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 | 315,158 | C→A | pseudogene (802/888 nt) | eaeH → | putative porin domain‑containing protein EaeH |
| RA | 416,770 | C→A | T61T (ACG→ACT) | sbcD ← | ATP dependent, structure specific DNA nuclease ‑ SbcD subunit |
| RA | 437,162 | T→G | *325S (TAA→TCA) | yajO ← | 1‑deoxyxylulose‑5‑phosphate synthase YajO |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,058,863 | C→A | L260L (CTC→CTA) | torC → | cytochrome c menaquinol dehydrogenase TorC |
| RA | 1,201,284 | T→A | T33S (ACC→TCC) | ymfH ← | e14 prophage; protein YmfH |
| RA | 1,354,821 | G→T | A217E (GCG→GAG) | sapB ← | putrescine ABC exporter membrane subunit SapB |
| RA | 1,581,168 | G→T | P453T (CCA→ACA) | ydeN ← | putative sulfatase |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| RA | 1,800,810 | C→A | L587F (TTG→TTT) | thrS ← | threonine‑‑tRNA ligase |
| 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 | 2,029,333 | G→T | L12I (CTC→ATC) | yedI ← | conserved inner membrane protein YedI |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,324,606 | G→T | M166I (ATG→ATT) | atoA → | acetyl‑CoA:acetoacetyl‑CoA transferase subunit beta |
| RA | 2,573,300 | T→G | D69A (GAT→GCT) | eutD ← | phosphate acetyltransferase EutD |
| RA | 2,986,824 | G→T | K326N (AAG→AAT) | yqeG → | putative transporter YqeG |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,453,155 | G→T | P39Q (CCG→CAG) | rpsJ ← | 30S ribosomal subunit protein S10 |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,653,361 | C→A | pseudogene (126/478 nt) | yhiS → | putative uncharacterized protein YhiS |
| RA | 3,804,229 | A→G | S296S (AGT→AGC) | waaS ← | lipopolysaccharide core biosynthesis protein |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 4,196,475 | C→A | E112* (GAA→TAA) | rsd ← | regulator of sigma 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 |
| RA | 4,530,005 | C→A | G80V (GGC→GTC) | sgcC ← | putative PTS enzyme IIC component SgcC |
| RA | 4,547,373 | C→A | L760M (CTG→ATG) | fimD → | type I fimbriae usher protein |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 2518081 | 2518194 | 114 | 23 [22] | [22] 25 | [alaX]–[alaW] | [alaX],[alaW] |
| * | * | ÷ | NC_000913 | 3102960 | 3104078 | 1119 | 23 [22] | [22] 24 | mutY | mutY |
| * | * | ÷ | NC_000913 | 3423770–3424234 | 3424527–3424239 | 6–758 | 24 [18] | [22] 23 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 81 (1.040) | 22 (0.320) | 17/246 | 2.6 | 24.0% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 68 (0.990) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 81 (1.040) | 21 (0.310) | 19/246 | 2.3 | 23.1% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 68 (0.990) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 82 (1.080) | 57/270 | 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 = | 92 (1.180) | 108 (1.400) | 64/276 | 0.1 | 70.3% | 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) | 87 (1.120) | 59/278 | 0.1 | 96.7% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 3 (0.040) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||