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 65 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,177,234 | 0 | C | A | 66.7% | ‑6.5 / 11.9 | 36 | 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 | 65.5% | 3.0 / 15.5 | 29 | intergenic (+219/‑358) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 2,177,255 | 0 | G | T | 55.6% | 0.3 / 22.9 | 46 | intergenic (‑51/+257) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 707,981 | 0 | C | G | 52.6% | 5.9 / 25.7 | 30 | intergenic (+224/‑353) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 708,004 | 0 | C | A | 51.5% | 23.0 / 42.7 | 37 | intergenic (+247/‑330) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 454,873 | 0 | C | G | 50.0% | 6.6 / 10.2 | 30 | intergenic (+84/‑260) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 3,828,980 | 0 | A | C | 48.3% | ‑2.3 / 11.4 | 29 | Q12H (CAA→CAC) | xanP | xanthine:H(+) symporter XanP |
| * | NC_000913 | 1,693,418 | 0 | C | G | 48.0% | 23.7 / 10.1 | 25 | P282P (CCG→CCC) | uidB | glucuronide:H(+) symporter |
| * | NC_000913 | 1,097,092 | 0 | T | C | 47.6% | 1.9 / 12.5 | 22 | intergenic (+263/+473) | ycdU/serX | uncharacterized protein YcdU/tRNA‑Ser |
| * | NC_000913 | 454,933 | 0 | T | A | 43.8% | 18.1 / 12.0 | 33 | intergenic (+144/‑200) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 2,031,625 | 0 | A | G | 43.5% | 18.7 / 13.2 | 24 | S231S (AGT→AGC) | dcm | DNA‑cytosine methyltransferase |
| * | NC_000913 | 3,004,946 | 0 | G | T | 42.6% | 50.7 / 20.2 | 54 | Q281K (CAA→AAA) | ygeV | putative sigma(54)‑dependent transcriptional regulator YgeV |
| * | NC_000913 | 2,177,221 | 0 | T | G | 41.9% | 15.6 / 10.3 | 31 | intergenic (‑17/+291) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 3,407,971 | 0 | T | G | 41.9% | 30.9 / 11.0 | 31 | L122R (CTT→CGT) | panF | pantothenate:Na(+) symporter |
| * | NC_000913 | 1,879,846 | 0 | T | G | 41.2% | 47.3 / 23.2 | 51 | T35P (ACG→CCG) | yeaR | DUF1971 domain‑containing protein YeaR |
| * | NC_000913 | 3,455,671 | 0 | A | T | 40.9% | 30.2 / 21.5 | 44 | I32F (ATT→TTT) | gspC | Type II secretion system protein GspC |
| * | NC_000913 | 3,955,616 | 0 | T | G | 40.5% | 40.4 / 13.4 | 37 | F96V (TTT→GTT) | ilvA | threonine deaminase |
| * | NC_000913 | 3,455,677 | 0 | A | T | 40.5% | 31.8 / 15.6 | 42 | N34Y (AAT→TAT) | gspC | Type II secretion system protein GspC |
| * | NC_000913 | 3,933,227 | 0 | C | A | 40.0% | 52.2 / 16.1 | 52 | intergenic (+43/‑124) | kup/rbsD | K(+):H(+) symporter Kup/D‑ribose pyranase |
| * | NC_000913 | 3,455,680 | 0 | G | T | 38.5% | 37.3 / 12.9 | 39 | V35L (GTG→TTG) | gspC | Type II secretion system protein GspC |
| 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 | 4498180 = | NA (NA) | 21 (0.330) | 8/254 | 4.1 | NA | intergenic (+240/‑92) | intB/insC‑6 | KpLE2 phage‑like element; putative integrase/KpLE2 phage‑like element; IS2 insertion element repressor InsA |
| ? | NC_000913 | = 4499511 | NA (NA) | noncoding (1331/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 1467909 = | NA (NA) | 13 (0.200) | 8/254 | 4.1 | NA | pseudogene (2518/2518 nt) | ydbA | putative outer membrane protein, N‑terminal fragment |
| ? | NC_000913 | = 1469240 | NA (NA) | noncoding (1/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 2068944 = | NA (NA) | 12 (0.190) | 3/248 | 6.1 | NA | noncoding (1328/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 2070275 | NA (NA) | intergenic (‑95/‑2) | insC‑3/yoeA | CP4‑44 prophage; IS2 insertion element repressor InsA/CP4‑44 prophage; TonB‑dependent receptor plug domain‑containing protein YoeA | |||||
| * | ? | NC_000913 | 3186094 = | NA (NA) | 9 (0.140) | 3/254 | 6.2 | NA | pseudogene (70/71 nt) | yqiG | putative outer membrane usher protein YqiG |
| ? | NC_000913 | = 3187426 | NA (NA) | noncoding (1331/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 2743236 | 78 (1.210) | 3 (0.050) | 3/252 | 6.2 | 3.7% | coding (854/1227 nt) | dgcN | diguanylate cyclase DgcN |
| ? | NC_000913 | 2743241 = | 79 (1.240) | coding (859/1227 nt) | dgcN | diguanylate cyclase DgcN | |||||
| * | ? | NC_000913 | = 2070271 | NA (NA) | 5 (0.080) | 3/254 | 6.2 | NA | noncoding (1/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 2996359 = | NA (NA) | pseudogene (2/399 nt) | ygeO | putative uncharacterized protein YgeO | |||||