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 73 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 | 64.5% | 3.3 / 11.1 | 35 | intergenic (‑41/+267) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 3,455,680 | 0 | G | T | 54.3% | 8.2 / 35.7 | 35 | V35L (GTG→TTG) | gspC | Type II secretion system protein GspC |
| * | NC_000913 | 2,177,255 | 0 | G | T | 54.0% | ‑0.6 / 35.0 | 37 | intergenic (‑51/+257) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 454,926 | 0 | G | A | 50.0% | ‑4.9 / 13.8 | 26 | intergenic (+137/‑207) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 3,455,677 | 0 | A | T | 48.7% | 4.2 / 25.2 | 39 | N34Y (AAT→TAT) | gspC | Type II secretion system protein GspC |
| * | NC_000913 | 454,873 | 0 | C | G | 46.7% | 15.1 / 10.2 | 32 | intergenic (+84/‑260) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 3,455,669 | 0 | T | G | 46.3% | 21.8 / 16.4 | 41 | I31S (ATT→AGT) | gspC | Type II secretion system protein GspC |
| * | NC_000913 | 3,455,671 | 0 | A | T | 43.9% | 20.1 / 20.9 | 41 | I32F (ATT→TTT) | gspC | Type II secretion system protein GspC |
| * | NC_000913 | 4,604,344 | 0 | C | G | 42.9% | 36.9 / 15.6 | 47 | S62C (TCT→TGT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 1,879,846 | 0 | T | G | 42.4% | 24.5 / 15.3 | 33 | T35P (ACG→CCG) | yeaR | DUF1971 domain‑containing protein YeaR |
| * | NC_000913 | 3,407,971 | 0 | T | G | 42.4% | 35.6 / 10.4 | 33 | L122R (CTT→CGT) | panF | pantothenate:Na(+) symporter |
| * | NC_000913 | 767,956 | 0 | C | A | 41.7% | 36.7 / 17.1 | 36 | P658Q (CCA→CAA) | mngA | 2‑O‑alpha‑mannosyl‑D‑glycerate specific PTS enzyme II |
| * | NC_000913 | 1,425,558 | 0 | T | G | 39.1% | 54.3 / 14.5 | 46 | V61G (GTT→GGT) | ynaK | Rac prophage; ParB‑like nuclease domain‑containing protein YnaK |
| * | NC_000913 | 2,177,261 | 0 | A | T | 38.5% | 52.0 / 15.2 | 39 | intergenic (‑57/+251) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 4,220,007 | 0 | T | G | 38.5% | 21.2 / 19.0 | 39 | V471G (GTG→GGG) | aceK | isocitrate dehydrogenase kinase/phosphatase |
| * | NC_000913 | 361,305 | 0 | T | G | 37.8% | 49.9 / 22.4 | 45 | N186H (AAC→CAC) | lacA | galactoside O‑acetyltransferase |
| * | NC_000913 | 3,720,433 | 0 | T | C | 36.0% | 23.9 / 10.9 | 26 | intergenic (+172/+15) | cspA/hokA | cold shock protein CspA/small toxic polypeptide |
| * | NC_000913 | 2,594,952 | 0 | C | A | 35.1% | 43.3 / 15.1 | 37 | C303F (TGC→TTC) | tmcA | tRNA(Met) cytidine acetyltransferase |
| * | NC_000913 | 4,220,016 | 0 | A | T | 35.0% | 42.2 / 18.9 | 40 | Y474F (TAT→TTT) | aceK | isocitrate dehydrogenase kinase/phosphatase |
| * | NC_000913 | 2,177,228 | 0 | C | T | 34.8% | 19.0 / 14.4 | 34 | intergenic (‑24/+284) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| 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 | = 4542690 | 72 (1.130) | 12 (0.200) | 10/240 | 3.6 | 16.7% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 53 (0.890) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 2515617 | NA (NA) | 9 (0.150) | 9/250 | 4.1 | 17.0% | noncoding (1345/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | 2601785 = | 44 (0.710) | coding (585/618 nt) | hyfA | hydrogenase 4 component A | |||||
| * | ? | NC_000913 | 4498181 = | NA (NA) | 14 (0.220) | 7/258 | 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 | 381258 = | NA (NA) | 12 (0.190) | 7/256 | 4.8 | 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 | = 574480 | 61 (0.950) | 7 (0.110) | 3/258 | 6.6 | 10.3% | intergenic (+141/+49) | ybcQ/nmpC | DLP12 prophage; putative antitermination protein/DLP12 prophage; putative outer membrane porin NmpC |
| ? | NC_000913 | 574591 = | NA (NA) | noncoding (1195/1195 nt) | IS5 | repeat region | |||||