| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP006881 | 986,184 | C→A | 22.4% | intergenic (+50/‑200) | U712_04810 → / → U712_04815 | putative oxidoreductase yhdF/putative amino acid permease YhdG |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP006881 | 986,184 | 0 | C | A | 22.4% | 113.1 / 3.8 | 59 | intergenic (+50/‑200) | U712_04810/U712_04815 | putative oxidoreductase yhdF/putative amino acid permease YhdG |
| Reads supporting (aligned to +/- strand): ref base C (6/34); new base A (10/3); total (22/37) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 7.75e-05 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
TCTGCTGGCGTCTGACGAATCTTCCTATATGACAGGGCAGACCATTCATGTGAATGGCGGCC‑GTTTTATTTCAACGTAATCAACGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAATTTTATATATAATATTGAGTAGGAGAAAGGAATGATTCGCGACCAGTACAAATATAGTAGAAAAAAAAGAATAATGACCATTGTTAC > CP006881/986056‑986322 | tCTGCTGGCGTCTGACGAATCTTCCTATATGACAGGGCAGACCATTCATGTGAATGGCGGCC‑GTGTTTTTTTAACGTTATAAAAGAAAAAACACCTCAAGAGCGGGGGTTTTGTTTGGTGGTAAAATTTAaaaaaaaa > 4:144705/1‑138 (MQ=255) tgctgGCGTCTGACGAATCTTCCTATATGACAGGGCAGACCATTCAAGTGAATGGCGGCCGGTTTTTTTTAAACAATATAAAC‑AAAAAACAGCTCAACACCTGGTTTTTTGTGTGGGGAAAAAAATGAAAATaaaaaaa > 1:38313/1‑138 (MQ=255) ctgGCGTCTGACGAATCTTCCTATATGACAGGGCAGACCATTCATGTGAATGGCGGCC‑GTGTTATTTAAACGGAAAAAAAGAAAAAACACCACAATCGCTGGTTTTTTTTGTGGTGAAAAATTTAAAAATAAAAAAttt > 5:126119/1‑139 (MQ=255) aaTCTTCCTATATGACAGGGCAGACCATTCATGTGAATGGCGGCC‑GTTTTATTTCAACGTAATCAACGAAAAACCAGCACAAGAGCGGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCt > 3:130538/1‑138 (MQ=255) aCAGGGCAGACCATTCATGTGAATGGCGGCC‑GTGTTTTTTAAACGTAATAAACCAAAAAAAACCCCAAGAGCGGGTTTTTTTTGTGGTGTTAAAATTGAAAATAAAAAATTTTTGGAATTTTTTAAAAATttttttttt > 7:108800/1‑138 (MQ=255) cAGGGCAGACCATTCATGTGAATGGCGGCC‑GTTTTATTTAAAAGTAATAAACCAAAAACCAACACAAAAGCAGGTTTTTTTTGTTGTGAAAAATTTAAAAATAAAAAAATTTTAGATTTTTATAAAAAAtttttttta > 8:293581/1‑137 (MQ=255) cAGGGCAGACCATTCATGTGAATGGCGGCC‑GTGTTTTTTCAACCTAATAAAAGAAAAAACACCTCAAGAGCTGGTTTTTTTTGTGGTGAAAAATTTAAAAATAAAAAATTTTTCGATTTTTATAACAATttttttttta > 4:115867/1‑137 (MQ=255) ggCAGCCCATTCATGTGAATGGCGGCC‑GTGGTATTTCTACGTAATCAACGAAAAACCAGCACAAGAGCTGGGGTTTTGTGTGGTGAAAAATTTGAAAATAAAAAATTTTTCGATTTTTGTTACAAATTTTTTTT‑GAttt > 7:58778/1‑139 (MQ=255) ggCAGACCATTCATGTGAATGGCGGCC‑GTTTTTTTTGAACGTAATAAACGAAAAACCACCTCAAGCGCTGGTGTTTTGTGTGGTGTAAAATTTATAAATAAAAAATTTTTAGATTTTTATAACAATTTTTTTTT‑GAttt > 3:73076/1‑139 (MQ=255) ggCAGACCATTCATGTGAATGGCGGCC‑GTTTTTTTTAAACGTAATCAACCAAAAAACAGCTCAAGAGCTGGTTTTTTTTGTGGTGAAAAATTTAAAAATAAAAAATTTTTCTATTTTTGTAAAAAATTTTTTTT‑AAttt > 