| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | USA300TCH1516_ALE | 198,135 | T→A | 36.7% | S63R (AGT→AGA) | ssuC → | Putative aliphatic sulfonates transport permease protein SsuC |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | USA300TCH1516_ALE | 198,135 | 0 | T | A | 36.7% | 27.2 / 19.0 | 27 | S63R (AGT→AGA) | ssuC | Putative aliphatic sulfonates transport permease protein SsuC |
| Reads supporting (aligned to +/- strand): ref base T (9/8); new base A (6/4); total (15/12) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
AAATGGTCATTATTATTGGGCATTACCAACCTGTATTGTTACCGGGTCCTGCTCTTGTAGGAAAAAGTATATGGTCTTTCATTGTTACTGGAGAAATTTTCCAACATTTAGCAATTAGTTTATGGAGATTTGTAGCGGGCTTTGTTGTCGCATTG‑TTGGTTGCTATTCCATTGGGCTTCTTGCTTGGAAGGAATCGTTGG‑CTATACAACGCTATCGAACCGCTATTTCAATTGATTAGGCCGATATCTCCGAT > USA300TCH1516_ALE/198017‑198269 | aaaTGGTCATTATTATTGGGCATTACCAACCTGTATTGTTACCGGGTCCTGCTCTTGTAGGAAAAAGTATATGGTCTTTCATTGTTACTGGAGAAATTTTCCAACATTTAGCAATTAGTTTATGGAGATTTGTAGCGGGc > 2:333615/1‑140 (MQ=255) aaTGGGCATTATTATTGGGCATTACCAACCTGTATTGTTACCGGGTCCTGCTCTTGTAGGAAAAAGTATATGGTCTTTCATTGTTACTGGAGAAATTTTCCAACATTTAGCAATTAGTTTATGGAGATTTGTAGCGGGCt < 2:278793/140‑1 (MQ=255) ggTCATTATTATTGGGCATTACCAACCTGTATTGTTACCGGGTCCTGCTCTTGTAGGAAAAAGTATATGGTCTTTCATTGTTACTGGAGAAATTTTCCAACATTTAGCAATTAGTTTATGGAGATTTGTAGCGGGCTttg < 1:76327/140‑1 (MQ=255) attGGGCATTACCAACCTGTATTGTTACCGGGTCCTGCTCTTGTAGGAAAAAGTATATGGTCTTTCATTGTTACTGGAGAAATTTTCCAACATTTAGCAATTAGATTAGGTAGATTTTTAGCGATCTTTGTTGTCGCAtt > 1:148085/1‑140 (MQ=255) cATTACCAACCTGTATTGTTACCGGGTCCTGCTCTTGTAGGAAAAAGTATATGGTCTTTCATTGTTACTGGAGAAATTTTCCAACATTTAGCAATTAGTTTCTGGAGAGTTGTAGCGGGCCTTGTTGTCGCATTg‑ttggt > 2:330636/1‑140 (MQ=255) tACCAACCTGTATTGTTACCGGGTCCTGCTCTTGTAGGAAAAAGTATATGGTCTTTCATTGTTACTGGAGAAATTTTCCAACATTTAGCAATTAGATTATGGAGATTTGTAGCGGGCTTTGTTGTCGCATTG‑TTGGTTGc < 1:240469/140‑1 (MQ=255) cAACCTGTATTGTTACCGGGTCCTGCTCTTGTAGGAAAAAGTATATGGTCTTTCATTGTTACTGGAGAAATTTTCCAACATTTAGCAATTAGTTTATGGAGATTTGTAGCGGGCTTTGTTGTCGCATTG‑TTGGTTGCTAt > 1:63464/1‑140 (MQ=255) ttAACGGGTCGTGGGCTTGGAGGATAATGGAGATGGTCTTGCATTGTTTGTGGAGGAGTTTTCGAACATTTAGCAATTAGATTATGGAGATTTGTAGCGGGCTTTGTTGTAGCATTG‑TTTGTTGCTATTCCATTGGGttt > 2:208450/1‑140 (MQ=255) ccGGGTCCTGCTCTTGTAGGAAAAAGTATATGGTCTTTCATTGTTACTGGAGAAATTTTCCAACATTTAGCAATTAGATTATGGAGATTTGTAGCGGGCTTTGTTGTCGCATTG‑TTGGTTGCTATTCCATTGGGcttctt > 1:15439/1‑140 (MQ=255) ggTCCTGCTCTTGTAGTAAAAAGTATATGGTCTTTCATTGTTACTGGAGAAATTTTCCAACATTTAGCAATTAGATTATGGAGATTTGTAGCGGGCTTTGTTGTCGCATTG‑TTGGTTGCTATTCCATTGGGCTTcttgct < 1:92439/140‑1 (MQ=255) ctTGTAGGAAAAAGTATATGGTCCTTCATTGTTACTGGAGAAATTTTCCAACATTTAGCAATTAGTTTATGGAGATTTGTAGCGGGCTTTGTTGTCGCATTG‑TTGGTTGCTATTCCATTGGGCTTCTTGCTTggaaggaa < 1:260343/140‑1 (MQ=255) aaGTATATGGTCTTTCATTGTTACTGCAGAAATTTTCCAACATTTAGCAATTAGTTTATGGAGATTTGTAGCGGGCTTTGTTGTCGCATTG‑TTGGTTGCTATTCCATTGGGCTTCTTGCTTGGAAGGAATCGTTGG‑Ctat < 1:96539/140‑1 (MQ=255) agggTTTTTCATTGTTACTGGAGAAATTTTCCAACATTTAGCAATTAGATTATGGAGATTTGTAGCGGGCTTTGTTGTCGCATTG‑TTGGTTGCTATTCCATTGGGCTTCTTGCTTGGAAGGAATCGTTGG‑CTATACAACg < 1:66489/138‑1 (MQ=255) tgTCTTTCATTGTTACTGGAGAAATTTGCCAACATTTAGCAATTAGTTTATGGAGATTTGTAGCGGGCTTTGTTGTCGCATTG‑TTGGTTGCTATTCCATTGGGCTTCTTGCTTGGAAGGAATCGTTGG‑CTATACAACGCt < 1:131807/139‑1 (MQ=255) ggTCTTTCATTGTTACTGGAGAAATTTTCCAACATTTAGCAATTAGTTTATGGAGATTTGTAGCGGGCTTTGTTGTCGCATTG‑TTGGTTGCTATTCCATTGGGCTTCTTGCTTGGAAGGAATCGTTTG‑CTATACAACGCt > 1:214947/1‑140 (MQ=255) tGTTACTGGAGAAATTTTCCAACATTTAGCAATTAGTTTATGGAGATTTGTAGCGGGCTTTGTTGTCGCATTG‑TTGGTTGCTATTCCATTGGGCTTCTTGCTTGGAAGGAATCGTTGG‑CTATACAACGCTATCGAACCGc < 1:244269/140‑1 (MQ=255) gTTACTGGAGAAATTTTCCAACATTTAGCAATTAGTTTATGGAGATTTGTAGCGGGCTTTGTTGTCGCATTG‑TTGGTTGCTATTCCATTGGGCTTCTTGCTTGGAAGGAATCGTTGG‑CTATACAACGCTATCGAACCGCt > 1:203307/1‑140 (MQ=255) gTTACTGGAGAAATTTTCCAACATTTAGCAATTAGTTTATGGAGATTTGTAGCGGGCTTTGTTGTCGCATTG‑TTGGTTGCTATTCCATTGGGCTTCTTGCTTGGAAGGAATCGTTGG‑CTATACAACGCTATCGAACCGCt < 1:247907/140‑1 (MQ=255) aCTGGAGAAATTTTCCAACATTTAGCAATTAGATTATGGAGATTTGTAGCGGGCTTTGTTGTCGCATTG‑TTGGTTGCTATTCCATTGGGCTTCTTGCTTGGAAGGAATCGTTGG‑CTATACAACGCTATCGAACCGCTAtt > 1:125923/1‑140 (MQ=255) gaAATTTTCCAACATTTAGCAATTAGTTTACGGAGATTTGTAGCGGGCTTTGTCGTCGCATTG‑TTGGTTGCTATTCCATTGGGCTTCTTGCATGGAAGGAATCGTTGG‑CTATACAACGCTATCGAACCGCTATTTCAAtt > 2:217023/1‑140 (MQ=255) aaTTTTCCAACATTTAGCAATTAGTTTATGGAGGTTTGTAGCGGGCTTTGTTGTAGCATTG‑TTGGTTGCTATTCCAGTGGGCTTCTTGTATGGAAGGAATCGTTGG‑CTATACAACGCTATCGAACCGCTATTTAAATTGa > 2:236076/1‑140 (MQ=255) tCCAACATTTAGCAATTAGATTATGGAGATTTGTAGCGGGCTTTGTTGTCGCATTG‑TTGGTTGCTATTCCATTGGGCTTCTTGCTTGGAAGGAATCGTTGG‑CTATACAACGCTATCGAACCGCTATTTCAATTGATTAgg > 2:275058/1‑140 (MQ=255) aCATTTAGCAATTAGATTATGGAGATTTGTAGCGGGCTTTGTTGTCGCATTG‑TTGGTTGCTATTCCATTGGGCTTCTTGCTTGGAAGGAATCGTTGG‑CTATACAACGCTATCGAACCGCTATTTCAATTGATTAGGCCGa < 1:278672/140‑1 (MQ=255) ttAGCAATTAGTTTATGGAGATTTGTAGCGGGCTTTGTTGTCGCATTG‑TTGGTTGCTATTCCATTGGGCTTCTTGCTTGGAAGGAATCGTTGG‑CTATACAACGCTATCGAACCGCTATTTCAATTGATTAGGCCGATAtc < 1:333615/140‑1 (MQ=255) aGCAATTAGTTTATGGAGATTTGTAGCGGGCTTTGTTGTCGCATTG‑TTGGTCGATATTCCATTGGGCTTCTTGCTCGGCAGGAA‑AGTGGGCCGTTACAACTCTATCGAACCGCTATTTCATTTGAGTAGGCCGATAgctc > 2:161961/1‑140 (MQ=255) gCAATTAGTTTATGGAGATTTGTGCCGGCCTTTGTT‑TCGCCTTGTTTGTTTGCTTTTCCTTGGGGCTCTTGGCTGGGAAGGACCCGTTGG‑CTTACCAACGCAACCGACCGGCTCTTTCAA‑TGGTTAGGGCGAGTTCTCCg > 2:133980/1‑140 (MQ=255) aTTAGATTATGGAGATTTGTAGCGGGCTTTGTTGTCGCATTG‑TTGGTTGCTATTCCATTGGGCTTCTTGCTTGGAAGGAATCGTTGG‑CTATACAACGCTATCGAACCGCTATTTCAATTGATTAGGCCGATATCTCCGAt > 1:305565/1‑140 (MQ=255) | AAATGGTCATTATTATTGGGCATTACCAACCTGTATTGTTACCGGGTCCTGCTCTTGTAGGAAAAAGTATATGGTCTTTCATTGTTACTGGAGAAATTTTCCAACATTTAGCAATTAGTTTATGGAGATTTGTAGCGGGCTTTGTTGTCGCATTG‑TTGGTTGCTATTCCATTGGGCTTCTTGCTTGGAAGGAATCGTTGG‑CTATACAACGCTATCGAACCGCTATTTCAATTGATTAGGCCGATATCTCCGAT > USA300TCH1516_ALE/198017‑198269 |
| 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: ‑ |