| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | USA300TCH1516_ALE | 990,149 | C→G | 33.0% | S14C (TCC→TGC) | oppD_2 → | Oligopeptide transport ATP‑binding protein OppD |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | USA300TCH1516_ALE | 990,149 | 0 | C | G | 33.0% | 36.6 / 25.2 | 31 | S14C (TCC→TGC) | oppD_2 | Oligopeptide transport ATP‑binding protein OppD |
| Reads supporting (aligned to +/- strand): ref base C (9/11); new base G (5/5); total (14/17) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.67e-01 | |||||||||||
TTTTACTTATTTAGTGATGGATTACGTGATGCATTTGATCCGAAAATGCGTAAATAAAAAGGGGGCATAGCATATGACTGAAAGAATATTAGAAGTAAATGATTTGCATGTTTCCTTTGATATTACAGCAGGGGAAGTGCAGGCAGTGAGAGGCGTAGATTTTTATTTGAACAAAGGGGAAACATTGGCAATTGTTGGTGAATCAGGTTCAGGTAAATCTGTAACAACAAAAGCAATTACAAAATTA > USA300TCH1516_ALE/990036‑990282 | ttttACTTATTTAGTGATGGATTACGTGATGCATTTGATCCGAAAATGCGTAAATAAAAAGGGGGCATAGCATATGACTGAAAGAATATTAGAAGTAAATGATTTGCATGTTTGCTTGGATATTACAGGAGGGGAAGAgc > 2:22887/1‑140 (MQ=255) tACTTATTTAGTGAAAGAATACGAGATGCAATGGAACCGAAAATGCGTAAATAAAAAGGGGGCATAGCATATGACTGAAAGAATATTAGAAGTAAATGATTTGCATGTTTCCTTTGATATTACAGCAGGGGAAGTgcagg < 1:11532/140‑1 (MQ=255) acctATTTAGTGATGGATTACGTGATGCATTTGATCCGAAAATGCGTAAATAAAAAGGGGGCATAGCACATGACTGAAAGAATATTAGAAGTAAATGATTTGCATGTTTGCTTTGATATTACAGCAGGGGAAGTgcaggc < 2:316772/137‑1 (MQ=255) ttATTTAGTGATGGATTACGTGATGCATTTGATCCGAAAATGCGTAAATAAAAAGGGGGCATAGCATATGACTGAAAGAATATTAGAAGTAAATGATTTGCATGTTTGCTTTGATATTACAGCAGGGGAAGTgcaggcag < 1:198413/140‑1 (MQ=255) tttAGTGATGGATTACGTGATGCATTTGATCCGAAAATGCGTAAATAAAAAGGGGGCATAGCATATGACTGAAAGAATATTAGAAGTAAATGATTTGCATGTTTGCTTTGATATTACAGAAGAGGAAGTGCAGGCAGTga > 2:185805/1‑140 (MQ=255) tGATGGATTACGTTATTCATATGATCCGAAAATGCGTAAATAAAAAGGGGGCATAGCATATGACTGAAAGAATATTAGAAGTAAATGATTTGCATGTTTGCTTTGATATTACAGCAGGGTAAGTGCAGGCAGTGAGAGGc < 2:70906/140‑1 (MQ=255) tGATGGATTACGTGATGCATTTGATCCGAAAATGCGTAAATAAAAAGGGGGCATAGCATATGACTGAAAGAATATTAGAAGTAAATGATTTGCATGTTTGCTTTGATATTACAGCAGGGGAAGTGCAGGCAGTGAGAGGc < 2:48038/140‑1 (MQ=255) tACGTGATGCATTTGATCCGAAAATGCGTAAATAAAAAGGGGGCATAGCATATGACTGAAAGAATATTAGAAGTAAATGATTTGCATGTTTCCTTTGATATTACAGCAGGGGAAGTGCAGGCAGTGAGAGGCGTAGAttt < 2:248503/140‑1 (MQ=255) tttGATCTGAAAATGCGTAAATAAAAAGGGGGCATAGCAGATGACTGAAAGAATATTAGAAGTAAATGATTTGCATGTTTCCTTTGATATTACAGCAGGGGAAGTGCAGGCAGTGAGAGGCGTAGATTTTTATTTGAACa < 1:34620/140‑1 (MQ=255) ttggATCCGATAATGCGTAAATAGAGAGGGGGTATTGCATATGACTGAATGAATATTAGAAGTAAAGGATTTGCATGTTTCCTTTGATATTACAGCAGGGGGAGTGCAGGCAGTGAGAGGCGTAGTTTTTTATTTGAACa < 2:170438/137‑1 (MQ=255) ttGATTCGAAAATGCGTAAATAAAAAGGGGGCATAGCATATGACTGAAAGAATATTAGAAGTAAATGATTTGCATGTTTCCTTTGATATTACAGCAGGGGAAGTGCAGGCAGTGAGAGGCGTAGATTTTTATTTGAACaa < 1:322610/140‑1 (MQ=255) tCCTAAAATATGTAAATAAAAAGTGGGCATAGCATATGACTGAAAGAATATTAGAAGTAAATGATTTGCATGTTTACTTTGATATTACAGCAGGGGAAGTGCAGGCAGTGAGAGGCGTAGATTTTTATTTGAACAAAggg < 1:138899/140‑1 (MQ=255) aaTGCGTAAATAAAAAGGGGGCATAGCATATGACTGAAAGAATATTAGAAGTAAATGATTTGCATGTTTCCTTTGATATTACAGCAGGGGAAGTGCAGTTATTGAGAGGCGTAGATTTTTATTTGAACAAAGGGGAAACa < 1:245164/140‑1 (MQ=255) aTGCGTAAATAAAAAGGGGGCATAGCATATGACTGAAAGAATATTAGAAGTAAATGATTTGCATGTTTCCTTTGATATTACAGCAGGGGAAGTGCAGGCAGTGAGAGGCGTAGATTTTTATTTGAACGAAGGGGACACAt > 2:222050/1‑140 (MQ=255) aTGCGTAAATAAAAAGGGGGCATAGCATATGACAGAAAGAAGATTAGAAGTAAATGATTTGCATGTTTCCTTTGATATTACAGCAGGGGACGTGCAGGCAGTGAGAGGCGTAGATTTTTAGTTGAACAAAGGGGAAACAt > 2:12861/1‑140 (MQ=255) tGCGTAAATAAAAAGGGGGCATAGCATATGACTGAAAGAATATTAGAAGTAAATGATTTGCATGTTTCCTTTGATATTACAGCAGGGGAAGTGCAGGCAGTGAGAGGCGTAGATTTTTATTTGAACAAAGGGGAAACAtt > 1:298793/1‑140 (MQ=255) cGTAAAAAAAAAGGGGGCATAGCATATGACTGAAAGAATATTAGAAGTAAATGATTTGCATGTTTCCTTTGATATTACAGCAGGGGAAGTGCAGGCAGTGAGAGGCGTAGATTTTTATTTGAACAAAGGGGAAACATTgg < 2:215178/140‑1 (MQ=255) agaaaaaaaaaAGGGGGCATAGCATATGACTGAAAGAATATTAGAAGTAAATGATTTGCATGTTTCCTTTGATATTACAGCAGGGGAAGTGCAGGCAGTGAGAGGCGTAGATTTTTATTTGAACAAAGGGGAAACATTgg < 2:63157/137‑1 (MQ=255) taaataaaAAGGGGGCATAGCATATGACTGAAAGAATATTAGAAGTAAATGATTTGCATGTTTCCTTTGATATTACAGCAGGGGAAGTGCAGGCAGTGAGAGGCGTAGATTTTTATTTGAACAAAGGGGAAACATTGGCa < 1:43180/140‑1 (MQ=255) aaaGGGGGCATAGCATATGACTGAAAGAATATTAGAAGTAAATGATTTGCATGTTTCCTTTGATATTACAGCAGGGGAAGTGCAGGCAGTGAGAGGCGTAGATTTTTATTTGAACAAAGGGGAAACATTGGCAAttgttg > 1:336754/1‑140 (MQ=255) tatGACTGAAATAATATTAGAAGTAAATGATTTGCATGTTTGCTTTGATATTACAGCAGGGGAAGTGCAGGCAGTGAGAGGCGTAGATTTTTATTTGAACAAAGGGGAAACATTGGCAATTGTTGGTGAAtcaggttcag < 2:315482/140‑1 (MQ=255) taCTGTAAGAATATTAGAGGTAAATGATGTGCATGTTTCCTTTGATATTACAGCAGGGGAAGGGCAGGCAGTGAGAGGCGTAGATTTTTATTTGAACAAAGGGGAAACATTGGCAATTGTTGGTGCATCAGGTTCAGGTa < 2:265530/139‑1 (MQ=255) tGAAAGAATATTAGAAGTAAATGATTTGCATGTTTGCTTTGATATTACAGCAGGGGAAGTGCAGGCAGTGAGAGGCGTAGATTTTTATTTGAACAAAGGGGAAACATTGGCAATTGTTGGTGAATCAGGTTCAGGTAAAt > 1:306211/1‑140 (MQ=255) gAAAGAATATTAGAAGTAAATGATTTGCATGTTTCCTTTGATATTACAGCAGGGGAAGTGCAGGCAGTGAGAGGCGTAGATTTTTATTTGAACAAAGGGGAAACATTGGCAATTGTTGGTGAATCAGGTTCAGGTAAATc > 2:295592/1‑140 (MQ=255) gAAAGAATATTAGAAGTAAATGATTTGCATGTTTCCTTTGATATTACAGCAGGGGAAGTGCAGGCAGTGAGAGGCGTAGATTTTTATTTGAACAAAGGGGAAACATTGGCAATTGTTGGTGAATCAGGTTAAGGTAAATc > 2:295525/1‑140 (MQ=255) atatTAGAAGTAAATGATTTGCATGTTTCCTTTGATATTACAGCAGGGGAAGTGCAGGCAGTGAGAGGCGTAGATTTTTATTTGAACAAAGGGGAAACATTGGCAATTGTTGGTGAATCAGGTTCAGGTAAATCTGTaac < 1:14715/140‑1 (MQ=255) ttAGAAGTAAATGATTTGCATGTTTGCTTTGATATTACAGCAGGGGAAGTGCAGGCAGTGAGAGGCGTAGATTTTTATTTGAACAAAGGGGAAACATTGGCAATTGTTGGTGAATCAGGTTCAGGTAAATCTGTaacaac > 1:58468/1‑140 (MQ=255) aGTAAATGATTTGCATGTTTCCTTTGATATTACAGCAGGGGAAGTGCAGGCAGTGAGAGGCGTAGATTTTTATTTGAACAAAGGGGAAACATTGGCAATTGTTGGTGAATCAGGTTCAGGTAAATCTGTAAAAACAAAAg > 1:128748/1‑140 (MQ=255) aaTGATTTGCATGTTTCCTTTGATATTACAGCAGGGGAAGTGCAGGCAGTGAGAGGCGTAGATTTTTATTTGAACAAAGGGGGAACATTGGCAATTGATGGTGAATCAGGTTCAGGTAAATCTGTAACAACAAAAGCAAt > 1:68506/1‑140 (MQ=255) aTTTGCATGTTTGCTTTGATATTACAGCAGGGGAAGTGCAGGCAGTGAGAGGCGTAGATTTTTATTTGAACAAAGGGGAAACATTGGCAATTGTTGGTGAATCAGGTTCAGGTAAATCTGTAACAACAAAAGCAATTACa > 1:180373/1‑140 (MQ=255) aTGTTTCCTTTGATATTACAGCAGCGGAAGTGCAGGCAGTGAGAGGCGTAGATTTTTATTTGAACAAAGGGGAAACATTGGCAATTGTTGGTGAATCAGGTTCAGGTAAATCTGGAACAACAAAAGAAATTACAAAatta > 1:226145/1‑140 (MQ=255) | TTTTACTTATTTAGTGATGGATTACGTGATGCATTTGATCCGAAAATGCGTAAATAAAAAGGGGGCATAGCATATGACTGAAAGAATATTAGAAGTAAATGATTTGCATGTTTCCTTTGATATTACAGCAGGGGAAGTGCAGGCAGTGAGAGGCGTAGATTTTTATTTGAACAAAGGGGAAACATTGGCAATTGTTGGTGAATCAGGTTCAGGTAAATCTGTAACAACAAAAGCAATTACAAAATTA > USA300TCH1516_ALE/990036‑990282 |
| 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: ‑ |