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 | 60.5% | 3.8 / 18.7 | 46 | 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 | 60.0% | 0.2 / 15.3 | 47 | intergenic (‑30/+278) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 707,976 | 0 | T | G | 56.8% | ‑0.8 / 28.4 | 37 | intergenic (+219/‑358) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 2,177,255 | 0 | G | T | 54.9% | 8.5 / 30.4 | 51 | intergenic (‑51/+257) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 707,981 | 0 | C | T | 50.0% | 2.0 / 26.6 | 38 | intergenic (+224/‑353) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 2,177,221 | 0 | T | G | 50.0% | 12.1 / 30.2 | 46 | intergenic (‑17/+291) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 3,454,069 | 0 | G | T | 47.1% | 19.1 / 18.4 | 52 | Q444K (CAA→AAA) | gspA | Type II secretion system protein GspA |
| * | NC_000913 | 3,750,793 | 0 | G | C | 47.1% | 24.9 / 11.4 | 36 | intergenic (+12/+335) | sgbE/yiaT | L‑ribulose‑5‑phosphate 4‑epimerase SgbE/outer membrane protein YiaT |
| * | NC_000913 | 1,879,846 | 0 | T | G | 45.7% | 15.9 / 11.5 | 35 | T35P (ACG→CCG) | yeaR | DUF1971 domain‑containing protein YeaR |
| * | NC_000913 | 707,984 | 0 | C | G | 44.4% | 23.4 / 14.2 | 37 | intergenic (+227/‑350) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 2,177,228 | 0 | C | G | 43.2% | 10.1 / 22.3 | 49 | intergenic (‑24/+284) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 4,378,973 | 0 | G | C | 42.3% | 5.6 / 10.5 | 26 | intergenic (‑29/+34) | ampC/frdD | beta‑lactamase/fumarate reductase membrane protein FrdD |
| * | NC_000913 | 1,879,848 | 0 | C | G | 41.7% | 42.8 / 11.5 | 36 | G34A (GGA→GCA) | yeaR | DUF1971 domain‑containing protein YeaR |
| * | NC_000913 | 2,177,261 | 0 | A | T | 39.6% | 69.4 / 23.2 | 53 | intergenic (‑57/+251) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 2,470,405 | 0 | T | G | 37.5% | 44.2 / 18.7 | 40 | V425V (GTT→GTG) | yfdI | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase |
| * | NC_000913 | 1,708,326 | 0 | G | T | 36.4% | 82.2 / 11.5 | 55 | E470* (GAA→TAA) | rsxC | SoxR [2Fe‑2S] reducing system protein RsxC |
| * | NC_000913 | 2,519,212 | 0 | A | C | 36.0% | 52.2 / 16.2 | 50 | intergenic (+7/+45) | yfeD/gltX | putative DNA‑binding transcriptional regulator YfeD/glutamate‑‑tRNA ligase |
| * | NC_000913 | 298,557 | 0 | A | C | 35.9% | 23.6 / 11.1 | 44 | L57R (CTC→CGC) | paoD | molybdenum cofactor insertion chaperone for PaoABC |
| * | NC_000913 | 580,761 | 0 | A | C | 35.9% | 51.3 / 10.3 | 39 | intergenic (‑316/‑73) | ylcI/nohD | DLP12 prophage; DUF3950 domain‑containing protein YlcI/DLP12 prophage; putative DNA‑packaging protein NohD |
| * | NC_000913 | 4,604,350 | 0 | C | T | 35.7% | 29.2 / 18.5 | 38 | S64F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| 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) | 8 (0.110) | 4/256 | 6.0 | 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) | 17 (0.240) | 4/254 | 6.0 | 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 | = 4542690 | 69 (0.980) | 3 (0.050) | 3/238 | 6.3 | 4.3% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 69 (1.060) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 2800956 | 66 (0.940) | 3 (0.040) | 3/246 | 6.4 | 4.5% | coding (234/246 nt) | nrdH | glutaredoxin‑like protein |
| ? | NC_000913 | 3392447 = | 64 (0.950) | intergenic (‑419/+11) | tldD/yhdP | metalloprotease TldD/AsmA2 domain‑containing protein | |||||