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 | 321,564 | (G)7→6 | intergenic (+483/‑44) | rclR → / → ykgE | DNA‑binding transcriptional activator RclR/putative lactate utilization oxidoreductase YkgE |
| RA | 661,135 | C→T | G82S (GGT→AGT) | ybeF ← | putative LysR‑type DNA‑binding transcriptional regulator YbeF |
| RA | 1,097,037 | (G)7→8 | intergenic (+208/+528) | ycdU → / ← serX | uncharacterized protein YcdU/tRNA‑Ser |
| RA | 1,183,252 | A→G | G123G (GGT→GGC) | potC ← | spermidine preferential ABC transporter membrane subunit PotC |
| RA | 1,351,196 | (G)7→6 | intergenic (‑157/+211) | fabI ← / ← ycjD | enoyl‑[acyl‑carrier‑protein] reductase/DUF559 domain‑containing protein YcjD |
| RA | 1,554,784 | (T)7→6 | coding (886/1698 nt) | maeA ← | malate dehydrogenase, NAD‑requiring |
| RA | 1,617,887 | G→A | C287Y (TGC→TAC) | ydeA → | L‑arabinose exporter |
| RA | 1,714,326 | (T)9→8 | intergenic (+55/‑51) | dtpA → / → gstA | dipeptide/tripeptide:H(+) symporter DtpA/glutathione S‑transferase GstA |
| RA | 1,818,550 | (C)7→8 | intergenic (‑50/+55) | chbF ← / ← chbR | monoacetylchitobiose‑6‑phosphate hydrolase/DNA‑binding transcriptional dual regulator ChbR |
| JC JC | 1,873,031 | IS1 (–) +9 bp | coding (991‑999/1491 nt) | dgcJ → | putative diguanylate cyclase DgcJ |
| RA | 2,071,056 | T→C | pseudogene (271/426 nt) | yeeP → | CP4‑44 prophage; putative GTP‑binding protein |
| RA | 2,074,362 | (C)6→5 | coding (2824/3120 nt) | flu → | CP4‑44 prophage; self recognizing antigen 43 (Ag43) autotransporter |
| RA | 2,771,218 | T→C | V24A (GTC→GCC) | yfjT → | CP4‑57 prophage; uncharacterized protein YfjT |
| RA | 3,035,546 | T→C | T246A (ACG→GCG) | prfB ← | peptide chain release factor RF2 |
| RA | 3,279,072 | A→G | V53V (GTA→GTG) | kbaZ → | tagatose‑1,6‑bisphosphate aldolase 1 subunit KbaZ |
| RA | 3,302,617 | G→A | R43R (CGG→CGA) | yhbV → | putative peptidase YhbV |
| RA | 3,385,853 | (T)8→9 | intergenic (+52/+4) | yhcN → / ← yhcO | DUF1471 domain‑containing stress‑induced protein YhcN/putative barnase inhibitor |
| RA | 3,421,855 | (G)5→6 | coding (531/1104 nt) | yhdY → | putative ABC transporter membrane subunit YhdY |
| RA | 3,465,686 | (A)8→7 | coding (144/678 nt) | gspO → | Type II secretion system prepilin peptidase |
| RA | 3,488,684 | T→C | Y632H (TAT→CAT) | yhfK → | putative transporter YhfK |
| RA | 3,584,362 | A→G | intergenic (+53/‑42) | yrhA → / → yrhD | putative uncharacterized protein YrhA/uncharacterized protein YrhD |
| RA | 3,931,561 | (G)7→8 | coding (246/1869 nt) | kup → | K(+):H(+) symporter Kup |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,399,887 | A→G | Q212Q (CAA→CAG) | miaA → | tRNA dimethylallyltransferase |
| RA | 4,545,070 | C→T | intergenic (+41/‑26) | fimC → / → fimD | type 1 fimbriae periplasmic chaperone/type I fimbriae usher protein |
| RA | 4,549,342 | A→G | T179A (ACT→GCT) | fimH → | type 1 fimbriae D‑mannose specific adhesin |
| RA | 4,556,769 | (T)9→8 | coding (116/144 nt) | ytiD → | protein YtiD |
| RA | 4,638,793 | A→G | T206A (ACC→GCC) | creD → | putative inner membrane protein |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 361171 | 361944 | 774 | 352 [345] | [350] 355 | lacA–[lacY] | lacA,[lacY] |
| * | * | ÷ | NC_000913 | 2856966 | 2857095 | 130 | 352 [351] | [0] 557 | [mutS] | [mutS] |
| * | * | ÷ | NC_000913 | 3423681–3424607 | 3424607 | 1–927 | 353 [351] | [348] 353 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 70046 = | 533 (0.960) | 543 (1.000) | 243/274 | 0.0 | 67.6% | coding (3/1701 nt) | araB | ribulokinase |
| ? | NC_000913 | 2857096 = | 0 (0.000) | coding (4/2562 nt) | mutS | DNA mismatch repair protein MutS | |||||
| * | ? | NC_000913 | 1207790 = | 158 (0.280) | 279 (0.570) | 162/248 | 2.3 | 65.6% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 153 (0.310) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 158 (0.280) | 318 (0.650) | 191/248 | 0.4 | 68.5% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 153 (0.310) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||