| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_002947 | 5,903,164 | G→T | 15.2% | intergenic (‑128/‑140) | PP_5175 ← / → PP_5176 | HlyD family secretion protein/hypothetical protein |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 5,903,164 | 0 | G | T | 15.2% | 69.7 / 7.4 | 35 | intergenic (‑128/‑140) | PP_5175/PP_5176 | HlyD family secretion protein/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (13/16); new base T (3/2); total (17/18) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 6.48e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.32e-01 | |||||||||||
CATCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAA‑GAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTTCCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTAGCCGAA > NC_002947/5903025‑5903304 | cATCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGGGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGa < 1:305061/149‑1 (MQ=255) aTCAACGCCTTGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCGCTTAGCCGGGGGGccccccg > 7:44467/1‑144 (MQ=255) aTCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGa > 4:217092/1‑148 (MQ=255) aaCGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGGGAa‑g > 5:151674/1‑147 (MQ=255) aaCGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAa‑ga < 4:113872/148‑1 (MQ=255) aaCGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGCGCCTGCGGGGGCCTCTTCGCGGGCTCGCCCGCGAa‑gag < 2:207045/149‑1 (MQ=255) cGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAA‑GAGGc < 4:259186/149‑1 (MQ=255) tGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTAGCCGGCGCGCCCCCGCA‑GCGGccggcccag > 1:180559/1‑142 (MQ=255) gCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAA‑GAGGCCTCCACAGc > 4:101888/1‑148 (MQ=255) gttgcttgTGCACAAATGATTTGTGGGTTGCGACTGTGAGCTTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAA‑GAGGCCTCCACAGCCAt < 4:282465/146‑1 (MQ=255) cttgcttgTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGCCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAA‑GAGGCCTCCACAGCCAt < 3:79400/147‑1 (MQ=255) attgcttgTCCACAAATTATTTGTGGGATGCGACTGTTAGCGTAGTTCAGGGTTCGATAAACATCACTTACGGTGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCTAA‑GAGGCCTCCACAGCCAt < 6:303093/146‑1 (MQ=255) gcttgTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAA‑GAGGCCTCCACAGCCATGTAt < 3:217092/148‑1 (MQ=255) gtgCACAAATGATTGGGGGGAGGCGACTGGTCGCGTAGTTCTGGGTTCTAAAAACATCAGTGCGGGGGGCCATGGGGGCATTTTTGGTGCGGGGGGGGGCCGCTTCGCGGGCGCGCCGGCGAA‑GAGGCCTCCACAGCCATGTATCa < 8:64132/146‑1 (MQ=255) cacaAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCAATGCTGGCATTTTTGGTGCCTGAGGGGGCCTCTTAGCCGGCGAGCACGCGAA‑GAGGACTCCACAGCCATGTATAAGTAtat > 5:137224/1‑147 (MQ=255) aaaTGATTTGTGGTATGCGACTTCTAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCTGGCGAGCCCGCGAa‑ga < 8:245239/119‑1 (MQ=255) aaaTGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGACATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAa‑ga > 7:245239/1‑119 (MQ=255) aTTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCCAA‑GAGGCCTCCACAGCCATGTATCAGTATCTGCCATATc > 8:230057/1‑149 (MQ=255) tgtgGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCTCGCCCGCGAa‑ga > 4:95524/1‑111 (MQ=255) tgtgGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAA‑GAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCa < 6:151674/148‑1 (MQ=255) tgGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCTAA‑GAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGaa < 7:230057/149‑1 (MQ=255) gCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTATTAGCGGGCGAGCCCGCGAA‑GAGGCCTACACAGCCATGTAt > 1:107183/1‑122 (MQ=255) aGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAA‑GAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCg < 3:101888/148‑1 (MQ=255) gATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAA‑GAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATcc < 1:195481/138‑1 (MQ=255) gATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAA‑GAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATACCCGTTCCAAcc > 7:255786/1‑149 (MQ=255) ctaCATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAA‑GAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTTCCAACCGc < 7:316241/146‑1 (MQ=255) cATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTAGCCGGCCAGCCCCCGAA‑CCGGCCTCCACACCCAAGAATCAGTATCAGCCCTATCCAGACACCAACAGGCCACCGCCCTACCCCATCCCACCGCAAc > 8:316241/1‑148 (MQ=255) tCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAATAAGGCCTCCCCAGCCATGTATCAGTATATGCCATAACCAGAAACCAACAGGCATCGGCCTACCCCGTTCCAACCCCTACCt > 1:278045/1‑149 (MQ=255) cTGACGGGGGCCTTGCTGGAATTTTTGGTGCCTGCGGGGGCCGCTTCGCGGGCGAGCCCGCGAA‑GAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTTCCAACCGCTACCTTTca < 3:294575/149‑1 (MQ=255) tctTCGCGGGCTCGCCCGCGAA‑GAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTTCCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTa > 7:147267/1‑146 (MQ=255) tctTCGCGGGCTCGCCCGCGAA‑GAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTTCCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTa < 8:147267/146‑1 (MQ=255) ttCGCGGGCGAGCCCGCGAA‑GAGGCCTCCACAGCCATGTATCAGTATCTGACATATCCAGAAACCATCAGGCATCGGCCATCCCCGTTCGAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTAGCCg > 5:260527/1‑148 (MQ=255) cgcgGGCTAGCCCGCGAA‑GAGGCATCCACAGCCATGTATCAGAATCTGCCATATCCAGAAACCAACAGCCAACGGCCATCCCCGTTCAAACCGCTACCTTTCACAGGGAGGCTAACAATCAAGCAAGATCAAAATGCCGTTAGCCGaa > 4:125081/1‑148 (MQ=255) gggCGAGCCCGCGAA‑GAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTTCCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTAGTCGaa < 3:74329/145‑1 (MQ=255) gggCGAGCCCGCGAA‑GAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTTCCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTAGGCGaa > 4:74329/1‑145 (MQ=255) | CATCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAA‑GAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTTCCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTAGCCGAA > NC_002947/5903025‑5903304 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |