| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | USA300TCH1516_ALE | 2,827,037 | T→C | 7.0% | I94T (ATC→ACC) | icaA → | Poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine synthase |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | USA300TCH1516_ALE | 2,827,037 | 0 | T | C | 7.0% | 155.8 / 2.6 | 58 | I94T (ATC→ACC) | icaA | Poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine synthase |
| Reads supporting (aligned to +/- strand): ref base T (28/25); new base C (2/2); total (30/28) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.67e-01 | |||||||||||
GCATTACATTTTTACTTGCCTGTTATAACGAAAGTGAAACGATTGAAGATACGTTGTCTAATGTTCTTGCACTCAAATACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACTCAATCAAGGCATTAAACAGGCTTCATATGATTATGTAATGTGCTTGGATGCAGATACTATCGT > USA300TCH1516_ALE/2826899‑2827172 | gCATTACATTTTTACTTGCCTGTTATAACGAAAGTGAAACGATTGAAGATACGTTGTCTAATGTTCTTGCACTCAAACACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATc < 1:125894/140‑1 (MQ=255)cccttACGTGTTGACTTGCCTGTTATAACGAAAGTGAAACGATTGAAGATACGTTGTCTAATGTTCTTGCACTCAAATACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATc < 1:134214/137‑1 (MQ=255) aTTACATTTTTACTTGCCTGTTATAACGAAAGTGAAACGATTGAAGATACGTTGTCTAATGTTCTTGCACTCAAATACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCta > 2:50588/1‑140 (MQ=255) tACATTTTTACTTGCCTGTTATAACGAAAGTGAAACGATTGAAGATACGTTGTCTAATGTTCTTGCACTCAAATACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCAtgtcgc > 1:126857/1‑135 (MQ=255) tACATTTTTACTTGCCTGTTATAACGAAAGTGAAACGATTGAAGATACGTTGTCTAATGTTCTTGCACTCAAATACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCtata > 1:63245/1‑140 (MQ=255) aTTTTTACTTGCCTGTTATAACGAAAGTGAAACGATTGAAGATACGTTGTCTAATGTTCTTGCACTCAAATACGAGAAGAAAGAAATTATTATCATTAGTGATGGAAGTTCAGATAATACAGCAGAACTCATCTATagaa > 1:32351/1‑140 (MQ=255) tttttACTTGCCTGTTATAACGAAAGTGAGACGATTGAAGATACGTTGTCTAATGTTCTTGCACTCAAATACGAGACGAAAGAAATGATTATCATTAATGATGGAAGTCCAGATAAGACAGCAGAACTCATCTATAAGAt > 1:113463/1‑140 (MQ=255) tttttACTTGCCTGTTATAACGAAAGTGAAACGATTGAAGATACGTTGTCTAATGTTCTTGCACTCAAATACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAAt > 2:438828/1‑140 (MQ=255) ttGCCTGTTATAACGAAAGTGAAACGATTGAAGATACGTTGTCTAATGTTCTTGCACTCAAATACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCCTCTATAAAATCAAAGaa > 2:431450/1‑140 (MQ=255) cTGTTATAACGAAAGTGAAACGATTGAAGATACGTTGTCTAATGTTCTTGCACTCAAATACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAaata < 1:81984/140‑1 (MQ=255) cTGTTATAACGAAAGTGAAACGATTGAAGATACGTTGTCTAATGTTCTCGCCTTCAAGTACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAaata < 1:415390/140‑1 (MQ=255) gAAAGTGAAACGATTGAAGATACGTTGTCTAATGTTCTTGCACTCAAATACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCGTCTATAAAATCAAAGAAAATAATGAGTTTAt > 1:246926/1‑140 (MQ=255) aaGTGAAACTATTGAAGATAGGGTGGCTAATGTTCTTGCACTCAAATACGAGAAGAAAGAAATTGTTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTAttt > 1:400524/1‑140 (MQ=255) aaGTGAAACGATTGAAGATACGTTGTCTAATGTTCTTGCACTCAAATACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTAttt > 1:349955/1‑140 (MQ=255) gAAACGATTGAAGATACGTTGTCTAATGTTCTTGCACTCAAATACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTtcgt > 1:6733/1‑140 (MQ=255) aaaCGATTGAAGATACGTTGTCTAATGTTCTTGCACTCAAATACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGACATCACCTATAAAATCAAAGAAAATAATGACTTTCTTTtcgtc > 2:393353/1‑140 (MQ=255) aaaCGATTGAAGATACGTTGTCTAATGTTCTTGCACTCAAATACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTtcgtc < 2:446080/140‑1 (MQ=255) aaaCGATTGAAGATACGTTGTCTAATGTTCTTGCACTCAAATACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCACCTATAAAATCAAAGAAAATAATGACTTTATTTtcgtc > 2:431587/1‑140 (MQ=255) aaCGATTGAAGATACGTTGTCTAATGTTCTTGCACTCAAATACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTtcgtcg > 2:202003/1‑140 (MQ=255) aCGATTGAAGATACGTTGTCTAATGTTCTTGCACTCAAATACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAATTCAAAGAAATTAATGACTTTATTTTAGTCGa > 1:41383/1‑140 (MQ=255) cTAATGTTCTTGCACTCAAATACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCAGCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGt < 1:360346/140‑1 (MQ=255) aTGTTCTTGCACTCAAATTCGAGAAGAAAGAGATTATTATCATTAATGATGGAAGTTCAGATAAGACAGCAGAAGTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTaaa < 1:303601/140‑1 (MQ=255) cTTGCACTCAAATACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCaa > 2:465257/1‑140 (MQ=255) ttGCACTCAAATACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATCAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCaaa > 2:396402/1‑139 (MQ=255) tggCACTCAAATACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAAc < 1:23048/138‑1 (MQ=255) aCTCAAATACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCAc > 2:54083/1‑140 (MQ=255) tCACATACGAGAAGAAAGAAATTATTATCAGTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATACAATCAAAGAAAATAATGACTTGATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACtc < 2:178082/140‑1 (MQ=255) tCAAATACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACtc < 1:123116/140‑1 (MQ=255) tCAAATACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACtc < 1:446028/140‑1 (MQ=255) tCAAATACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACtc < 1:533874/140‑1 (MQ=255) aaTACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACtcaat < 1:50588/140‑1 (MQ=255) aCGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACACGAAAACAGAGGTACAGCCAACGCACtcaatcac > 2:314664/1‑139 (MQ=255) cGAAAAGAAACAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACTCAATCAAg < 2:342893/140‑1 (MQ=255) gagaAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACTCAATCAAgg > 2:446886/1‑140 (MQ=255) agaagaAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGTAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACTCAATCAAGGc < 1:359671/140‑1 (MQ=255) agaagaAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACTCAATCAAGGc > 1:535166/1‑140 (MQ=255) aagaaagaAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACTCAATCAAGGCAt < 2:349955/140‑1 (MQ=255) taaaTTATTATCATGAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACTCAATCAAGGCATTAAACa < 1:243308/139‑1 (MQ=255) aaTTATTATCCTTAATGATGGAAGTGCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACTCAATCAAGGCATTAAACAgg < 2:292405/140‑1 (MQ=255) aaTTATTATCATTAATGATGGCAGTTCAGATAATACAGCAGAACTAATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGAATCACCAGAAAACAGCGGTAAAGACAACAGACTCAATCAAAGCATGACACAgg > 1:555988/1‑140 (MQ=255) aaTTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACTCAATCAAGGCATTAAACAgg > 1:219219/1‑140 (MQ=255) attattATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACTCAATCAAGGCATTAAACAGGc < 1:157763/140‑1 (MQ=255) tattatCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACTCAATCAAGGCATTAAACAGGCtt > 1:492640/1‑140 (MQ=255) tattatCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACTCAATCAAGGCATTAAACAGGCtt < 2:351286/140‑1 (MQ=255) attatCATGAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACTCAATCAAGGCATTAAACAGGCTTc < 1:159486/140‑1 (MQ=255) ttatCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACTCAATCAAGGCATTAAACAGGCTTCa < 1:129609/140‑1 (MQ=255) gatgGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTACGCCAATTTTCATGAAAACAGAGGTAAAGCCAACGCACTCACTCAAAGCATAAAACAGCCTTCATATAATTACGt > 2:142231/1‑140 (MQ=255) ggAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACTCAATCAAGGCATTAAACAGGCTTCATATGATTATGTAAt > 1:140713/1‑140 (MQ=255) ggAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACTCAATCAAGGCATTAAACAGGCTTCATATGATTATGGAAt > 1:441110/1‑140 (MQ=255) gAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTGGTCGATTAACAAGAAAACAGAGGTAAAGCCAACGCACTCAATCAAGGCATTAAACAGGCTTCATATGATTATGTAAtg < 1:131849/140‑1 (MQ=255) ttCAGATAGTACAGCAGAACTCATCTATAAAATCAAAGAAACCAATGACTTTATTTTCGTCGATTTACAAGAAACCAGAGGTAAAGCCAACGCACTCAATCAAGGCATTAAACAGGCTTCATATGATTATGTAATGTGCt < 1:58903/140‑1 (MQ=255) tCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACTCAATCAAGGCATTAAACAGGCTTCATATGATTATGTAATGTGCtt > 2:571345/1‑140 (MQ=255) tCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCAAACGCACTCAATCAAGGCATTAAACAGGCTTCATATGATTATGGAATGTGCtt > 2:387500/1‑140 (MQ=255) gATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACATTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACTCAATCAAGGCATTAAACAGGCTTCATATGATTATGTAATGTGCTTGGa < 1:443162/140‑1 (MQ=255) aCAGCAGAACTCACCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACTCAATCAAGGCATTAAACAGGCTTCATATGATTATGTAATGTGCTTGGATGCAGa < 1:431587/140‑1 (MQ=255) aCAGCAGAACCCACCTATAAAATCAAAGAAAATAAGGACTTTATTTTCGTCGAGTTACAAGAAAACAGAGGTAAAGCCAACGCACTCAATCAAGGCATTCAACAGCCTTCATATGATTATGTAATGTGCTTGGATGCAGa < 1:393353/140‑1 (MQ=255) gtgcagGACTAATATATAAAATAAAAGAAAATAATGACTGGATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGGCAACGCGCTCAAGCAAGGCATTAAACAGGCTTCATATGATTATGTAATGTGCTTGGATGCAGAt < 1:501816/138‑1 (MQ=255) gcagAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACTCAATCAAGGCATTAAACAGGCTTCATATGATTATGTAATGTGCTTGGATGCAGATAc > 2:311694/1‑140 (MQ=255) cTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACTCAATCAAGGCATTAAACAGGCTTCATATGATTATGTACTGTGCTTGGATGCAGATACTATCGt > 1:306749/1‑140 (MQ=255) | GCATTACATTTTTACTTGCCTGTTATAACGAAAGTGAAACGATTGAAGATACGTTGTCTAATGTTCTTGCACTCAAATACGAGAAGAAAGAAATTATTATCATTAATGATGGAAGTTCAGATAATACAGCAGAACTCATCTATAAAATCAAAGAAAATAATGACTTTATTTTCGTCGATTTACAAGAAAACAGAGGTAAAGCCAACGCACTCAATCAAGGCATTAAACAGGCTTCATATGATTATGTAATGTGCTTGGATGCAGATACTATCGT > USA300TCH1516_ALE/2826899‑2827172 |
| 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: ‑ |