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 67 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 | 71.4% | 16.1 / 14.0 | 45 | intergenic (‑41/+267) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 2,177,234 | 0 | C | A | 57.1% | ‑0.3 / 17.4 | 42 | intergenic (‑30/+278) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 454,906 | 0 | G | T | 56.5% | 4.3 / 15.0 | 28 | intergenic (+117/‑227) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 707,981 | 0 | C | G | 53.3% | 2.3 / 19.3 | 25 | intergenic (+224/‑353) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 2,470,431 | 0 | G | A | 53.3% | ‑4.7 / 13.8 | 20 | R434K (AGA→AAA) | yfdI | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase |
| * | NC_000913 | 2,177,255 | 0 | G | T | 52.2% | ‑1.0 / 31.6 | 46 | intergenic (‑51/+257) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 3,407,970 | 0 | C | G | 48.1% | 19.3 / 12.6 | 27 | L122V (CTT→GTT) | panF | pantothenate:Na(+) symporter |
| * | NC_000913 | 2,470,411 | 0 | A | T | 45.5% | 10.8 / 11.2 | 22 | L427F (TTA→TTT) | yfdI | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase |
| * | NC_000913 | 238,535 | 0 | G | T | 42.9% | 27.2 / 14.4 | 60 | H68N (CAT→AAT) | ykfM | uncharacterized protein YkfM |
| * | NC_000913 | 4,220,018 | 0 | G | T | 42.2% | 46.4 / 16.8 | 45 | D475Y (GAT→TAT) | aceK | isocitrate dehydrogenase kinase/phosphatase |
| * | NC_000913 | 3,314,196 | 0 | G | C | 41.4% | 31.6 / 11.8 | 30 | R607G (CGT→GGT) | infB | translation initiation factor IF‑2 |
| * | NC_000913 | 3,455,669 | 0 | T | G | 41.1% | 46.0 / 33.2 | 56 | I31S (ATT→AGT) | gspC | Type II secretion system protein GspC |
| * | NC_000913 | 2,470,405 | 0 | T | G | 40.9% | 12.5 / 11.7 | 22 | V425V (GTT→GTG) | yfdI | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase |
| * | NC_000913 | 2,177,228 | 0 | C | G | 40.7% | 5.2 / 17.3 | 42 | intergenic (‑24/+284) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 1,636,442 | 0 | C | G | 40.0% | 27.9 / 12.1 | 30 | intergenic (‑75/‑314) | nohA/ynfO | Qin prophage; putative prophage DNA‑packaging protein NohA/Qin prophage; protein YnfO |
| * | NC_000913 | 2,177,221 | 0 | T | G | 40.0% | 29.6 / 16.8 | 40 | intergenic (‑17/+291) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 2,470,472 | 0 | G | T | 39.3% | 31.4 / 12.9 | 30 | intergenic (+10/+605) | yfdI/yfdK | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase/CPS‑53 (KpLE1) prophage; putative tail fiber assembly protein YfdK |
| * | NC_000913 | 3,955,616 | 0 | T | G | 38.2% | 31.4 / 10.4 | 34 | F96V (TTT→GTT) | ilvA | threonine deaminase |
| * | NC_000913 | 3,455,677 | 0 | A | T | 37.0% | 41.6 / 28.1 | 54 | N34Y (AAT→TAT) | gspC | Type II secretion system protein GspC |
| * | NC_000913 | 3,455,680 | 0 | G | T | 36.7% | 50.4 / 18.3 | 50 | V35L (GTG→TTG) | gspC | Type II secretion system protein GspC |
| 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) | 18 (0.310) | 6/254 | 4.4 | 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 (0.170) | 6/254 | 4.4 | 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 | 381258 = | NA (NA) | 7 (0.120) | 5/252 | 4.7 | 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) | 8 (0.140) | 5/254 | 4.8 | 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 | 4542682 = | 57 (0.990) | 3 (0.060) | 3/236 | 5.4 | 5.4% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 53 (0.990) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 3607747 | 38 (0.660) | 3 (0.050) | 3/252 | 5.7 | 6.5% | coding (1297/2199 nt) | zntA | Zn(2(+))/Cd(2(+))/Pb(2(+)) exporting P‑type ATPase |
| ? | NC_000913 | 4329149 = | 49 (0.850) | coding (2015/2229 nt) | crfC | clamp‑binding sister replication fork colocalization protein | |||||