| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | CP009273 | 1,191,701 | T→C | L375M (TTA→CTG) | icd → | e14 prophage; isocitrate dehydrogenase, specific for NADP+ |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 1,191,701 | 0 | T | C | 97.2% | 77.6 / ‑5.6 | 37 | L375L (TTA→CTA) | icd | e14 prophage; isocitrate dehydrogenase, specific for NADP+ |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base C (20/15); total (20/17) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.44e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.75e-01 | |||||||||||
CGGTGACGAATGCGCCCTGTTTGAAGCCACCCACGGTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGG‑CTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGA > CP009273/1191562‑1191798 | cGGTGACGAATGCGCCATGTTTGAAGCCAGCCACGGTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAAATGATGCTGCGCGCTATGGGTTGGACTGAAGCGG‑TTGACCTGATTGTTa > 1:599854/1‑149 (MQ=255) gTGACGAATTCGCCCTGTTTGAAGCCCCCCACGGTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTCTTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTaaa < 2:108225/149‑1 (MQ=37) tGACGAATGCGCCCTGTTTGAAGCCACCCACGGTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGGCCTGATTGTTAAAg > 2:192470/1‑149 (MQ=38) gcgcCCAGATTGAAGCCACCCACGGTACTGCGCCGAAATATGCCGGACAGGACAAAGTAAATCCTGGATCTAATATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGTATGGaa < 1:61049/149‑1 (MQ=25) cgcCCTGTCTGGAGCCACCCACGGTACCGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGTATGGAAg < 2:63526/149‑1 (MQ=37) gcCCTGTTTGAAGCCACCCACGGTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATGGTTAAAGGGATGGAAgg > 1:771946/1‑149 (MQ=37) gcCCTGTTTGAAGCCACCCACGGTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATACTGGCGCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGGGTGGGAgg > 1:796700/1‑149 (MQ=37) ccTGTTTGAAGCCACCCACGGTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGTATGGAAGgcg > 1:473988/1‑149 (MQ=255) ccTGTTTGAAGCCACCCACGGTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGTATGGAAGgcg < 1:956844/149‑1 (MQ=37) ccTGTTTAAAGCCACCCACGTTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGTATGGAAGgcg < 1:782658/149‑1 (MQ=25) gTTTGAAGCCACCCACGGTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGTGTGGAAGGCGCaa > 1:416728/1‑149 (MQ=37) gAAGCCACCCACGGTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCaa < 1:98649/149‑1 (MQ=25) gCCACCCACGGTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAAtgc < 1:731164/149‑1 (MQ=25) cccccacGGCACTGCGCCGCAATATGCCGGTCAGCACAAAGTAAATCCTGGCTCTATTATTCTCTCCATGGAGATGATGCTGTGCCAGTGTTGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCaatgcca < 1:941921/147‑6 (MQ=18) acccacGGTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCaa > 2:543614/1‑149 (MQ=21) cccacGGTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCaatgccaag > 1:795915/1‑142 (MQ=21) gTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGGTAAAGGTATGGGAGGCGCAATCAATGCCAAGACCGTa > 1:273059/1‑149 (MQ=18) gcgcCGAAAGAGGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCGGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTa < 2:46792/149‑1 (MQ=17) cgcCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGTATGGGAGGCGCAATCAGTGCCAAGAACGTAActttt > 1:171861/1‑145 (MQ=18) cgcCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACCGACGAGGAATGGC‑TGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTAt < 1:506064/149‑1 (MQ=18) ccGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCCCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTTACTTGAATGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGa < 1:31977/149‑1 (MQ=18) cGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGGTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGAc > 1:729438/1‑149 (MQ=17) aaaTATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGACtt > 1:14217/1‑149 (MQ=17) aaaTAGGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGACtt < 2:41421/149‑1 (MQ=17) gCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGACTTCGAACg > 1:813580/1‑149 (MQ=14) cGGTCAGGACAAAGTAAATCCTGGCTCTTTTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGACTTCGAACGTc < 2:16573/149‑1 (MQ=14) cGGGCAGGACATAGTGAATCCTGGCTCTTTTATGCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGACTTCGAACGTc < 2:468857/149‑1 (MQ=11) gTCAGGACAAAGTAAATCCTGTCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGACTTCGAACGTCTg > 2:801840/1‑149 (MQ=14) gTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGGGATGATGCTGCGCCATATGGGTTGGACTGAATCGG‑CTGGCCTGGCTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGACTTCGAACGTCTg < 2:751202/149‑1 (MQ=14) gACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGACTTCGAACGTCTgatgga > 2:16514/1‑149 (MQ=14) aCAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGACTTCGAACGTCTgatggga > 1:400441/1‑147 (MQ=11) gCTCTATTATTCTCGCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGACTTCGAACGTCTGATGGAAGGCGCTAAGctgctg < 2:544749/149‑1 (MQ=14) tattatTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCATGACCGTAACTTATGACTTTGAACGCCTGATGGAAGGCGCTAAGCTGCTGAAAt < 1:525884/149‑1 (MQ=14) tattatTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGACTTCGAACGTCTGATGGAAGGCGCTAAGCTGCTGAAAt > 1:927107/1‑149 (MQ=14) tattatTCTCTCAGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGACTTCGAACGTCTGATGGAAGGCGCTAAGCTGCTGAAAt > 2:800875/1‑149 (MQ=14) attattCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACAGTAACTTATGAATTCGAAGGTCTGATGGAAGGCCCTAAGCTGCTGAAATg > 2:849119/1‑149 (MQ=14) ctctcCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGG‑CTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGACTTCGAACGTCTGATGGAAGACGCTAAGCTGCTGAACTGTTCaga > 2:120041/1‑149 (MQ=14) | CGGTGACGAATGCGCCCTGTTTGAAGCCACCCACGGTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGG‑CTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGA > CP009273/1191562‑1191798 |
| 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: ‑ |