mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| RA | 139,113 | A→G | F705L (TTC→CTC) | gcd ← | quinoprotein glucose dehydrogenase |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 470,131 | C→T | L421F (CTT→TTT) | mdlA → | ABC transporter family protein MdlA |
| RA | 557,635 | A→T | L36Q (CTG→CAG) | folD ← | bifunctional methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase |
| RA | 638,047 | C→T | W176* (TGG→TAG) | dsbG ← | protein sulfenic acid reductase and chaperone DsbG |
| JC JC | 848,208 | IS5 (–) +4 bp | intergenic (‑204/+197) | glnH ← / ← dps | L‑glutamine ABC transporter periplasmic binding protein/DNA protection during starvation protein |
| JC JC | 949,487 | IS5 (–) +4 bp | coding (79‑82/909 nt) | ycaN ← | putative DNA‑binding transcriptional regulator YcaN |
| JC JC | 1,105,376 | IS2 (–) +5 bp | intergenic (+83/‑34) | csgC → / → ymdA | curlin chaperone/uncharacterized protein YmdA |
| RA | 1,337,394 | A→G | S522G (AGC→GGC) | acnA → | aconitate hydratase 1 |
| MC JC | 1,397,239 | Δ3,340 bp | IS5‑mediated | ynaJ–[abgT] | ynaJ, uspE, fnr, ogt, [abgT] |
| RA | 1,652,331 | T→C | intergenic (+2346/+397) | ydfD → / ← ynfP | lysis protein/protein YnfP |
| RA | 1,744,309 | T→G | F285V (TTC→GTC) | mdtK → | multidrug efflux pump MdtK |
| MC JC | 1,756,291 | Δ1,288 bp | [pykF]–[lpp] | [pykF], [lpp] | |
| RA | 1,964,511 | C→A | E180Y (GAG→TAT) | flhA ← | flagellar biosynthesis protein FlhA |
| RA | 1,964,513 | C→A | E180Y (GAG→TAT) | flhA ← | flagellar biosynthesis protein FlhA |
| RA | 1,992,640 | T→G | T60P (ACC→CCC) | pgsA ← | CDP‑diacylglycerol‑‑glycerol‑3‑phosphate 3‑phosphatidyltransferase |
| RA | 2,032,423 | G→A | V219V (GTC→GTT) | yedJ ← | putative HD superfamily phosphohydrolase YedJ |
| RA | 2,173,363 | Δ2 bp | intergenic (‑490/+918) | gatD ← / ← gatB | galactitol‑1‑phosphate 5‑dehydrogenase/galactitol‑specific PTS enzyme IIB component |
| JC JC | 2,406,780 | IS1 (–) +8 bp | intergenic (‑139/‑774) | lrhA ← / → alaA | DNA‑binding transcriptional dual regulator LrhA/glutamate‑‑pyruvate aminotransferase AlaA |
| MC JC | 2,558,699 | Δ6,790 bp | intZ–[eutA] | intZ, yffL, yffM, yffN, yffO, yffP, yffQ, yffR, yffS, [eutA] | |
| RA | 2,667,862 | G→T | intergenic (‑16/+144) | hcaT ← / ← iroK | putative 3‑phenylpropionate transporter/protein IroK |
| RA | 2,867,455 | G→A | Q33* (CAG→TAG) | rpoS ← | RNA polymerase sigma factor RpoS |
| RA | 2,899,125 | C→A | V98V (GTG→GTT) | ygcU ← | putative FAD‑containing dehydrogenase |
| RA | 3,035,546 | T→A | T246S (ACG→TCG) | prfB ← | peptide chain release factor RF2 |
| RA | 3,486,205 | C→A | T29K (ACG→AAG) | crp → | DNA‑binding transcriptional dual regulator CRP |
| RA | 3,560,455 | +G | intergenic (+589/+167) | rtcR → / ← glpG | DNA‑binding transcriptional activator RtcR/rhomboid protease GlpG |
| MC JC | 3,625,589 | Δ95,041 bp | yhhJ–hokA | 83 genes yhhJ, rbbA, yhiI, yhiY, yhiJ, yhiM, yhiN, pitA, uspB, uspA, yriA, yriB, dtpB, rsmJ, prlC, rlmJ, gor, dinQ, agrA, agrB, arsR, arsB, arsC, yhiS, insH11, yhiS, slp, dctR, yhiD, hdeB, hdeA, hdeD, arrS, gadE, gadF, mdtE, mdtF, gadW, gadY, gadX, gadA, ccp, treF, yhjB, rcdB, yhjD, yhjE, yhjG, pdeH, kdgK, yhjJ, dctA, pdeK, bcsC, bcsZ, bcsB, bcsA, yhjR, bcsE, bcsF, bcsG, ldrD, rdlD, yhjV, dppF, dppD, dppC, dppB, dppA, proK, eptB, yhjX, yhjY, tag, yiaC, bisC, yiaD, ghrB, yiaF, yiaG, cspA, ysaE, hokA |
|
| RA | 4,218,219 | C→T | Q371* (CAG→TAG) | aceA → | isocitrate lyase |
| MC JC | 4,284,307 | Δ33 bp | coding (564‑596/1650 nt) | actP ← | acetate/glycolate:cation symporter |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,549,066 | G→T | G87C (GGC→TGC) | fimH → | type 1 fimbriae D‑mannose specific adhesin |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 1978495 | 1979270–1978503 | 9–776 | 90 [0] | [0] 129 | insB5–insA5 | insB5,insA5 |
| * | * | ÷ | NC_000913 | 3423812–3424234 | 3424465–3424238 | 5–654 | 38 [36] | [36] 37 | [rrlD] | [rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 68 (0.650) | 53 (0.530) | 41/556 | 1.0 | 45.4% | coding (290/630 nt) | ycfK | protein StfP |
| ? | NC_000913 | 1209619 = | 63 (0.640) | intergenic (‑500/‑66) | tfaE/pinE | putative tail fiber assembly protein TfaE/site‑specific DNA recombinase | |||||
| * | ? | NC_000913 | = 1207805 | 66 (0.630) | 35 (0.350) | 25/556 | 2.7 | 35.8% | coding (305/630 nt) | ycfK | protein StfP |
| ? | NC_000913 | = 1209602 | 63 (0.640) | intergenic (‑483/‑83) | tfaE/pinE | putative tail fiber assembly protein TfaE/site‑specific DNA recombinase | |||||
| * | ? | NC_000913 | = 1397238 | NA (NA) | 90 (0.860) | 60/588 | 0.3 | 100% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 1978494 | 0 (0.000) | intergenic (‑297/+24) | flhD/insB5 | DNA‑binding transcriptional dual regulator FlhD/IS1 family protein InsB | |||||
| * | ? | NC_000913 | 1979271 = | 0 (0.000) | 129 (1.230) | 66/588 | 0.2 | 100% | intergenic (‑56/‑482) | insA5/uspC | IS1 family protein InsA/universal stress protein C |
| ? | NC_000913 | = 2102947 | NA (NA) | pseudogene (443/446 nt) | wbbL | interrupted rhamnosyltransferase WbbL | |||||