| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | USA300TCH1516_ALE | 463,014 | C→A | 100% | E47* (GAA→TAA) | USA300HOU_RS02190 ← | hypothetical protein |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | USA300TCH1516_ALE | 463,014 | 0 | C | A | 99.4% | 95.0 / ‑6.7 | 33 | E47* (GAA→TAA) | USA300HOU_RS02190 | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (0/0); major base A (13/19); minor base G (1/0); total (14/19) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.24e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| 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. | |||||||||||
GCCGTCTTGTTTAGCTTTGTTGATAATGTCTTTGATTGAATGTAGTCCTTTATCGGCGAAGTATGATCTTAAGTTGTCTTTTGTAGCTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTCTAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTAAAACACCTACCATTGCCGTAGCTACTAAAACCTTTTTAAATTT > USA300TCH1516_ALE/462877‑463149 | gCCGTCTTGTTTAGCTTTGTTGATAATGTCTTTGATTGAATGTAGTCCTTTATCGGCGAAGTATGATCTTAAGTTGTCTTTTGTAGCTTGGTCAGCATTCTTATTTAATAACACATCAATATAACTTCATTCATGTTGTa > 1:246892/1‑140 (MQ=255) ccGTCTTGTTTAGCTTTGTTGATAATGTCTTTGATTGAATGTAGTCCTTTATCGGCGAAGTATGATCTTAAGTTGTCTTTTGTAGCTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATaa < 2:229584/140‑1 (MQ=255) cGTCTTGTTTAGCTTTGTTGATAATGTCTTTGATTGAATGTAGTCCTTTATCGGGGAAGTATGATCTTAAGTTGTCTTTTGTAGCTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATaag > 1:237129/1‑140 (MQ=255) ttgttgATAATGTCTTTGATTGAATGTATTCCTTTATCGGCGAAGTATGATCTTAAGTTGTCTTTTGTAGCTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATAAGAAGTTTGcatcatc < 1:157036/140‑1 (MQ=255) tGTCTTTGATTGAATGTAGTCCTTTATCGGCGAAGTATGATCTTATGTTGTCTTTTGTTGCTTGGTCAGCTTTCTTTTCTATTTATTCTTTTATATTATTTTATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACg < 1:19954/140‑1 (MQ=255) cTTTGATTGAATGTAGTCCTTTATCGGCGAAGTATGATCTTAAGTTGTCTTTTGTAGCTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGt < 2:106961/140‑1 (MQ=255) cTTTGATTGAATGTAGTCCTTTATCGGCGAAGTATGATCTTAAGTTGTCTTTTGTAGCTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGt < 2:179885/140‑1 (MQ=255) gaATGTAGTCCTTTATCGGCGAAGTATGATCTTAAGTTGTCTTTTGTAGCTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTTATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTg > 2:46523/1‑140 (MQ=255) gTAGTCCTTTATCGGCGAAGTATGATCTTAAGTTGTCTTTTGTAGCTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGaa > 1:63241/1‑140 (MQ=255) gTAGTCCTTTATCGGCGAAGTATGATCTTAAGTTGTCTTTTGTAGCTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGaa > 1:130733/1‑140 (MQ=255) tttATCGGCGAAGTATGATCTTAAGTTGTCTTTTGTAGCTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGACCATTATGAAAATAAACtt > 1:127791/1‑140 (MQ=255) aaGTATGATCTTAAGTTGTCTTTTTTAGCTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGc < 1:105799/140‑1 (MQ=255) cTTAAGTTGGCTTTTGGAGGTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTAcc < 2:237129/140‑1 (MQ=255) gTTGTCTTTTGTAGCTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTCCGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATc > 2:79126/1‑140 (MQ=255) tGTAGCTTGGTCGGTATTCTTATCTAATAACTCATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGc < 1:166972/140‑1 (MQ=255) gTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTa > 1:329929/1‑140 (MQ=255) cAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTaaa > 1:136416/1‑140 (MQ=255) cAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATACTCATGTAGTATGATGCCATTCTGAGAATAAACTTCCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTaaa > 2:127037/1‑140 (MQ=255) aTTCTTATCTAATAACAAATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGACTAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTAAAacac < 1:106016/140‑1 (MQ=255) tATCTAATAACACATCAACATAACTTAATTCATGTTATAAGAAGTTTGCATCATCCTGTCATCCGAGCCCATTTTAAGAATAAACTTTCGCATCTCCTTGATTACCATCTCCAACAACGCCAGTTGCTAAAACACCTTcc < 2:89730/140‑1 (MQ=255) cTAATAACACATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTAAAACACCTACCAtt < 1:116577/140‑1 (MQ=255) cAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTAAAACACCTACCATTGCCGTAGctact > 1:346143/1‑140 (MQ=255) atatAACTTAATTCATGATATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCCGTTGCTAAAACAACTACCCTTGCCGGTGCTACTaa > 1:246596/1‑140 (MQ=255) cTTAATTCTTGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATAGCCAACAACGCCAGTTGCTAAAACACCTACCATTGCCGTAGCTACTAAAACCtt < 1:260473/140‑1 (MQ=255) cTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTAAAACACCTACCATTGCCGTAGCTACTAAAACCtt < 2:31851/140‑1 (MQ=255) ttAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTAAAACACCTACCATTGCCGTAGCTACTAAAACCttt < 1:335782/140‑1 (MQ=255) tAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCGTATCCAACAACGCCAGTTGCTAAAACACCTACCATTGCCGTAGCTACTAAAACCtttt < 1:214977/140‑1 (MQ=255) tAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTAAAACACCTACCATTGCCGTAGCTACTAAAACCtttt < 1:46523/140‑1 (MQ=255) aaTTCATTTTATGAGAAGTTTGCATCATCATGTAGTTCGAGTCCTTTTTGAGAATCAACTTGCGCATCTGCTGGATTACCATATCCAACAACGCCAGTTGCCATAACACCTGCCATTGCCGTAGCTACTAAAACCtttct < 2:199336/140‑3 (MQ=255) ttCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTAAAACACCTACCATTGCCGTAGCTACTAAAACCTTTTTaa < 1:219711/140‑1 (MQ=255) cATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTAAAACACCTACCATTGCCGTAGCTACTAAAACCTTTTTAAAt > 1:181741/1‑140 (MQ=255) aTGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTAAAACACCTACCATTGCCGTAGCTACTAAAACCTTTTTAAAtt < 1:245800/140‑1 (MQ=255) tGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTAAAACTCCTTCCATTGCTGTAGCTACTGAAACCTTTTTAAAttt > 1:46423/1‑140 (MQ=255) | GCCGTCTTGTTTAGCTTTGTTGATAATGTCTTTGATTGAATGTAGTCCTTTATCGGCGAAGTATGATCTTAAGTTGTCTTTTGTAGCTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTCTAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTAAAACACCTACCATTGCCGTAGCTACTAAAACCTTTTTAAATTT > USA300TCH1516_ALE/462877‑463149 |
| 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: ‑ |