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 113 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 707,976 | 0 | T | G | 61.3% | ‑2.5 / 16.0 | 31 | intergenic (+219/‑358) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 708,004 | 0 | C | A | 60.7% | 2.4 / 22.2 | 30 | intergenic (+247/‑330) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 2,177,245 | 0 | G | T | 59.2% | ‑5.5 / 27.5 | 54 | intergenic (‑41/+267) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 707,989 | 0 | C | A | 55.6% | 4.6 / 16.1 | 31 | intergenic (+232/‑345) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 2,177,234 | 0 | C | A | 55.0% | ‑4.7 / 23.2 | 54 | intergenic (‑30/+278) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 707,992 | 0 | C | A | 53.8% | 4.4 / 16.0 | 31 | intergenic (+235/‑342) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 454,873 | 0 | C | G | 51.6% | ‑3.4 / 21.4 | 35 | intergenic (+84/‑260) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 2,470,427 | 0 | C | A | 51.5% | 19.2 / 36.3 | 36 | Q433K (CAA→AAA) | yfdI | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase |
| * | NC_000913 | 1,097,109 | 0 | A | T | 51.3% | 4.1 / 34.5 | 38 | intergenic (+280/+456) | ycdU/serX | uncharacterized protein YcdU/tRNA‑Ser |
| * | NC_000913 | 707,981 | 0 | C | G | 50.0% | 3.8 / 12.5 | 32 | intergenic (+224/‑353) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 707,984 | 0 | C | G | 50.0% | 10.6 / 13.8 | 32 | intergenic (+227/‑350) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 2,177,255 | 0 | G | T | 50.0% | 5.2 / 36.9 | 63 | intergenic (‑51/+257) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 454,933 | 0 | T | A | 48.6% | 1.8 / 22.7 | 40 | intergenic (+144/‑200) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 2,177,221 | 0 | T | G | 48.1% | 29.7 / 27.5 | 54 | intergenic (‑17/+291) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 1,097,092 | 0 | T | C | 45.5% | 2.5 / 12.3 | 32 | intergenic (+263/+473) | ycdU/serX | uncharacterized protein YcdU/tRNA‑Ser |
| * | NC_000913 | 454,934 | 0 | A | C | 45.0% | 22.9 / 15.5 | 40 | intergenic (+145/‑199) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 4,220,016 | 0 | A | T | 44.4% | 22.0 / 24.2 | 36 | Y474F (TAT→TTT) | aceK | isocitrate dehydrogenase kinase/phosphatase |
| * | NC_000913 | 454,926 | 0 | G | C | 44.0% | 17.7 / 13.2 | 40 | intergenic (+137/‑207) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 454,866 | 0 | G | T | 43.8% | 4.5 / 10.5 | 32 | intergenic (+77/‑267) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 1,879,846 | 0 | T | G | 42.9% | 36.1 / 20.2 | 49 | T35P (ACG→CCG) | yeaR | DUF1971 domain‑containing protein YeaR |
| 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 | 4498181 = | NA (NA) | 13 (0.160) | 6/256 | 5.9 | NA | noncoding (1/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 4499512 | NA (NA) | intergenic (+12/+81) | insD‑6/yjgX | KpLE2 phage‑like element; IS2 insertion element protein InsB/KpLE2 phage‑like element; putative phosphoethanolamine transferase YjgX, N‑terminal fragment | |||||
| * | ? | NC_000913 | 381258 = | NA (NA) | 15 (0.180) | 6/254 | 5.9 | NA | pseudogene (3/417 nt) | yaiX | putative acyltransferase, N‑terminal fragment |
| ? | NC_000913 | = 382589 | NA (NA) | noncoding (1330/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 2830502 = | 76 (0.930) | 3 (0.040) | 3/230 | 7.0 | 3.8% | coding (690/966 nt) | gutQ | D‑arabinose 5‑phosphate isomerase GutQ |
| ? | NC_000913 | = 3379857 | 85 (1.160) | coding (141/1128 nt) | zapE | cell division factor ZapE with ATPase activity | |||||
| * | ? | NC_000913 | = 835070 | 74 (0.900) | 3 (0.040) +C |
3/254 | 7.4 | 4.0% | coding (2001/2151 nt) | dinG | ATP‑dependent DNA helicase DinG |
| ? | NC_000913 | 4345712 = | 71 (0.870) | coding (1615/1647 nt) | fumB | fumarase B | |||||