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 89 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 | 69.6% | 28.0 / 15.0 | 61 | 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 | 60.9% | 17.6 / 44.9 | 69 | intergenic (‑51/+257) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 2,470,427 | 0 | C | A | 58.6% | 7.4 / 28.4 | 30 | Q433K (CAA→AAA) | yfdI | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase |
| * | NC_000913 | 2,177,234 | 0 | C | A | 51.4% | 1.0 / 30.4 | 59 | intergenic (‑30/+278) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 454,871 | 0 | G | T | 50.0% | 2.3 / 10.2 | 22 | intergenic (+82/‑262) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 707,976 | 0 | T | G | 47.2% | 17.2 / 16.2 | 36 | intergenic (+219/‑358) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 2,177,221 | 0 | T | G | 46.6% | 23.8 / 35.5 | 58 | 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 | 45.8% | 22.0 / 13.7 | 36 | intergenic (+224/‑353) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 2,177,228 | 0 | C | G | 44.7% | 34.1 / 21.8 | 58 | intergenic (‑24/+284) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 3,004,946 | 0 | G | T | 44.2% | 25.6 / 22.2 | 43 | Q281K (CAA→AAA) | ygeV | putative sigma(54)‑dependent transcriptional regulator YgeV |
| * | NC_000913 | 3,455,680 | 0 | G | T | 42.2% | 41.8 / 16.7 | 45 | V35L (GTG→TTG) | gspC | Type II secretion system protein GspC |
| * | NC_000913 | 4,378,973 | 0 | G | C | 41.4% | 2.0 / 12.0 | 29 | intergenic (‑29/+34) | ampC/frdD | beta‑lactamase/fumarate reductase membrane protein FrdD |
| * | NC_000913 | 3,455,669 | 0 | T | G | 41.1% | 59.1 / 20.4 | 56 | I31S (ATT→AGT) | gspC | Type II secretion system protein GspC |
| * | NC_000913 | 1,708,326 | 0 | G | T | 40.4% | 58.9 / 12.7 | 53 | E470* (GAA→TAA) | rsxC | SoxR [2Fe‑2S] reducing system protein RsxC |
| * | NC_000913 | 2,177,267 | 0 | C | A | 39.7% | 97.6 / 19.3 | 77 | intergenic (‑63/+245) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 1,997,067 | 0 | G | T | 38.7% | 35.7 / 10.9 | 31 | Q250K (CAA→AAA) | tcyN | cystine ABC transporter ATP binding subunit |
| * | NC_000913 | 3,815,809 | 0 | G | C | 38.7% | 126.6 / 68.6 | 93 | intergenic (‑41/+54) | pyrE/rph | orotate phosphoribosyltransferase/truncated RNase PH |
| * | NC_000913 | 1,879,846 | 0 | T | G | 38.3% | 50.0 / 19.0 | 47 | T35P (ACG→CCG) | yeaR | DUF1971 domain‑containing protein YeaR |
| * | NC_000913 | 3,455,677 | 0 | A | T | 38.0% | 46.0 / 19.4 | 50 | N34Y (AAT→TAT) | gspC | Type II secretion system protein GspC |
| * | NC_000913 | 707,984 | 0 | C | G | 36.4% | 34.1 / 10.6 | 35 | intergenic (+227/‑350) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| 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 | 381258 = | NA (NA) | 12 (0.160) | 7/254 | 5.3 | 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 | 4498181 = | NA (NA) | 13 (0.170) | 7/256 | 5.4 | 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 | 3787895 = | 165 (2.160) | 4 (0.060) | 4/236 | 6.3 | 2.5% | coding (1058/1260 nt) | envC | murein hydrolase activator EnvC |
| ? | NC_000913 | = 3787891 | 156 (2.220) | coding (1054/1260 nt) | envC | murein hydrolase activator EnvC | |||||
| * | ? | NC_000913 | 4010494 = | 69 (0.900) | 4 (0.050) | 4/254 | 6.7 | 5.1% | coding (295/801 nt) | yigL | phosphosugar phosphatase YigL |
| ? | NC_000913 | 4239750 = | 79 (1.040) | intergenic (+20/+27) | yjbH/yjbT | YjbH family protein/PF17089 family protein YjbT | |||||
| * | ? | NC_000913 | 3736656 = | 266 (3.480) | 3 (0.040) | 3/236 | 6.9 | 1.2% | coding (522/825 nt) | bax | putative glycoside hydrolase Bax |
| ? | NC_000913 | = 3736652 | 246 (3.490) | coding (526/825 nt) | bax | putative glycoside hydrolase Bax | |||||
| * | ? | NC_000913 | 4542682 = | 70 (0.920) | 3 (0.040) | 3/238 | 7.0 | 3.8% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 86 (1.210) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||