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
JC JC 986,937 IS5 (+) +4 bp coding (43‑46/1089 nt) ompF ← outer membrane porin F
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 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 3423682–3424234 3424602–3424238 5–921 62 [59] [61] 62 [rrfD]–[rrlD] [rrfD],[rrlD]

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 71275136 (1.190)17664 (161.400)
+GCTC
176/188 -0.0 99.3% intergenic (+10/‑76) araC/yabI DNA‑binding transcriptional dual regulator AraC/DedA family protein YabI
?NC_000913 366286 = 120 (1.050)coding (20/3075 nt) lacZ beta‑galactosidase
* ? NC_000913 1207790 =19 (0.170)84 (0.880) 62/164 0.4 81.6% coding (290/630 nt) ycfK e14 prophage; protein StfP
?NC_000913 1209619 = 22 (0.230)pseudogene (37/537 nt) stfE e14 prophage; putative side tail fiber protein fragment
* ? NC_000913 = 120780519 (0.170)73 (0.770) 60/164 0.5 79.4% coding (305/630 nt) ycfK e14 prophage; protein StfP
?NC_000913 = 1209602 22 (0.230)pseudogene (54/537 nt) stfE e14 prophage; putative side tail fiber protein fragment
* ? NC_000913 = 12994980 (0.000)109 (1.000) 79/188 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