| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | USA300TCH1516_ALE | 1,416,458 | A→T | I216N (ATT→AAT) | oppD_4 ← | Oligopeptide transport ATP‑binding protein OppD |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | USA300TCH1516_ALE | 1,416,458 | 0 | A | T | 92.9% | 36.1 / NA | 14 | I216N (ATT→AAT) | oppD_4 | Oligopeptide transport ATP‑binding protein OppD |
| Reads supporting (aligned to +/- strand): ref base A (1/0); new base T (9/4); total (10/4) | |||||||||||
| 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 | |||||||||||
GTAATCCCTCTTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAAATGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCAA > USA300TCH1516_ALE/1416337‑1416579 | gTAATCCCTCTTTACTTGTGTTCTATATTTAATTATACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTg > 1:177811/1‑129 (MQ=255)gTAATCCCTCTTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATAAGAATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTg > 1:145610/1‑129 (MQ=255) aaTTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAAt < 2:197343/129‑1 (MQ=255) ttCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTCACAATATTTCAATACATGAc > 2:30744/1‑129 (MQ=255) cGGATGCAAATGCTCATACTTGAAATGATGAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTTTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGt > 2:174441/1‑129 (MQ=255) gCTCATACTTGAACTGATTAATATTACCTCGTTCAATGAATTAAACTCCTTTTAAAAAATAATTGTACTGACAATATTTAAATACATGAATTAAGATATGTGAGATAATAAATAAAGTATGACCATGtt > 2:119728/1‑129 (MQ=255) gAAATGATTCCTATTACCTCGTTCACTGATTTGACCTTCTTTAAAAACAAAAAAAAACTAACAATATTACAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAat > 1:4848/1‑129 (MQ=255) gAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAat > 1:47029/1‑129 (MQ=255) gAAATGATGAATATTACATCGATCCACGACTTGACGTTCTTTTAAAACATAATTGTACTGACAACATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATATATGACCATGTTCTAATACAat > 2:39660/1‑129 (MQ=255) tGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGc < 1:95864/129‑1 (MQ=255) tACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATATTTGACCATGTTCTAATACAATATGATGTAATAAAt > 1:198909/1‑129 (MQ=255) gATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGATGTAATAAATCCATCACTTGAtt < 1:216634/129‑1 (MQ=255) ttAAAACATAATTGTACTGACAATATTTCAATACATGACTTAAGTTATGCCTGATAATGAACAATGTTCACCCATGTTCTAATACAATATAAAGTCATAAATCCATCACTTGATATCCGCTCAAACCaa > 2:217812/1‑128 (MQ=255) aaCATAATTGTACTGACAATATGTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCaa < 1:30744/129‑1 (MQ=255) | GTAATCCCTCTTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAAATGTACTGACAATATTTCAATACATGACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCAA > USA300TCH1516_ALE/1416337‑1416579 |
| 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: ‑ |