Predicted mutation | |||||||
---|---|---|---|---|---|---|---|
evidence | seq id | position | mutation | freq | annotation | gene | description |
RA | NC_002947 | 5,168,312 | C→A | 7.9% | intergenic (‑433/‑71) | hrpA ← / → PP_4547 | ATP‑dependent helicase HrpA/glutamine synthetase |
Read alignment evidence... | |||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|
seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
* | NC_002947 | 5,168,312 | 0 | C | A | 7.9% | 155.9 / 2.1 | 50 | intergenic (‑433/‑71) | hrpA/PP_4547 | ATP‑dependent helicase HrpA/glutamine synthetase |
Reads supporting (aligned to +/- strand): ref base C (25/21); new base A (2/2); total (27/23) | |||||||||||
Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.46e-01 |
GAAGGCCCGGAGCCGTGCCGGGGAAAATCCGCTGGTCCACATCATCCTCGCCTTCTGGGCCTTGTGGCACTGCCGTCACGCGCGCCCACCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGAATTGATCATGCACTTTGCCCCTGTAGAGCAGGCTACCCGTTTTCTGGCCGACAACCCCGATATCGAGCTGTTCGAACTGTTC > NC_002947/5168183‑5168457 | gAAGGCCCGGAGCCGTGCCGGGGAAAATCCGCTGGTCCACATCATCCTCGCCTTCTGGGCCTTGTGGCACTGCCGTCACGCGCGCCCACCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCaa > 1:183028/1‑149 (MQ=255) ccGGAGCCGTGCCGGGGAAAATCCGCTGGTCCACATCATCCTCGCCTTCTGGGCCTTGTGGCACTGCCGTCACGCGCGCCCACCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGgc > 8:177711/1‑149 (MQ=255) cGGAGCCGTGCCGGGGAAAATCCGCTGGTCCACATCATCCTCGCCTTCTGGGCCTTGTGGCACTGCCGTCACGCGCGCCCTCCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCggg < 2:1984/147‑1 (MQ=255) cGGAGCCGTGCCGGGGAAAATCCGCTGGTCCACATCATCCTCGCCTTCTGGGCCTTGTGGCACTGCCGTCACGCGCGCCCACCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGgca > 1:1984/1‑148 (MQ=255) gAGCCGTGCCGGGGAAAATCCGCTGGTCCACATCATCCTCGCCTTCTGGGCCTTGTGGCACTGCCGTCACGCGCGCCCACCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGgccgc > 6:8007/1‑149 (MQ=255) gAGCCGTGCCGGGGAAAATCCGCTGGTCCACATCATCCTCGCCTTCTGGGCCTTGTGGCACTGCCGTCACGCGCGCCCACCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGgccgc < 1:230310/149‑1 (MQ=255) cGGGGAAAATCCGCTGGTCCACATCATCCTCGCCTTCTGGGCCTTGTGGCACTGCCGTCACGCGCGCCCACCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTgcg > 6:253536/1‑149 (MQ=255) gAAAATCCGCTGGTCCACATAATCCTCGCCTTCTGGTCCTTGT‑GAAATGCCTTCACGCGCGACAAACGGACACTTCGCTAACGCAATTGTGACCAAACCAGGAAAGCGTCTGGCCGTTTGACTAAACCGTGCAGCATGCATGCGCGGTg > 4:86396/1‑149 (MQ=255) aaaTCCGCTGGTCCACATCATCCTCGCCTTCTGGGCCTTGTGGCACTGCCGTCACGCGCGCCCACCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTgg > 4:139979/1‑149 (MQ=255) aaaTCCGCTGGTCCACATCATCCTCGCCTTCTGGGCCTTGTGGCACTGCCGTCACGCGCGCCCACCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTgg < 5:214581/149‑1 (MQ=255) tCCGCTGGTCCACATCATCCTCGCCTTCTGGGCCTTGTGGCACTGCCGTCACGCGCGCCCACCGGACACTTCGCTCACACCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGa > 1:122621/1‑117 (MQ=255) tCCGCTGGTCCACATCATCCTCGCCTTCTGGGCCTTGTGGCACTGCCGTCACGCGCGCCCACCGGACACTTCGCTCACACCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGa < 2:122621/117‑1 (MQ=255) gCTGGTCCACATCATCCTCGCCTTCTGGGCCTTGTGGCACTGCCGTCACGCGCGCCCACCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTgc > 2:212884/1‑149 (MQ=255) cacaTCATCCTCGCCTTCTGGGCCTTGTGGCACTGCCGTCACGCGCGCCCACCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCt < 5:253536/148‑1 (MQ=255) catcatCCTCGCCTTCTGGGCCTTGTGGCACTGCCGTCACGCGCGCCCACCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTgg > 4:98092/1‑97 (MQ=255) catcatCCTCGCCTTCTGGGCCTTGTGGCACTGCCGTCACGCGCGCCCACCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTgg < 3:98092/97‑1 (MQ=255) atcatcCTCGCCTTCTGGGCCTTGTGGCACTGCCGTCACGCGCGCCCACCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTgcgc > 3:186342/1‑128 (MQ=255) atcatcCTCGCCTTCTGGGCCTTGTGGCACTGCCGTCACGCGCGCCCACCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTgcgc < 4:186342/128‑1 (MQ=255) ccTTGTGGCACTGCCGTCACGCGCGCCCACCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGAATTGATCATGCACtt > 5:90010/1‑149 (MQ=255) ccTTGTGGCACTGCCGTCACGCGCGCCCACCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGAATTGATCATGCACtt > 5:34097/1‑149 (MQ=255) tgtgGCACTGCCGTCACGCGCGCCCACCGGACTCTTCGCTCACGCCATTGTGACCAAACCAGGACAGCGTCTGGCCGTTTGACTCAACAGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTGTATGAGCGAATTGATCATGCACTTTGc > 7:202447/1‑149 (MQ=255) gCACTGCCGTCACGCGCGCCCACCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGAAtt > 8:95139/1‑130 (MQ=255) gCACTGCCGTCACGCGCGCCCACCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGAAtt < 7:95139/130‑1 (MQ=255) cGTCACGCGCGCCCACCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGAATTGATCATGCACTTTGCCCCTGTagag > 1:117038/1‑148 (MQ=255) cACGCGCGCCCACCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGAATTGATCATg > 4:74192/1‑127 (MQ=255) cACGCGCGCCCACCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGAATTGATCATg < 3:74192/127‑1 (MQ=255) cgcCCACCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGAATTGATCATGCACTTTGCCCCTGTAGAGCAGGCTAccc < 7:177711/149‑1 (MQ=255) cACCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCg < 2:155128/106‑1 (MQ=255) cACCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCg > 1:155128/1‑106 (MQ=255) ggACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGCACCGTCTATGAGCGAATTGATCATGCACTTTGCCCCTGTAGAGCAGGCTACCCGTTTTCt < 1:212884/149‑1 (MQ=255) gCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGAATTGATc < 5:14069/101‑1 (MQ=255) gCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGAATTGATc > 6:14069/1‑101 (MQ=255) aCGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGAATTGATCATGCACTTTGCCCCTGTAGAGCAGGCTACCCGTTTTCTGGCCGACAAcccc > 3:221530/1‑148 (MQ=255) aCGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGAATTGATCATGCACTTTGCCCCTGTAGAGCAGGCTACCCGTTTTCTGGCCGACAAccc < 