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 | 99,275 | G→T | L291L (CTG→CTT) | ftsW → | putative lipid II flippase FtsW |
| RA | 221,587 | C→A | G12V (GGC→GTC) | metI ← | L‑methionine/D‑methionine ABC transporter membrane subunit |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 327,459 | G→T | N425K (AAC→AAA) | betB ← | betaine aldehyde dehydrogenase |
| JC JC | 563,949 | IS1 (+) +9 bp | coding (524‑532/633 nt) | fimZ ← | putative LuxR family transcriptional regulator FimZ |
| RA | 779,704 | G→T | G36V (GGC→GTC) | cpoB → | cell division coordinator CpoB |
| 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 | 1,212,088 | (C)8→9 | intergenic (‑85/+172) | iraM ← / ← ymgK | anti‑adaptor protein IraM, inhibitor of sigma(S) proteolysis/protein YmgK |
| RA | 1,363,510 | G→T | A256A (GCG→GCT) | puuC → | gamma‑glutamyl‑gamma‑aminobutyraldehyde dehydrogenase |
| RA | 1,453,692 | A→G | intergenic (‑50/‑235) | paaZ ← / → paaA | oxepin‑CoA hydrolase/3‑oxo‑5,6‑dehydrosuberyl‑CoA semialdehyde dehydrogenase/phenylacetyl‑CoA 1,2‑epoxidase, monooxygenase subunit |
| RA | 1,506,188 | G→T | R6L (CGC→CTC) | sutR → | DNA‑binding transcriptional dual regulator SutR |
| RA | 1,581,256 | G→T | P423P (CCC→CCA) | ydeN ← | putative sulfatase |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| MC JC | 1,689,711 | Δ10 bp | coding (1136‑1145/1176 nt) | manA → | mannose‑6‑phosphate isomerase |
| RA | 1,798,037 | C→A | L302L (CTG→CTT) | pheS ← | phenylalanine‑‑tRNA ligase subunit alpha |
| RA | 1,825,636 | C→A | intergenic (‑11/+319) | spy ← / ← astE | ATP‑independent periplasmic chaperone/succinylglutamate desuccinylase |
| 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 | 2,349,048 | Δ2 bp | coding (424‑425/651 nt) | inaA ← | putative lipopolysaccharide kinase InaA |
| JC | 2,812,166 | Δ20 bp | coding (740‑759/1173 nt) | emrA → | multidrug efflux pump membrane fusion protein EmrA |
| RA | 2,906,534 | G→T | S275I (AGC→ATC) | ygcG → | protein YgcG |
| RA | 3,012,629 | C→A | V537V (GTG→GTT) | yqeB ← | XdhC‑CoxI family protein YqeB |
| RA | 3,242,322 | G→T | Y331* (TAC→TAA) | uxaA ← | D‑altronate dehydratase |
| 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 | 3,788,257 | G→T | A53S (GCT→TCT) | yibQ → | divergent polysaccharide deacetylase domain‑containing protein YibQ |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,903,152 | C→A | V184L (GTG→TTG) | bglB ← | 6‑phospho‑beta‑glucosidase B |
| RA | 3,924,708 | G→T | P309Q (CCG→CAG) | mnmG ← | 5‑carboxymethylaminomethyluridine‑tRNA synthase subunit MnmG |
| RA | 4,035,273 | T→C | intergenic (+120/‑258) | hemG → / → rrsA | protoporphyrinogen oxidase/16S ribosomal RNA |
| RA | 4,058,369 | T→C | intergenic (‑335/‑38) | glnA ← / → bipA | glutamine synthetase/ribosome‑dependent GTPase, ribosome assembly factor |
| RA | 4,061,400 | C→A | A79D (GCC→GAC) | yihM → | putative TIM barrel domain‑containing protein YihM |
| 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 |
| RA | 4,392,580 | C→A | intergenic (+33/‑3) | glyX → / → glyY | tRNA‑Gly/tRNA‑Gly |
| RA | 4,407,427 | G→T | A258A (GCG→GCT) | rnr → | RNase R |
| RA | 4,611,524 | C→A | V43V (GTC→GTA) | osmY → | periplasmic chaperone OsmY |
| RA | 4,616,518 | A→G | V183A (GTT→GCT) | yjjI ← | DUF3029 domain‑containing protein YjjI |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 1196275 | 1211428 | 15154 | 33 [28] | [28] 34 | [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 | 3104081 | 1087 | 29 [28] | [28] 29 | mutY | mutY |
| * | * | ÷ | NC_000913 | 3423764–3424234 | 3424534–3424238 | 5–771 | 29 [28] | [28] 29 | [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) | 171 (1.630) | 93/268 | 0.0 | 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 | 1555804 = | 88 (0.820) | 115 (1.070) | 55/276 | 0.5 | 49.1% | intergenic (‑135/+22) | maeA/sra | malate dehydrogenase, NAD‑requiring/30S ribosomal subunit protein S22 |
| ? | NC_000913 | = 1556015 | 150 (1.390) | intergenic (‑52/+50) | sra/bdm | 30S ribosomal subunit protein S22/biofilm‑dependent modulation protein | |||||
| * | ? | NC_000913 | 3363001 = | 175 (1.620) | 166 (1.550) | 73/274 | 0.1 | 65.3% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 3 (0.030) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 125 (1.160) | 73/276 | 0.1 | 99.2% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 1 (0.010) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||