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 108 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 454,919 | 0 | G | T | 70.8% | ‑3.5 / 13.0 | 26 | intergenic (+130/‑214) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 4,606,203 | 0 | T | G | 52.0% | ‑0.5 / 16.0 | 25 | noncoding (84/87 nt) | leuP | tRNA‑Leu |
| * | NC_000913 | 454,921 | 0 | A | T | 50.0% | 1.9 / 10.5 | 26 | intergenic (+132/‑212) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 2,177,234 | 0 | C | A | 50.0% | 20.8 / 11.2 | 47 | intergenic (‑30/+278) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 2,177,245 | 0 | G | T | 47.8% | 10.2 / 16.7 | 48 | intergenic (‑41/+267) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 1,879,848 | 0 | C | G | 46.8% | 46.4 / 23.0 | 48 | G34A (GGA→GCA) | yeaR | DUF1971 domain‑containing protein YeaR |
| * | NC_000913 | 454,934 | 0 | A | C | 46.7% | 5.5 / 10.7 | 30 | intergenic (+145/‑199) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 3,004,946 | 0 | G | T | 45.3% | 52.0 / 43.2 | 64 | Q281K (CAA→AAA) | ygeV | putative sigma(54)‑dependent transcriptional regulator YgeV |
| * | NC_000913 | 454,933 | 0 | T | A | 44.8% | 1.6 / 13.5 | 30 | intergenic (+144/‑200) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 454,866 | 0 | G | T | 43.8% | 11.5 / 11.5 | 32 | intergenic (+77/‑267) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 1,879,846 | 0 | T | G | 43.8% | 24.9 / 21.9 | 48 | T35P (ACG→CCG) | yeaR | DUF1971 domain‑containing protein YeaR |
| * | NC_000913 | 2,470,405 | 0 | T | G | 42.1% | 32.9 / 19.2 | 38 | V425V (GTT→GTG) | yfdI | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase |
| * | NC_000913 | 2,177,255 | 0 | G | T | 41.1% | 28.4 / 28.0 | 57 | intergenic (‑51/+257) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 707,976 | 0 | T | G | 40.5% | 19.4 / 20.6 | 37 | intergenic (+219/‑358) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 3,407,970 | 0 | C | G | 40.5% | 39.1 / 15.8 | 37 | L122V (CTT→GTT) | panF | pantothenate:Na(+) symporter |
| * | NC_000913 | 454,873 | 0 | C | G | 40.0% | 7.1 / 12.6 | 34 | intergenic (+84/‑260) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 2,470,411 | 0 | A | T | 38.5% | 36.7 / 17.2 | 39 | L427F (TTA→TTT) | yfdI | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase |
| * | NC_000913 | 3,418,492 | 0 | C | G | 37.5% | 48.2 / 11.3 | 46 | H35D (CAC→GAC) | yhdV | lipoprotein YhdV |
| * | NC_000913 | 707,984 | 0 | C | G | 37.1% | 52.1 / 12.1 | 36 | intergenic (+227/‑350) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 1,842,008 | 0 | T | G | 37.0% | 94.6 / 12.2 | 54 | Q43P (CAG→CCG) | ynjH | DUF1496 domain‑containing protein YnjH |
| 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 = | 87 (1.080) | 6 (0.080) | 6/222 | 5.1 | 8.8% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 49 (0.690) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 1467910 = | NA (NA) | 4 (0.050) | 4/254 | 6.6 | NA | noncoding (1331/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 1469242 | NA (NA) | intergenic (‑93/‑4) | insC‑2/ydbA | IS2 insertion element repressor InsA/putative outer membrane protein, N‑terminal fragment | |||||
| * | ? | NC_000913 | 3652866 = | NA (NA) | 3 (0.040) | 3/236 | 6.8 | 3.2% | noncoding (365/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 4143115 | 98 (1.210) | coding (586/1080 nt) | frwC | putative PTS enzyme IIC component FrwC | |||||
| * | ? | NC_000913 | 287934 = | 68 (0.840) | 3 (0.040) | 3/242 | 7.0 | 4.3% | coding (1146/1611 nt) | yagH | CP4‑6 prophage; putative xylosidase/arabinosidase |
| ? | NC_000913 | = 4258359 | 69 (0.900) | coding (618/1380 nt) | dinF | DNA damage‑inducible protein F | |||||
| * | ? | NC_000913 | = 3396460 | 93 (1.150) | 3 (0.040) | 3/252 | 7.1 | 3.4% | coding (1336/1470 nt) | rng | RNase G |
| ? | NC_000913 | 3551087 = | 76 (0.950) | coding (1387/2394 nt) | malP | maltodextrin phosphorylase | |||||
| * | ? | NC_000913 | 381258 = | NA (NA) | 12 (0.150) | 3/252 | 7.1 | 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 | 4498181 = | NA (NA) | 11 (0.140) | 3/254 | 7.2 | 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 | = 3951416 | 98 (1.210) | 3 (0.040) | 3/254 | 7.2 | 3.0% | pseudogene (857/1645 nt) | ilvG | acetolactate synthase II subunit IlvG, N‑terminal fragment (pseudogene) |
| ? | NC_000913 | 3951420 = | 99 (1.230) | pseudogene (861/1645 nt) | ilvG | acetolactate synthase II subunit IlvG, N‑terminal fragment (pseudogene) | |||||
| * | ? | NC_000913 | 3723027 = | 150 (1.860) | 3 (0.040) | 3/254 | 7.2 | 2.6% | coding (1371/2070 nt) | glyS | glycine‑‑tRNA ligase subunit beta |
| ? | NC_000913 | 4577920 = | 78 (0.970) | coding (39/1047 nt) | mcrC | 5‑methylcytosine‑specific restriction enzyme subunit McrC | |||||