6:90010/147‑1 (MQ=255) tcgtgACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGAATTGATCATGCACTTTGCCCCTGTAGAGCAGGCTACCCGTTTTCTGGCCGACAACCCCGATATCg < 2:170296/147‑1 (MQ=255) tgACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCTGTGGCCCTGC‑GCGTCTATGAGCGAATTGATCATGCACTTTGCCCCTGTAGAGCAGGCTACCCGTTTTCTGGCCGACAACCCCGATATCGAg < 3:86396/148‑1 (MQ=255) gACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGCATTGATCATGCACTTTGCCCCTGTAGAGCAGGCTACCCGTTTTCTGGCCGACAACCCCGATATCGAGCt > 6:167776/1‑149 (MQ=255) gACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGAATTGATCATGCACTTTGCCCCTGTAGAGCAGGCTACCCGTTTTCTGGc < 1:146558/128‑1 (MQ=255) gACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGAATTGATCATGCACTTTGCCCCTGTAGAGCAGGCTACCCGTTTTCTGGc > 2:146558/1‑128 (MQ=255) aaaCCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGAATTGATCATGCACTTTGCCCCTGTAGAGCAGGCTACCCGTTTTCTGGCCGACAACCCCGATATCGAGCTGTTc < 2:117038/149‑1 (MQ=255) aaaCCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGAATTGATCATGCACTTTGCCCCTGTAGAGCAGGCTACCCGTTTTCTGGCCGACAACCCCGATATCGAGCTGTTc > 2:122058/1‑149 (MQ=255) aaccGGCCAGACGCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGAATTGATCATGCACTTTGCCCCTGTAGAGCAGGCTACCCGTTTTCTGGCCGACAACCCCGat < 6:180454/133‑1 (MQ=255) aaacGGCCAGACGCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGAATTGATCATGCACTTTGCCCCTGTAGAGCAGGCTACCCGTTTTCTGGCCGACAACCCCGat > 5:180454/4‑135 (MQ=255) aacGGCCAGACGCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGaa > 8:252792/3‑74 (MQ=255) aacGGCCAGACGCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGaa < 7:252792/72‑1 (MQ=255) ccGGCCAGCGTCTGGCCGTTTGACTCAACAGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGAATTGATCATGCACTTTGCCCCTGTAGAGCAGGCTACCCGTTTTCTGGCCGACAACCCCGATATCGAGCTGTTCGAAc > 2:220868/1‑149 (MQ=255) ggCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGAATTGATCATGCACTTTGCCCCTGTAGAGCAGGCTACCCGTTTTCTGGCCGACAACCCCGATATCGAGCTGTTCGAACTg < 5:8007/149‑1 (MQ=255) cAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGAATTGATCATGCACTTTGCCCCTGTAGAGCAGGCTACCCGTTTTCTGGCCGACAACCCCGATATCGAGCTGTTCGAACTGtt > 2:192619/1‑148 (MQ=255) cAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGAATTGATCATGCACTTTGCCCCTGTAGAGCAGGCTACCCGTTTTCTGGCCGACAACCCCGATATCGAGCTGTTCGAACTGTTc < 6:34097/149‑1 (MQ=255) cAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑CCGTCTATGAGCGAATTGATCATGCACTTTGCCCCTGTAGAGCAGGCTACCCGTTTTCTGGCCGACAACCCCGATATCGAGCTGTTCGAACTGTTc < 1:220868/149‑1 (MQ=255) | GAAGGCCCGGAGCCGTGCCGGGGAAAATCCGCTGGTCCACATCATCCTCGCCTTCTGGGCCTTGTGGCACTGCCGTCACGCGCGCCCACCGGACACTTCGCTCACGCCATTGTGACCAAACCCGGCCAGCGTCTGGCCGTTTGACTCAACCGGGCCGCCTGCTTGCGCGGTGGCCCTGC‑GCGTCTATGAGCGAATTGATCATGCACTTTGCCCCTGTAGAGCAGGCTACCCGTTTTCTGGCCGACAACCCCGATATCGAGCTGTTCGAACTGTTC > NC_002947/5168183‑5168457 |
Alignment Legend |
---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |