mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.26.1
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 | [crl] | [crl] | |
| RA | 907,236 | G→A | G349G (GGC→GGT) | ybjT ← | putative NAD‑dependent oxidoreductase |
| RA | 1,132,064 | G→T | E71* (GAA→TAA) | flgD → | flagellar hook assembly protein |
| RA | 1,907,447 | C→A | intergenic (‑12/+1) | cspC ← / ← yobF | stress protein, member of the CspA‑family/DUF2527 family heat‑induced protein |
| JC JC | 1,979,486 | IS5 (+) +4 bp | intergenic (‑271/‑264) | insA ← / → uspC | IS1 repressor TnpA/universal stress protein |
| RA | 2,151,223 | (T)6→5 | coding (39/462 nt) | yegJ → | uncharacterized protein |
| 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 | 3,050,297 | C→T | W124* (TGG→TAG) | gcvT ← | aminomethyltransferase, tetrahydrofolate‑dependent, subunit (T protein) of glycine cleavage complex |
| 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 |
| MC JC | 3,815,859 | Δ82 bp | [rph]–[rph] | [rph], [rph] | |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,606,809 | C→A | E298* (GAG→TAG) | rsmC ← | 16S rRNA m(2)G1207 methyltransferase, SAM‑dependent |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 2469976 | 2470503 | 528 | 51 [50] | [50] 51 | [gtrS] | [gtrS] |
| * | * | ÷ | NC_000913 | 3185150 | 3185456 | 307 | 52 [50] | [50] 51 | [ygiL] | [ygiL] |
| * | * | ÷ | NC_000913 | 3252610 | 3252917 | 308 | 54 [49] | [49] 54 | [yhaH]–[yhaI] | [yhaH], [yhaI] |
| * | * | ÷ | NC_000913 | 3423764–3424234 | 3424555–3424238 | 5–792 | 51 [50] | [50] 51 | [rrfD]–[rrlD] | [rrfD], [rrlD] |
| * | * | ÷ | NC_000913 | 3804607 | 3805192 | 586 | 52 [48] | [49] 55 | [waaS]–[waaP] | [waaS], [waaP] |
| Unassigned new junction evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 17 (0.150) | 110 (1.090) | 71/274 | 0.1 | 86.5% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 19 (0.190) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 16 (0.140) | 82 (0.810) | 52/274 | 0.6 | 83.1% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 19 (0.190) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 43 (0.390) | 33/298 | 2.8 | 98.9% | intergenic (+253/‑1684) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein |
| ? | NC_000913 | 1300698 = | 1 (0.010) | intergenic (+1453/‑484) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein | |||||