| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | USA300TCH1516_ALE | 1,064,254 | Δ1 bp | coding (235/1218 nt) | ywtF ← | Putative transcriptional regulator YwtF |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | USA300TCH1516_ALE | 1,064,253 | 0 | C | . | 93.8% | 66.4 / ‑1.5 | 16 | coding (236/1218 nt) | ywtF | Putative transcriptional regulator YwtF |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base . (8/7); total (8/8) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01 | |||||||||||
TGCATGGGTAATCTTATCGTAATAGCCAACTTTAGGAATGTAGCTGATAGTATCACGTGGAATACTAAGCATTCTAATTTGATGTTTTGATTGATTAAAAGTAGTTAAAATCATAGCGTCTGATCTAGAGTGTTCAGCATCCTGTCCTTTTTTTCTTCTTCCATCGTTATCATCGATACCTAAGAAAAGAATAGAGATAGGTTGTTCTTCGGGATTGACTTTATTATCTCTTAAGTTGGATTGACGATTAGCATTTTTGCTGTCTTGAG > USA300TCH1516_ALE/1064108‑1064376 | tgcatgGGTAATCTTATCGTAATAGCCAACTTTAGGAATGTAGCTGATAGTATCACGTGGAATACTAAGCATTCTAATTTGATGTTTTGATTGATTAAAAGTAGTTAAAATCATAGCGTCTGATCTAGAGTGTTCAGCATCCTGTCttt < 1:64367/149‑1 (MQ=255) aGCCAACTTTAGGAATGTAGCTGATAGTATCACGTGGAATACTAAGCATTCTAATTTGATGTTTTGATTGATTAAAAGTAGTTAAAATCATAGCGTCTGATCTAGAGTGTTCAGCATCCTGT‑CTTTTTTTCTTCTTCCATCGTTatcat < 1:263592/149‑1 (MQ=255) aGCCAACTTTAGGAATGTAGCTGATAGTATCACGTGGAATACTAAGCATTCTAATTTGATGTTTTGATTGATTAAAAGTAGTTAAAATCATAGCGTCTGATCTAGAGTGTTCAGCATCCTGT‑CTTTTTTTCTTCTTCCATCGTTatcat > 1:320925/1‑149 (MQ=255) cAACTTTAGGAATGTAGCTGATAGTATCACGTGGAATACTAAGCATTCTAATTTGATGTTTTGATTGATTAAAAGTAGTTAAAATCATAGCGTCTGATCTAGAGTGTTCAGCATCCTGT‑CTTTTTTTCTTCTTCCATCGTTATCATCGa > 1:293470/1‑149 (MQ=255) cAACTTTAGGAATGTAGCTGATAGTATCACGTGGAATACTAAGCATTCTAATTTGATGTTTTGATTGATTAAAAGTAGTTAAAATCATAGCGTCTGATCTAGAGTGTTCAGCATCCTGT‑CTTTTTTTCTTCTTCCATCGTTATCATCGa > 1:326468/1‑149 (MQ=255) cTTTAGGAATGTAGCTGATAGTATCACGTGGAATACTAAGCATTCTAATTTGATGTTTTGATTGATTAAAAGTAGTTAAAATCATAGCGTCTGATCTAGAGTGTTCAGCATCCTGT‑CTTTTTTTCTTCTTCCATCGTTATCATCGATAc < 1:308247/149‑1 (MQ=255) tttAGGAATGTAGCTGATAGTATCACGTGGAATACTAAGCATTCTAATTTGATGTTTTGATTGATTAAAAGTAGTTAAAATCATAGCGTCTGATCTAGAGTGTTCAGCATCCTGT‑CTTTTTTTCTTCTTCCATCGTTATCATCGATAcc < 1:247659/149‑1 (MQ=255) tttAGGAATGTAGCTGATAGTATCACGTGGAATACTAAGCATTCTAATTTGATGTTTTGATTGATTAAAAGTAGTTAAAATCATAGCGTCTGATCTAGAGTGTTCAGCATCCTGT‑CTTTTTTTCTTCTTCCATCGTTATCATCGATAcc < 1:58348/149‑1 (MQ=255) cttaTAGTATCACGTGGAATACTAAGCATTCTAATTTGATGTTTTGATTGATTAAAAGTAGTTAAAATCATAGCGTCTGATCTAGAGTGTTCAGCATCCTGT‑CTTTTTTTCTTCTTCCATCGTTATCATCGATACCTAAGAAAAGAATa > 1:121894/4‑149 (MQ=255) cATTCTAATTTGATGTTTTGATTGATTAAAAGTAGTTAAAATCATAGCGTCTGATCTAGAGTGTTCAGCATCCTGT‑CTTTTTTTCTTCTTCCATCGTTATCATCGATACCTAAGAAAAGAATAGAGATAGGTTGTTCTTCGGGATTGAc > 1:123984/1‑149 (MQ=255) tAATTTGATGTTTTGATTGATTAAAAGTAGTTAAAATCATAGCGTCTGATCTAGAGTGTTCAGCATCCTGT‑CTTTTTTTCTTCTTCCATCGTTATCATCGATACCTAAGAAAAGAATAGAGATAGGTTGTTCTTCGGGATTGACTttat < 1:107422/149‑1 (MQ=255) ttgattAAAAGTAGTTAAAATCATAGCGTCTGATCTAGAGTGTTCAGCATCCTGT‑CTTTTTTTCTTCTTCCATCGTTATCATCGATACCTAAGAAAAGAATAGAGATAGGTTGTTCTTCGGGATTGACTTTATTATCTCTTAAGTTGGa > 1:163862/1‑149 (MQ=255) gCGTCTGATCTAGAGTGTTCAGCATCCTGT‑CTTTTTTTCTTCTTCCATCGTTATCATCGATACCTAAGAAAAGAATAGAGATAGGTTGTTCTTCGGGATTGACTTTATTATCTCTTAAGTTGGATTGACGATTAGCATTTTTGCTGttt > 1:12134/1‑147 (MQ=255) gCGTCTGATCTAGAGTGTTCAGCATCCTGT‑CTTTTTTTCTTCTTCCATCGTTATCATCGATACCTAAGAAAAGAATAGAGATAGGTTGTTCTTCGGGATTGACTTTATTATCTCTTAAGTTGGATTGACGATTAGCATTTTTGCTGTCt < 1:294596/149‑1 (MQ=255) cGTCTGATCTAGAGTGTTCAGCATCCTGT‑CTTTTTTTCTTCTTCCATCGTTATCATCGATACCTAAGAAAAGAATAGAGATAGGTTGTTCTTCGGGATTGACTTTATTATCTCTTAAGTTGGATTGACGATTAGCATTTTTGCTGTCtt > 1:176704/1‑149 (MQ=255) cTGATCTAGAGTGTTCAGCATCCTGT‑CTTTTTTTCTTCTTCCATCGTTATCATCGATACCTAAGAAAAGAATAGAGATAGGTTGTTCTTCGGGATTGACTTTATTATCTCTTAAGTTGGATTGACGATTAGCATTTTTGCTGTCTTgag < 1:214780/149‑1 (MQ=255) | TGCATGGGTAATCTTATCGTAATAGCCAACTTTAGGAATGTAGCTGATAGTATCACGTGGAATACTAAGCATTCTAATTTGATGTTTTGATTGATTAAAAGTAGTTAAAATCATAGCGTCTGATCTAGAGTGTTCAGCATCCTGTCCTTTTTTTCTTCTTCCATCGTTATCATCGATACCTAAGAAAAGAATAGAGATAGGTTGTTCTTCGGGATTGACTTTATTATCTCTTAAGTTGGATTGACGATTAGCATTTTTGCTGTCTTGAG > USA300TCH1516_ALE/1064108‑1064376 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |