| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_002947 | 5,616,602 | C→T | 12.1% | A304T (GCC→ACC) | msbA ← | lipid A export ATP‑binding/permease MsbA |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 5,616,602 | 0 | C | T | 12.1% | 80.7 / 3.6 | 33 | A304T (GCC→ACC) | msbA | lipid A export ATP‑binding/permease MsbA |
| Reads supporting (aligned to +/- strand): ref base C (18/11); new base T (2/2); total (20/13) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.64e-01 | |||||||||||
TTCCACGCGTTCCTTCTCGACCGTACCAGTGTCCACTTCAGGCGCTTCGTCCAGTTGCTCGAAGATGCTCTCGGCACCTGCCAGGCCCTTCTGGATGGTCGAGCTGACTTCCGACAACTGGCGAATCGGCTTGGGCAGCAGGCCGGCAGCGGTGATATACGCCACCAGGTCACCAGCAGTAGAGTCCCCGCGCAGGAACAACACCAGGAACATCAGCGCAGCCATGGCGCTGTAGATCACCAGCTGAAGCATCGGCGTGTACAGCGAGCCGGTCTTGGTCAT > NC_002947/5616456‑5616737 | ttCCACGCGTTCCTTCTCGACCGTACCAGTGTCCACTTCAGGCGCTTCGTCCAGTTGCTCGAAGATGCTCTCGGCACCTGCCAGGCCCTTCTGGATGGTCGAGCTGACTTCCGACAACTGGCGAATCGGCTTGGGCAGCAGGCCGGCAGc > 1:222073/1‑150 (MQ=255)ttCCACGCGTTCCTTCTCGACCGTACCAGTGTCCACTTCAGGCGCTTCGTCCAGTTGCTCGAAGATGCTCTCGGCACCTGCCAGGCCCTTCTGGATGGTCGAGCTGACTTCCGACAACTGGCGAATCGGCTTGGGCAGCAGGCCGGCAGc > 2:555491/1‑150 (MQ=255) aCGCGTTCCTTCTCGACCGTACCAGTGTCCACTTCAGGCGCTTCGTCCAGTTGCTCGAAGATGCTCTCGGCACCTGCCAGGCCCTTCTGGATGGTCGAGCTGACTTCCGACAACTGGCGAATCGGCTTGGGCAGCAGGCCGGCAGCGGTg > 1:78800/1‑150 (MQ=255) cTTCTCGACCGTACCAGGTTCCACGTCAGGCGCTTCGTCCAGTTGCTCGAAGATGCTCTCGGCACCTGCCAGGCCCTTCTGGATGGTCGAGCTGACTTCCGACAACTGGCGCATCGGCTTTGGCAGCAAGCCGGCAGCGCTGATATACGc > 2:165650/1‑150 (MQ=255) ttCTCGACCGTACCAGTGTCCACTTCAGGCGCTTCGTCCAGTTGCTCGAAGATGCTCTCGGCACCTGCCAGGCCCTTCTGGATGGTCGAGCTGACTTCCGACAACTGGCGAATCGGCTTGGGCAGCAGGCCGGCAGCGGTGATATACGcc > 1:604600/1‑150 (MQ=255) cAGTGTCCACTTCAGGCGCTTCGTCCAGTTGCTCGAAGATGCTCTCGGCACCTGCCAGGCCCTTCTGGATGGTCGAGCTGACTTCCGACAACTGGCGAATCGGCTTGGGCAGCAGGCCGGCAGCGGTGATATACGCCACCAGGTCACcag < 1:608129/150‑1 (MQ=255) cACTTCAGGCGCTTCGTCCAGTTGCTCGAAGATGCTCTCGGCACCTGCCAGGCCCTTCTGGATGGTCGAGCTGACTTCCGACAACTGGCGAATCGGCTTGGGCAGCAGGCCGGCAGCGGTGATATACGCCACCAGGTCACCAGCAGTaga < 1:18097/150‑1 (MQ=255) ttCAGGCGCTTCGTCCAGTTGCTCGAAGATGCTCTCGGCACCTGCCAGGCCCTTCTGGATGGTCGAGCTGACTTCCGACAACTGGCGAATCGGATAAGAGTGTGGTCCGGCAGCGGTGATATACGCCACCAGGTCACCAGCAGTAGAGTc > 2:173721/1‑150 (MQ=255) cTTCGTCCAGTTGCTCGAAGATGCTCTCGGCACCTGCCAGGCCCTTCTGGATGGTCGAGCTGACTTCCGACAACTGGCGAATCGGCTTGGGCAGCAGGCCGGCAGCGGTGATATACGCCACCAGGTCACCAGCAGTAGAGTCCCCGCGCa < 1:229747/150‑1 (MQ=255) ttCGTCCAGTTGCTCGAAGATGCTCTCGGCACCTGCCAGGCCCTTCTGGATGGTCGAGCTGACTTCCGACAACTGGCGAATCGGCTTGGGCAGCAGGCCGGCAGCGGTGATATACGCCACCAGGTCACCAGCAGTAGAGTCCCCGCGCAg < 2:604600/150‑1 (MQ=255) tCCAGTTGCTCGAAGATGCTATCGGCACCTGCCAGGCCCTTCTGGATGGTCGAGCTGACTTCCGACAACTGGCGAAGCGGCTTGGGAAGCAGGCCGGCAGCGGTGATATAGGCCACCAGGTCACCAGCAGGAGAGTCCCCGCGCAGGaac < 2:164418/150‑1 (MQ=255) gCTCGAAGATGCTCTCGGCACCTGCCAGGCCCTTCTGGATGGTCGAGCTGACTTCCGACAACTGGCGAATCGGCTTGGGCAGCAGGCCGGCAGCGGTGATATACGCCACCAGGTCACCAGCAGTAGAGTCCCCGCGCAGGAACAACACCa < 2:261288/150‑1 (MQ=255) tCGAAGATGCTCTCGGCACGTGCCAGGCCCTTCTGGGTGGTCGAGCTGACTTCCGACAACTGGCGAATCGGCTTGGGCAGCAGGCCGGCAGCGGTGATATACGCCACCAGGTCACCAGCAGTAGAGTCCCCGCGCAGGAACAACACCAgg > 2:463523/1‑150 (MQ=255) tCGAAGATGCTCTCGGCACCTGCCAGGCCCTTCTGGATGGTCGAGCTGACTTCCGACAACTGGCGAATCGGCTTGGGCAGCAGGCCGGCAGCGGTGATATACGCCACCAGGTCACCAGCAGTAGAGTCCCCGCGCAGGAACAACACCAgg > 2:613021/1‑150 (MQ=255) gAAGATGCTCTCGGCACCTGCCAGGCCCTTCTGGATGGTCGAGCTGACTTCCGACAACTGGCGAATCGGCTTGGGCAGCAGGCCGGCAGCGGTGATATACGCCACCAGGTCACCAGCAGTAGAGTCCCCGCGCAGGAACAACACCAGGaa > 2:449097/1‑150 (MQ=255) aaGATGCTCTCGGCACCTGCCAGGCCCTTCTGGATGGTCGAGCTGACTTCCGACAACTGGCGAATCGGCTTGGGCAGCAGGCCGGCAGCGGTGATATACGCCACCAGGTCACCAGCAGTAGAGTCCCCGCGCAGGAACAACACCAGGAAc < 1:555491/150‑1 (MQ=255) aGATGCTCTCGGCACCTGCCAGGCCCTTCTGGATGGTCGAGCTGACTTCCGACAACTGGCGAATCGGCTTGGGCAGCAGGCCGGCAGCGGTGATATACGCCACCAGGTCACCAGCAGTAGAGTCCCCGCGCAGGAACAACACCAGGAACa > 1:265857/1‑150 (MQ=255) ccTTCTGGATGGTCGAGCTGACTTCCGACAACTGGCGAATCGGCTTGGGCAGCAGGCCGGCAGCGGTGATATACGCCACCAGGTCACCAGCAGTa > 2:483061/1‑95 (MQ=255) ccTTCTGGATGGTCGAGCTGACTTCCGACAACTGGCGAATCGGCTTGGGCAGCAGGCCGGCAGCGGTGATATACGCCACCAGGTCACCAGCAGTa < 1:483061/95‑1 (MQ=255) ttCTGGATGGTCGAGCTGACTTCCGACAACTGGCGAATCGGCTTGGGCAGCAGGCCGGCAGCGGTGATATACGACACCAGGTCACCAGCAGTCAAGTCCCCGCGCAGGAACAACACCAGGAACATCAGCGCAACCATGGCGCTGTAGATc > 1:116940/1‑150 (MQ=255) gATGGTCGAGCTGACTTCCGACAACTGGCGAATCGGCTTGGGCAGCAGGCCGGCAGCGGTGATATACGCCACCAGGTCACCAGCAGTAGAGTCCCCGCGCAGGAACAACACCAGGAACATCAGCGCAGCCATGGCGCTGTAGATCACCAg > 2:582736/1‑150 (MQ=255) aGCTGACTTCCGACAACTGGCGAATCGGCTTGGGCAGCAGGCCGGCAGCGGTGATATACGCCACCAGGTCACCAGCAGTAGAGTCCCCGCGCAGGCAAGTGGCCGGGAACATCAGCGCAGCCATGGCGCTGTAGATCACCAGCTGAAGCa > 1:38348/1‑150 (MQ=255) gCTGACTTCCGACAACTGGCGAATCGGCTTGGGCAGCAGGCCGGCAGCGGTGATATACGCCACCAGGTCACCAGCAGTAGAGTCCCCGCGCAGGAACAACACCAGGAACATCAGCGCAGCCATGGCGCTGTAGATCACCAGCTGAAGCAt < 1:582736/150‑1 (MQ=255) gACTTCCGACAACTGGCGAATCGGCTTGGGCAGCAGGCCGGTAGCGGTGATATACGCCACCAGGTCACCAGCAGTAGAGTCCCCGCGCAGGAACAACACCAGGAACATCAGCGCAGCCATGGCGCTGTAGATCACCAGCTGAAGCATCgg > 2:508615/1‑150 (MQ=255) gACTTCCGACAACTGGCGAATCGGCTTGGGCAGCAGGCCGGTAGCGGTGATATACGCCACCAGGTCACCAGCAGTAGAGTCCCCGCGCAGGAACAACACCAGGAACATCAGCGCAGCCATGGCGCTGTAGATCACCAGCTGAAGCATCgg > 2:508412/1‑150 (MQ=255) ggCGAATCGGCTTGGGCAGCAGGCCGGCAGCGGTGATATACGCCACCAGGTCACCAGCAGTAGAGTCCCCGCGCAGGAACAACACCAGGAACATCAGCGCAGCCATGGCGCTGTAGATCACCAGCTGAAGCATCGGCGTGTACAGCGAGc < 2:78800/150‑1 (MQ=255) gAATCGGCTTGGGCAGCAGGCCGGCAGCGGTGATATACGCCACCAGGTCACCAGCAGTAGAGTCCCCGCGCAGGAACAACACCAGGAACATCAGCGCAGCCATGGCGCTGTAGATCACCAGCTGAAGCATCGGCGTGTACAGCGAGCCgg > 2:361349/1‑150 (MQ=255) aaTCGGCTTGGGCAGCAGGCCGGCAGCGATGATATACGCCACCAGGTCACCAGCAGTAGAGTCCCCGCGCAGGAACAACACCAGGAACATCAGCGCAGCCATGGCGCTGTAGATCACCAGCTGAAGCATCGGCGTGTACTGCGAGCCGGt > 1:281180/1‑150 (MQ=255) tCGGCTTGGGCAGCAGGCCGGCAGCGGTGATATACGCCACCAGGTCACCAGCAGTAGAGTCCCCGCGCAGGAACAACACCAGGAACATCAGCGCAGCCATGGCGCTGTAGATCACCAGCTGAAGCATCGGCGTGTACAGCGAGCCGGTCt > 1:342048/1‑150 (MQ=255) ggCTTGGGCAGCAGGCCGGTAGCGGTGATATACGCCACCAGGTCACCAGCAGTAGAGTCCCCGCGCAGGAACAACACCAGGAACATCAGCGCAGCCATGGCGCTGTAGATCACCAGCTGAAGCATCGGCGTGTACAGCGAGCCGGTCTTg < 1:508615/150‑1 (MQ=255) ggCTTGGGCAGCAGGCCGGTAGCGGTGATATACGCCACCAGGTCACCAGCAGTAGAGTCCCCGCGCAGGAACAACACCAGGAACATCAGCGCAGCCATGGCGCTGTAGATCACCAGCTGAAGCATCGGCGTGTACAGCGAGCCGGTCTTg < 1:508412/150‑1 (MQ=255) gCTTGGGCAGCAGGCCGGCAGCGGTGATATAAGCCACCAGGTCACCAGCAGTAGAGTCCCCGCGCAGGAACAACACCAGGAACATCAGCGCAGCCATGGCGCTGTAGATCACCAGCTGAAGCATCGGCGTGTACAGCGAGCCGGTCTTgg > 1:426248/1‑150 (MQ=255) gggCAGCAGGCCGGCAGCGGTGATATACGCCACCAGGTCACCAGCAGTAGAGTCCCCGCGCAGGAACAACACCAGGAACATCAGCGCAGCCATGGCGCTGTAGATCACCAGCTGAAGCATCGGCGTGTACAGCGAGCCGGTCTTGGTCAt < 1:613021/150‑1 (MQ=255) | TTCCACGCGTTCCTTCTCGACCGTACCAGTGTCCACTTCAGGCGCTTCGTCCAGTTGCTCGAAGATGCTCTCGGCACCTGCCAGGCCCTTCTGGATGGTCGAGCTGACTTCCGACAACTGGCGAATCGGCTTGGGCAGCAGGCCGGCAGCGGTGATATACGCCACCAGGTCACCAGCAGTAGAGTCCCCGCGCAGGAACAACACCAGGAACATCAGCGCAGCCATGGCGCTGTAGATCACCAGCTGAAGCATCGGCGTGTACAGCGAGCCGGTCTTGGTCAT > NC_002947/5616456‑5616737 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |