1 (MQ=255) aaaaTCGCCTACTTTCTTAAATTAACAATATC‑TATTCTCATAGAATTTGTCCAATTAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGatat < 1:129154/140‑1 (MQ=255) tACTTGTTTAAATTAACAAGATC‑TATTCTCATAGAATTTGTCCATTTAAGTGTAGACGATTCAATCTATCAGCTGGAAGCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTaga < 2:160247/140‑1 (MQ=37) aaTTAACAATATC‑TATTCTCATAGAATTTGTCCAATTAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGACGATGATATAATAGTAGAGTCGC‑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) | TCATAATAAAATCGCCTACTTTCTTAAATTAACAATATC‑TATTCTCATAGAATTTGTCCAATTAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGC‑CTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑GG‑TGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCT > CP000730/1929661‑1929932 |
| 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: ‑ |