mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 182 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,304,523 | 0 | G | C | 75.0% | 86.0 / 40.4 | 64 | intergenic (+130/+585) | eco/mqo | serine protease inhibitor ecotin/malate:quinone oxidoreductase |
| * | NC_000913 | 2,304,522 | 0 | G | T | 73.4% | 71.4 / 36.9 | 64 | intergenic (+129/+586) | eco/mqo | serine protease inhibitor ecotin/malate:quinone oxidoreductase |
| * | NC_000913 | 3,583,969 | 0 | G | A | 71.4% | 20.4 / 13.8 | 21 | W98* (TGG→TAG) | insB6 | IS1 family protein InsB |
| * | NC_000913 | 4,040,623 | 0 | G | A | 64.7% | 48.9 / 111.3 | 102 | noncoding (107/120 nt) | rrfA | 5S ribosomal RNA |
| * | NC_000913 | 4,166,856 | 0 | G | A | 60.0% | ‑1.1 / 38.5 | 35 | noncoding (198/1542 nt) | rrsB | 16S ribosomal RNA |
| * | NC_000913 | 2,304,537 | 0 | A | G | 54.5% | ‑3.6 / 78.4 | 67 | intergenic (+144/+571) | eco/mqo | serine protease inhibitor ecotin/malate:quinone oxidoreductase |
| * | NC_000913 | 2,304,540 | 0 | C | T | 52.2% | 7.3 / 93.2 | 69 | intergenic (+147/+568) | eco/mqo | serine protease inhibitor ecotin/malate:quinone oxidoreductase |
| * | NC_000913 | 2,304,549 | 0 | C | T | 47.7% | 30.4 / 85.3 | 65 | intergenic (+156/+559) | eco/mqo | serine protease inhibitor ecotin/malate:quinone oxidoreductase |
| * | NC_000913 | 2,304,567 | 0 | C | T | 39.7% | 60.5 / 47.9 | 59 | intergenic (+174/+541) | eco/mqo | serine protease inhibitor ecotin/malate:quinone oxidoreductase |
| * | NC_000913 | 4,296,268 | 0 | T | C | 39.6% | 35.8 / 48.0 | 49 | intergenic (+474/+168) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 1,224,021 | 0 | A | G | 37.1% | 43.8 / 11.6 | 36 | intergenic (+572/+258) | ymgJ/minE | uncharacterized protein YmgJ/Z‑ring positioning protein MinE |
| * | NC_000913 | 786,855 | 0 | A | C | 35.0% | 153.6 / 16.9 | 81 | G247G (GGT→GGG) | gpmA | 2,3‑bisphosphoglycerate‑dependent phosphoglycerate mutase |
| * | NC_000913 | 4,604,344 | 0 | C | T | 34.6% | 81.9 / 20.8 | 52 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 1,679,304 | 0 | A | C | 34.2% | 135.5 / 14.3 | 76 | Y293S (TAC→TCC) | ydgH | DUF1471 domain‑containing protein YdgH |
| * | NC_000913 | 1,292,455 | 0 | C | A | 33.3% | 96.1 / 18.5 | 60 | intergenic (+90/+54) | galU/hns | UTP‑‑glucose‑1‑phosphate uridylyltransferase/DNA‑binding transcriptional dual regulator H‑NS |
| * | NC_000913 | 2,367,362 | 0 | A | C | 32.3% | 82.0 / 10.2 | 67 | T98P (ACC→CCC) | arnC | undecaprenyl‑phosphate 4‑deoxy‑4‑formamido‑L‑arabinose transferase |
| * | NC_000913 | 3,404,215 | 0 | T | G | 31.6% | 196.2 / 10.2 | 98 | G244G (GGT→GGG) | yhdH | acrylyl‑CoA reductase |
| * | NC_000913 | 354,288 | 0 | T | G | 31.6% | 321.4 / 31.8 | 152 | V528G (GTG→GGG) | prpE | propionyl‑CoA synthetase |
| * | NC_000913 | 2,664,896 | 0 | T | G | 31.3% | 198.7 / 15.3 | 100 | G169G (GGT→GGG) | yfhR | putative peptidase |
| * | NC_000913 | 2,483,268 | 0 | T | A | 31.1% | 89.0 / 15.2 | 45 | L24F (TTA→TTT) | emrK | tripartite efflux pump membrane fusion protein EmrK |
| 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 = | 50 (0.400) | 19 (0.160) | 19/460 | 3.2 | 31.6% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 34 (0.290) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 4542690 | 48 (0.390) | 17 (0.140) | 17/460 | 3.4 | 30.6% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 31 (0.260) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 275149 | NA (NA) | 10 (0.080) | 10/478 | 4.6 | 10.4% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 1108013 = | 86 (0.690) | coding (929/1158 nt) | opgC | osmoregulated periplasmic glucans (OPG) biosynthesis protein C | |||||
| * | ? | NC_000913 | = 15912 | NA (NA) | 8 (0.070) +TTTTTCAA |
8/462 | 4.9 | NA | noncoding (526/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | 15922 = | NA (NA) | noncoding (536/1345 nt) | IS186 | repeat region | |||||
| * | ? | NC_000913 | 781068 = | 129 (1.040) | 4 (0.050) | 4/326 | 5.2 | 5.2% | noncoding (1/76 nt) | valZ | tRNA‑Val |
| ? | NC_000913 | = 2520930 | 58 (0.690) | intergenic (‑258/‑1) | gltX/valU | glutamate‑‑tRNA ligase/tRNA‑Val | |||||
| * | ? | NC_000913 | = 1397238 | NA (NA) | 5 (0.040) | 5/478 | 5.8 | 6.2% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 1673611 | 75 (0.610) | coding (99/102 nt) | mdtU | protein MdtU | |||||
| * | ? | NC_000913 | = 1411924 | 71 (0.570) | 3 (0.030) | 3/426 | 6.2 | 5.1% | coding (25/936 nt) | ttcA | tRNA cytosine(32) 2‑sulfurtransferase TtcA |
| ? | NC_000913 | 1434985 = | 48 (0.440) | intergenic (‑579/+200) | ynaM/uspF | protein YnaM/universal stress protein F | |||||
| * | ? | NC_000913 | 3392288 = | 152 (1.230) | 3 (0.020) | 3/464 | 6.4 | 2.0% | intergenic (‑260/+170) | tldD/yhdP | metalloprotease subunit TldD/phospholipid transport factor YhdP |
| ? | NC_000913 | = 4325879 | 148 (1.230) | intergenic (‑138/+520) | yjdN/yjdM | PF06983 family protein YjdN/zinc ribbon domain‑containing protein YjdM | |||||
| * | ? | NC_000913 | 2575553 = | 119 (0.960) | 3 (0.020) | 3/464 | 6.4 | 2.5% | coding (253/336 nt) | eutS | putative ethanolamine catabolic microcompartment shell protein EutS |
| ? | NC_000913 | = 2709110 | 122 (1.020) | coding (295/651 nt) | rseA | anti‑sigma‑E factor RseA | |||||