mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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 115 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 | 60.7% | ‑3.1 / 14.7 | 47 | intergenic (‑30/+278) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 454,873 | 0 | C | G | 56.5% | ‑3.5 / 18.2 | 24 | intergenic (+84/‑260) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 2,177,245 | 0 | G | T | 56.1% | ‑0.5 / 17.0 | 46 | intergenic (‑41/+267) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 454,933 | 0 | T | A | 54.5% | ‑1.3 / 16.6 | 23 | intergenic (+144/‑200) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 2,470,427 | 0 | C | A | 53.8% | 10.8 / 28.6 | 28 | Q433K (CAA→AAA) | yfdI | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase |
| * | NC_000913 | 2,177,255 | 0 | G | T | 52.0% | ‑2.1 / 39.8 | 50 | intergenic (‑51/+257) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 1,879,848 | 0 | C | G | 51.0% | 38.0 / 71.0 | 52 | G34A (GGA→GCA) | yeaR | DUF1971 domain‑containing protein YeaR |
| * | NC_000913 | 2,177,221 | 0 | T | G | 50.0% | 20.0 / 22.6 | 48 | intergenic (‑17/+291) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 454,934 | 0 | A | C | 47.8% | 2.2 / 15.0 | 23 | intergenic (+145/‑199) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 708,004 | 0 | C | A | 47.8% | 31.1 / 14.7 | 48 | intergenic (+247/‑330) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 1,097,092 | 0 | T | C | 47.6% | ‑2.1 / 12.6 | 26 | intergenic (+263/+473) | ycdU/serX | uncharacterized protein YcdU/tRNA‑Ser |
| * | NC_000913 | 1,879,875 | 0 | C | A | 46.0% | 73.8 / 14.3 | 57 | G25V (GGA→GTA) | yeaR | DUF1971 domain‑containing protein YeaR |
| * | NC_000913 | 4,283,228 | 0 | T | G | 46.0% | ‑2.1 / 12.7 | 38 | intergenic (‑153/+25) | yjcF/actP | pentapeptide repeat‑containing protein YjcF/acetate/glycolate:cation symporter |
| * | NC_000913 | 3,455,677 | 0 | A | T | 44.9% | 25.1 / 29.1 | 49 | N34Y (AAT→TAT) | gspC | Type II secretion system protein GspC |
| * | NC_000913 | 2,177,228 | 0 | C | G | 44.8% | 13.9 / 21.3 | 50 | intergenic (‑24/+284) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 1,879,846 | 0 | T | G | 44.2% | 34.9 / 22.5 | 52 | T35P (ACG→CCG) | yeaR | DUF1971 domain‑containing protein YeaR |
| * | NC_000913 | 454,926 | 0 | G | A | 43.8% | 3.7 / 12.4 | 23 | intergenic (+137/‑207) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 707,976 | 0 | T | G | 43.8% | 30.3 / 19.3 | 48 | intergenic (+219/‑358) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 707,989 | 0 | C | G | 43.8% | 36.0 / 16.7 | 47 | intergenic (+232/‑345) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 707,981 | 0 | C | G | 42.9% | 39.2 / 15.6 | 48 | intergenic (+224/‑353) | 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 | = 1207805 | 58 (0.750) | 10 (0.150) | 10/226 | 3.7 | 18.9% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 35 (0.520) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 381262 = | NA (NA) | 11 (0.150) | 7/254 | 5.2 | 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 | = 4542690 | 69 (0.900) | 4 (0.060) | 4/240 | 6.3 | 6.6% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 49 (0.690) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 270919 = | NA (NA) | 3 (0.040) | 3/252 | 7.1 | NA | noncoding (379/1221 nt) | IS30 | repeat region |
| ? | NC_000913 | = 271166 | NA (NA) | noncoding (626/1221 nt) | IS30 | repeat region | |||||
| * | ? | NC_000913 | = 3934039 | 40 (0.520) | 3 (0.040) | 3/256 | 7.2 | 7.0% | coding (262/1506 nt) | rbsA | ribose ABC transporter ATP binding subunit |
| ? | NC_000913 | = 4499468 | NA (NA) | noncoding (1288/1331 nt) | IS2 | repeat region | |||||