breseq version 0.29.0 revision 8f9c342918e4
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] | |
MC JC | 1,198,498 | (AATGATGA)6→5 | intergenic (‑261/‑190) | ymfE ← / → lit | e14 prophage; putative inner membrane protein/T4 phage exclusion protein; cell death peptidase, e14 prophage |
MC JC | 1,299,499 | Δ1,199 bp | intergenic (+254/‑485) | ychE → / → oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein |
RA | 1,356,297 | A→T | W272R (TGG→AGG) | sapA ← | antimicrobial peptide transport ABC transporter periplasmic binding protein |
MC JC | 1,978,503 | Δ776 bp | insB1–insA | insB1, insA | |
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 |
JC JC | 2,290,201 | IS5 (–) +4 bp | intergenic (‑21/‑296) | yejO ← / → narP | pseudogene, autotransporter outer membrane homology;putative transport; Not classified; putative ATP‑binding component of a transport system/response regulator in two‑component regulatory system with NarQ |
RA | 3,400,673 | A→C | F139V (TTC→GTC) | mreB ← | cell wall structural complex MreBCD, actin‑like component MreB |
RA | 3,440,923 | C→T | G36D (GGC→GAC) | 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 |
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 | 1209603 | 1209618 | 16 | 29 [0] | [0] 46 | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related |
* | * | ÷ | NC_000913 | 3423760–3424233 | 3424564–3424238 | 6–805 | 21 [19] | [20] 21 | [rrfD]–[rrlD] | [rrfD], [rrlD] |
Unassigned new junction evidence | |||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|
seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
* | ? | NC_000913 | 1207790 = | 0 (0.000) | 38 (0.860) | 33/266 | 0.6 | 100% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
? | NC_000913 | 1209619 = | 0 (0.000) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
* | ? | NC_000913 | = 1207805 | 0 (0.000) | 24 (0.540) | 23/266 | 1.6 | 100% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
? | NC_000913 | = 1209602 | 0 (0.000) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related |