mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 31 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,815,809 | 0 | G | . | 71.4% | 33.6 / 20.2 | 22 | intergenic (‑41/+54) | pyrE/rph | orotate phosphoribosyltransferase/truncated RNase PH |
| * | NC_000913 | 707,984 | 0 | C | G | 60.9% | 0.8 / 21.7 | 24 | intergenic (+227/‑350) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 4,220,007 | 0 | T | G | 58.8% | ‑2.8 / 11.1 | 17 | V471G (GTG→GGG) | aceK | isocitrate dehydrogenase kinase/phosphatase |
| * | NC_000913 | 1,982,994 | 0 | A | C | 57.1% | ‑1.6 / 12.5 | 14 | C183G (TGT→GGT) | araH | arabinose ABC transporter membrane subunit |
| * | NC_000913 | 454,919 | 0 | G | T | 54.5% | 10.2 / 21.2 | 24 | intergenic (+130/‑214) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 446,660 | 0 | C | A | 53.3% | 19.6 / 32.4 | 31 | D3Y (GAT→TAT) | yajR | putative major facilitator superfamily transport protein YajR |
| * | NC_000913 | 2,470,427 | 0 | C | A | 52.9% | 11.8 / 22.1 | 18 | Q433K (CAA→AAA) | yfdI | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase |
| * | NC_000913 | 3,877,635 | 0 | C | A | 52.9% | 12.4 / 20.9 | 17 | intergenic (‑170/+70) | yidB/gyrB | conserved protein YidB/DNA gyrase subunit B |
| * | NC_000913 | 1,879,855 | 0 | C | A | 51.7% | 32.4 / 43.1 | 34 | D32Y (GAT→TAT) | yeaR | DUF1971 domain‑containing protein YeaR |
| * | NC_000913 | 707,981 | 0 | C | T | 50.0% | ‑3.9 / 13.2 | 24 | intergenic (+224/‑353) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 3,455,671 | 0 | A | T | 50.0% | 10.2 / 18.5 | 28 | I32F (ATT→TTT) | gspC | Type II secretion system protein GspC |
| * | NC_000913 | 1,879,846 | 0 | T | G | 48.6% | 12.6 / 19.1 | 35 | T35P (ACG→CCG) | yeaR | DUF1971 domain‑containing protein YeaR |
| * | NC_000913 | 707,976 | 0 | T | G | 47.8% | ‑0.9 / 15.2 | 23 | intergenic (+219/‑358) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 1,879,848 | 0 | C | G | 47.1% | 28.3 / 15.4 | 35 | G34A (GGA→GCA) | yeaR | DUF1971 domain‑containing protein YeaR |
| * | NC_000913 | 3,455,677 | 0 | A | T | 44.4% | 11.3 / 13.5 | 27 | N34Y (AAT→TAT) | gspC | Type II secretion system protein GspC |
| * | NC_000913 | 454,882 | 0 | G | T | 43.5% | 3.4 / 10.8 | 24 | intergenic (+93/‑251) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 3,004,946 | 0 | G | T | 42.6% | 31.6 / 34.1 | 54 | Q281K (CAA→AAA) | ygeV | putative sigma(54)‑dependent transcriptional regulator YgeV |
| * | NC_000913 | 3,455,680 | 0 | G | T | 42.3% | 13.3 / 13.3 | 26 | V35L (GTG→TTG) | gspC | Type II secretion system protein GspC |
| * | NC_000913 | 2,185,429 | 0 | T | G | 41.2% | 23.5 / 17.9 | 34 | intergenic (‑128/+95) | thiM/rcnR | hydroxyethylthiazole kinase/DNA‑binding transcriptional repressor RcnR |
| * | NC_000913 | 3,720,433 | 0 | T | C | 40.9% | 15.6 / 12.6 | 23 | intergenic (+172/+15) | cspA/hokA | cold shock protein CspA/small toxic polypeptide |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 49 (1.050) | 9 (0.220) | 9/224 | 2.3 | 19.0% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 34 (0.840) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 44 (0.950) | 6 (0.150) | 5/224 | 3.5 | 14.2% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 34 (0.840) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||