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 | 144,849 | T→A | G91G (GGT→GGA) | yadI → | putative PTS enzyme IIA component YadI |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 458,470 | G→T | E349* (GAA→TAA) | clpX → | ATP‑dependent Clp protease ATP‑binding subunit ClpX |
| RA | 624,859 | G→T | intergenic (‑349/‑26) | fepB ← / → entC | ferric enterobactin ABC transporter periplasmic binding protein/isochorismate synthase EntC |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 974,374 | A→G | D19G (GAC→GGC) | mukF → | chromosome partitioning protein MukF |
| RA | 1,119,003 | G→A | A15V (GCG→GTG) | yceJ ← | putative cytochrome b561 |
| 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 | 1,372,106 | C→A | P66P (CCC→CCA) | ycjN → | putative ABC transporter periplasmic binding protein YcjN |
| RA | 1,445,991 | T→G | Y38D (TAC→GAC) | ydbL → | DUF1318 domain‑containing protein YdbL |
| 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 | 2,064,892 | T→A | T111S (ACC→TCC) | cobS ← | cobalamin 5'‑phosphate synthase |
| RA | 2,077,851 | C→A | L95I (CTC→ATC) | cbtA → | CP4‑44 prophage; cytoskeleton‑binding toxin CbtA |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,429,334 | A→T | I302N (ATC→AAC) | purF ← | amidophosphoribosyltransferase |
| RA | 2,433,686 | C→A | D81Y (GAT→TAT) | accD ← | acetyl‑CoA carboxyltransferase subunit beta |
| RA | 2,563,831 | A→C | I80I (ATA→ATC) | yffQ → | CPZ‑55 prophage; uncharacterized protein YffQ |
| MC JC | 2,581,699 | (19-bp)2→1 | intergenic (+60/+17) | tktB → / ← ypfG | transketolase 2/DUF1176 domain‑containing protein YpfG |
| RA | 2,594,365 | C→A | E499* (GAG→TAG) | tmcA ← | tRNA(Met) cytidine acetyltransferase |
| RA | 2,709,972 | A→C | V14G (GTC→GGC) | rpoE ← | RNA polymerase sigma E factor |
| RA | 2,731,477 | C→T | intergenic (‑320/+123) | rrsG ← / ← clpB | 16S ribosomal RNA/ClpB chaperone |
| RA | 2,818,070 | G→T | noncoding (66/77 nt) | argZ ← | tRNA‑Arg |
| RA | 3,023,141 | C→A | A609E (GCG→GAG) | xdhD → | fused putative xanthine/hypoxanthine oxidase: molybdopterin‑binding subunit and Fe‑S binding subunit |
| RA | 3,062,980 | C→A | Q711K (CAG→AAG) | scpA → | methylmalonyl‑CoA mutase |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,424,579 | Δ1 bp | noncoding (2205/2904 nt) | rrlD ← | 23S ribosomal RNA |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,729,171 | G→A | D67D (GAC→GAT) | xylB ← | xylulokinase |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| 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 | 1196275 | 1211430 | 15156 | 18 [9] | [13] 16 | [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 | 3102949 | 3104051 | 1103 | 16 [14] | [12] 16 | [mutY] | [mutY] |
| * | * | ÷ | NC_000913 | 3423770–3424234 | 3424525–3424239 | 6–756 | 16 [12] | [14] 19 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 95 (1.360) | 53/268 | 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 = | 175 (2.430) | 105 (1.470) | 59/274 | 0.1 | 54.2% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 4 (0.060) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 107 (1.490) | 60/276 | 0.1 | 98.2% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 2 (0.030) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||