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 64 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 454,926 | 0 | G | T | 61.9% | 1.3 / 14.5 | 31 | intergenic (+137/‑207) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 454,919 | 0 | G | T | 57.7% | 14.3 / 27.3 | 32 | intergenic (+130/‑214) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 454,906 | 0 | G | T | 55.6% | 7.6 / 20.0 | 33 | intergenic (+117/‑227) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 2,470,427 | 0 | C | A | 53.8% | 14.8 / 29.3 | 26 | Q433K (CAA→AAA) | yfdI | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase |
| * | NC_000913 | 4,378,973 | 0 | G | C | 52.6% | ‑3.7 / 10.4 | 19 | intergenic (‑29/+34) | ampC/frdD | beta‑lactamase/fumarate reductase membrane protein FrdD |
| * | NC_000913 | 1,879,848 | 0 | C | G | 51.0% | 42.2 / 73.0 | 49 | G34A (GGA→GCA) | yeaR | DUF1971 domain‑containing protein YeaR |
| * | NC_000913 | 454,873 | 0 | C | G | 50.0% | 5.3 / 18.4 | 37 | intergenic (+84/‑260) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 708,004 | 0 | C | A | 50.0% | 22.8 / 15.1 | 42 | intergenic (+247/‑330) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 1,879,846 | 0 | T | G | 50.0% | 16.7 / 30.1 | 48 | T35P (ACG→CCG) | yeaR | DUF1971 domain‑containing protein YeaR |
| * | NC_000913 | 2,470,436 | 0 | C | A | 50.0% | 6.8 / 11.3 | 26 | Q436K (CAA→AAA) | yfdI | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase |
| * | NC_000913 | 4,283,226 | 0 | G | C | 50.0% | 17.2 / 13.2 | 26 | intergenic (‑151/+27) | yjcF/actP | pentapeptide repeat‑containing protein YjcF/acetate/glycolate:cation symporter |
| * | NC_000913 | 2,177,221 | 0 | T | G | 48.7% | 19.3 / 20.7 | 39 | intergenic (‑17/+291) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 707,981 | 0 | C | G | 45.5% | 7.4 / 15.2 | 36 | intergenic (+224/‑353) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 707,984 | 0 | C | G | 44.4% | 20.3 / 12.3 | 36 | intergenic (+227/‑350) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 1,879,875 | 0 | C | A | 43.8% | 72.7 / 12.0 | 55 | G25V (GGA→GTA) | yeaR | DUF1971 domain‑containing protein YeaR |
| * | NC_000913 | 333,214 | 0 | A | T | 43.6% | 26.6 / 21.7 | 39 | I282F (ATT→TTT) | pdeL | DNA‑binding transcriptional activator/c‑di‑GMP phosphodiesterase PdeL |
| * | NC_000913 | 2,177,245 | 0 | G | T | 42.5% | 9.5 / 22.0 | 48 | intergenic (‑41/+267) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 2,177,255 | 0 | G | T | 42.0% | 27.0 / 23.7 | 51 | intergenic (‑51/+257) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 2,185,436 | 0 | C | G | 41.7% | 49.8 / 11.1 | 36 | intergenic (‑135/+88) | thiM/rcnR | hydroxyethylthiazole kinase/DNA‑binding transcriptional repressor RcnR |
| * | NC_000913 | 729,369 | 0 | G | C | 41.2% | 4.6 / 11.1 | 34 | intergenic (+29/‑214) | ybfA/rhsC | DUF2517 domain‑containing protein YbfA/rhs element protein RhsC |
| 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) | 14 (0.220) | 10/256 | 3.6 | 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) | 15 (0.240) | 10/254 | 3.6 | 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 | 50 (0.790) | 7 (0.120) | 7/238 | 4.3 | 11.7% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 59 (1.010) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 639051 = | 93 (1.470) | 5 (0.090) | 3/238 | 6.1 | 5.4% | coding (107/564 nt) | ahpC | alkyl hydroperoxide reductase, AhpC component |
| ? | NC_000913 | = 639047 | 90 (1.530) | coding (103/564 nt) | ahpC | alkyl hydroperoxide reductase, AhpC component | |||||
| * | ? | NC_000913 | 1467910 = | NA (NA) | 3 (0.050) | 3/256 | 6.4 | NA | noncoding (1331/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 1469242 | NA (NA) | intergenic (‑93/‑4) | insC‑2/ydbA | IS2 insertion element repressor InsA/putative outer membrane protein, N‑terminal fragment | |||||