| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_004302 | 1,914 | 0 | T | C | 33.3% | 17.9 / 14.8 | 38 | intergenic (‑54/+7) | r1tp02/rro | ORF2/Repressor protein |
| Reads supporting (aligned to +/- strand): ref base T (0/20); new base C (0/10); total (0/38) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GGAGTTTTTCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑TATTTAATTATAAATCAATTTCTA‑CTTTGACAGCTTGCCCAATCACAGCTGCTGGATTGTCTTGT > NC_004302/1841‑1978 | ggAGTTTTTCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGt‑a‑tt < 1:518717/75‑2 (MQ=255)ggAGTTTTTCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGt‑a‑tc < 1:11739364/75‑2 (MQ=255) gTTTTTCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑a‑tatag < 1:3639761/75‑3 (MQ=255) tttttCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑a‑tatagt < 1:5169486/75‑4 (MQ=255) tttttCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑a‑tatagt < 1:2756265/75‑4 (MQ=255) ttttCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGt‑a‑tttgtag < 1:9888478/75‑7 (MQ=255) ttCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑T‑TACTTaaac < 1:3436408/75‑3 (MQ=255) ttCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑TATTTAAta < 1:2827276/75‑2 (MQ=255) tCCATTTTTCATAATGTTTATGTTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑AAttcagtac < 1:12053585/75‑7 (MQ=255) tCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGTAA‑TAtttcacc < 1:2852417/75‑5 (MQ=255) tCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑c‑tatgattatt < 1:11223765/75‑8 (MQ=255) tCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑a‑tatgcttcgt < 1:1636255/75‑8 (MQ=255) tCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑a‑tatcctaaat < 1:2565126/75‑8 (MQ=255) tCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑a‑tatccatccc < 1:8861596/75‑8 (MQ=255) tCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑a‑tatattatcg < 1:7221316/75‑8 (MQ=255) tCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑a‑tatatataac < 1:2243698/75‑8 (MQ=255) tCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑a‑tatacgttat < 1:11147990/75‑8 (MQ=255) tCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑a‑tataaggtac < 1:3088744/75‑8 (MQ=255) tCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑ACTAtttttat < 1:6150842/75‑5 (MQ=255) tCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑Ttttttctca < 1:4492950/75‑6 (MQ=255) tCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑Ttttttcatt < 1:2998165/75‑6 (MQ=255) tCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑TAttgcccaa < 1:4623340/75‑7 (MQ=255) tCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑TAttctaagc < 1:12184546/75‑7 (MQ=255) tCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑TAttcaacac < 1:3443629/75‑7 (MQ=255) tCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑T‑TTTAAtcgc < 1:3144403/75‑4 (MQ=255) tCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑CAtttgcccc < 1:7154260/75‑6 (MQ=255) tCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑CAttgccagg < 1:697771/75‑7 (MQ=255) tCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑CAttgataga < 1:4923400/75‑7 (MQ=255) tCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑CAttcgactg < 1:57272/75‑7 (MQ=255) tCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑CATTTacacc < 1:3359805/75‑5 (MQ=255) tCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑AAttcaagcg < 1:10252438/75‑7 (MQ=255) tCCATTTTTCATAATGTCTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑CAttgttcca < 1:10414503/75‑7 (MQ=255) ccATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑CAtttggcaga < 1:9303474/75‑7 (MQ=255) ccATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑AAttgtgcctt < 1:655506/75‑8 (MQ=255) ccATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑‑ATTTaaactta < 1:772764/75‑6 (MQ=255) cATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑TTTTTacgtcct < 1:9835545/75‑7 (MQ=255) cATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑TCtttgagagac < 1:8282297/75‑8 (MQ=255) cATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑TATTTagtatat < 1:3186184/75‑7 (MQ=255) cATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑TATATaactcca < 1:6648270/75‑6 (MQ=255) cATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑CCTTTAAtgtat < 1:11115722/75‑5 (MQ=255) cATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑CAtttgcctaag < 1:9857747/75‑8 (MQ=255) cATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑CAtttgcctaag < 1:10863090/75‑8 (MQ=255) cATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑‑ATTTagttcaaa < 1:667808/75‑8 (MQ=255) cATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑‑ATTTactatccc < 1:2367582/75‑8 (MQ=255) cATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑‑ATTTaactggac < 1:3292915/75‑7 (MQ=255) cATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑‑ATTTaactacag < 1:8977910/75‑7 (MQ=255) aaTGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑TATTTAATTAT‑AATCAAtttta < 1:7791489/75‑3 (MQ=255) tttCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑TATTTAATTATAAATCAATTTCTA‑CTTTGAct < 1:8255183/75‑2 (MQ=255) aCCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑TATTTAATTATAAATCAATTTCTA‑CTTTGACAGCttaaa < 1:10198998/75‑4 (MQ=255) aGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑TATTTAATTATAAATCAATTTCTACCTTTGACAGCtaacgcca < 1:9143338/75‑8 (MQ=255) aaCGAGAATCAAGACATTGCTCGT‑A‑TATTTAATTATAAATCAATTTCTA‑CTTTGACAGCTTGCCCAATCACAgct < 1:9759646/75‑1 (MQ=255) aTTGCTCGT‑A‑TATTTAATTATAAATCAATTTCTA‑CTTTGACAGCTTGCCCAATCACAGCTGCTGGAtttctatgc < 1:10907825/75‑8 (MQ=255) | GGAGTTTTTCCATTTTTCATAATGTTTATATTTCCTAACCTAGCTTTTAACGAGAATCAAGACATTGCTCGT‑A‑TATTTAATTATAAATCAATTTCTA‑CTTTGACAGCTTGCCCAATCACAGCTGCTGGATTGTCTTGT > NC_004302/1841‑1978 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |