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 | 454,906 | 0 | G | T | 58.8% | 1.1 / 13.1 | 22 | intergenic (+117/‑227) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 2,177,234 | 0 | C | A | 58.3% | ‑4.3 / 12.2 | 36 | intergenic (‑30/+278) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 2,177,228 | 0 | C | G | 57.1% | ‑6.6 / 24.9 | 39 | intergenic (‑24/+284) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 2,470,427 | 0 | C | A | 56.7% | ‑2.4 / 26.9 | 33 | Q433K (CAA→AAA) | yfdI | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase |
| * | NC_000913 | 4,378,973 | 0 | G | C | 54.5% | ‑4.6 / 15.2 | 22 | intergenic (‑29/+34) | ampC/frdD | beta‑lactamase/fumarate reductase membrane protein FrdD |
| * | NC_000913 | 2,177,255 | 0 | G | T | 46.7% | 2.2 / 25.3 | 45 | intergenic (‑51/+257) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 2,177,221 | 0 | T | G | 46.3% | 8.5 / 21.6 | 41 | 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 | 46.2% | 34.7 / 12.2 | 41 | intergenic (+247/‑330) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 707,984 | 0 | C | G | 45.7% | 19.6 / 13.0 | 35 | intergenic (+227/‑350) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 2,470,411 | 0 | A | T | 45.5% | 18.1 / 18.8 | 33 | L427F (TTA→TTT) | yfdI | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase |
| * | NC_000913 | 707,981 | 0 | C | G | 45.0% | 9.6 / 12.7 | 35 | intergenic (+224/‑353) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 1,829,568 | 0 | A | C | 44.7% | 45.5 / 19.7 | 48 | L56R (CTT→CGT) | astD | aldehyde dehydrogenase |
| * | NC_000913 | 1,110,287 | 0 | A | G | 43.5% | 18.0 / 13.6 | 23 | D318G (GAT→GGT) | opgG | osmoregulated periplasmic glucans (OPGs) biosynthesis protein G |
| * | NC_000913 | 3,004,946 | 0 | G | T | 41.2% | 64.3 / 29.0 | 69 | Q281K (CAA→AAA) | ygeV | putative sigma(54)‑dependent transcriptional regulator YgeV |
| * | NC_000913 | 3,314,196 | 0 | G | C | 40.0% | 67.2 / 16.1 | 46 | R607G (CGT→GGT) | infB | translation initiation factor IF‑2 |
| * | NC_000913 | 984,064 | 0 | T | G | 39.5% | 31.8 / 18.4 | 43 | F139V (TTT→GTT) | gloC | hydroxyacylglutathione hydrolase GloC |
| * | NC_000913 | 2,470,416 | 0 | A | T | 39.4% | 25.0 / 12.8 | 33 | Y429F (TAT→TTT) | yfdI | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase |
| * | NC_000913 | 1,331,179 | 0 | C | A | 38.8% | 52.4 / 22.9 | 49 | A44A (GCC→GCA) | topA | DNA topoisomerase 1 |
| * | NC_000913 | 2,470,405 | 0 | T | G | 36.4% | 34.3 / 12.9 | 33 | V425V (GTT→GTG) | yfdI | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase |
| * | NC_000913 | 18,109 | 0 | C | G | 35.3% | 28.9 / 15.6 | 34 | V207V (GTC→GTG) | nhaA | Na(+):H(+) antiporter NhaA |
| 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 | = 1207805 | 55 (0.830) | 9 (0.150) | 7/224 | 4.4 | 16.5% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 43 (0.740) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 1467910 = | NA (NA) | 6 (0.090) | 6/256 | 5.4 | 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 | |||||
| * | ? | NC_000913 | 4498181 = | NA (NA) | 6 (0.090) | 4/256 | 6.3 | 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) | 6 (0.090) | 4/254 | 6.3 | 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 | 3406402 = | 66 (0.990) | 3 (0.050) | 3/232 | 6.4 | 4.6% | coding (486/1350 nt) | accC | biotin carboxylase |
| ? | NC_000913 | = 3406398 | 64 (1.060) | coding (482/1350 nt) | accC | biotin carboxylase | |||||
| * | ? | NC_000913 | = 3044511 | 70 (1.050) | 3 (0.050) | 3/252 | 6.8 | 4.1% | coding (850/1440 nt) | bglA | 6‑phospho‑beta‑glucosidase A |
| ? | NC_000913 | 3044521 = | 73 (1.110) | coding (860/1440 nt) | bglA | 6‑phospho‑beta‑glucosidase A | |||||