| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | USA300TCH1516_ALE | 2,018,612 | G→A | 100% | R103* (CGA→TGA) | mgt ← | Monofunctional glycosyltransferase |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | USA300TCH1516_ALE | 2,018,612 | 0 | G | A | 97.5% | 116.4 / ‑5.2 | 37 | R103* (CGA→TGA) | mgt | Monofunctional glycosyltransferase |
| Reads supporting (aligned to +/- strand): ref base G (0/1); new base A (20/16); total (20/17) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.59e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.94e-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. | |||||||||||
ATTATCATAAAAATAATTTTTGACAACTTGTTGTGTAATGGTACTACCACCTTGCACATCTCTGTCGCTAATCGTTGAAAATAAAGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCGTTCATCTTCCATTGAAATAAAGGCACCTTTAACATACTCTGGCATGTTATCAGCTGACACAAAACTACTTTTATTTTCAATTTTTCTTAGTTCATCCACATTATCGCGTGTAGATAAAAAATACA > USA300TCH1516_ALE/2018481‑2018737 | aTTATCATAAAAATAATTTTTGACAACTTGTTGTGTAATGGTACTACCACCTTGCACATCTCTGTCGCTAATCGTTGAAAATAAAGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTc < 2:2762/141‑1 (MQ=255)aTTATCATAAAAATAATTTTTGACAACTTGTTGTGTAATGGTACTACCACCTTGCACATCTCTGTCGCTAATCGTTGAAAATAAAGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGGAGAATCATTCATCTTc < 1:234736/141‑1 (MQ=255) ttATCATAAAAATAATTTTTGACAACTTGTTGTGTAATGGTACTACCACCTTGCACATCTCTGTCGCTAATCGTTGAAAATAAAGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTAATCTTcc > 2:237207/1‑141 (MQ=255) aTCATAAAAATAATTTTTGACAACTTGTTGTGTAATGGTACTACCACCTTGCACATCTCTGTCGCTAATCGTTGAAAATAAAGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATGATTCATCTTCCAt > 2:284267/1‑141 (MQ=255) aTCATAAAAATAATTTTTGACAACTTGTTGTGTAATGGTACTACCACCTTGCACATCTCTGTCGCTAATCGTTGAAAATAAAGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTCCAt < 2:30963/141‑1 (MQ=255) ataatTTTTGACAACTTGTTGTGTAATGGTACTACCACCTTGCACATCTCTGTCGCTAATCGTTGAAAATAAAGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTTCATTGAAATaaa > 1:246561/1‑141 (MQ=255) ataatTTTTGACAACTTGTTGTGTAATGGTACTACCACCTTGCACATCTCTGTCGCTAATCGTTGAAAATAAAGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTCCATTGAAATaaa > 2:22183/1‑141 (MQ=255) aatTTTTGACAACTTGTTGTGTAATGGTACTACCACCTTGCACATCTCTGTCGCTAATCGTTGAAAATAAAGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTCCATTGAAATAAAgg < 1:123306/141‑1 (MQ=255) atTTTTGACAACTTGTTGTGTAATGGTACTACCACCTTGCACATCTCTGTCGCTAATCGTTGAAAATAAAGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTCCATTGAACTAAAGGc > 1:194479/1‑141 (MQ=255) atTTTTGACAACTTGTTGTGTAATGGTACTACCACCTTGCACATCTCTGTCGCTAATCGTTGAAAATAAAGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTCCATTGAAATAAAGGc > 1:43106/1‑141 (MQ=255) atTTTTGACAACTTGCTGTGTAATGGTACTACCACCTTGCACATCTCTGTCGCTAATCGTTGAAAATAAAGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTCCATTGAAATAAAGGc > 1:292994/1‑141 (MQ=255) tttttGACAACTTGTTGTGTAATGGTACTACCACCTTGCACATCTCTGTCGCTAATCGTTGAAAATAAAGCTCTAGATGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTCCATTGAAATAAATGCa > 2:42243/1‑141 (MQ=255) aCTTGTTGTGTAATGGTACTACCACCTTGCACATCTCTGTCGCTAATCGTTGAAAATAAAGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTCCATTGAAATAAAGGCACCTTTAACa > 1:207707/1‑141 (MQ=255) cTTGTTGTGTAATGGTACTGCCACCTTGCACATCTCTGTCGCTAATCGTTGAAAATAAAGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTCCATTGAAATAAAGGCACCTTTAACAt > 1:295523/1‑141 (MQ=255) ggTACTACCACCTTGCACATCTCTGTCGCTAATCGTTGAAAATAAAGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATGCATCTTCCATTGAAATAAAGGCACCTTTAACATACTCTGGCATGtt > 1:73611/1‑141 (MQ=255) tactacCACCTTGCACATCTCTGTCGCTAATCGTTGAAAATAAAGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTCCATTGAAATAAAGGCACCTTTAACATACTCTGGCATGTTAt < 1:232272/141‑1 (MQ=255) ccaccTTGCACATCTCTGTCGCTAATCGTTGAAAATAAAGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTCCATTGAAATAAAGGCACCTTTAACATACTCTGGCATGTTATCAGCt > 1:270453/1‑141 (MQ=255) ccaccTTGCACATCTCTGTCGCTAATCGTTGAAAATAAAGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTCCATTGAAATAAAGGCACCTTTAACATACTCTGGCATGTTATCAGCt < 1:173096/141‑1 (MQ=255) ccTTGCACATCTCTGTCGCTAATCGTTGAAAATAAAGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTCCATTGAAATAAAGGCACCTTTAACATACTCTGGCATGTTATCAGCTGac > 1:208416/1‑141 (MQ=255) caTCTCTGTCGCTAATCGTTGAAAATAAAGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTCCATTGAAATAAAGGCACCTTTAACATACTCTGGCATGTTATCAGCTGACACAAAac < 1:157487/141‑1 (MQ=255) tctcTGTCGCTAATCGTTGAAAATAAAGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTCCATTGAAATAAAGGCACCTTTAACATACTCTGGCATGTTATCAGCTGACACAAAacta > 2:34090/1‑141 (MQ=255) tctcTGTCGCTAATCGTTGAAAATAAAGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTCCATTGAAATAAAGGCACCTTTAACATACTCTGGCATGTTATCAGCTGACACAAAacta > 1:85693/1‑141 (MQ=255) ttGAAAATAAAGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTCCATTGAAATAAAGGCACCTTTAACATACTCTGGCATGTTATCAGCTGACACAAAACTCCTTTTTTTTTCAAttt > 2:329410/1‑141 (MQ=255) caaaaTAACGCTCTATTTGTCCCTTTCAACTCGAATCCATGATGATTGTAGAATCATTCATCTTCCATTGAAATAAAGGCACCTTTAACATACACTGGCATGTTATCAGCTGACACAAAACTACTTTTATTTTCAAttttt < 2:255419/140‑1 (MQ=255) tAAAGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTCCATTGAAATAAAGGCACCTTTAACATACTCTGGCATGTTATCAGCTGACACAAAACTACTTTTATTTTCAATTTTTCTTAg < 1:389331/141‑1 (MQ=255) tAAAGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTCCATTGAAATAAAGGCACCTTTAACATACTCTGGCATGTTATCAGCTGACACAAAACTACTTTTATTTTCAATTTTTCTTAg < 1:343727/141‑1 (MQ=255) aaGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTCCATTGAAATAAAGGCACCTTTAACATACTCTGGCATGTTATCAGCTGACACAAAACTACTTTTATTTTCAATTTTTCTTAGtt > 1:198771/1‑141 (MQ=255) aaGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTCCATTGAAATAAAGGCACCTTTAACATACTCTGGCATGTTATCAGCTGACACAAAACTACTTATATTTTCAATTTTTCTTAGtt > 1:221677/1‑141 (MQ=255) ttGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTCCATTGAAATAAAGGCACCTTTAACATACTCTGGCATGTTATCAGCTGACACAAAACTACTTTTATTTTCAATTTTTCTTAGTTCATCCACAt < 2:112872/141‑1 (MQ=255) ttGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTCCATTGAAATAAAGGCACCTTTAACATACTCTGGCATGTTATCAGCTGACACAAAACTACTTTTATTTTCAATTTTTCTTAGTTCATCCACAt < 2:367141/141‑1 (MQ=255) ctGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTCCATTGAAATAAAGGCACCTTTAACATACTCTGGCATGTTATCAGCTGACACAAAACTACTTTTATTTTCAATTTTTCTTAGTTCATCCACAt < 2:235057/140‑1 (MQ=255) ttCAAATCGAATCCATGATGATTGTAGAATCATTCATCTTCCATTGAAATAAAGGCACCTTTAACATACTCTGGCATGTTATCAGCTGACACAAAGCTACTTTTATTTTCAATTTTTCTTAGTTCATCCACATTATCGCgt > 1:131815/1‑141 (MQ=255) aTCGTATACTTGATTATTGTCGAAGCGTGCATCTTCCATTGAAATAAAGGCACCTTTAACATACTCTGGCATGTTATCAGCTGACACAAAACTACTTTTATTTTCAATTTTTCTTAGTTCATCCACATTATCGCGTGTAGa < 2:295523/141‑1 (MQ=255) tCGAATCCATGATGATTGTAGAATCATTCATCTTCCAGTGAAATATCGGCACCTTTAACATACTCTGGCATGTTATCAGCTGACACAAAACTACTTTTATTTTCAATTTTTCTTAGTTCATCCACATTATCGCGTGTAGAt < 1:89723/141‑1 (MQ=255) atgatgATTGTAGAATCATTCATCTTCCATTGAAATAAAGGCCCCTTTAACATACTCTGGCATGTTATCAGCTGACACAAAACTACTTTTATTTTCAATTTTTCTTAGTTCATCCACATTATCGCGTGTAGATAAAAAATa < 1:378946/141‑1 (MQ=255) tgatgaTTGTAGAATCATTCATCTTCCATTGAAATAAAGGCACCTTTAACATACTCTGGCATGTTATCAGCTGACACAAAACTACTTTTATTTTCAATTTTTCTTAGTTCATCCACATTATCGCGTGTAGATAAAAAATAc > 1:179646/1‑141 (MQ=255) tatgatTGTAGAATCATTCATCTTCCATTGAAATAAAGGCACCTTTAACATTCTCTGGCATGTTATCAGCTGACACAAAACTACTTTTATTTTCAATTTTTCTTAGTTCATCCACATTATCGCGTGTAGATAAAAAATACa < 2:317323/140‑1 (MQ=255) | ATTATCATAAAAATAATTTTTGACAACTTGTTGTGTAATGGTACTACCACCTTGCACATCTCTGTCGCTAATCGTTGAAAATAAAGCTCTAGTTGTACCTTTCAAATCGAATCCATGATGATTGTAGAATCGTTCATCTTCCATTGAAATAAAGGCACCTTTAACATACTCTGGCATGTTATCAGCTGACACAAAACTACTTTTATTTTCAATTTTTCTTAGTTCATCCACATTATCGCGTGTAGATAAAAAATACA > USA300TCH1516_ALE/2018481‑2018737 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |