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 |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | position | mutation | freq | annotation | gene | description |
| RA | 18,124 | C→G | 27.9% | G212G (GGC→GGG) | nhaA → | Na(+):H(+) antiporter NhaA |
| RA | 153,375 | G→C | 16.7% | S684R (AGC→AGG) | htrE ← | putative fimbrial usher protein HtrE |
| RA | 238,497 | G→T | 19.1% | I80I (ATC→ATA) | ykfM ← | uncharacterized protein YkfM |
| RA | 238,507 | G→T | 19.0% | S77* (TCA→TAA) | ykfM ← | uncharacterized protein YkfM |
| RA | 238,523 | G→T | 17.8% | L72I (CTT→ATT) | ykfM ← | uncharacterized protein YkfM |
| RA | 238,535 | G→T | 32.2% | H68N (CAT→AAT) | ykfM ← | uncharacterized protein YkfM |
| MC JC | 257,908 | Δ776 bp | 100% | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 473,581 | A→G | 7.5% | K206E (AAA→GAA) | amtB → | ammonia/ammonium transporter |
| RA | 538,323 | G→A | 6.1% | V231M (GTG→ATG) | ybbW → | putative allantoin transporter |
| RA | 638,456 | C→T | 6.3% | A40T (GCC→ACC) | dsbG ← | protein sulfenic acid reductase DsbG |
| RA | 729,383 | T→G | 35.1% | intergenic (+43/‑200) | ybfA → / → rhsC | DUF2517 domain‑containing protein YbfA/rhs element protein RhsC |
| RA | 801,680 | A→T | 8.5% | I308F (ATC→TTC) | ybhH → | putative isomerase YbhH |
| RA | 869,586 | A→G | 7.0% | Y59C (TAC→TGC) | gsiB → | glutathione ABC transporter periplasmic binding protein |
| RA | 913,335 | T→C | 7.4% | K160K (AAA→AAG) | hcp ← | protein S‑nitrosylase |
| RA | 969,114 | T→A | 7.1% | M250K (ATG→AAG) | lpxK → | tetraacyldisaccharide 4'‑kinase |
| RA | 1,301,271 | C→T | 5.1% | P30P (CCC→CCT) | oppA → | oligopeptide ABC transporter periplasmic binding protein |
| RA | 1,411,172 | C→T | 7.1% | L259L (CTG→CTA) | ttcA ← | tRNA cytosine(32) 2‑sulfurtransferase TtcA |
| RA | 1,736,066 | C→T | 5.5% | intergenic (+107/+55) | sodB → / ← ydhP | superoxide dismutase (Fe)/putative transporter YdhP |
| RA | 1,835,143 | G→A | 7.7% | L112L (CTG→CTA) | ydjZ → | DedA family protein YdjZ |
| RA | 1,957,160 | Δ1 bp | 6.2% | coding (973/1101 nt) | torY ← | cytochrome c quinol dehydrogenase TorY |
| MC JC | 1,978,503 | Δ776 bp | 100% | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 1,979,450 | Δ1 bp | 6.4% | intergenic (‑235/‑303) | insA‑5 ← / → uspC | IS1 protein InsA/universal stress protein C |
| RA | 1,990,076 | T→C | 5.6% | G132G (GGT→GGC) | tyrP → | tyrosine:H(+) symporter |
| RA | 2,061,004 | C→T | 9.1% | intergenic (‑90/+12) | cbl ← / ← nac | DNA‑binding transcriptional activator Cbl/DNA‑binding transcriptional dual regulator Nac |
| RA | 2,173,361 | Δ2 bp | 100% | pseudogene (917‑918/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,177,245 | G→T | 59.1% | intergenic (‑41/+267) | gatY ← / ← fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| RA | 2,306,168 | G→A | 9.1% | A196V (GCA→GTA) | mqo ← | malate:quinone oxidoreductase |
| RA | 2,314,181 | G→T | 18.4% | D232Y (GAT→TAT) | rcsD → | RcsD phosphotransferase |
| RA | 2,439,618 | C→T | 5.2% | G168D (GGC→GAC) | yfcJ ← | putative transporter YfcJ |
| RA | 2,589,891 | T→G | 19.8% | V766G (GTG→GGG) | acrD → | multidrug efflux pump RND permease AcrD |
| RA | 2,996,252 | Δ1 bp | 5.1% | pseudogene (109/399 nt) | ygeO ← | putative uncharacterized protein YgeO |
| RA | 3,110,522 | A→G | 6.9% | intergenic (+81/+68) | pheV → / ← yghD | tRNA‑Phe/putative type II secretion system M‑type protein |
| RA | 3,408,011 | C→G | 18.3% | F135L (TTC→TTG) | panF → | pantothenate:Na(+) symporter |
| RA | 3,418,500 | T→A | 27.9% | N37K (AAT→AAA) | yhdV → | lipoprotein YhdV |