5:117970/1‑139 (MQ=255) ggCAGACCATTCATGTGAATGGCGGCC‑GTTTTATTTCAACGTAATAAACGAAAAAACAGCTCAAGAGCTGGGTTTTTGTGTGGTGAAAAATTTAAAAAAAAAAAATTTGTCGATTTTTATAACAATTTTTTTTT‑CAttt > 7:74574/1‑139 (MQ=255) ggCAGACCATTCATGTGAATGGCGGCC‑GTGTTTTTTGAACCTAATAAACGAAAAACCAGCTCAAGAGCGGGTTTTTTGTGTGGTGTAAAATTTCAAAATAAAAAATTTTTGGATTTTTATAACAAATTTTTTTT‑GAttt > 7:103148/1‑139 (MQ=255) aGACCATTCATGTGAATGGCGGCC‑GTTTTATTTCAACGTAATCAACGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTg < 6:126119/139‑1 (MQ=255) aGACCATTCATGTGAATGGCGGCC‑GTTTTATTTCAACGTAATCAACGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTg < 3:144705/139‑1 (MQ=255) aGACCATTCATGTGAATGGCGGCC‑GTTTTATTTCAACGTAATCAACGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTg < 4:14439/139‑1 (MQ=255) aGACCATTCATGTGAATGGCGGCA‑GTTTTATTTCAACGTAATCAACGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTg < 4:187779/139‑1 (MQ=255) aCCATTCATGTGAATGGCGGCC‑GTTTTTTTTAAAAGTAATAAACGAAAAACCAGCTCAAGAGCTGGTTTTTTTTTTGGTGTAAAATTTAAAAAAAAAAAATTTTTAGATTTTTATAAAAAATTTTTTTT‑GAttttttga > 7:254976/1‑136 (MQ=255) aCCATTCATGTGAATGGCGGCC‑GTTTTATTTCAACGTAATCAACGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCa < 4:167026/139‑1 (MQ=255) aCCATTCATGTGAATGGCGGCC‑GTTTTATTTCAACGTAATCAACGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCa < 7:293581/139‑1 (MQ=255) aCCATTCATGTGAATGGCGGCC‑GTTTTATTTCAACGTAATCAACGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCa < 8:82527/139‑1 (MQ=255) aCCATTCATGTGAATGGCGGCC‑GTTTTATTTCAACGTAATCAACGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCa < 5:121555/139‑1 (MQ=255) ttCATGTGAATGGCGGCC‑GTGTTATTTAAAACTAATAAAACAAAAAACAACAAAAAAGCTGGTTTTTTTTTTTGTTAAAAAATTAAAAATAAAAAAAATTTAGATTTTTGTAAAAAATTTTTTTT‑AATTTTTTGAAttt > 4:36043/1‑139 (MQ=255) tCATGTGAATGGCGGCC‑GTTTTTTTTAAAAGTAATCAACCAAAAACCACCTCAATCGCTGGGTTTTTTTGTGGTGAAAAATTTGAAAATAAAAAAATTGTGTATTTTTGTAAAAATTTTTTTTTAAATTTTTGAAAttt > 3:79154/1‑139 (MQ=255) tCATGTGAATGGCGGCC‑GTGGTTTTTGAAAGGAATCATCCAAAAACCAGCCCAACAACTGGGGTTTTGTGTGGGGGTAAATTTTAAAATTAAAAATTTGTGGGTTTTTGTTATTATTTTGTTTT‑GATTTTTGGATtttt > 2:210485/1‑139 (MQ=255) cATGTGAATGTCGGCC‑GTTTTATTTCAACGTAATCAACGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAAtttt < 3:292721/138‑1 (MQ=255) cATGTGAATGGCGGCC‑GTTTTATTTCAACGTAATCAACGAAAAACCAGCTCAATAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTTTATATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAAtttt < 7:290995/138‑1 (MQ=255) cATGTGAATGGCGGCC‑GTTTTATTTCAACGTAATCAACGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGGAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAAtttt < 1:120549/138‑1 (MQ=255) cATGTGAATGGCGGCC‑GTTTTATTTCAACGTAATCAACGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAAtttt < 1:255165/138‑1 (MQ=255) cATGTGAATGGCGGCC‑GTTTTATTTCAACGTAATCAACGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAAtttt < 5:88300/138‑1 (MQ=255) aTGTGAATGGCGGCC‑GTTTTATTTCAACGTAATCAACGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAATTTtat < 8:103148/139‑1 (MQ=255) aTGTGAATGGCGGCC‑GTTTTATTTCAACGTAATCAACGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAATTTtat < 1:264331/139‑1 (MQ=255) aTGTGAATGGCGGCC‑GTTTTATTTCAACGTAATCAACGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAATTTtat < 3:3385/139‑1 (MQ=255) tgAATGGCGGCC‑GTTTTATTTCAACGTAATCAACGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAATTTtatata < 5:257401/139‑1 (MQ=255) tgAATGGCGGCC‑GTTTTATTTCAACGTAATCAACGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAATTTtatata < 7:128437/139‑1 (MQ=255) gAATGGCGGCC‑GTTTTATTTCAACGTAATCAACGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAATTTtatata < 4:289357/138‑1 (MQ=255) ggcggcC‑GTGTTTTTTGAACGTAATAAAAGAAAAAACAACGGAACAGCTGGTTTTTTGTGTGGTGTAAAATTTAAAAAAAAAAAATTTTTTTGTTTTTGTAACAAATTTTTTTT‑ATATTTTTAAATTTTTTTTattata > 8:128437/1‑139 (MQ=255) gcggcC‑GTTTTATTTCAACGTAATCAACGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAATTTTATATataata < 5:41192/138‑1 (MQ=255) gcggcC‑GTTTTATTTCAACGTAATCAACGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAATTTTATATataata < 4:12528/138‑1 (MQ=255) gcC‑GTTTTATTTAAACGTAATAAACGAAAAACCAGCTCAAGAGCGGGTTTTTTGTGTGGTGAAAAATTTAAAAATAAAAAATTTGTCGATTTTTGTAACAATTTTTTTTT‑GATTTTTTGAATTTTATATTTAATAttta > 8:172309/1‑137 (MQ=255) tttCAACGTAATCAACGAAAATCCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAATTTTATATATAATATTGAGTAGgaga < 1:210485/138‑1 (MQ=255) tttCAACGTAATCAACGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAATTTTATATATAATATTGAGTAGgaga < 7:151120/138‑1 (MQ=255) aTCAACGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAATTTTATATATAATATTGAGTAg < 7:98914/124‑1 (MQ=255) aTCAACGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAATTTTATATATAATATTGAGTAg > 8:98914/1‑124 (MQ=255) cGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAATTTTATATATAATATTGAGTAGGAGAAAGGAATGATTCGCGa < 3:36043/139‑1 (MQ=255) cGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAATTTTATATATAATATTGAGTAGGAGAAAGGAATGATTCGCGa > 8:270845/1‑139 (MQ=255) aaaaaCCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAATTTTATATATAATATTGAGTAGGAGAAAGGAATGATTCGCGAcc < 3:115867/139‑1 (MQ=255) aaaaaCCACCTCAAGAGATGGTTTTTTGGGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAATTTTATTTATAATATTGAGTAGGAGAAAGGAATGATCCGCGAcc < 8:4899/139‑1 (MQ=255) aaaaCCAGCTCAAGAGCTGGTTTTTTGTGTGGTTAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAATTTTATATATAATATTGAGTAGGAGAAAGGAATGATTCGCGAcc < 8:74574/138‑1 (MQ=255) aaaaCCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCTATTTTTATAAAAATTTTTTTTT‑CATTTTTGCAATTTTATATATAATATTGAGTAGGAGAAAGTAATGATTCGCGAcc < 1:146326/138‑1 (MQ=255) aaaaACAGCTGTAGAGGTGGTTTTTTGTGTGTTTAAAAATTTCAAAATAAAAAATTTGTCTATTTTTATAAAAATTTTGTTTT‑TATTTTTGCTATTTTATTTATAATATTGTGTAGGAGAAAGTATTGATTCGCGAc < 2:38313/137‑1 (MQ=255) aaCCCGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAATTTTATATATAATATTGAGTAGGAGAAAGGAATGATTCGCGACCAGt < 8:58778/139‑1 (MQ=255) aaCCAGCTCATGAGATTTTTTTTTTTGTGGTTAAAAATTTAAAAATAAAAATTTTGTCGATTTTTATAAAATTTTTTTTTT‑AATTTTTGAAATTTTTTATATAATTTTGTGTAGGAGAACGTAATGATTCGCGACCAGt < 8:108800/139‑1 (MQ=255) gCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAATTTTATATATAATATTGAGTAGGAGAAAGGAATGATTCGCGACCAGTACaaa > 3:274982/1‑139 (MQ=255) tgtgTTTAAAAATTTCAAAATAAAAAATTTGTCTATTTTTCTAAAAATTTTGTTTT‑CATTTTTGCAATTTTATATATAATATTTAGTAGGAGAAAGGAATGATTCGCGACCAGTACAAATATAGTAGAAAAAAAAGaat < 6:117970/139‑1 (MQ=255) tggtgAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAATTTTATATATAATATTGAGTAGGAGAAAGGAATGATTCGCGACCAGTACAAATATAGTAGAAAAAAAAGaata < 3:196730/138‑1 (MQ=255) tggtgAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGATTT‑CATTATTTCATTTTTATATATAATATTTAGTAGGAGAAAGGAATGATTCGCGACCAGTACAAATATATTAGAAAAAAAAGaataa > 5:243531/1‑139 (MQ=255) tttaaaaaTTTAAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTTTTTT‑AATTTTTGAAATTTTATAAATAATTTTGAGTAGGAGAAAGCAATGATTCGCGACCAGTACAAATATAGTAGAAAAAAAAGAATAATg < 8:254976/136‑1 (MQ=255) aaaTTTAAAAATTAAAATTTTTTGTATTTTTCTAAAAATTTTTTTTT‑CATTTTTGAAATTTTATATATAATTTTTATTATTATAATGTATTTTTTCGCGAACAGTACAAATATAGTATAAAAAAAAGAATAATGACCAt < 4:79154/139‑1 (MQ=255) aTTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGAAATTTTATATATATTATTGAGTAGGAGAAAGGACTGATTCGCGACCAGTACAAATATAGTAGAAAAAAAAGAATAATGACCATTg < 4:87283/139‑1 (MQ=255) cAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAATTTTATATATAATATTGAGTAGGAGAAAGGAATGATTCGCGACCAGTACAAATATAGTAGAAAAAAAAGAATAATGACCATTGTTAc > 7:14923/1‑139 (MQ=255) | TCTGCTGGCGTCTGACGAATCTTCCTATATGACAGGGCAGACCATTCATGTGAATGGCGGCC‑GTTTTATTTCAACGTAATCAACGAAAAACCAGCTCAAGAGCTGGTTTTTTGTGTGGTGAAAAATTTCAAAATAAAAAATTTGTCGATTTTTCTAACAATTTTGTTTT‑CATTTTTGCAATTTTATATATAATATTGAGTAGGAGAAAGGAATGATTCGCGACCAGTACAAATATAGTAGAAAAAAAAGAATAATGACCATTGTTAC > CP006881/986056‑986322 |
| 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: ‑ |