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 141 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 | 56.2% | ‑6.4 / 38.2 | 68 | 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 | 55.8% | 17.6 / 49.9 | 67 | intergenic (‑30/+278) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 3,815,809 | 0 | G | C | 55.6% | 7.2 / 39.9 | 27 | intergenic (‑41/+54) | pyrE/rph | orotate phosphoribosyltransferase/truncated RNase PH |
| * | NC_000913 | 454,919 | 0 | G | T | 54.8% | 12.2 / 25.8 | 34 | intergenic (+130/‑214) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 454,933 | 0 | T | A | 54.5% | ‑4.6 / 21.9 | 36 | intergenic (+144/‑200) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 915,199 | 0 | A | C | 53.8% | 2.5 / 12.1 | 15 | intergenic (‑342/+153) | lysO/aqpZ | L‑lysine exporter/water channel AqpZ |
| * | NC_000913 | 2,074,707 | 0 | A | C | 53.8% | 6.5 / 15.0 | 15 | intergenic (+49/‑72) | flu/yeeR | CP4‑44 prophage; self recognizing antigen 43 (Ag43) autotransporter/CP4‑44 prophage; inner membrane protein YeeR |
| * | NC_000913 | 2,177,228 | 0 | C | G | 53.1% | 17.4 / 67.2 | 67 | intergenic (‑24/+284) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 707,981 | 0 | C | G | 52.2% | 17.1 / 37.5 | 31 | intergenic (+224/‑353) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 3,815,808 | 0 | A | C | 51.8% | 9.3 / 31.9 | 27 | intergenic (‑40/+55) | pyrE/rph | orotate phosphoribosyltransferase/truncated RNase PH |
| * | NC_000913 | 2,177,221 | 0 | T | G | 49.3% | 26.2 / 42.6 | 69 | intergenic (‑17/+291) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 2,177,255 | 0 | G | T | 49.2% | 27.8 / 39.7 | 67 | 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 | 47.4% | 36.7 / 10.5 | 39 | Q433K (CAA→AAA) | yfdI | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase |
| * | NC_000913 | 2,519,212 | 0 | A | C | 46.8% | 22.9 / 26.8 | 48 | intergenic (+7/+45) | yfeD/gltX | putative DNA‑binding transcriptional regulator YfeD/glutamate‑‑tRNA ligase |
| * | NC_000913 | 707,984 | 0 | C | G | 46.7% | 24.1 / 12.9 | 31 | intergenic (+227/‑350) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 454,877 | 0 | A | T | 46.4% | 2.3 / 10.8 | 29 | intergenic (+88/‑256) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 3,815,800 | 0 | C | A | 46.4% | 25.5 / 11.0 | 28 | intergenic (‑32/+63) | pyrE/rph | orotate phosphoribosyltransferase/truncated RNase PH |
| * | NC_000913 | 4,220,016 | 0 | A | T | 44.7% | 31.2 / 22.9 | 38 | Y474F (TAT→TTT) | aceK | isocitrate dehydrogenase kinase/phosphatase |
| * | NC_000913 | 1,879,846 | 0 | T | G | 43.6% | 40.4 / 20.6 | 55 | T35P (ACG→CCG) | yeaR | DUF1971 domain‑containing protein YeaR |
| * | NC_000913 | 3,046,002 | 0 | A | C | 43.6% | 25.5 / 12.6 | 43 | intergenic (‑101/+166) | ygfF/gcvP | putative NAD(P)‑binding oxidoreductase with NAD(P)‑binding Rossmann‑fold domain/glycine decarboxylase |
| 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 | 4542682 = | 79 (0.960) | 6 (0.080) | 6/238 | 5.5 | 8.1% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 63 (0.820) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 1207805 | 78 (0.940) | 5 (0.070) | 5/224 | 5.6 | 7.2% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 61 (0.840) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 2996360 = | NA (NA) | 8 (0.100) +C |
5/254 | 6.2 | NA | pseudogene (1/399 nt) | ygeO | putative uncharacterized protein YgeO |
| ? | NC_000913 | = 2997691 | NA (NA) | noncoding (1/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 2068941 = | NA (NA) | 11 (0.130) | 5/256 | 6.3 | NA | noncoding (1331/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 2070273 | NA (NA) | intergenic (‑93/‑4) | insC‑3/yoeA | CP4‑44 prophage; IS2 insertion element repressor InsA/CP4‑44 prophage; TonB‑dependent receptor plug domain‑containing protein YoeA | |||||
| * | ? | NC_000913 | 4498182 = | NA (NA) | 6 (0.070) | 3/254 | 7.3 | NA | noncoding (2/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 4499514 | NA (NA) | intergenic (+14/+79) | insD‑6/yjgX | KpLE2 phage‑like element; IS2 insertion element protein InsB/KpLE2 phage‑like element; putative phosphoethanolamine transferase YjgX, N‑terminal fragment | |||||