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 | 228,975 | T→G | noncoding (48/77 nt) | aspU → | tRNA‑Asp |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| MC | 279,931 | Δ11,471 bp | between IS1 | yagB–insA‑3 | yagB, yagA, yagE, yagF, yagG, yagH, xynR, argF, ykgS, insB‑3, insA‑3 |
| RA | 554,283 | C→G | G52A (GGC→GCC) | ppiB ← | peptidyl‑prolyl cis‑trans isomerase B |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,095,929 | C→T | G29G (GGC→GGT) | ycdU → | uncharacterized protein YcdU |
| 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 |
| MC JC | 1,362,466 | Δ19 bp | [puuR] | [puuR] | |
| RA | 1,398,849 | G→T | V226V (GTC→GTA) | fnr ← | DNA‑binding transcriptional dual regulator FNR |
| RA | 1,423,998 | T→G | F73V (TTT→GTT) | trkG → | Rac prophage; K(+) transporter TrkG |
| RA | 1,579,069 | +T | coding (274/1686 nt) | yddA ← | ABC transporter family protein YddA |
| RA | 1,584,502 | T→C | D662G (GAT→GGT) | ydeP ← | putative oxidoreductase YdeP |
| RA | 1,602,087 | C→A | L200M (CTG→ATG) | lsrA → | Autoinducer‑2 ABC transporter ATP binding subunit |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| RA | 1,788,325 | G→T | intergenic (+47/‑110) | ppsR → / → aroH | posphoenolpyruvate synthetase regulatory protein/3‑deoxy‑7‑phosphoheptulonate synthase, Trp‑sensitive |
| JC JC | 1,879,829 | Δ1 bp :: IS186 (–) +6 bp :: Δ1 bp | coding (115‑120/360 nt) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| RA | 1,911,663 | A→T | intergenic (+14/+32) | yebQ → / ← htpX | putative transporter YebQ/zinc dependent endoprotease |
| 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 | 2,337,170 | C→A | G751C (GGT→TGT) | gyrA ← | DNA gyrase subunit A |
| RA | 2,468,612 | G→T | T133T (ACG→ACT) | yfdH → | CPS‑53 (KpLE1) prophage; bactoprenol glucosyl transferase |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,513,527 | T→G | I38L (ATT→CTT) | trpS ← | tryptophan‑‑tRNA ligase |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,656,250 | C→A | A15S (GCT→TCT) | hdeB ← | periplasmic acid stress chaperone |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 4,120,807 | T→C | K314R (AAA→AGA) | hslU ← | ATPase component of the HslVU protease |
| RA | 4,154,941 | C→A | intergenic (‑94/‑60) | argE ← / → argC | acetylornithine deacetylase/N‑acetylglutamylphosphate reductase |
| 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 | 4,315,520 | G→T | R7S (CGC→AGC) | phnO ← | aminoalkylphosphonate N‑acetyltransferase |
| RA | 4,495,163 | G→A | A181T (GCC→ACC) | idnK → | D‑gluconate kinase, thermosensitive |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 1196292 | 1203725 | 7434 | 7 [4] | [4] 5 | [icd]–[ymfL] | [icd],ymfD,ymfE,lit,intE,xisE,ymfH,ymfI,ymfJ,ymfK,ymfT,[ymfL] |
| * | * | ÷ | NC_000913 | 1203735 | 1211419 | 7685 | 5 [4] | [4] 5 | [ymfL]–[icdC] | [ymfL],ymfM,oweE,ymfN,aaaE,ymfR,beeE,jayE,ymfQ,ycfK,tfaP,tfaE,stfE,pinE,mcrA,[icdC] |
| * | * | ÷ | NC_000913 | 3102970 | 3104081 | 1112 | 5 [4] | [4] 6 | mutY | mutY |
| * | * | ÷ | NC_000913 | 3423770–3424232 | 3424523–3424242 | 11–754 | 5 [2] | [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 | = 1299498 | 0 (0.000) | 43 (1.390) | 36/268 | 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 | 3363001 = | 72 (2.260) | 52 (1.650) | 32/274 | 0.1 | 58.9% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 1 (0.030) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 40 (1.260) | 36/276 | 0.0 | 90.9% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 4 (0.130) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||