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] | |
| JC JC | 570,591 | IS5 (+) +4 bp | intergenic (+163/‑299) | ybcK → / → ybcL | DLP12 prophage; putative recombinase/DLP12 prophage; periplasmic protein YbcL |
| RA | 670,604 | T→G | K334N (AAA→AAC) | holA ← | DNA polymerase III subunit delta |
| RA | 781,291 | +A | intergenic (+69/‑78) | lysY → / → lysZ | tRNA‑Lys/tRNA‑Lys |
| 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 |
| 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 | 2,280,436 | A→C | A16A (GCT→GCG) | rsuA ← | 16S rRNA pseudouridine(516) synthase |
| RA | 2,731,550 | T→C | intergenic (‑393/+50) | rrsG ← / ← clpB | 16S ribosomal RNA/ClpB chaperone |
| 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 |
| JC JC | 3,727,211 | IS5 (–) +4 bp | coding (148‑151/438 nt) | yiaA ← | conserved inner membrane protein YiaA |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,435,778 | G→A | P263L (CCA→CTA) | cpdB ← | 2'3' cyclic nucleotide phosphodiesterase/3' nucleotidase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 781292 | 781536 | 245 | 42 [38] | [39] 40 | lysZ | lysZ |
| * | * | ÷ | NC_000913 | 1196245 | 1211436 | 15192 | 45 [35] | [38] 40 | [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 | 2066301–2066464 | 2066637–2066466 | 3–337 | 41 [38] | [37] 40 | [insH‑6] | [insH‑6] |
| * | * | ÷ | NC_000913 | 3423760–3424233 | 3424528–3424238 | 6–769 | 41 [39] | [36] 40 | [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) | 177 (1.260) | 87/266 | 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 = | 221 (1.530) | 259 (1.800) | 83/272 | 0.2 | 70.2% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 0 (0.000) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 131 (0.900) | 68/274 | 0.5 | 94.2% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 8 (0.060) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||