| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | USA300TCH1516_ALE | 2,544,339 | C→T | 100% | V189V (GTC→GTT) | hlgC_2 → | Gamma‑hemolysin component C |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | USA300TCH1516_ALE | 2,544,339 | 0 | C | T | 96.7% | 81.4 / ‑3.5 | 31 | V189V (GTC→GTT) | hlgC_2 | Gamma‑hemolysin component C |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base T (14/15); total (15/16) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.29e-01 | |||||||||||
| Rejected as polymorphism: E-value score below prediction cutoff. | |||||||||||
| Rejected as polymorphism: Frequency below/above cutoff threshold. | |||||||||||
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. | |||||||||||
TCAGCCCCATCACTCGGTGGTAATGGATCATTTAACTATTCTAAATCGATTAGCTATACACAACAAAATTATGTAAGTGAAGTAGAACAACAAAACTCAAAAAGTGTTTTATGGGGCGTCAAAGCGAATTCATTCGCCACTGAATCAGGTCAAAAATCAGCCTTTGATAGCGATTTATTTGTAGGCTACAAACCTCATAGTAAAGATCCTAGAGATTATTTCGTTCCAGACAGTGAGTTAC > USA300TCH1516_ALE/2544220‑2544460 | tCAGCCCCATCACTCGGTGGTAATGGATCATTTAACTATTCTAAATCGATTAGCTATACACAACAAAATTATGTAAGTGAAGTAGAACAACAAAACTCAAAAAGTGTTTTATGGGGCGTTAAAGCGAATTCATTCGCCAc > 1:196217/1‑140 (MQ=255)tCAGCCCCATCACTCGGTGGTAATGGATCATTTAACTATTCTAAATCGATTAGCTATACACAACAAAATTATGTAAGTGAAGTAAAACAACAAAACTCAAAAAGTGTTTTATGGGGCGTTAAAGCGAATTCATTCGCCAc > 1:196266/1‑140 (MQ=255) cATCACTCGGTGGTAATGGATCATTTAACTATTCTAAATCGATTAGCTATACACAACAAAATTATGTAAGTGAAGTAGAACAACAAAACTCAAAAAGTGTTTTATGGGGCGTTAAAGCGAATTCATTCGCCACTGAATCa > 1:763804/1‑140 (MQ=255) ggtggtAATGGATCATTTAACTATTCTAAATCGATTAGCTATACACAACAAAATTATGTAAGTGAAGTAGAACAACAAAACTCAAAAAATGTTTTATGGGGCGTTAAAGCGAATTCATTCGCCACTGAATCAGGTCaaaa > 1:102719/1‑140 (MQ=255) ggtAATGGATCATTTAACTATTCTAAATCGATTAGCTATACACAACAAATTCCTTTAAGTGAAGTAGAACAACAAAACTCAAAAAGTGTTTTATGGGGCGTTAAAGCGAATTCATTCGCCACTGAATCAGGTCAAAAATc < 1:593727/140‑1 (MQ=255) aTGGATCATTTAACTATTCTAAATCGATTAGCTATACACAACAAAATTATGTAAGTGAAGTAGAACAACAAAACTCAAAAAGTGTTTTATGGGGCGTTAAAGCGAATTCATTCGCCACTGAATCAGGTCAAAAATCAGcc > 1:97324/1‑140 (MQ=255) aTGGATCATTTAACTATTCTAAATCGATTAGCTATACACAACAAAATTATGTAAGTGAAGTAGAACAACAAAACTCAAAAAGTGTTTTATGGGGCGTTAAAGCGAATTCATTCGCCACTGAATCAGGTCAAAAATCAGcc < 1:570877/140‑1 (MQ=255) tAACTATTCTAAATCGATTAGCTATACACAACAAAATTATGTAAGTGAAGTAGAACAACAAAACTCAAAAAGTGTTTTATGGGGCGTTAAAGCGAATTCATTCGCCACTGAATCAGGTCAAAAATCAGCCTTTGATAGCg > 1:457593/1‑140 (MQ=255) aaCTATTCTAAATCGATTAGCTATACACAACAAAATTATGTAAGTGAAGTAGAACAACAAAACTCAAAAAGTGTTTTATGGGGCGTTAAAGCGAATTCATTCGCCACTGAATCAGGTCAAAAATCAGCCTTTGATAGCGa < 1:602261/140‑1 (MQ=255) aaCTATTCTAAATCGATTAGCTATACACAACAAAATTATGTAAGTGAAGTAGAACAACAAAACTCAAAAAGTGTTTTATGGGGCGAATAAGCGAATTCATTCGCCACTGAATCAGGTCAAAAATCAGCCTTTGATAGCGa > 1:593619/1‑140 (MQ=255) tCTAAATCGATTATCTTTCCACAACAAAATTATGTAAGTGAAGTATAATTACTTCACTCTTAAAGTGTTTTATGGGGCGTTAAAGTGAATTTATTCGTCACTGAATCAGGTCAAAAATCAGCCTTTGATAGCGatttatt < 1:674583/140‑1 (MQ=255) gATTAGCTATACACAACAAAATTATGTAAGTGAAGTAGAACAACAAAACTCAAAAAGTGTTTTATGGGGCGTTAAAGCGAATTCATTCGCCACTGAATCAGGTCAAAAATCAGCCTTTGATAGCGATTTATTTGTAGGCt < 1:681061/140‑1 (MQ=255) aTTAGCTATACACAACAAAATTATGTAAGTGAAGTAGAACAACAAAACTCAAAAAGTGTTTTATGGGGCGTTAAAGCGAATTCATTCGCCACTGAATCAGGTCAAAAATCAGCCTTTGATAGCGATTTATTTGTAGGCTa < 1:341838/140‑1 (MQ=255) tAGCTATACAAAACAAAATTATGTAAGTGAAGTAGAACAACAAAACTCAAAAAGTGTTTTATGGGGCGTCAAAGCGAATTCATTCGCCACTGAATCAGGTCAAAAATCAGCCTTTGATAGCGATTTATTTGTAGGCTACa < 1:430247/140‑1 (MQ=255) ataCACAACAAAATTATGTAAGTGAAGTAGAACAACAAAACTCAAAAAGTGTTTTATGGGGCGTTAAAACGAATTCATTCGCCACTAAATAAGGTCAAAAAGCAGCCATTGATAGCGGTTTATTTGTAGCCTACAAACCt > 1:236726/1‑140 (MQ=255) cacaACAAAATTATGTAAGTGAAGTAGAACAACAAAACTCAAAAAGTGTTTTATGGGGCGTTAAAGCGAATTCATTCGCCACTGAATCAGGTCAAAAATCAGCCTTTGATAGCGATTTATTTGTAGGCTACAAACCTCAt > 1:601352/1‑140 (MQ=255) cacaACAAAATTATGTAAGAGAAATAGAACAACAAAACTCAAAAATTGTTTTATGGGGCGTTAAAGCGAATTCATTCGCCACTGAATCAGGTCAAAAATCAGCCTTTGATAGCGATTTATTTGTAGGCTACAAACCTCAt < 1:479847/140‑1 (MQ=255) caaAATTATGTAAGTGAAGTAGAACAACAAAACTCAAAAAGTGTTTTATGGGGCGATAAAGCGAATTCATTCGCCACTGACTCAGGTCAAAAATCAGCCTTTGATAGCGATTTATTTGTAGGCTACAAACCTAATAGTaa > 1:394676/1‑140 (MQ=255) aaTTATGTAAGTGAAGTAGAACAACAAAACTCAAAAAGTGTTTTATGGGGCGTTAAAGCGAATTCATTCGCCACTGAATCAGGTCAAAAATCAGCCTTTGATAGCGATTTATTTGTAGGCTACAAACCTCATAGTAAAGa > 1:683837/1‑140 (MQ=255) gTAAGTGAAGTAGAACAACAAAACTCAAAAAGTGTTTTATGGGGCGTTAAAGCGAATTCATTCGCCACTGAATCAGGTCAAAAATCAGCCTTTGATAGCGATTTATTTGTAGGCTACAAACCTCATAGTAAAGATCCAag > 1:541926/1‑140 (MQ=255) tGAAGTAGAACAACAAAACTCAAAAAGTGTTTTATGGGGCGTTAAAGCGAATTCATTCGCCACTGAATCAGGTCAAAAATCAGCCTTTGATAGCGATTTATTTGTAGGCTACAAACCTCATAGTAAAGATCCTAGAGatt < 1:266139/140‑1 (MQ=255) aaGTAGAACAACAAAACTCAAAAAGTGTTTTATGGGGCGTTAAAGCGAATTCATTCGCCACTGAATCAGGTCAAAAATCAGCCTTTGATAGCGATTTATTTGTAGGCTACAAACCTCATAGTAAAGATCCTAGAGattat < 1:585225/140‑1 (MQ=255) gTAGAACAACAAAACTCAAAAAGTGTTTTATGGGGCGTTAAAGCGAATTCATTCGCCACTGAATCAGGTCAAAAATCAGCCTTTGATAGCGATTTATTTGTAGGCTACAAACCTCATAGTAAAGATCCTAGAGATTAttt < 1:453969/140‑1 (MQ=255) aGAACAACAAAACTCAAAAAGTGTTTTATGGGGCGTTAAAGCGAATTCATTCGCCACTGAATCAGGTCAAAAATCAGCCTTTGATAGCGATTTATTTGTAGGCTACAAACCTCATAGTAAAGATCCTAGAGATTAtttgg > 1:167556/1‑138 (MQ=255) aGAACAACAAAACTCAAAAAGTGTTTTATGGGGCGTTAAAGCGAATTCATTCGCCACTGAATCAGGTCAAAAATCAGCCTTTGATAGCGATTTATTTGTAGGCTACAAACCTCATAGTAAAGATCCTAGAGATTATTTCg > 1:278019/1‑140 (MQ=255) aacaacAAAACTCAAAAAGTGTTTTATGGGGCGTTAAAGCGAATTCATTCGCCACTGAATCAGGTCAAAAATCAGCCTTTGATAGCGATTTATTTGTAGGCTACAAACCTCATAGTAAAGATCCTAGAGATTATTTCGtt > 1:729092/1‑140 (MQ=255) aaCTCAAAAAGTGTTTTATGGGGCGTTAAAGCGAATTCATTCGCCACTGAATCAGGTCAAAAATCAGCCTTTGATAGCGATTTATTTGTAGGCTACAAACCTCATAGTAAAGATCCTAGAGATTATTTCGTTCCAGACAg < 1:436829/140‑1 (MQ=255) aaaaaGTGTTTTATGGGGCGTTAAAGCGAATTCATTCGCCACTGAATCAGGTCAAAAATCAGCCTTTGATAGCGATTTATTTGTAGGCTACAAACCTCATAGTAAAGATCCTAGAGATTATTTCGTTCCAGACAGTGAGt < 1:615296/140‑1 (MQ=255) aaaaGTGTTTGATGGGTCGTTAACGCGAAGGCATCCGCCACTGCTTGCTTACAAAAATCAGCCTTTGATAGCGATTTATTTGTAGGCTACAAACCTCATAGTAAAGATCCTAGAGATTATTTCGTTCCAGACAGTGAGtt < 1:172952/140‑1 (MQ=255) aaGTGTTTTATGGGGCGTTAAAGCGAATTCATTCGCCACTGAATCAGGTCAAAAATCAGCCTTTGATAGCGATTTATTTGTAGGCTACAAACCTCATAGTAAAGATCCTAGAGATTATTTCGTTCCAGACCGTGAGTTac < 1:560930/140‑1 (MQ=255) aaGTGTTTTATGGGGCGTTAAAGCGAATTCATTCGCCACTGAATCAGGTCAAAAATCAGCCTTTGATAGCGATTTATTTGTAGGCTACAAACCTCATAGTAAAGATCCTAGAGATTATTTCGTTCCAGACAGTGAGTTac < 1:333763/140‑1 (MQ=255) | TCAGCCCCATCACTCGGTGGTAATGGATCATTTAACTATTCTAAATCGATTAGCTATACACAACAAAATTATGTAAGTGAAGTAGAACAACAAAACTCAAAAAGTGTTTTATGGGGCGTCAAAGCGAATTCATTCGCCACTGAATCAGGTCAAAAATCAGCCTTTGATAGCGATTTATTTGTAGGCTACAAACCTCATAGTAAAGATCCTAGAGATTATTTCGTTCCAGACAGTGAGTTAC > USA300TCH1516_ALE/2544220‑2544460 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |