mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.27.1 revision 87c22d663cc3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| RA | 195,561 | T→G | L220R (CTC→CGC) | ispU → | undecaprenyl pyrophosphate synthase |
| MC JC | 257,908 | Δ776 bp | [crl] | [crl] | |
| RA | 668,742 | C→G | E99Q (GAA→CAA) | rsfS ← | ribosomal silencing factor |
| JC | 1,675,679 | (AGCCGC)2→3 | coding (682/1389 nt) | pntB ← | pyridine nucleotide transhydrogenase, beta subunit |
| RA | 2,173,363 | Δ2 bp | intergenic (‑1/+1) | gatC ← / ← gatC | pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC/pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC |
| RA | 2,513,351 | C→A | L104M (CTG→ATG) | nupC → | nucleoside (except guanosine) transporter |
| JC JC | 2,536,312 | Δ1 bp :: IS186 (–) +6 bp :: Δ1 bp | coding (479‑484/510 nt) | crr → | glucose‑specific enzyme IIA component of PTS |
| RA | 3,440,225 | A→G | C269R (TGC→CGC) | rpoA ← | RNA polymerase, alpha subunit |
| RA | 3,560,455 | +G | intergenic (‑2/+1) | glpR ← / ← glpR | pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon/pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon |
| JC | 4,016,106 | (GGGTCTG)1→2 | coding (64/816 nt) | ysgA ← | putative carboxymethylenebutenolidase |
| MC JC | 4,233,804 | 1557 bp→83 bp | coding (47‑1603/1650 nt) | pgi → | glucosephosphate isomerase |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 1978319 | 1979743 | 1425 | 65 [59] | [60] 62 | insB1–insA | insB1, insA |
| * | * | ÷ | NC_000913 | 2468994 | 2470731 | 1738 | 61 [59] | [59] 72 | [gtrB]–gtrS | [gtrB], gtrS |
| * | * | ÷ | NC_000913 | 3423783–3424539 | 3424539 | 1–757 | 61 [60] | [60] 61 | [rrfD]–[rrlD] | [rrfD], [rrlD] |
| * | * | ÷ | NC_000913 | 3769394 | 3770253 | 860 | 64 [55] | [58] 61 | [yibV]–[yibH] | [yibV], yibV, yibU, yibU, [yibH] |
| * | * | ÷ | NC_000913 | 3796848 | 3800363 | 3516 | 61 [60] | [60] 62 | [waaC]–[waaY] | [waaC], waaL, waaU, waaZ, [waaY] |
| * | * | ÷ | NC_000913 | 3804080 | 3805242 | 1163 | 61 [60] | [57] 63 | [waaB]–[waaP] | [waaB], waaS, [waaP] |
| * | * | ÷ | NC_000913 | 4475703 | 4477235 | 1533 | 61 [57] | [55] 61 | yjgL | SopA‑central‑domain‑like hexapeptide repeat protein |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 5 (0.040) | 102 (0.880) | 66/468 | 0.4 | 95.5% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 5 (0.040) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 5 (0.040) | 125 (1.080) | 74/468 | 0.2 | 96.3% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 5 (0.040) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||