| RA | 3,454,069 | G→T | 35.1% | Q444K (CAA→AAA) | gspA ← | Type II secretion system protein GspA |
| RA | 3,560,455:1 | +G | 100% | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,674,767 | C→A | 17.8% | intergenic (+392/‑19) | yhjD → / → yhjE | putative transporter YhjD/putative transporter YhjE |
| RA | 3,733,095 | G→T | 5.3% | G299* (GGA→TGA) | xylG → | xylose ABC transporter ATP binding subunit |
| RA | 3,757,616 | T→G | 7.7% | N71T (AAC→ACC) | yiaY ← | L‑threonine dehydrogenase |
| RA | 3,815,645 | T→C | 13.3% | T42A (ACC→GCC) | pyrE ← | orotate phosphoribosyltransferase |
| MC JC | 3,815,859 | Δ82 bp | 100% | [rph] | [rph] | |
| RA | 3,828,980 | A→C | 45.6% | Q12H (CAA→CAC) | xanP → | xanthine:H(+) symporter XanP |
| RA | 3,828,985 | T→G | 41.0% | V14G (GTT→GGT) | xanP → | xanthine:H(+) symporter XanP |
| RA | 3,870,593 | C→T | 8.5% | A380T (GCC→ACC) | dgoT ← | putative D‑galactonate transporter |
| RA | 3,883,254 | T→A | 6.9% | D159V (GAT→GTT) | dnaA ← | chromosomal replication initiator protein DnaA |
| RA | 3,997,279 | C→T | 8.2% | R33* (CGA→TGA) | yigB → | 5‑amino‑6‑(5‑phospho‑D‑ribitylamino)uracil phosphatase |
| MC JC | 4,123,449 | Δ990 bp | 100% | coding (19‑1008/1026 nt) | cytR ← | DNA‑binding transcriptional repressor CytR |
| RA | 4,127,647 | T→C | 6.8% | K83R (AAG→AGG) | yiiX ← | putative lipid binding hydrolase |
| JC | 4,186,107 | (TCCGCTGGT)1→2 | 89.2% | coding (758/4224 nt) | rpoC → | RNA polymerase subunit beta' |
| RA | 4,283,228 | T→G | 54.2% | intergenic (‑153/+25) | yjcF ← / ← actP | pentapeptide repeat‑containing protein YjcF/acetate/glycolate:cation symporter |
| RA | 4,283,230 | A→C | 41.1% | intergenic (‑155/+23) | yjcF ← / ← actP | pentapeptide repeat‑containing protein YjcF/acetate/glycolate:cation symporter |
| RA | 4,296,060 | C→T | 31.8% | intergenic (+266/+376) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,296,380:1 | +CG | 100% | intergenic (+586/+56) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,320,073 | C→T | 6.8% | M197I (ATG→ATA) | phnI ← | carbon‑phosphorus lyase core complex subunit PhnI |
| RA | 4,348,007 | G→C | 8.7% | I246M (ATC→ATG) | dcuB ← | anaerobic C4‑dicarboxylate transporter DcuB |
| RA | 4,398,407 | G→C | 22.1% | Q332H (CAG→CAC) | mutL → | DNA mismatch repair protein MutL |
| RA | 4,523,229 | T→A | 7.1% | E289V (GAA→GTA) | yjhG ← | KpLE2 phage‑like element; D‑xylonate dehydratase |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 381258 = | NA (NA) | 6 (0.100) | 6/234 | NT | NA | pseudogene (3/417 nt) | yaiX | putative acyltransferase, N‑terminal fragment |
| ? | NC_000913 | = 382589 | NA (NA) | noncoding (1330/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 1207790 = | 26 (0.450) | 42 (0.840) | 33/204 | NT | 68.0% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 17 (0.340) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 26 (0.450) | 28 (0.560) | 17/204 | NT | 58.7% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 17 (0.340) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 68 (1.220) | 38/228 | NT | 100% | intergenic (+253/‑33) | ychE/insH21 | putative inner membrane protein/IS5 transposase and trans‑activator |
| ? | NC_000913 | 1300698 = | 0 (0.000) | intergenic (+151/‑484) | insH21/oppA | IS5 transposase and trans‑activator/oligopeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | 1467909 = | NA (NA) | 3 (0.050) | 3/236 | NT | NA | pseudogene (2518/2518 nt) | ydbA | putative outer membrane protein, N‑terminal fragment |
| ? | NC_000913 | = 1469240 | NA (NA) | noncoding (1/1331 nt) | IS2 | repeat region | |||||