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 70,289 G→T intergenic (‑241/‑98) araB ← / → araC ribulokinase/DNA‑binding transcriptional dual regulator AraC
RA 70,371 T→C intergenic (‑323/‑16) araB ← / → araC ribulokinase/DNA‑binding transcriptional dual regulator AraC
RA 70,434 C→T N16N (AAC→AAT araC → DNA‑binding transcriptional dual regulator AraC
RA 70,581 C→T V65V (GTC→GTT araC → DNA‑binding transcriptional dual regulator AraC
RA 70,740 T→G G118G (GGT→GGG araC → DNA‑binding transcriptional dual regulator AraC
RA 71,079 C→T R231R (CGC→CGT araC → DNA‑binding transcriptional dual regulator AraC
RA 71,082 T→C I232I (ATT→ATC araC → DNA‑binding transcriptional dual regulator AraC
RA 71,085 T→C S233S (AGT→AGC araC → DNA‑binding transcriptional dual regulator AraC
RA 71,109 T→C T241T (ACT→ACC araC → DNA‑binding transcriptional dual regulator AraC
RA 71,175 A→G R263R (CGA→CGG araC → DNA‑binding transcriptional dual regulator AraC
RA 71,214 T→C F276F (TTT→TTC araC → DNA‑binding transcriptional dual regulator AraC
RA 71,272 A→C intergenic (+7/‑79) araC → / → yabI DNA‑binding transcriptional dual regulator AraC/DedA family protein YabI
MC JC 257,908 Δ776 bp insB9[crl] insB9, insA9, [crl]
RA 366,290 C→T D6N (GAT→AAT)  lacZ ← beta‑galactosidase
RA 366,301 Δ1 bp coding (5/3075 nt) lacZ ← beta‑galactosidase
RA 366,521 C→T L330L (CTG→CTA lacI ← DNA‑binding transcriptional repressor LacI
MC JC 1,397,381 Δ13,756 bp [ynaJ][ttcA] 16 genes
MC JC 1,978,503 Δ776 bp insB‑5insA‑5 insB‑5, insA‑5
RA 2,173,363 Δ2 bp pseudogene (915‑916/1358 nt) gatC ← galactitol‑specific PTS enzyme IIC component
RA 2,725,806 (T)8→7 intergenic (‑60/+263) kgtP ← / ← rrfG alpha‑ketoglutarate:H(+) symporter/5S ribosomal RNA
RA 3,535,612 A→C I86S (ATC→AGC)  envZ ← sensory histidine kinase EnvZ
RA 3,560,455 +G pseudogene (151/758 nt) glpR ← DNA‑binding transcriptional repressor GlpR
RA 4,296,381 +GC intergenic (+587/+55) gltP → / ← yjcO glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ NC_000913 3423692–3424234 3424596–3424238 5–905 43 [41] [41] 45 [rrfD]–[rrlD] [rrfD],[rrlD]

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 71275119 (1.310)17605 (201.990)
+GCTC
177/188 -0.0 99.4% intergenic (+10/‑76) araC/yabI DNA‑binding transcriptional dual regulator AraC/DedA family protein YabI
?NC_000913 366286 = 96 (1.060)coding (20/3075 nt) lacZ beta‑galactosidase
* ? NC_000913 1207790 =26 (0.290)53 (0.700) 43/164 0.9 69.9% coding (290/630 nt) ycfK e14 prophage; protein StfP
?NC_000913 1209619 = 24 (0.320)pseudogene (37/537 nt) stfE e14 prophage; putative side tail fiber protein fragment
* ? NC_000913 = 120780527 (0.300)41 (0.540) 35/164 1.8 63.8% coding (305/630 nt) ycfK e14 prophage; protein StfP
?NC_000913 = 1209602 24 (0.320)pseudogene (54/537 nt) stfE e14 prophage; putative side tail fiber protein fragment
* ? NC_000913 = 12994980 (0.000)96 (1.100) 70/188 0.1 100% intergenic (+253/‑33) ychE/insH21 putative inner membrane protein/IS5 transposase and trans‑activator
?NC_000913 1300698 = 0 (0.000)intergenic (+151/‑484) insH21/oppA IS5 transposase and trans‑activator/oligopeptide ABC transporter periplasmic binding protein