| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP006881 | 3,725,239 | 2 bp→AA | 100% | intergenic (‑71/‑457) | 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 | 3,725,239 | 0 | G | A | 100.0% | 169.4 / NA | 51 | intergenic (‑71/‑458) | U712_19205/U712_19210 | Uncharacterized protein ywcI/Minor extracellular protease vpr |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (28/23); total (28/23) | |||||||||||
| Rejected as polymorphism: Frequency below/above cutoff threshold. | |||||||||||
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. | |||||||||||
| * | CP006881 | 3,725,240 | 0 | G | A | 98.6% | 135.3 / ‑6.4 | 51 | intergenic (‑72/‑457) | U712_19205/U712_19210 | Uncharacterized protein ywcI/Minor extracellular protease vpr |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (28/21); minor base C (0/2); total (28/23) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.98e-01 | |||||||||||
| 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: Frequency below/above cutoff threshold. | |||||||||||
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. | |||||||||||
TTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑T‑TTT‑A‑GC‑AGCCCGTTTTCTCAGCCGCAGCCCACGGGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAACTAGTTTTTAGAAGTTT > CP006881/3725119‑3725369 || ttCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTGCTTTTTGGCTGGCTGC‑C‑TGTTT‑A‑GC‑CGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAtt > 1:31875/1‑139 (MQ=255) caAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTT‑A‑GC‑AGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAtttcttt > 4:144920/1‑139 (MQ=255) cATCCACACCCGTAAAGATACAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑T‑TTTAA‑GC‑AGACAGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATATCTTTTCTCGCaaa > 7:95950/1‑139 (MQ=255) aTCCACACCCGTAAAGATACAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTT‑A‑GC‑AGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAAc > 7:251814/1‑139 (MQ=255) cccGTAAATATACAAGCAATCGTTTC‑ATAGAAAAACATCCCTCCGATTCTTTTTGGCAGGCAGC‑CTT‑TTT‑A‑GC‑CGCCCGTTTTCTCAGCGGACGCCCGAACCAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGc < 7:241032/139‑1 (MQ=255) ccGTAAAGATACAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTT‑A‑GC‑AGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCATTTCTCGCCAACTAGCGGcg > 2:146751/1‑138 (MQ=255) ccGTAAAGATACAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCATTTTGGCAGGCAGC‑CAT‑TTT‑A‑GC‑AGCCCGTTTTCTCCACCGCCGCCCGCAAGAAAAGACGGCCCATATCTGTTCTCGCAAACTATCggat > 8:86392/1‑137 (MQ=255) gTAAAGATACAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTT‑A‑TC‑AGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAGTTCTTTTCTCGCTACAGAGCGGctc > 2:103077/1‑138 (MQ=255) tAAAGATACAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTT‑A‑GC‑AGCCAGTTTTCTCAGCCGCAGCCCCCAAGAAAAGACGGCCGAGTTCGTTTCTCGCCAACTAGCGGctc > 4:47943/1‑137 (MQ=255) acacagaaGCAACCGTTTC‑ATATAAAAACATCCCCCCGCTTCTTTTTGGCCGGCCCC‑CTT‑TTT‑C‑GC‑CGCCCGTTTTCTCCCCCCCCGCCCCCAACAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCa < 1:80996/133‑1 (MQ=255) aGATACACGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑T‑TTTAA‑GC‑AGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCa < 1:7427/139‑1 (MQ=255) aGAAACAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTT‑A‑GC‑AGCCCGTTTACTCCCCCGCAGCCCGCAACAAAACACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCa < 7:256164/139‑1 (MQ=255) aCAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTT‑A‑GC‑AGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAATACGGCCGATTTCTTTTCTCGCAAACTAGCGCCTCTAGCAAAAc > 8:241032/1‑139 (MQ=255) aCAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTT‑A‑GC‑AGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTATCGGCTCTAGCaaaa > 6:312198/1‑138 (MQ=255) aCAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTT‑A‑GC‑AGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCaaaa > 3:313397/1‑138 (MQ=255) aCAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTT‑A‑GC‑AGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCaaaa > 5:148832/1‑138 (MQ=255) aCAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTT‑A‑GC‑AGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTATCGCAAACTAGCGGCTCTAGCaaaa > 2:26250/1‑138 (MQ=255) aCAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTT‑A‑GC‑AGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGAAGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAAc > 8:222553/1‑139 (MQ=255) aCAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CGT‑TTT‑A‑GC‑AGCCCGTTTTCTCAGCCGCAGCCCGCAAGCAAAGACGGCCGAGTTGTTTTCTCGCAAACTAGCGGCTCGTGCaaag > 1:137725/1‑137 (MQ=255) aaGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTT‑A‑GC‑AGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGc < 3:154228/126‑1 (MQ=255) aaGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTT‑A‑GC‑AGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGc > 4:154228/1‑126 (MQ=255) aaGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTT‑A‑GC‑AGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACAAGCGGCTCTAGCAAAACt > 8:356927/1‑138 (MQ=255) gaaaaCTTTTC‑ATAGAAAAACAACCCGCCGCTTCTTTTTGGCGGCCAGC‑CTT‑TTT‑A‑GC‑AGCCGGTTTTCTCAGCCGCACCCCCAAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 6:326215/137‑1 (MQ=255) ccAAACTTTTC‑ATATAAAAACATCCCTCCGCTTCTTTTTCGCTGGCCGCGT‑T‑TTT‑C‑GC‑ACCCCGTTTTCTCCGCCCCACCCCCCAATAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 6:132908/138‑1 (MQ=255) ccAAACTTTAC‑ATCTAAAAACATCCCTCCGGTTGTTTTTGGCAGCCACC‑G‑T‑TTT‑AGGC‑AGCCTGTTTCCGCCCCCGCAGCCCCCACAAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 4:361891/138‑1 (MQ=255) ccAAACGTTTA‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCCGC‑CTT‑TTT‑A‑GC‑CGCCGGTTTTCTCCCCCGCACCCCCCAACAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 8:40866/138‑1 (MQ=255) caaaccGTTTC‑ATAAAAAACCACCCCCCCGCTTCTTTTTGGCAGGCCCC‑CTT‑TTT‑C‑GC‑CGCCGGTTTCCTCCCCCCCCCCCCCAAACAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 2:34390/134‑1 (MQ=255) caaaaCGTTAA‑AAACAAAAACAACCCTCCTCTTATTTTTGGCAGGCAGC‑CTT‑TTT‑A‑GC‑AGCCGGTTTTCTCACCCGCAGCCCCCAACAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 7:20780/137‑1 (MQ=255) ccaaCCTTTCAATACAAAAAAATCCCCCCGTTTATTTTGGCCCGCCAGC‑G‑T‑TTT‑ACCC‑CCCCCGTTTTCCCCGCCGCCGCCCGCAACAAACCCCGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 4:313397/137‑1 (MQ=255) aaaCTTTTC‑ATACAAAAACTACCTTCCTCTTTTTTTTGGCAGGCTGC‑T‑T‑TTT‑T‑TCAAGCCCGTTTTGTAAGCGCCCGCCCGCAACAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGa < 5:312198/139‑1 (MQ=255) acttttC‑ATATAAAAACATCCCTCCGCTTCTTTTTGCCCGGACGCTT‑T‑TTT‑A‑GC‑AGCCGGTTTTCGCCGCCGCACCCCGCAATAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 7:356927/136‑1 (MQ=255) acttttA‑ATATAAAAACATCCGTCCGGTTCTTTTTGGCGGGCAGCAT‑T‑TTT‑C‑GC‑AGCCCTTTTTCTCAGCCGCACCCCCCAAGAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 7:162106/136‑1 (MQ=255) aagTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTTGAAGGAAGC‑CTT‑TTT‑A‑GC‑AGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCATTTATAGCAAAATATCGGCTCTAGCAAAACACAttcc > 4:176735/3‑135 (MQ=255) aCGTTTC‑ATATAAAAACATCCCTCGGGTTCTTTTTGGCAGGCCGCGT‑T‑TTT‑A‑GC‑ACCCCGTTTTCTCCGCCGCAGCCCGAAACAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 8:251814/139‑1 (MQ=255) aCGTTTC‑ATATAAAAACATCCCTCCTATTTTTTTTGGAAGGCAGCAT‑T‑TTT‑T‑GC‑CGCCGGTTTTCTCTCCCGCAGCCGGCAATAAAACACGGCCGATTTCTTTTCTCGAAAACTAGCGGCTCTAGCAAAACTCATGAct < 3:88893/139‑1 (MQ=255) aCGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCTGGCCGC‑CTT‑TTT‑C‑GC‑AGCCCGTTTTCTCACCCGCACCCCGCAACAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 6:252320/139‑1 (MQ=255) aCGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTT‑A‑GC‑AGCCCGTTTACTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 5:141687/139‑1 (MQ=255) aCGTTTA‑ATATAAAAACAACCCTCCGCTTCTTTTTGGCCGGCCGC‑CTT‑TTT‑A‑GC‑AGCCCTTTTTCTCCGCCGCCGCCCGCAATAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 3:144920/139‑1 (MQ=255) tC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTT‑A‑GC‑AGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAcctgtct > 2:80996/1‑133 (MQ=255) c‑ATAGAAAACCATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTT‑A‑GC‑AGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAACACTCATGACGCTATGa > 8:158599/1‑139 (MQ=255) c‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTT‑A‑GC‑AGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGa > 5:252320/1‑139 (MQ=255) cGCTTCTTTTTGGCAGGCAGC‑CTT‑TTT‑A‑GC‑AGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGaa > 3:56079/1‑139 (MQ=255) ttttGGCCGGCAGC‑CTT‑TTT‑C‑GC‑CGCCCGTTTTCTCAGCCGCAGCCCGCAACAAAACACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCttt < 1:26250/138‑1 (MQ=255) ggccggcaCC‑CTT‑TTT‑A‑GC‑ACCCCGTTTTCTCACCCGCCCCCCCCAATAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGATAGAGAATTCTTTGTca < 3:66078/138‑1 (MQ=255) gtt‑ttt‑A‑GC‑CGCCCGTTTGCTCAGCCGCCGCCGCCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTg < 1:16466/137‑1 (MQ=255) cccGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCaa > 5:348802/1‑138 (MQ=255) cccGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAAc > 7:223316/1‑139 (MQ=255) cAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAACTAGtttt > 6:335412/1‑136 (MQ=255) aGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGGGGAAAGAGAATTCTTTGTCACAATATGTGTGAAAAAACCAACTAGTTTTTAg > 8:337575/1‑138 (MQ=255) ccGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTGTCGCAAACTAGCGGCGCTAGCAAAACTCATGACTCTATGATAGCCCGGGGAAATCGAATTCTTTTTGACAAAATGTGTGAATAAAACAAAGAGttttttttat > 6:239125/1‑134 (MQ=255) cAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAACTAGTTTTTAGCAGttt > 7:59984/1‑139 (MQ=255) || TTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑T‑TTT‑A‑GC‑AGCCCGTTTTCTCAGCCGCAGCCCACGGGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAACTAGTTTTTAGAAGTTT > CP006881/3725119‑3725369 |
| 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: ‑ |