| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | USA300TCH1516_ALE | 39,195 | T→C | 62.2% | K647E (AAA→GAA) | pbp ← | Beta‑lactam‑inducible penicillin‑binding protein |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | USA300TCH1516_ALE | 39,195 | 0 | T | C | 62.2% | 18.5 / 30.3 | 32 | K647E (AAA→GAA) | pbp | Beta‑lactam‑inducible penicillin‑binding protein |
| Reads supporting (aligned to +/- strand): ref base T (9/3); new base C (8/12); total (17/15) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 7.59e-02 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.89e-01 | |||||||||||
AGCACTTATTAATAATTCATAATAAAACAGTGAAGCAACCATCGTTACGGATTGCTTCACTGTTTTGTTATTCATCTATATCGTATTTTTTATTACCGTTCTCATATAGCTCATCATACACTTTACCTGAGATTTTGGCATTGTAGCTAGCCATTCCTTTATCTTGTACATCTTTAACATTAATAGCCATCATCATGTTTGGATTATCTTTATCATATGATATAAACCACCCAATTTGTCTGCCAGTTTCTCCTTGTTTCATTTTGAGTTCTG > USA300TCH1516_ALE/39060‑39332 | aGCAATTATTAATTATTCATAATAAAACAGTGAAGCAACCATCGTTACGGATTGCTTCACTGTTTTGTTATTCATCTATATCGTATTTTTTATTACCGTTCTCATATAGCTCATCATACACTTTACCTGAGATTTTGGCAt < 2:284965/141‑1 (MQ=255) aaaataagaaTTCATAATAAATCAGTGAAGAAACCATCGTTACGGATTGATTCACTGTTTTGTTATTCATCTATATCGTATTTTTTATTACCGTTCTCATATAGCTCATCATACACTTTACCTGAGATTTTGGCATTGtag < 1:93683/137‑1 (MQ=255) aaaataaAACAGTGAAGCATCCATCGTTACGGATTACATCAATGTTTTGTTATTCATCTATATCGTATTTTTTATTACCGTTCTCATATAGCTCATCATACACTTTACCTGATTTGTCTTCATTGTAGCTAGCCATTCCtt < 1:94399/139‑1 (MQ=255) aaaaCAGGGAAGCAACCATCGTTACGGATTACTTCACTGTTTTGTTATTCATCTATATCGTATTTTTTATTACCGTTCTCATATAGCTCATCATACACTTTACCTGAGATTTCGGCATTGTAGCTAGCCATTCCTTTATCt < 1:155145/141‑1 (MQ=255) aGTGAAGCAACCATCGTTACGGATTGCTTCACTGTTTTGTTATTCATCTATATCGTATTTTTTATTACCGTTCTCATATAGCTCATCATACACTTTACCTGAGATTTCGGCATTGTAGCTAGCCATTCCTTTATCTTGTAc > 1:8388/1‑141 (MQ=255) cAACCATCGTTACGGATTGCTTCACTGTTTTGTTATTCATCTATATCGTATTTTTTATTACCGTTCTCATATAGCTCATCATACACTTTACCTGAGATTTTGGCATTGTAGCTAGCCATTCCTTTATCTTGTACATCTTTa < 2:74352/141‑1 (MQ=255) gtaaCGGATTGCTTCACTGTTTTGTTATTCACCTATATCGTATTTTTTATTACCGTTCTCATATAGCTCATCATACACTTTACCTGAGATTTCGGCATTGTAGCTAGCCATTCCTTTATCTTGTACATCTTTAACATTAAt < 1:133355/138‑1 (MQ=255) gTTACGGATTGCTTCACTGTTTTGTTATTCATCTATATCGTATTTTTTATTACCGTTCTCATATAGCTCATCATACACTTTACCTGCGATTTCGGCATTGTAGCTAGCCATTCCTTTATCTTGTACATCTTTAACATTAAt > 1:275704/1‑141 (MQ=255) gTTACGGATTGCTTCACTGTTTTGCTATTCATCTATATCGTATTTTTTATTACCGTTCTCATATAGCTCATCATACACTGTACCTGAGATTTCGGCATTGTAGCTAGCCATTCCTTTATCTTGTACATCTTTAACATTAAt > 1:288265/1‑141 (MQ=255) tGCTCCACTTTTTTGTTATTTATCTAAATCGTATTTTTTATTACCCTGCTCATATAGCTCATCATACACTTTACCTGAGATTTCGGCATTGTAGCTAGCCATTCCTTTATCTTGTACATCTTTAACATTAATAGCcatcat < 2:95746/141‑1 (MQ=255) ctattttGTTATTCATCTATATCGTATTTTTTATTACCGTTCTAATATAGCTCATCATACACTTTACCTGAGATTTCGGCATTGTAGCTAGCCATTCCTTTATCTTGTACATCTTTAACATTAATAGCCATCATCATGttt < 1:84529/138‑1 (MQ=255) tttGTTATTCATCTATATCGTATTTTTTATTACCGTTCTCATATAGCTCATCATACACTTTACCTGAGATTTCGGCATTGTAGCTAGCCATTCCTTTATCTTGTACATATTTAACATTAATAGCCATCATCATGTTTGGAt > 1:51890/1‑141 (MQ=255) ttGTTATTCATCTATATCGTATTTTTTATTACCGTTCTCATATAGCTCATCATACACTTTACCTGAGATTTTGGCATTGTAGCTAGCCATTCCTTTATCTTGTACATCTTTAACATTAATAGCCATCATCATGTTTGGAtt > 1:142979/1‑141 (MQ=255) tCATCTATATCGTATTTTTTATTACGGTTCTCATATAGCTCATCATACACTTTACCTGAGATTTCGGCATTGTAGCTAGCCATTCCTTTATCTTGTACATCTTTAACATTAATAGCCTTTATCTTGTTTCGATTATCtttt > 1:371477/1‑140 (MQ=255) ggaTTTTTTAGTACCGTTCTCATATAGCTCATCATACACTTTACCTGAGATTTCGGCATTGTAGCTAGCCATTCCTTTATCTTGTACATCTTTAACATTAATAGCCATCATCATGTTTGAATTATCTTTATCATATGatat < 2:143104/139‑1 (MQ=255) ttttttATTACCGTTCTCATATAGCTCATCATACACTTTACCTGAGATTTTGGCATTGTAGCTAGCCATTCCTTTATCTTGTACATCTTTAACATTAATAGCCATCATCATGTTTGGATTATCTTTATCATATGATATaaa > 1:142139/1‑141 (MQ=255) ttattaCCGTTCTCATATACCGCATCATACACTTTACCTGAGATTTCGGCATTGTAGCTAGCCATTCCTTTATCTTGTACATCTTTAACATTAATAGCCATCATCATGTTTGGATTATCTTTATCATATGATATAAaccac < 2:13775/141‑1 (MQ=255) atatAGCTCATCATACACTTTACCTGAGATTTTGGCATTGTAGCTAGACATTCCTTTATCTTGTACATCTTTAACATTAATAGCCGTCATCATGTTTGGATTATCTTTATCGTATCATATAAACCACCCACTTTGTCTGcc > 2:386876/1‑141 (MQ=255) ataGCTCATGCTACACTTTACCTGAGATTTTGGCATTGTAGCTAGCCATTCCTTTATCTTGTACATCTTTAACATTAATAGCCATCATCATGTTTGGATTATCTTTATCATATGATATAAACCACCCAATTTGTCTGCCAg > 1:290070/1‑141 (MQ=255) aGCTCATCATACACTTTACCTGAGATTTCGGCATTGTAGCTAGCCATTCCTTCATCTTGTACATCTTTAACATTAATAGCCATCATCATGTTTGGATTATCTTTATCATATGATATAAACCACCCAATTTGTCTACCAGtt < 2:248697/141‑1 (MQ=255) atcatACACTTTACCTGAGATTTCGGCATTGTAGCTAGCCATTCCTTTATCTTGTACATCTTTAACATTAATAGCCATCATCATGTTTGGATTATCTTTATCATATGATATAAACCACCCAATTTGTCTGCCAGTTTCTcc > 1:204308/1‑141 (MQ=255) ttACACTTTACCTGGGATTTCGGCATTGTAGCTAGCCATTCCTTTATCTTGTACATCTTTAACATTAATAGCCATCATCATGTTTGGATTATCTTTATCATATGATATAAACCACCCAATTTGTCTGCCAGTTTCTCCTTg < 2:1055/140‑1 (MQ=255) tgcacTTTACCTGAGGTTTTGGCATTGTAGCTAGCCATTCCTTTATCTTGTACATCTTTAGCATTAATAGCCATCATCATGTTTGGCTTATCATTATCATATGATATAAACCACCCAATTTGTCTGCCAGTTTCTCCTTGt > 1:186975/3‑141 (MQ=255) acacTTTACCTGAGATTTTGGCCTTGTAACTAGCCATTCCTTTATCTTGTACATCTTTAACATTAATAGCCATCATCATGTTGGGATTATCTTTATCATATGATATAAACCACGCAATTTGTCTGCCAGTTTCTGCTTGtt > 1:29482/1‑141 (MQ=255) acacTTTACCTGAGATTTTGGCATTGTAGCTAGCCATTGCTTTATCTTGTATATATTTCCAATTCATAGCCCTCGTCATGTTTGGATTATCTTTAGCATATTATATAAACCACCCAATTTGTTCGCCAGTTTCTACTTGtt > 2:229832/1‑141 (MQ=255) acacTTTACCTGAGATTTCGGCATTGTAGCTAGCCATTCCTTTATCTTGTACATCTTTAACATTAATGGCCATCATCATGTTTGGATTATCTTTATCATATGATATAAACCACCCAATTTTTCTGCCAGTTTCTCCTTGtt > 1:170886/1‑141 (MQ=255) accgtcgccTGAGATTTCGGCATTGTAGCTAGCCATTCCTTTATTATGTACATCTTTAACATTAATAGCCATCATCATGTTTGGGTTATCTTTATCATATGATAGAAACCACCCAATTTGTCTGCCAGTTTCTCCTTGgtt < 2:4330/134‑1 (MQ=255) acTTTACCTGAGATTTTGGCATTGTAGCTAGCCATTCCTTTATCTTGTACATCTTTAACATTAATAGCCATCATCATGTTTGGATTATCTTTTTCATATGATATAAACCACCCAATTTGTCTGCCGGTTTCTCCTTGtttt > 2:270932/1‑140 (MQ=255) acTTTACCTGAGATTTTGGCATTGTAGCTAGCCATTCCTTTATCTTGTACATCTTTAACATTAATAGCCATCATCATGTTTGGATTATCTTTATCATATGATATAAACCACCCAATTTGTCTCCCACCTTCTCCTTCTTTc > 2:333878/1‑141 (MQ=255) tACCGGCGATTTCGGCCTTGTAGCTAGCCATTCCTTTATCTTGTACATCTTTACCATTAATAGCCATCATCATGTTTGGATTAACTCTATAATACGATCTCAACCACCCAATTAGTCTACCATTTTCTCCTTGTTTCtttt < 2:331242/141‑1 (MQ=255) gagaTTTCGGCATTGTAGCTAGCCTTTCCTTTATCTTGTACATCTTTAACATTAATAGCCATCATCATGTTTGGATTATCTTTATCATATGATATAAACCACCCAATTTGTCTGCCAGTTTCTCCTTGTTTCTTTTTgtgt > 1:192116/1‑141 (MQ=255) gaTTTCGGCATTGTAGCTAGCCATTCCTTTATCTTGTACATCTTTAACATTAATAGCCATCATCATGTTTGGATTATCTTTATCATATGATATAAACCACCCAATTTGTCTGCCAGTTTCTCCTTGTTTCATTTTGAGTTc < 1:29841/141‑1 (MQ=255) tttcGGTATTGTAGCTAGCCATTCCTTTATCTTGTACATCTTTAACATTAATAGCCATCATCATGTTTGGATTATCTTTATCATATGATATAAACCACCCAATTTTTCTGCCAGTTTCTCCTTGTTTCATTTTGAGTTCTg < 2:345967/141‑1 (MQ=255) | AGCACTTATTAATAATTCATAATAAAACAGTGAAGCAACCATCGTTACGGATTGCTTCACTGTTTTGTTATTCATCTATATCGTATTTTTTATTACCGTTCTCATATAGCTCATCATACACTTTACCTGAGATTTTGGCATTGTAGCTAGCCATTCCTTTATCTTGTACATCTTTAACATTAATAGCCATCATCATGTTTGGATTATCTTTATCATATGATATAAACCACCCAATTTGTCTGCCAGTTTCTCCTTGTTTCATTTTGAGTTCTG > USA300TCH1516_ALE/39060‑39332 |
| 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: ‑ |