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 |
| RA | 224,699 | (G)5→4 | noncoding (929/1542 nt) | rrsH → | 16S ribosomal RNA |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 319,759 | C→A | K81N (AAG→AAT) | rclA ← | putative pyridine nucleotide‑disulfide oxidoreductase RclA |
| RA | 331,384 | A→G | Y641C (TAC→TGC) | betT → | choline:H(+) symporter |
| RA | 539,260 | C→A | G38G (GGC→GGA) | allB → | allantoinase |
| RA | 720,542 | A→G | intergenic (‑82/‑41) | speF ← / → ybfK | ornithine decarboxylase, degradative/uncharacterized protein YbfK |
| RA | 793,209 | G→T | R194S (CGC→AGC) | modF ← | ABC family protein ModF |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,185,198 | G→T | R133R (CGG→AGG) | potA ← | spermidine preferential ABC transporter ATP binding subunit |
| RA | 1,196,220 | C→T | H366H (CAC→CAT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,232 | C→T | T370T (ACC→ACT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,245 | T→C | L375M (TTA→CTG) | icd → | isocitrate dehydrogenase |
| RA | 1,196,247 | A→G | L375M (TTA→CTG) | icd → | isocitrate dehydrogenase |
| RA | 1,196,277 | C→T | N385N (AAC→AAT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,280 | G→C | A386A (GCG→GCC) | icd → | isocitrate dehydrogenase |
| RA | 1,196,283 | A→G | K387K (AAA→AAG) | icd → | isocitrate dehydrogenase |
| RA | 1,196,292 | C→T | T390T (ACC→ACT) | icd → | isocitrate dehydrogenase |
| MC JC | 1,299,499 | Δ1,199 bp | insH21 | insH21 | |
| RA | 1,399,674 | T→C | intergenic (‑148/+47) | fnr ← / ← ogt | DNA‑binding transcriptional dual regulator FNR/methylated‑DNA‑‑[protein]‑cysteine S‑methyltransferase |
| RA | 1,604,033 | C→A | R339R (CGG→AGG) | lsrC → | Autoinducer‑2 ABC transporter membrane subunit LsrC |
| RA | 1,619,336 | C→A | R73S (CGT→AGT) | marR → | DNA‑binding transcriptional repressor MarR |
| 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 |
| MC JC | 1,978,503 | Δ776 bp | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,494,132 | T→C | T91A (ACC→GCC) | yfdX ← | protein YfdX |
| RA | 2,749,752 | G→T | G327C (GGC→TGC) | yfjD → | putative inner membrane protein |
| RA | 2,759,763 | A→T | Q260L (CAG→CTG) | yfjI → | CP4‑57 prophage; protein YfjI |
| RA | 2,780,495 | G→T | G744G (GGC→GGA) | ypjA ← | adhesin‑like autotransporter YpjA |
| RA | 2,964,330 | C→A | intergenic (‑153/+31) | ppdA ← / ← thyA | conserved protein PpdA/thymidylate synthase |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,447,873 | G→T | Q93K (CAG→AAG) | rplN ← | 50S ribosomal subunit protein L14 |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,726,892 | C→A | intergenic (+10/+32) | wecH → / ← yiaA | O‑acetyltransferase WecH/conserved inner membrane protein YiaA |
| RA | 3,747,397 | G→T | R105L (CGG→CTG) | lyxK → | L‑xylulose kinase |
| RA | 3,758,721 | C→T | A381T (GCG→ACG) | selB ← | selenocysteyl‑tRNA‑specific translation elongation factor |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 4,245,598 | C→A | P274P (CCG→CCT) | malE ← | maltose ABC transporter periplasmic binding protein |
| 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 | 1196304 | 1211416 | 15113 | 5 [3] | [4] 5 | [icd]–[icdC] | [icd],ymfD,ymfE,lit,intE,xisE,ymfH,ymfI,ymfJ,ymfK,ymfT,ymfL,ymfM,oweE,ymfN,aaaE,ymfR,beeE,jayE,ymfQ,ycfK,tfaP,tfaE,stfE,pinE,mcrA,[icdC] |
| * | * | ÷ | NC_000913 | 3102995 | 3104048 | 1054 | 5 [4] | [3] 5 | [mutY] | [mutY] |
| * | * | ÷ | NC_000913 | 3131394 | 3131491 | 98 | 5 [3] | [3] 5 | yghQ | putative transport protein YghQ |
| * | * | ÷ | NC_000913 | 3423762–3424234 | 3424525–3424239 | 6–764 | 5 [4] | [4] 5 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 3363001 = | 41 (1.390) | 29 (0.990) | 21/274 | 0.4 | 58.8% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 0 (0.000) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 25 (0.850) | 20/276 | 0.4 | 100% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 0 (0.000) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||