breseq  version 0.33.1  revision 8505477f25b3
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 451,881 A→G intergenic (‑271/+189) cyoA ← / ← ampG cytochrome o ubiquinol oxidase subunit II/muropeptide transporter
RA 1,755,429 (T)5→4 intergenic (‑288/‑269) ydhZ ← / → pykF uncharacterized protein/pyruvate kinase I
JC JC 1,979,486 IS5 (+) +4 bp intergenic (‑271/‑264) insA ← / → uspC IS1 repressor TnpA/universal stress 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 2,533,492 A→T intergenic (+112/‑272) cysK → / → ptsH cysteine synthase A, O‑acetylserine sulfhydrolase A subunit/phosphohistidinoprotein‑hexose phosphotransferase component of PTS system (Hpr)
RA 2,628,644 A→T C99S (TGT→AGT)  yfgF ← cyclic‑di‑GMP phosphodiesterase, anaerobic
JC 2,809,897 (TTCGCCATGTGTTGTATGG)1→2 coding (281/738 nt) ygaZ → putative L‑valine exporter, norvaline resistance protein
RA 3,181,174 G→A G252S (GGC→AGC)  ygiC → ATP‑Grasp family ATPase
RA 3,400,051 T→G E346A (GAA→GCA)  mreB ← cell wall structural complex MreBCD, actin‑like component MreB
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 3,815,859 Δ82 bp [rph]–[rph] [rph], [rph]
RA 4,132,227 C→A A798E (GCG→GAG)  metL → Bifunctional aspartokinase/homoserine dehydrogenase 2
RA 4,182,881 A→T E546V (GAA→GTA)  rpoB → RNA polymerase, beta subunit
RA 4,296,381 +GC intergenic (+587/+55) gltP → / ← yjcO glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
RA 4,510,524 C→A intergenic (+391/+166) yjhV → / ← fecE pseudogene, KpLE2 phage‑like element/ferric citrate ABC transporter ATPase

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 1207790 =18 (0.100)120 (0.830) 79/164 0.4 88.5% coding (290/630 nt) stfP e14 prophage; uncharacterized protein
?NC_000913 1209619 = 16 (0.110)pseudogene (1/501 nt) stfE pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related
* ? NC_000913 = 120780519 (0.110)143 (0.990) 88/164 0.1 90.0% coding (305/630 nt) stfP e14 prophage; uncharacterized protein
?NC_000913 = 1209602 16 (0.110)pseudogene (18/501 nt) stfE pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related
* ? NC_000913 = 12994981 (0.010)223 (1.350) 111/188 0.0 99.8% intergenic (+253/‑1684) ychE/oppA UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein
?NC_000913 1300698 = 0 (0.000)intergenic (+1453/‑484) ychE/oppA UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein
* ? NC_000913 = 19785021 (0.010)185 (1.170) 101/180 0.1 99.8% intergenic (‑305/+16) flhD/insB1 flagellar class II regulon transcriptional activator, with FlhC/IS1 transposase B
?NC_000913 1979279 = 0 (0.000)intergenic (‑64/‑474) insA/uspC IS1 repressor TnpA/universal stress protein