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 | 720,492 | T→C | intergenic (‑32/‑91) | speF ← / → ybfK | ornithine decarboxylase, degradative/uncharacterized protein YbfK |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| 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 | 1,294,541 | C→A | pseudogene (782/897 nt) | insZ ← | putative transposase InsZ |
| MC JC | 1,299,499 | Δ1,199 bp | insH21 | insH21 | |
| RA | 1,367,100 | C→A | S271S (TCG→TCT) | pspF ← | DNA‑binding transcriptional dual regulator PspF |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| RA | 1,759,675 | G→T | G283G (GGC→GGA) | sufS ← | L‑cysteine desulfurase |
| 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 | 1,992,912 | C→A | G599C (GGT→TGT) | uvrC ← | excision nuclease subunit C |
| RA | 2,072,994 | C→A | L486I (CTC→ATC) | flu → | CP4‑44 prophage; self recognizing antigen 43 (Ag43) autotransporter |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,464,372 | C→A | M212I (ATG→ATT) | mlaA ← | intermembrane phospholipid transport system ‑ outer membrane lipoprotein MlaA |
| RA | 2,481,363 | G→T | R272S (CGT→AGT) | emrY ← | tripartite efflux pump membrane subunit EmrY |
| RA | 2,487,336 | C→A | A988D (GCC→GAC) | evgS → | sensory histidine kinase EvgS |
| RA | 2,751,754 | T→A | intergenic (+45/‑41) | nadK → / → recN | NAD kinase/DNA repair protein RecN |
| JC | 3,277,273 | (TTCAACA)2→3 | coding (272/336 nt) | prlF → | antitoxin PrlF |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,359,777 | C→A | L194M (CTG→ATG) | gltD → | glutamate synthase subunit GltD |
| RA | 3,364,324 | G→T | W506C (TGG→TGT) | yhcD → | putative fimbrial usher protein YhcD |
| RA | 3,468,881 | G→T | P325T (CCA→ACA) | chiA ← | endochitinase |
| RA | 3,531,387 | G→T | G351G (GGC→GGA) | yhgE ← | putative transport protein YhgE |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,579,974 | C→A | E278* (GAG→TAG) | yhhX ← | putative oxidoreductase YhhX |
| RA | 3,628,311 | G→T | L410I (CTC→ATC) | rbbA ← | ribosome‑associated ATPase |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 4,113,616 | C→A | V108V (GTC→GTA) | uspD → | universal stress protein D |
| 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 | 1196287 | 1211437 | 15151 | 15 [12] | [13] 17 | [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 | 2521007 | 2521331 | 325 | 47 [0] | [12] 15 | valX–lysV | valX,valY,lysV |
| * | * | ÷ | NC_000913 | 3102986 | 3104083 | 1098 | 14 [13] | [13] 14 | mutY | mutY |
| * | * | ÷ | NC_000913 | 3423782–3424230 | 3424526–3424242 | 13–745 | 14 [13] | [13] 15 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 781577 = | 50 (0.800) | 46 (0.750) +GAAG |
21/268 | 1.5 | 65.5% | noncoding (1/76 nt) | lysQ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 0 (0.000) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | 3363001 = | 105 (1.670) | 101 (1.620) | 57/274 | 0.1 | 65.3% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 3 (0.050) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 68 (1.080) | 45/276 | 0.2 | 97.1% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 2 (0.030) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||