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 121 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 | 48.9% | 5.9 / 18.9 | 52 | intergenic (‑41/+267) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 2,177,234 | 0 | C | A | 48.5% | 1.2 / 17.9 | 52 | 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 | 47.6% | ‑0.0 / 26.6 | 43 | intergenic (+82/‑262) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 4,283,228 | 0 | T | G | 47.4% | ‑1.5 / 15.7 | 47 | intergenic (‑153/+25) | yjcF/actP | pentapeptide repeat‑containing protein YjcF/acetate/glycolate:cation symporter |
| * | NC_000913 | 454,919 | 0 | G | T | 46.8% | 60.8 / 10.2 | 50 | intergenic (+130/‑214) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 1,879,846 | 0 | T | G | 44.6% | 48.2 / 27.0 | 57 | T35P (ACG→CCG) | yeaR | DUF1971 domain‑containing protein YeaR |
| * | NC_000913 | 2,177,221 | 0 | T | G | 43.6% | 43.6 / 22.3 | 55 | intergenic (‑17/+291) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 2,177,228 | 0 | C | G | 43.6% | 25.4 / 23.1 | 55 | intergenic (‑24/+284) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 454,873 | 0 | C | G | 42.5% | 5.3 / 16.9 | 45 | intergenic (+84/‑260) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 3,455,671 | 0 | A | T | 42.3% | 48.5 / 24.7 | 52 | I32F (ATT→TTT) | gspC | Type II secretion system protein GspC |
| * | NC_000913 | 729,369 | 0 | G | C | 42.1% | 16.6 / 14.1 | 39 | intergenic (+29/‑214) | ybfA/rhsC | DUF2517 domain‑containing protein YbfA/rhs element protein RhsC |
| * | NC_000913 | 2,139,598 | 0 | T | G | 40.9% | 33.6 / 11.1 | 53 | intergenic (+113/+161) | yegH/asmA | inner membrane protein YegH/putative assembly protein AsmA |
| * | NC_000913 | 2,177,255 | 0 | G | T | 40.3% | 35.3 / 24.7 | 62 | 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 | 39.5% | 52.3 / 16.0 | 47 | intergenic (+224/‑353) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 4,283,226 | 0 | G | C | 39.1% | 56.8 / 12.9 | 47 | intergenic (‑151/+27) | yjcF/actP | pentapeptide repeat‑containing protein YjcF/acetate/glycolate:cation symporter |
| * | NC_000913 | 1,331,179 | 0 | C | A | 38.8% | 73.4 / 27.9 | 67 | A44A (GCC→GCA) | topA | DNA topoisomerase 1 |
| * | NC_000913 | 454,926 | 0 | G | T | 38.2% | 38.1 / 14.0 | 49 | intergenic (+137/‑207) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 1,708,326 | 0 | G | T | 37.9% | 77.2 / 10.2 | 60 | E470* (GAA→TAA) | rsxC | SoxR [2Fe‑2S] reducing system protein RsxC |
| * | NC_000913 | 2,470,405 | 0 | T | G | 37.1% | 43.7 / 15.4 | 35 | V425V (GTT→GTG) | yfdI | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase |
| * | NC_000913 | 3,955,616 | 0 | T | G | 35.9% | 61.6 / 12.7 | 53 | F96V (TTT→GTT) | ilvA | threonine deaminase |
| 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 | 1207790 = | 85 (1.040) | 15 (0.210) | 14/224 | 2.8 | 19.4% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 50 (0.700) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 73 (0.890) | 12 (0.170) | 11/224 | 3.5 | 17.5% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 49 (0.680) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 4542690 | 63 (0.770) | 5 (0.070) | 5/238 | 5.9 | 7.1% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 73 (0.960) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 382594 | NA (NA) | 3 (0.040) | 3/248 | 7.2 | NA | pseudogene (279/282 nt) | yaiX | putative acyltransferase, N‑terminal fragment |
| ? | NC_000913 | 3186098 = | NA (NA) | noncoding (3/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 2068944 = | NA (NA) | 8 (0.100) | 3/250 | 7.3 | 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 | 1188632 = | 97 (1.180) | 3 (0.040) | 3/252 | 7.3 | 3.6% | coding (1145/1461 nt) | phoQ | sensory histidine kinase PhoQ |
| ? | NC_000913 | = 3162856 | 66 (0.820) | coding (626/738 nt) | plsC | 1‑acylglycerol‑3‑phosphate O‑acyltransferase | |||||