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 158 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 | 64.8% | 7.3 / 25.6 | 56 | intergenic (‑41/+267) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 1,097,109 | 0 | A | T | 60.9% | ‑3.3 / 11.0 | 23 | intergenic (+280/+456) | ycdU/serX | uncharacterized protein YcdU/tRNA‑Ser |
| * | NC_000913 | 454,919 | 0 | G | T | 60.0% | 13.2 / 32.0 | 36 | intergenic (+130/‑214) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 454,926 | 0 | G | T | 59.3% | ‑2.4 / 21.9 | 36 | intergenic (+137/‑207) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 454,906 | 0 | G | T | 58.6% | 3.7 / 21.9 | 35 | intergenic (+117/‑227) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 2,177,234 | 0 | C | A | 56.8% | 3.0 / 22.3 | 53 | intergenic (‑30/+278) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 2,177,221 | 0 | T | G | 52.8% | 14.4 / 56.0 | 53 | intergenic (‑17/+291) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 708,004 | 0 | C | A | 51.5% | 29.9 / 45.3 | 35 | intergenic (+247/‑330) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 707,976 | 0 | T | G | 51.4% | 9.7 / 27.9 | 35 | intergenic (+219/‑358) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 2,177,228 | 0 | C | G | 50.0% | 12.8 / 26.7 | 54 | intergenic (‑24/+284) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 2,177,255 | 0 | G | T | 46.7% | 25.2 / 27.8 | 60 | intergenic (‑51/+257) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 707,984 | 0 | C | G | 45.5% | 24.7 / 11.1 | 34 | intergenic (+227/‑350) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 2,470,405 | 0 | T | G | 44.2% | 37.4 / 24.0 | 43 | V425V (GTT→GTG) | yfdI | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase |
| * | NC_000913 | 454,873 | 0 | C | G | 44.1% | 3.7 / 15.3 | 40 | intergenic (+84/‑260) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 4,378,973 | 0 | G | C | 43.2% | 12.4 / 14.1 | 37 | intergenic (‑29/+34) | ampC/frdD | beta‑lactamase/fumarate reductase membrane protein FrdD |
| * | NC_000913 | 707,981 | 0 | C | G | 42.9% | 17.6 / 10.0 | 35 | intergenic (+224/‑353) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 729,372 | 0 | A | C | 42.5% | 13.6 / 17.4 | 48 | intergenic (+32/‑211) | ybfA/rhsC | DUF2517 domain‑containing protein YbfA/rhs element protein RhsC |
| * | NC_000913 | 1,879,848 | 0 | C | G | 41.7% | 86.0 / 21.8 | 60 | G34A (GGA→GCA) | yeaR | DUF1971 domain‑containing protein YeaR |
| * | NC_000913 | 2,139,594 | 0 | A | C | 39.6% | 30.2 / 14.3 | 53 | intergenic (+109/+165) | yegH/asmA | inner membrane protein YegH/putative assembly protein AsmA |
| * | NC_000913 | 2,470,436 | 0 | C | A | 39.5% | 39.5 / 10.6 | 38 | Q436K (CAA→AAA) | yfdI | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase |
| 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 | 4542682 = | 71 (0.750) | 6 (0.070) | 6/238 | 6.5 | 7.7% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 77 (0.880) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 4542690 | 78 (0.830) | 5 (0.060) | 5/238 | 7.0 | 6.3% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 77 (0.880) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 629302 = | 117 (1.240) | 3 (0.030) | 3/254 | 8.5 | 2.4% | coding (3/414 nt) | entH | proofreading thioesterase in enterobactin biosynthesis |
| ? | NC_000913 | = 1465934 | 131 (1.400) | pseudogene (543/2518 nt) | ydbA | putative outer membrane protein, N‑terminal fragment | |||||
| * | ? | NC_000913 | 381262 = | NA (NA) | 6 (0.060) | 3/252 | 8.5 | NA | noncoding (3/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 382594 | NA (NA) | pseudogene (279/282 nt) | yaiX | putative acyltransferase, N‑terminal fragment | |||||
| * | ? | NC_000913 | = 2997693 | NA (NA) | 3 (0.030) | 3/256 | 8.6 | NA | pseudogene (296/300 nt) | ygeP | protein YgeP |
| ? | NC_000913 | = 3187426 | NA (NA) | noncoding (1331/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 1050545 | NA (NA) | 3 (0.030) | 3/256 | 8.6 | 2.5% | noncoding (768/768 nt) | IS1 | repeat region |
| ? | NC_000913 | 1293015 = | 119 (1.260) | intergenic (‑93/‑512) | hns/tdk | DNA‑binding transcriptional dual regulator H‑NS/thymidine/deoxyuridine kinase | |||||
| * | ? | NC_000913 | 381260 = | NA (NA) | 3 (0.030) | 3/256 | 8.6 | NA | noncoding (1/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 382590 | NA (NA) | noncoding (1331/1331 nt) | IS2 | repeat region | |||||