| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 879,397 | 0 | T | G | 53.8% | 10.0 / 14.7 | 13 | V90G (GTG→GGG) | mdfA | multidrug efflux MFS transporter MdfA |
| Reads supporting (aligned to +/- strand): ref base T (0/6); new base G (7/0); total (7/6) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 5.83e-04 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.56e-03 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GGCGGGCGGGATGTTTTTACAATGGCTGCTGGGGCCGCTGTCGGATCGTATTGGTCGCCGTCCGGTGATGCTGGCGGGAGTGGTGTGGTTTATCGTCACCTGTCTGGCAATATTGCTGGCGCAAAACATTGAACAATTCACCCTGTTGCGCTTCTTGCAGGGCATAA > NZ_CP009273/879314‑879480 | ggcgggcgGGATGTTTTTACAATGGCTGCTGGGGCCGCTGTCGGATCGTATTGGTCGCCGTCCGGTGATGCTGGCGGGAGTGGTGTGGtt < 1:49684/90‑1 (MQ=255) gcgggcggGATGTTTTTACAATGGCTGCTGGGGCCGCTGTCGGATCGTATTGGTCGCCGTCCGGTGATGCTGGCGGGGGGGGGGTGGgtt > 2:168886/1‑90 (MQ=39) ctgGGGCCGCTGTCGGATCGTATTGGTCGCCGTCCGGTGATGCTGGCGGGAGTGGTGTGGTTTATCGTCACCTGTCTGGCAATATTGCTg < 1:348731/90‑1 (MQ=255) gCTGTCGGATCGTATTGGTCGCCGTCCGGTGATGCTGGCGGGAGTGGTGTGGTTTATCGTCACCTGTCTGGCAATATTGCTGGCGCaaaa < 2:320701/90‑1 (MQ=255) gTATTGGTCGCCGTCCGGTGATGCTGGCGGGGGGGGGGGGGGTTTTTGTCACCCTTCTGGCAATATTTCTGGGGCAAAAAATTTAACAAt > 2:386740/1‑90 (MQ=255) gTATTGGTCGCCGTCCGGTGATGCTGGCGGGAGTGGGGTGGTTTATCGTCACCTGTCTGGCAATATTGCTGGCGCAAAACATTGAACAAt > 1:219960/1‑90 (MQ=255) gTCGCCGTCCGGTGATGCTGGCGGGAGGGGGGTGGTTTATCGTCACCTGTCTGGCAATATTTCTGGCGCAAAACATTGAAAAATTCAccc > 1:379235/1‑90 (MQ=255) tCGCCGTCCGGTGATGCTGGCGGGAGGGGGGTGGGTTTTTGTCACCTGTCTGGCAATATTTCTGGCGCAAAAAATTGAACAATTCACCCt > 2:196319/1‑90 (MQ=255) ccGTCCGGTGATGCTGGCGGGAGGGGGGTGGGTTATCGTCACCTGTCTGGGAATATTGCTGGCGCAAAACATTGAACAATTCACCCTGtt > 2:200552/1‑90 (MQ=255) cGTCCGGTGATGCTGGCGGGAGTGGTGTGGTTTATCGTCACCTGTCTGGCAATATTGCTGGCGCAAAACATTGAACAATTCACCCTGTTg < 2:29461/90‑1 (MQ=255) cTGGCGGGAGTGGTGTGGTTTATCGTCACCTGTCTGGCAATATTGCTGGCGCAAAACATTGAACAATTCACCCTGTTGCGCTTCTTGCAg < 2:51611/90‑1 (MQ=255) ggCGGGGGGGGGGTGGTTTATCGTCACCTGTCTGGCAATATTGCTGGCGCAAAAAATTGAACAATTCACCCTGTTGCGCTTCTTGCAggg > 2:151731/1‑90 (MQ=255) gAGTGGTGTGGTTTATCGTCACCTGTCTGGCAATATTGCTGGCGCAAAACATTGAACAATTCACCCTGTTGCGCTTCTTGCAGGGCATaa < 2:379235/90‑1 (MQ=255) | GGCGGGCGGGATGTTTTTACAATGGCTGCTGGGGCCGCTGTCGGATCGTATTGGTCGCCGTCCGGTGATGCTGGCGGGAGTGGTGTGGTTTATCGTCACCTGTCTGGCAATATTGCTGGCGCAAAACATTGAACAATTCACCCTGTTGCGCTTCTTGCAGGGCATAA > NZ_CP009273/879314‑879480 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |