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 29 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,296,060 | 0 | C | T | 31.0% | 542.8 / 316.2 | 358 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 151,734 | 0 | A | C | 30.4% | 120.0 / 24.4 | 79 | V166V (GTT→GTG) | yadL | putative fimbrial protein YadL |
| * | NC_000913 | 2,177,255 | 0 | G | T | 29.3% | 150.9 / 28.6 | 92 | intergenic (‑51/+257) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 164,569 | 0 | C | G | 28.2% | 160.3 / 30.4 | 85 | intergenic (+35/‑161) | hrpB/mrcB | putative ATP‑dependent RNA helicase HrpB/peptidoglycan glycosyltransferase/peptidoglycan DD‑transpeptidase MrcB |
| * | NC_000913 | 1,164,571 | 0 | A | C | 27.0% | 126.3 / 17.4 | 74 | K159N (AAA→AAC) | nagZ | beta‑N‑acetylhexosaminidase |
| * | NC_000913 | 1,834,470 | 0 | G | C | 25.8% | 290.7 / 35.5 | 127 | E119Q (GAA→CAA) ‡ | ydjY | 4Fe‑4S ferredoxin‑type domain‑containing protein YdjY |
| * | NC_000913 | 2,470,436 | 0 | C | A | 25.3% | 216.8 / 12.8 | 87 | Q436K (CAA→AAA) | yfdI | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase |
| * | NC_000913 | 159,101 | 0 | C | A | 25.0% | 348.5 / 37.0 | 140 | C9F (TGC→TTC) | pcnB | poly(A) polymerase I |
| * | NC_000913 | 2,470,427 | 0 | C | A | 24.7% | 203.2 / 21.1 | 89 | Q433K (CAA→AAA) | yfdI | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase |
| * | NC_000913 | 3,908,514 | 0 | A | T | 24.2% | 279.0 / 10.1 | 120 | intergenic (‑148/+35) | pstB/pstA | phosphate ABC transporter ATP binding subunit/phosphate ABC transporter membrane subunit PstA |
| * | NC_000913 | 1,720,364 | 0 | G | T | 23.4% | 152.7 / 15.2 | 64 | intergenic (+21/+26) | slyB/slyA | outer membrane lipoprotein SlyB/DNA‑binding transcriptional dual regulator SlyA |
| * | NC_000913 | 2,411,263 | 0 | A | C | 23.3% | 292.5 / 36.2 | 146 | A30A (GCT→GCG) | yfbS | putative transporter YfbS |
| * | NC_000913 | 2,639,269 | 0 | C | G | 23.2% | 298.9 / 23.2 | 116 | E5D (GAG→GAC) | yfgM | ancillary SecYEG translocon subunit |
| * | NC_000913 | 3,608,703 | 0 | A | T | 23.2% | 480.8 / 36.1 | 198 | intergenic (+54/+48) | zntA/tusA | Zn(2(+))/Cd(2(+))/Pb(2(+)) exporting P‑type ATPase/sulfur transfer protein TusA |
| * | NC_000913 | 2,411,250 | 0 | C | A | 23.2% | 378.7 / 26.0 | 151 | V35F (GTC→TTC) | yfbS | putative transporter YfbS |
| * | NC_000913 | 3,046,068 | 0 | T | A | 23.0% | 309.4 / 18.2 | 137 | intergenic (‑167/+100) | ygfF/gcvP | putative NAD(P)‑binding oxidoreductase with NAD(P)‑binding Rossmann‑fold domain/glycine decarboxylase |
| * | NC_000913 | 843,202 | 0 | G | T | 22.7% | 395.6 / 27.5 | 150 | A291S (GCC→TCC) | rlmF | 23S rRNA m(6)A1618 methyltransferase |
| * | NC_000913 | 1,834,472 | 0 | A | C | 22.2% | 255.6 / 33.4 | 126 | E119D (GAA→GAC) ‡ | ydjY | 4Fe‑4S ferredoxin‑type domain‑containing protein YdjY |
| * | NC_000913 | 361,320 | 0 | C | A | 21.8% | 497.5 / 20.9 | 188 | V181F (GTT→TTT) | lacA | galactoside O‑acetyltransferase |
| * | NC_000913 | 2,185,429 | 0 | T | G | 21.8% | 270.6 / 39.7 | 133 | intergenic (‑128/+95) | thiM/rcnR | hydroxyethylthiazole kinase/DNA‑binding transcriptional repressor RcnR |
| Marginal new junction evidence (lowest skew 10 of 508 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1207805 | 125 (0.670) | 16 (0.100) | 16/266 | 3.0 | 14.8% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 72 (0.430) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1428264 | NA (NA) | 61 (0.340) | 9/286 | 4.1 | 80.9% | noncoding (531/1196 nt) | IS5 | repeat region |
| ? | NC_000913 | = 2066866 | 15 (0.080) | noncoding (488/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 1396537 = | NA (NA) | 61 (0.340) | 9/286 | 4.1 | 15.1% | noncoding (494/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 1428270 | 358 (1.910) | noncoding (525/1196 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 4486252 = | 193 (1.030) | 8 (0.050) | 8/282 | 4.3 | 4.1% | coding (35/1101 nt) | lptF | lipopolysaccharide transport system protein LptF |
| ? | NC_000913 | 4486291 = | 193 (1.090) | coding (74/1101 nt) | lptF | lipopolysaccharide transport system protein LptF | |||||
| * | ? | NC_000913 | 4396901 = | 511 (2.730) | 13 (0.070) | 8/286 | 4.3 | 2.6% | coding (837/1338 nt) | amiB | N‑acetylmuramoyl‑L‑alanine amidase B |
| ? | NC_000913 | 4396939 = | 477 (2.660) | coding (875/1338 nt) | amiB | N‑acetylmuramoyl‑L‑alanine amidase B | |||||
| * | ? | NC_000913 | 4320612 = | 748 (4.000) | 11 (0.060) | 8/288 | 4.3 | 1.5% | coding (52/1065 nt) | phnI | carbon‑phosphorus lyase core complex subunit PhnI |
| ? | NC_000913 | 4320644 = | 708 (3.920) | coding (20/1065 nt) | phnI | carbon‑phosphorus lyase core complex subunit PhnI | |||||
| * | ? | NC_000913 | = 3885280 | 456 (2.440) | 10 (0.060) | 8/288 | 4.3 | 2.3% | coding (205/1647 nt) | yidC | membrane protein insertase YidC |
| ? | NC_000913 | = 3885315 | 416 (2.300) | coding (240/1647 nt) | yidC | membrane protein insertase YidC | |||||
| * | ? | NC_000913 | 2066588 = | 57 (0.300) | 12 (0.070) | 8/292 | 4.3 | 17.7% | noncoding (766/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 2102216 = | NA (NA) | noncoding (728/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 2066551 = | 58 (0.310) | 19 (0.110) | 8/284 | 4.3 | 25.6% | noncoding (803/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 2102204 = | NA (NA) | noncoding (740/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 286626 = | 523 (2.790) | 11 (0.060) | 8/286 | 4.3 | 2.1% | coding (1232/1383 nt) | yagG | putative D‑xylonate transporter YagG |
| ? | NC_000913 | 286711 = | 534 (2.970) | coding (1317/1383 nt) | yagG | putative D‑xylonate transporter YagG | |||||