| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_002947 | 4,832,113 | C→G | 15.1% | intergenic (+43/+109) | pvdS → / ← pvdY | alternative sigma factor/hydroxyproline acetylase |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,832,113 | 0 | C | G | 15.1% | 93.1 / 8.8 | 33 | intergenic (+43/+109) | pvdS/pvdY | alternative sigma factor/hydroxyproline acetylase |
| Reads supporting (aligned to +/- strand): ref base C (16/12); new base G (2/3); total (18/15) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 6.39e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.58e-01 | |||||||||||
GCAGAAGGACATTGCCAAGGAACTGGGCGTATCGCCGACCTTGGTCAACTTCATGATCCGCGATGCGCTGGTGCATTGCCGCAAGACGGCCAGTCGCCAGGCCTGAAGATGACTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCGCTTTTGCTTGCAGCGCTAGTATGGTGTTTTGCAAATACGGCCAATAACTCGCAGCGCAAAAAACGCCGCAAGTTATGGTCGTTATTTGTGAAACACCACACTAGCCCCTACGTCAGCTTGCAACGATCGAAAAACCG > NC_002947/4831965‑4832251 | gCAGAAGGACATTGCCAAGGAACTGGGCGTATCGCCGACCTTGGTCAACTTCATGATCCGCGATGCGCTGGTGCATTGCCGCAAGACGGCCAGTCGCCAGGCCTGAAGATGACTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCg > 2:265325/1‑150 (MQ=255)gCAGAAGGACATTGCCAAGGAACTGGGCGTATCGCCGACCTTGGTCAACTTCATGATCCGCGATGCGCTGGTGCATTGCCGCAAGACGGCCAGTCGCCAGGCCTGAAGATGACTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCg > 1:500465/1‑150 (MQ=255) aaGGACATTGCCAAGGAACTGGGCGTATCGCCGACCTTGGTCAACTTCATGATCCGCGATGCGCTGGTGCATTGCCGCAAGACGGCCAGTCGCCAGGCCTGAAGATGACTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCGCttt > 2:551174/1‑150 (MQ=255) aTCGCCGACCTTGGTCAACTTCATGATCCGCGATGCGCTGGTGCATTGCCGCAAGACGGCCAGTCGCCAGGCCTGAAGATGACTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCGCtttt < 2:660448/125‑1 (MQ=255) aTCGCCGACCTTGGTCAACTTCATGATCCGCGATGCGCTGGTGCATTGCCGCAAGACGGCCAGTCGCCAGGCCTGAAGATGACTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCGCtttt > 1:660448/1‑125 (MQ=255) aTCGCCGACCTTGGTCAACTTCATGATCCGCGATGCGATAGTGCATTACCGCAACACGGCCAGTCGCCAGGCCTGAAGATGACTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCGCTTTTGCTTGCAGCGCTAGTATGGTGtttt < 2:97985/150‑1 (MQ=255) cGCCGACCTTGGTCAACTTCATGATCCGCGATGCGCTGGTGCATTGCCGCAAGACGGCCAGTCGCCAGGCCTGAAGATGACTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCGCTTTTGCTTGCAGCGCTAGTATGGTGTTTTGc < 1:551174/150‑1 (MQ=255) gTCAACTTCATGATCCGCGATGCGCTGGTGCATTGCCGCAAGACGGCCAGTCGCCAGGCCTGAAGATGACTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCGCTTTTGCTTGCAGCGCTAGTATGGTGTTTTGCAAATACGGCCa > 1:111210/1‑150 (MQ=255) tCAACTTCATGATCCGCGATGCGCTGGTGCATTGCCGCAAGACGGCCAGTCGCCAGGCCTGAAGATGACTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCGCTTTTGCTTGCAGCGCTAGTATGGTGTTTTGCAAATACGGCCaa < 2:111210/150‑1 (MQ=255) ttCATGATCCGCGATGCGCTGGTGCATTGCCGCAAGACGGCCAGTCGCCAGGCCTGAAGATGACTGCAAGCAAAAGCGAGAGCGATCCAGGTTCGCTCTGGCgttt < 1:445880/106‑1 (MQ=21) tCATGATCCGCGATGCGCTGGTGCATTGCCGCAAGACGGCCAGTCGCCAGGCCTGAAGATGACTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCGCTTTTGCTTGCAGCGCTAGTATGGTGTTTTGCAAATACGGCCAATAACTc > 1:348210/1‑150 (MQ=255) aTGCGCTGGTGCATTGCCGCAAGACGGCCAGTCGCCAGGCCTGAAGATGACTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCGCTTTTGCTTGCAGCGCTAGTATGGTGTTTTGCaaa > 1:393353/1‑123 (MQ=255) aTGCGCTGGTGCATTGCCGCAAGACGGCCAGTCGCCAGGCCTGAAGATGACTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCGCTTTTGCTTGCAGCGCTAGTATGGTGTTTTGCaaa < 2:393353/123‑1 (MQ=255) cTGGTGCATTGCCGCAAGACGGCCAGTCGCCAGGCCTGAAGATGACTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCGCTTTTGCTTGCAGCGCTAGTATGGTGTTTTGCAAATACGGCCAATAACTCGCAGCGCAAAAAAcgcc < 1:644722/150‑1 (MQ=255) gTGCATTGCCGCAAGACGGCCAGTCGCCAGGCCTGAAGATGACTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCGCTTTTGCTTGCAGCGCTAGTATGGTGttt > 1:634523/1‑109 (MQ=255) gTGCATTGCCGCAAGACGGCCAGTCGCCAGGCCTGAAGATGACTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCGCTTTTGCTTGCAGCGCTAGTATGGTGttt < 2:634523/109‑1 (MQ=255) gCAAGACGGCCAGTCGCCAGGCCTGAAGATGACTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCGCTTTTGCTTGCAGCGCTAGTATGGTGTTTTGCAAATACGGCCAATAACTCGCAGCGCAAAAAACGCCGCAAGTTATGGTc > 2:459852/1‑150 (MQ=255) ggCCAGTCGCCAGGCCTGAAGATGACTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCGCTTTTGCTTGCAGCGCTAGTATGGTTTTTTGCAAATACGGc > 1:701137/1‑104 (MQ=255) ggCCAGTCGCCAGGCCTGAAGATGACTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCGCTTTTGCTTGCAGCGCTAGTATGGTTTTTTGCAAATACGGc < 2:701137/104‑1 (MQ=255) ccAGTCGCCAGGCCTGAAGATGACTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCGCTtttgtttg < 2:464793/71‑1 (MQ=255) ccAGTCGCCAGGCCTGAAGATGACTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCGCTtttgtttg > 1:464793/1‑71 (MQ=255) aGGCCTGAAGATGACTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCGCTTTTGCTTGCAGCGCTAGTATGGTGTTTTGCAAATACGGCCAATAACTCGCAg > 2:365659/1‑106 (MQ=255) aGGCCTGAAGATGACTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCGCTTTTGCTTGCAGCGCTAGTATGGTGTTTTGCAAATACGGCCAATAACTCGCAg < 1:365659/106‑1 (MQ=255) gCCTGAAGATGACTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCGCTTTTGCTTGCAGCGCTAGTATGGTGTTTTGCAAATACGGCCAATAACTCGCAGCGCAAAAAACGCCGCAAGTTATGGTCGTTATTTGTGAAACACcaca < 1:178758/150‑1 (MQ=255) cTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCGCTTTTGCTTGCAGCGCTAGTATGGTGTTTTGCAAATAc < 1:347975/76‑1 (MQ=255) cTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCGCTTTTGCTTGCAGCGCTAGTATGGTGTTTTGCAAATAc > 2:347975/1‑76 (MQ=255) tGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCGCTTTTGCTTGCAGCGCTAGTATGGTGTTTTGCAAATACGGCCAATAACTCGCAGCGCAAAAAACGCCGCAAGTTATGGTCGTTATTTGTGAAACACCACACTAGCCCCTACGt > 2:25091/1‑150 (MQ=255) agcaaAAGCGAGAGCGATCCAGGTTCGCTCTGGCGTTTGCTTGCAGCGCTAGTATGGTGTTTTGCAAATACGGCCAATAACTCGCAGCGCAAAAAAcgcc < 1:24659/100‑1 (MQ=18) agcaaAAGCGAGAGCGATCCAGGTTCGCTCTGGCGTTTGCTTGCAGCGCTAGTATGGTGTTTTGCAAATACGGCCAATAACTCGCAGCGCAAAAAAcgcc > 2:24659/1‑100 (MQ=18) aaagcgagagCGATCCAGGTTCGCTCTGGCGTTTGCTTGCAGCGCTAGTATGGTGTTTTGCAAATACGGCCAATAACTCGCAGCGCAAAAAACGCCGCAAGTTATGGTCGTTATTTGTGAAACACCACACTAGCCCCTACGTCAGCTTGc > 1:749002/7‑150 (MQ=38) agagCGATCCAGGTTCGCTCTGGCGTTTGCTTGCAGCGCTAGTATGGTGTTTTGCAAATACGGCCAATAACTCGCAGCGCAAAAAACGCCGCAAGTTATGGTCGTTATTTGTGAAACACCACACTAGCCCCTACGTCAGCTTGCAACGAt < 2:749002/150‑1 (MQ=39) gCGAACCTGGATCGCTCTCGCTTTTGCTTGCAGCGCTAGTATGGTGTTTTGCAAATACGGCCAATAACTCGCAGCGCAAAAAACGCCGCAAGTTATGGTCGTTATTTGTGAAACACCACACTAGCCCCTACGTCAGCTTGCAACGATCGa > 1:111259/1‑150 (MQ=255) tGGATCGCTCTCGCTTTTGCTTGCAGCGCTAGTATGGTGTTTTGCAAATACGGCCAATAACTCGCAGCGCAAAAAACGCCGCAAGTTATGGTCGTTATTTGTGAAACACCACACTAGCCCCTACGTCAGCTTGCAACGATCGAAAAACCg > 1:703124/1‑150 (MQ=255) | GCAGAAGGACATTGCCAAGGAACTGGGCGTATCGCCGACCTTGGTCAACTTCATGATCCGCGATGCGCTGGTGCATTGCCGCAAGACGGCCAGTCGCCAGGCCTGAAGATGACTGCAAGCAAACGCCAGAGCGAACCTGGATCGCTCTCGCTTTTGCTTGCAGCGCTAGTATGGTGTTTTGCAAATACGGCCAATAACTCGCAGCGCAAAAAACGCCGCAAGTTATGGTCGTTATTTGTGAAACACCACACTAGCCCCTACGTCAGCTTGCAACGATCGAAAAACCG > NC_002947/4831965‑4832251 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |