| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_002947 | 1,587,557 | G→T | 20.6% | intergenic (‑12/‑246) | ttgA ← / → ttgR | efflux pump periplasmic linker TtgA/HTH‑type transcriptional regulator TtgR |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 1,587,557 | 0 | G | T | 20.6% | 55.4 / 3.5 | 24 | intergenic (‑12/‑246) | ttgA/ttgR | efflux pump periplasmic linker TtgA/HTH‑type transcriptional regulator TtgR |
| Reads supporting (aligned to +/- strand): ref base G (5/14); new base T (2/3); total (7/17) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 6.08e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.69e-01 | |||||||||||
GTCACGACGCCGACCTGAGGAGCCTGCGCCGCTGGCGCTGCTTCTTCTTTCTTACAGCCACTGAGCAGGGTTGCCAGGGCGACGGCGGAAACCAGAGCGGTAACGGCTGGCTTGAATTGCATGAGGATCCTCGGGTCGCTGGAGCAGGGAGACGCTCAAGAGTAATGGAAGAGATCTTGATCTGGAAAAAATGCTATCCGGTGGATAAATAGCTTGCTAAGGAATATACTTACATTCATGGTTGTTTGTAAATACTGCTGGGTGGTACT > NC_002947/1587424‑1587692 | gTCACGACGCCGACCTGAGGAGCCTGCGCCGCTGGCGCTGCTTCTTCTTTCTTACAGCCACTGAGCAGGGTTGCCAGGGCGACGGCGGAAACCAGAGCGGTAACGGCTGGCTTGAATTGCATGAGGATCCTCGGGt < 2:517060/136‑1 (MQ=255)gTCACGACGCCGACCTGAGGAGCCTGCGCCGCTGGCGCTGCTTCTTCTTTCTTACAGCCACTGAGCAGGGTTGCCAGGGCGACGGCGGAAACCAGAGCGGTAACGGCTGGCTTGAATTGCATGAGGATCCTCGGGt < 2:406825/136‑1 (MQ=255) cACGACGCCGACCTGAGGAGCCTGCGCCGCTGGCGCTGCTTCTTCTTTCTTACAGCCACTGAGCAGGGTTGCCAGGGCGACGGCGGAAACCAGAGCTGTAACGGCTTGATTGAATTGCATGAGGATCCTCGGGTCg < 2:528557/136‑1 (MQ=255) ccTGAGGAGCCTGCGCCGCTGGCGCTGCTTCTTCTTTCTTACAGCCACTGAGCAGGGTTGCCAGGGCGACGGCGGAAACCAGAGCGGTAACGGCTGGCTTGAATTGCATGAGGATCCTCGGGTCGCTGGAGCAggg < 1:509078/136‑1 (MQ=255) ccTGAGGAGCCTGCGCCGCTGGCGCTGCTTCTTCTTTCTTACAGCCACTGAGCAGGGTTGCCAGGGCGACGGCGGAAACCAGAGCGGTAACGGCTGGCTTGAATTGCATGAGGATCCTCGGGTCGCTGGAGCAggg < 1:521359/136‑1 (MQ=255) ggagCCTGCGCCGCTGGCGCTGCTTCTTCTTTCTTACAGCCACTGAGCAGGGTTGCCAGGGCGACGGCGGAAACCAGAGCGGTAACGGCTGGCTTGAATTGCATGAGGATCCTCGGGTCGCTGGAGCAGGGAGACg < 2:265660/136‑1 (MQ=255) agCCTGCGCCGCTGGCGCTGCTTCTTCTTTCTTACAGCCACTGAGCAGGGTTGCCAGGGCGACGGCGGAAACCAGAGCGGTAACGGCTGGCTTGAATTGCATGAGGATCCTCGGGTCGCTGGAGCAGGGAGACGCt > 1:232076/1‑136 (MQ=255) agCCTGCGCCGCTGGCGCTGCTTCTTCTTTCTTACAGCCACTGAGCAGGGTTGCCAGGGCGACGGCGGAAACCAGAGCGGTAACGGCTGGCTTGAATTGCATGAGGATCCTCGGGTCGCTGGAGCAGGGAGACGCt > 1:279887/1‑136 (MQ=255) cTGCGCCGCTGGCGCTGCTTCTTCTTTCTTACAGCCACTGAGCAGGGTTGCCAGGGCGACGGCGGAAACCAGAGCGGTAACGGCTGGCTTGAATTGCTTGAGGATCCTCGGGTCGCTGGAGCAGGGAGACGCTCaa < 2:378045/136‑1 (MQ=255) gcgcCGCTGGCGCTGCTTCTTCTTTCTTACAGCCACTGAGCCGGGTTGCCAGGGCGACGGCGGAAACCAGAGCGGGAACGGCTGGCTTGAATTGCATGAGGATCCTCGTGTCGCTGGAGCATGGAGACGCTCAaga > 2:454397/1‑136 (MQ=255) gcgcCGCTGGCGCTGCTTCTTCTTTCTTACAGCCACTGAGCAGGGTTGCCAGGGCGACGGCGGAAACCAGAGCGGTAACGGCTGGCTTGAATTGCATGAGGATCCTCGTGTCGCTGGAGCAGGGAGACGCTCAaga > 2:255576/1‑136 (MQ=255) gcgcCGCTGGCGCTGCTTCTTCTTTCATACAGCCACTGAGCAGGGTTGCCAGGGCGACGGCGGAAACCAGAGCGGTAACGGCTGGCTTGAATTGCATGAGGATCCTCGGGTCGCTGGAGCAGGGAGACGCTCAaga > 2:530767/1‑136 (MQ=255) ccgcTGGCGCTGCTTCTTCTTTCTTACAGCCACTGAGCAGGGTTGCCAGGGCGACGGCGGAAACCAGAGCGGTAACGGCTGGCTTGAATTGCATGAGGATCCTCGGGTCGCTGGAGCAGGGAGACGCTCAAGAGTa > 2:470921/1‑136 (MQ=255) tGGCGCTGCTTCTTCTTTCTTACAGCCACTGAGCAGGGTTGCCAGGGCGACGGCGGAAACCAGAGCGGTAACGGCTGGCTTGAATTGCATGAGGATCCTCGGGTCGCTGGAGCAGGGAGACGCTCAAGAGTAATgg < 1:470921/136‑1 (MQ=255) tGGCGCTGCTTCTTCTTTCTTACAGCCACTGAGCAGGGTTGCCAGGGCGACGGCGGAAACCAGAGCGGTAACGGCTGGCTTGAATTGCATGAGGATCCTCGGGTCGCTGGAGCAGGGAGACGCTCAAGAGTAATgg < 1:269368/136‑1 (MQ=255) gCCACTGAGCAGGGTTGCCAGGGCGACGGCGGAAACCAGAGCGGTAACGGCTGGCTTGAATTGCATGAGGATCCTCGGGTCGCTGGAGCAGGGAGACGCTCAAGAGTAATGGAAGAGATCTTGATCTGGAAAAAAt > 2:345137/1‑136 (MQ=255) gAAACCAGAGCGGTAACGGCTGGCTTGAATTGCATGAGGATCCTCGGGTCGCTGGAGCAGGGAGACGCTCAAGAGTAATGGAAGAGATCTTGATCTGGAAAAAATGCTATCCGGTGGATAAATAGCTTGCTAAGGa < 1:136139/136‑1 (MQ=255) cGGCTGGCTTGAATTGCATGAGGATCCTCGTGTCGCTGGAGCAGGGAGACGCTCAAGAGTAATGGAAGAGATCTTGATCTGGAAAAAATGCTATCCGGTGGATAAATAGCTTGCTAAGGAATATACTTACATTCAt < 2:526802/136‑1 (MQ=255) aGGATCCTCGTGTCGCTGGAGCATGGAGACGCTCAAGAGTAATGGAAGAGATCTTGATCTGGAAAAAATGCTATCCGGTGGATAAATAGCTTGCTAAGGAATATACTTACATTCTTGGTTGTTTGTAAATActgct < 1:454397/136‑1 (MQ=255) aGGATCCTCGTGTCGCTGGAGCAGGGAGACGCTCAAGAGTAATGGAAGAGATCTTGATCTGGAAAAAATGCTATCCGGTGGATAAATAGCTTGCTAAGGAATATACTTACATTCATGGTTGTTTGTAAATActgct < 1:255576/136‑1 (MQ=255) aGGATCCTCGGGTCGCTGGAGCAGGGAGACGCTCAAGAGTAATGGAAGAGATCTTGATCTGGAAAAAATGCTATCCGGTGGATAAATAGCTTGCTAAGGAATATACTTACATTCATGGTTGTTTGTAAATActgct < 1:530767/136‑1 (MQ=255) gATCCTCGGGTCGCTGGAGCAGGGAGACGCTCAAGAGTAATGGAAGAGATCTTGATCTGGAAAAAATGCTATCCGGTGGATAAATAGCTTGCTAAGGAATATACTTACATTCATGGTTGTTTGTAAATACTGCTgg < 2:279887/136‑1 (MQ=255) tCGGGTCGCTGGAGCAGGGAGACGCTCAAGAGTAATGGAAGAGATCTTGATCTGGAAAAAATGCTATCCGGTGGATAAATAGCTTGCTAAGGAATATACTTACATTCATGGTTGTTTGTAAATACTGCTGggtggt < 1:489199/136‑1 (MQ=255) tCGGGTCGCTGGAGCAGGGAGACGCTCAAGAGTAATGGAAGAGATCTTGATCTGGAAAAAATGCTATCCGGTGGATAAATAGCTTGCTAAGGAATATACTTACATTCATGGTTGTTTGTAAATACTGCTGggtggt < 1:328607/136‑1 (MQ=255) ggTCGCTGGAGCAGGGAGACGCTCAAGAGTAATGGAAGAGATCTTGATCTGGAAAAAATGCTATCCGGTGGATAAATAGCTTGCTAAGGAATATACTTACATTCATGGTTGTTTGTAAATACTGCTGGGTGGTACt > 2:130933/1‑136 (MQ=255) ggTCGCTGGAGCAGGGAGACGCTCAAGAGTAATGGAAGAGATCTTGATCTGGAAAAAATGCTATCCGGTGGATAAATAGCTTGCTAAGGAATATACTTACATTCATGGTTGTTTGTAAATACTGCTGGGTGGTACt > 2:139468/1‑136 (MQ=255) ggTCGCTGGAGCAGGGAGACGCTCAAGAGTAATGGAAGAGATCTTGATCTGGAAAAAATGCTATCCGGTGGATAAATAGCTTGCTAAGGAATATACTTACATTCATGGTTGTTTGTAAATACTGCTGGGTGGTACt > 2:254275/1‑136 (MQ=255) | GTCACGACGCCGACCTGAGGAGCCTGCGCCGCTGGCGCTGCTTCTTCTTTCTTACAGCCACTGAGCAGGGTTGCCAGGGCGACGGCGGAAACCAGAGCGGTAACGGCTGGCTTGAATTGCATGAGGATCCTCGGGTCGCTGGAGCAGGGAGACGCTCAAGAGTAATGGAAGAGATCTTGATCTGGAAAAAATGCTATCCGGTGGATAAATAGCTTGCTAAGGAATATACTTACATTCATGGTTGTTTGTAAATACTGCTGGGTGGTACT > NC_002947/1587424‑1587692 |
| 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: ‑ |