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 | annotation | gene | description |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 586,138 | C→A | intergenic (‑505/+9) | ompT ← / ← envY | outer membrane protease VII (outer membrane protein 3b)/DNA‑binding transcriptional activator EnvY |
| JC JC | 742,852 | IS1 (+) +9 bp | coding (26‑34/744 nt) | ybgI → | radiation resistance protein YbgI |
| RA | 795,056 | T→C | intergenic (+134/‑33) | acrZ → / → modA | multidrug efflux pump accessory protein AcrZ/molybdate ABC transporter periplasmic binding protein |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,316,047 | C→A | intergenic (‑12/+369) | yciG ← / ← trpA | protein YciG/tryptophan synthase subunit alpha |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| JC JC | 1,879,829 | Δ1 bp :: IS186 (–) +6 bp :: Δ1 bp | coding (115‑120/360 nt) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| RA | 1,880,107 | G→T | intergenic (‑159/+14) | yeaR ← / ← leuE | DUF1971 domain‑containing protein YeaR/leucine exporter |
| RA | 1,890,808 | G→T | Q154K (CAA→AAA) | tsaB ← | N(6)‑L‑threonylcarbamoyladenine synthase, TsaB subunit |
| MC JC | 1,978,503 | Δ776 bp | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 2,045,513 | C→A | G192G (GGC→GGA) | yeeJ → | inverse autotransporter adhesin |
| RA | 2,066,191 | G→T | intergenic (‑427/+114) | cobU ← / ← insH‑6 | cobinamide‑P guanylyltransferase/cobinamide kinase/CP4‑44 prophage; IS5 transposase and trans‑activator |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,336,669 | G→T | intergenic (‑25/+124) | yfaA ← / ← gyrA | DUF2138 domain‑containing protein YfaA/DNA gyrase subunit A |
| RA | 2,440,802 | G→T | D268E (GAC→GAA) | fabB ← | beta‑ketoacyl‑[acyl carrier protein] synthase I |
| RA | 2,454,367 | G→T | pseudogene (635/2646 nt) | yfcU ← | putative outer membrane usher protein YfcU |
| RA | 2,504,229 | C→A | R86L (CGC→CTC) | fryA ← | putative PTS multiphosphoryl transfer protein FryA |
| RA | 2,527,982 | C→A | G60W (GGG→TGG) | ypeB ← | PF12843 family protein YpeB |
| RA | 2,649,324 | C→A | P988P (CCG→CCT) | yfhM ← | alpha2‑macroglobulin |
| RA | 2,719,644 | C→A | P141Q (CCG→CAG) | yfiP → | conserved protein YfiP |
| RA | 3,068,916 | G→T | intergenic (‑108/+31) | argO ← / ← mscS | L‑arginine exporter/small conductance mechanosensitive channel MscS |
| RA | 3,272,933 | G→T | H209N (CAC→AAC) | garL ← | alpha‑dehydro‑beta‑deoxy‑D‑glucarate aldolase |
| RA | 3,301,945 | G→T | R154L (CGG→CTG) | yhbU → | putative peptidase YhbU |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,699,034 | C→A | A274D (GCC→GAC) | bcsG → | cellulose phosphoethanolamine transferase |
| RA | 3,732,374 | C→A | S58S (TCC→TCA) | xylG → | xylose ABC transporter ATP binding subunit |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,993,671 | C→A | T840K (ACG→AAG) | cyaA → | adenylate cyclase |
| RA | 4,159,226 | C→A | P246Q (CCG→CAG) | oxyR → | DNA‑binding transcriptional dual regulator OxyR |
| RA | 4,218,270 | G→T | A388S (GCC→TCC) | aceA → | isocitrate lyase |
| RA | 4,261,710 | C→A | S14R (AGC→AGA) | dusA → | tRNA‑dihydrouridine synthase A |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3102968 | 3104081 | 1114 | 48 [47] | [45] 48 | mutY | mutY |
| * | * | ÷ | NC_000913 | 3423760–3424234 | 3424526–3424238 | 5–767 | 49 [46] | [43] 48 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 143 (0.840) | 67 (0.440) | 47/244 | 1.3 | 33.2% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 143 (0.950) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 143 (0.840) | 40 (0.270) | 29/244 | 3.0 | 22.9% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 143 (0.950) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 247 (1.490) | 102/268 | 0.1 | 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 | 3363001 = | 312 (1.830) | 296 (1.740) | 107/274 | 0.0 | 65.3% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 5 (0.030) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 188 (1.100) | 78/276 | 0.4 | 96.4% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 7 (0.040) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||