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 76 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,177,245 | 0 | G | T | 66.7% | 19.9 / 11.2 | 50 | intergenic (‑41/+267) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 454,906 | 0 | G | T | 60.0% | 1.2 / 12.9 | 24 | intergenic (+117/‑227) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 454,919 | 0 | G | T | 56.0% | 11.3 / 24.3 | 27 | intergenic (+130/‑214) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 454,873 | 0 | C | G | 52.0% | 7.7 / 26.4 | 28 | intergenic (+84/‑260) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 2,470,427 | 0 | C | A | 50.0% | 26.9 / 10.9 | 33 | Q433K (CAA→AAA) | yfdI | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase |
| * | NC_000913 | 2,519,212 | 0 | A | C | 46.9% | 19.4 / 11.2 | 32 | intergenic (+7/+45) | yfeD/gltX | putative DNA‑binding transcriptional regulator YfeD/glutamate‑‑tRNA ligase |
| * | NC_000913 | 707,976 | 0 | T | G | 46.5% | 9.9 / 20.6 | 43 | intergenic (+219/‑358) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 2,177,255 | 0 | G | T | 45.6% | ‑2.9 / 38.0 | 57 | intergenic (‑51/+257) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 580,761 | 0 | A | C | 45.5% | 26.3 / 14.6 | 33 | intergenic (‑316/‑73) | ylcI/nohD | DLP12 prophage; DUF3950 domain‑containing protein YlcI/DLP12 prophage; putative DNA‑packaging protein NohD |
| * | NC_000913 | 707,981 | 0 | C | G | 44.4% | 17.5 / 18.7 | 45 | intergenic (+224/‑353) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 2,177,221 | 0 | T | G | 43.8% | 35.2 / 19.2 | 48 | intergenic (‑17/+291) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 4,244,595 | 0 | C | G | 43.6% | 56.2 / 12.1 | 42 | E161Q (GAA→CAA) | malF | maltose ABC transporter membrane subunit MalF |
| * | NC_000913 | 454,933 | 0 | T | A | 43.3% | 9.9 / 12.9 | 30 | intergenic (+144/‑200) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 580,759 | 0 | G | C | 42.9% | 28.0 / 10.7 | 33 | intergenic (‑314/‑75) | ylcI/nohD | DLP12 prophage; DUF3950 domain‑containing protein YlcI/DLP12 prophage; putative DNA‑packaging protein NohD |
| * | NC_000913 | 2,519,207 | 0 | T | A | 42.9% | 16.0 / 11.8 | 28 | intergenic (+2/+50) | yfeD/gltX | putative DNA‑binding transcriptional regulator YfeD/glutamate‑‑tRNA ligase |
| * | NC_000913 | 1,816,113 | 0 | C | A | 41.7% | 23.3 / 14.2 | 36 | D749E (GAC→GAA) | katE | catalase II |
| * | NC_000913 | 1,879,875 | 0 | C | A | 41.2% | 82.3 / 13.5 | 54 | G25V (GGA→GTA) | yeaR | DUF1971 domain‑containing protein YeaR |
| * | NC_000913 | 4,283,226 | 0 | G | C | 40.5% | 37.3 / 11.6 | 37 | intergenic (‑151/+27) | yjcF/actP | pentapeptide repeat‑containing protein YjcF/acetate/glycolate:cation symporter |
| * | NC_000913 | 454,926 | 0 | G | A | 38.9% | 8.6 / 13.1 | 26 | intergenic (+137/‑207) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 2,794,048 | 0 | T | G | 38.6% | 44.1 / 12.7 | 44 | intergenic (+33/‑205) | gabT/gabP | 4‑aminobutyrate aminotransferase GabT/4‑aminobutyrate:H(+) symporter |
| 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 | 4498180 = | NA (NA) | 10 (0.150) | 7/256 | 4.8 | NA | intergenic (+240/‑92) | intB/insC‑6 | KpLE2 phage‑like element; putative integrase/KpLE2 phage‑like element; IS2 insertion element repressor InsA |
| ? | NC_000913 | = 4499511 | NA (NA) | noncoding (1331/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 1467909 = | NA (NA) | 10 (0.150) | 7/256 | 4.8 | NA | pseudogene (2518/2518 nt) | ydbA | putative outer membrane protein, N‑terminal fragment |
| ? | NC_000913 | = 1469240 | NA (NA) | noncoding (1/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 4498181 = | NA (NA) | 8 (0.120) | 6/256 | 5.2 | 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 | 381258 = | NA (NA) | 12 (0.180) | 6/254 | 5.2 | 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 | = 382594 | NA (NA) | 7 (0.110) | 5/250 | 5.6 | NA | pseudogene (279/282 nt) | yaiX | putative acyltransferase, N‑terminal fragment |
| ? | NC_000913 | = 1469238 | NA (NA) | noncoding (3/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 502316 = | 52 (0.780) | 3 (0.050) | 3/248 | 6.6 | 5.7% | coding (923/1677 nt) | ybaL | putative transporter YbaL |
| ? | NC_000913 | = 641135 | 48 (0.750) | coding (1383/1566 nt) | ahpF | alkyl hydroperoxide reductase, AhpF component | |||||