| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | NC_000913_3_vch_pgi | 3,560,455 | +G | intergenic (‑2/+1) | glpR ← / ← glpR | pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon/pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913_3_vch_pgi | 3,560,455 | 1 | . | G | 97.0% | 97.4 / ‑3.6 | 33 | intergenic (‑2/+1) | glpR/glpR | pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon/pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base G (10/22); total (11/22) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 3.33e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.83e-01 | |||||||||||
TCGATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATG‑GC‑CAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGACGT > NC_000913_3_vch_pgi/3560314‑3560591 | tCGATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATG‑GCGCAGGAt > 1:157208/1‑149 (MQ=255) cGATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATG‑GCGCAGGATc < 2:85030/149‑1 (MQ=255) cGATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATG‑GCGCAGGATc > 2:35048/1‑149 (MQ=255) gATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGCAATGACAGGCAGCGCCGCACCGCCATGATG‑GCGCAGGATCa > 1:291331/1‑149 (MQ=255) atcaaCAGCGTTGAGCCATGGGGAATTTGCTCCGCCACTTCGCGGCCGATGCGCTCTCCGTCTTCGGTCTGGGTGGCCTTGCGATCGCGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATG‑GCGCAGGATCAg < 2:19115/146‑1 (MQ=255) aaaCAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATG‑GCGCAGGATCAGGt < 2:157208/149‑1 (MQ=255) aaCAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATG‑GCGCAGGATCAGGtt < 1:379059/149‑1 (MQ=255) tcAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGGAGGCAGCGCCGCACCGCCATGATG‑GCGCAGGATCAGGttt < 1:219456/148‑1 (MQ=255) gCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTGTACCGTTCGCACTGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATG‑GCGCAGGATCAGGTTTTGc < 1:544825/149‑1 (MQ=255) gggATTTGCTGCGCCACTTTGGGGGCGATGCGCTCTTTTTCTTCGGTCGGGGTGGCCTTGCGATCGTGCCACGGCGTGGTAACCGAACGGGAAGGCAGCGCCGCACCGCCATGATG‑GCGCAGGATCAGGTTTTGCTCCGCCAGCTCAtt < 2:149056/149‑1 (MQ=255) gggATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATG‑GCGCAGGATCAGGTTTTGCTCCGCCAGCTCAtt > 1:32747/1‑149 (MQ=255) gggATTTGCACCGCCACTTGGCGGGCGATGCGCTCTTGTTCTTCGGGCTGGGTGGGCTTGCGATCGTGCCACGGCGTGTGAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATG‑GCGCAGTATCAGGTTTTGCTCCGCCAGCTCAtt < 2:22796/149‑1 (MQ=255) aTTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATG‑GCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAg < 1:31749/149‑1 (MQ=255) ttGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATG‑GCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGt < 1:434357/149‑1 (MQ=255) cGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGCGG‑CAGGAACAGGTTTTGCCACGCCAGCTCTTTGACGTcgcgtc > 2:70469/1‑147 (MQ=255) cTTTGCGGGCGATTCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATG‑GCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATa < 1:377806/149‑1 (MQ=255) tggggCAATGCGCTCTTTTTTGTCGGTCTGCGTGCGCTTACTGTCGTGCCACGGCCTGTTAAGCGAACTGGAAGGCCGCGCCGCACCGCCATGATG‑GCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCt < 2:12938/147‑1 (MQ=255) ggTCTGGGCGGCCTTGCGATCGTGCAACGGCGTCTCAACCGAACTGGAAGGCAGCGCCGCCCCGCCATGATG‑GCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGCCTGCGGGCTGACGGAGAAATGCTCTa < 2:381895/149‑1 (MQ=255) gTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATG‑GCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTAc > 1:337764/1‑149 (MQ=255) gTCGGGGTGGCCTTGGGATCGGGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATG‑GCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTAc < 2:424216/149‑1 (MQ=255) ctttGGGTGGCCTGGCGATCGTGCGACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATG‑GCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTAc < 2:553884/146‑1 (MQ=255) ggCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATG‑GCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCtt < 2:32747/149‑1 (MQ=255) cctgtcGAACGGGCCATTGCGTTTTAACCGAACTGGAAGCCAGCGCTGCACCGCCATGATG‑GCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGCCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCg < 2:82806/144‑1 (MQ=255) aTCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATG‑GCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGa > 2:429244/1‑149 (MQ=255) ccACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATG‑GCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTcgc < 1:251573/89‑1 (MQ=255) ccACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATG‑GCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTcgc > 2:251573/1‑89 (MQ=255) gtgtTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATG‑GCGCAGGAACCGGTGTGACGTCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCctgctg < 1:406598/149‑1 (MQ=255) aacgcaaCTGGAAGGCAGCGCCGCACCGCCATGATG‑GCGCAGGATCAGGCTTTGCGCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTaa < 2:55869/144‑1 (MQ=255) aCTGGAAGGCAGCGCCGCACCGCCATGATG‑GCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGtt < 2:332447/149‑1 (MQ=255) tGGAAGGCAGCGCCGCACCGCCATGATG‑GCGCAGGATCAGGGTTTGCTCCGCCAGCTAATTCATGTGGCGGCTTATAGTCGGCGTGGTGACGGAGAAATGCTCTACCAGCTCTTCCGTACTGAAATAACACTGCTGTTTAACCAGTTCg > 2:505750/1‑149 (MQ=255) aGCGCCGCACCGCCATGATG‑GCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATAcc > 1:527533/1‑149 (MQ=255) gcACCGCCATGATG‑GCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCCGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCCGCTGTTTAACCCGTACCAAAATACCAttatt > 2:296392/1‑146 (MQ=255) cGCCATGATG‑GCGCACGATTAGGTTTTGCTCCGCCAGCTCATTGCGGTCGCGGCGAATAGTCTGCGGGCTGACCGAGAGATGCTCTCCCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGACGt < 2:463394/149‑1 (MQ=255) | TCGATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATG‑GC‑CAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGACGT > NC_000913_3_vch_pgi/3560314‑3560591 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |