mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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 | 708,647 | G→T | S105I (AGC→ATC) | chiP → | chitobiose outer membrane channel |
| RA | 842,105 | G→T | intergenic (‑49/‑227) | mcbA ← / → rlmF | DUF1471 domain‑containing protein McbA/23S rRNA m(6)A1618 methyltransferase |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,144,615 | C→A | P38P (CCC→CCA) | yceQ → | DUF2655 domain‑containing protein YceQ |
| MC JC | 1,299,499 | Δ1,199 bp | insH21 | insH21 | |
| RA | 1,426,070 | G→T | intergenic (+90/‑384) | ydaY → / → ynaA | Rac prophage; putative uncharacterized protein YdaY/Rac prophage; putative prophage tail length tape measure domain‑containing protein YnaA |
| 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 | 1,976,810 | G→T | F110L (TTC→TTA) | motA ← | motility protein A |
| 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 | 2,244,751 | C→A | intergenic (+5/+27) | yeiG → / ← cirA | S‑formylglutathione hydrolase/S‑lactoylglutathione hydrolase/ferric dihyroxybenzoylserine outer membrane transporter |
| RA | 2,261,926 | G→T | P147Q (CCG→CAG) | fruK ← | 1‑phosphofructokinase |
| RA | 2,316,150 | G→T | S888I (AGC→ATC) | rcsD → | RcsD phosphotransferase |
| RA | 2,382,676 | C→A | intergenic (+151/‑37) | rbn → / → elaD | ribonuclease BN/protease ElaD |
| RA | 2,436,238 | G→T | L138M (CTG→ATG) | usg ← | putative semialdehyde dehydrogenase Usg |
| RA | 2,448,272 | G→T | L57M (CTG→ATG) | prmB ← | 50S ribosomal subunit protein L3 N(5)‑glutamine methyltransferase |
| RA | 2,690,087 | G→T | H338N (CAT→AAT) | glrK ← | sensory histidine kinase GlrK |
| RA | 2,851,992 | C→A | R43R (CGC→CGA) | hypC → | hydrogenase 3 maturation protein HypC |
| RA | 2,981,635 | A→C | V183G (GTT→GGT) | araE ← | arabinose:H(+) symporter |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,420,478 | G→T | S115S (TCG→TCT) | yhdX → | putative ABC transporter membrane subunit YhdX |
| RA | 3,442,139 | A→C | G111G (GGT→GGG) | rpsM ← | 30S ribosomal subunit protein S13 |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,604,013 | C→A | Q77H (CAG→CAT) | ftsY ← | signal recognition particle receptor |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 4,100,288 | C→A | G80C (GGC→TGC) | rhaT ← | rhamnose/lyxose:H(+) symporter |
| RA | 4,171,557 | C→G | intergenic (+13/‑80) | rrlB → / → rrfB | 23S ribosomal RNA/5S ribosomal RNA |
| RA | 4,215,491 | C→A | A5E (GCA→GAA) | aceB → | malate synthase A |
| 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 | 3102960 | 3104047 | 1088 | 14 [13] | [13] 14 | [mutY] | [mutY] |
| * | * | ÷ | NC_000913 | 3423765–3424234 | 3424525–3424238 | 5–761 | 14 [12] | [13] 16 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 21 (0.340) | 58 (1.050) | 42/244 | 0.2 | 66.8% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 39 (0.700) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 21 (0.340) | 43 (0.780) | 34/244 | 0.4 | 59.9% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 39 (0.700) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 3363001 = | 90 (1.440) | 78 (1.260) | 44/274 | 0.2 | 63.3% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 1 (0.020) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 83 (1.330) | 60/276 | 0.0 | 100% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 0 (0.000) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||