| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP006881 | 3,725,237 | A→G | 100% | intergenic (‑69/‑460) | U712_19205 ← / → U712_19210 | Uncharacterized protein ywcI/Minor extracellular protease vpr |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP006881 | 3,725,237 | 0 | A | G | 83.5% | 65.6 / ‑2.3 | 28 | intergenic (‑69/‑460) | U712_19205/U712_19210 | Uncharacterized protein ywcI/Minor extracellular protease vpr |
| Reads supporting (aligned to +/- strand): ref base A (0/0); major base G (18/5); minor base C (0/5); total (18/10) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.56e-03 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| Rejected as polymorphism: E-value score below prediction cutoff. | |||||||||||
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. | |||||||||||
CCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑TT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCACGGGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAAC > CP006881/3725114‑3725353 | cccAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTTGCAGGCAGC‑CTTT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGc > 1:181369/1‑139 (MQ=255) ttCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAtt > 5:88673/1‑139 (MQ=255) ttCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CGTT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCCGCCCGCCAGAAAAGCCGGCCGAtt > 5:197534/1‑139 (MQ=255) caAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAtttcttt > 7:21704/1‑139 (MQ=255) aaaGACCATCCACACCCGTAAAGATACAAGCAATCGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTT‑TT‑A‑GCTGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAtttctttt > 5:151715/1‑137 (MQ=255) aGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCg > 4:66011/1‑139 (MQ=255) aTCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCGTCTTTTTGGCAGGCAGC‑CTTT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGCCGGCCGATTTCTTTTCTAGCAAAc > 3:122815/1‑139 (MQ=255) cccGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGc > 8:111613/1‑139 (MQ=255) tAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGctc > 2:221533/1‑137 (MQ=255) aaGAAACAACAAAACGTTTAATACAAAAACACCCCTCCGCTTCTTTTGGCCAGGCAGC‑CTTT‑TT‑C‑GCCCCCCG‑TTTCTCCCCCCCCCCCCCCAACAACCCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCa < 1:75882/139‑1 (MQ=255) aGATACACGCAAACGTTTCATAGAAAAACAACCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTT‑TT‑A‑CCAGCCCGTTTTCTCAGCCGCAGCCCCCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCa < 7:4564/139‑1 (MQ=255) aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCCCAAACTATCGGCTCTAGCaaaa > 4:158311/1‑138 (MQ=255) gCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGCGT‑TT‑TT‑A‑GCAGCCCGGTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAGTTCTTTTCTCGCAAACTATCGGCTCTAGCAAAACTCAt > 5:279858/1‑139 (MQ=255) cAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATg < 7:111613/139‑1 (MQ=255) ccggttCATCTAAAAACATCCCTCCGCTTCTTTTGGCCCGCCCGC‑C‑TTGTT‑C‑GCCCCCCGTTTGCTCCCCCGCAGCCCCAAACAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 4:149587/135‑1 (MQ=255) agttttAATATAAAAACATCCCTCGGCTTTTTTTTGCCCGGAAGC‑CTTT‑TT‑T‑GCAGCCCGTTTTCTCCCCCCCCCCCCCAACTAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 6:88673/136‑1 (MQ=255) aCGTTTCATCTAAAACCATCCCTCCGCTTCTTTTTGGCAGGCAGCAT‑TT‑TT‑A‑GCAGCCGGTTTTCTCCGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 7:44408/139‑1 (MQ=255) aCGTTTAATAGAAAAAAATCCCTCCGCTTCTTTTTGGCTGGCCGC‑C‑TT‑TTAA‑GCCGCCGGTTTTCTCGGCCGCCGCCCGCATGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 6:154530/139‑1 (MQ=255) aCGTTTAATAAAAAACCATCCACCCTCTTATTTTTAGCAGCCAGCTT‑TT‑TT‑A‑CCAGCCGTTTTACTCCGCCCCCCCCCGCAACAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 5:75731/139‑1 (MQ=255) aCGTTCCATACAAAACCACCCCACCCCTTATTTTTGGCCGCCCCC‑C‑TT‑TA‑ACGCACCCCGTTTACCCCCCCCCTCCCCCCATCAAACCACGGCCGATTGCTTTTCTCGCAAACAAGCGGCTCTAGCAAAACTCATGAct < 7:189506/139‑1 (MQ=255) aCGATTCATACAAAAACATCCCACCGCTTCTTTTTGGCCGGCACC‑CTTT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCACCCCGCAAGAAACCACGGCCGATTTCTTTTCTCCCAAACTAGCGGCTCTAGCAAAACTCATGAct < 3:176101/139‑1 (MQ=255) ttCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTT‑TT‑A‑GCAGCCCGTTTTCTCATCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAAATCATGCCTCGAt > 1:204671/1‑139 (MQ=255) ccGCTTCTTTTTGGCAGGCAGC‑CTTT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACGCTATGATAGACCGTGGAAagag > 7:247690/1‑138 (MQ=255) ggcaggcaGC‑CTTT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTca > 5:237982/1‑138 (MQ=255) agcCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTGACAATATGAGTGAAAAAAcc > 7:327632/1‑138 (MQ=255) cccGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCaa > 6:349442/1‑138 (MQ=255) cccGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCaa > 7:5983/1‑138 (MQ=255) cccGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCGATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAAc > 3:80354/1‑139 (MQ=255) | CCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑TT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCACGGGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAAC > CP006881/3725114‑3725353 |
| 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: ‑ |