breseq  version 0.35.4  revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Marginal read alignment evidence
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,296,0600CT35.2% 93.0 / 88.6 94intergenic (+266/+376)gltP/yjcOglutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
*NC_000913380,0130G.23.5% 79.9 / 25.5 36intergenic (‑132/+56)frmR/yaiOregulator protein that represses frmRAB operon/outer membrane protein

Marginal new junction evidence (lowest skew 10 of 75 shown)
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 4542690132 (1.240)16 (0.160) 16/268 7.5 11.5% intergenic (+57/‑425) fimE/fimA tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
?NC_000913 = 4542986 123 (1.230)intergenic (+353/‑129) fimE/fimA tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
* ? NC_000913 = 349969NA (NA)4 (0.060)
+59 bp
4/168 9.5 NA noncoding (365/365 nt) REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences
?NC_000913 = 349972 NA (NA)intergenic (+400/‑40) prpB/prpC 2‑methylisocitrate lyase/2‑methylcitrate synthase
* ? NC_000913 = 34987693 (0.870)4 (0.060)
+59 bp
4/168 9.5 6.9% noncoding (272/365 nt) REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences
?NC_000913 = 349972 NA (NA)intergenic (+400/‑40) prpB/prpC 2‑methylisocitrate lyase/2‑methylcitrate synthase
* ? NC_000913 = 34978358 (0.540)4 (0.060)
+59 bp
4/168 9.5 10.5% noncoding (179/365 nt) REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences
?NC_000913 = 349972 NA (NA)intergenic (+400/‑40) prpB/prpC 2‑methylisocitrate lyase/2‑methylcitrate synthase
* ? NC_000913 4542682 =131 (1.230)9 (0.090) 9/268 10.3 6.7% intergenic (+49/‑433) fimE/fimA tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
?NC_000913 4542996 = 126 (1.260)intergenic (+363/‑119) fimE/fimA tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
* ? NC_000913 = 1015911129 (1.210)6 (0.060) 6/262 11.7 4.9% intergenic (+29/+41) rmf/fabA ribosome modulation factor/beta‑hydroxydecanoyl thioester dehydrase
?NC_000913 = 1015912 116 (1.190)intergenic (+30/+40) rmf/fabA ribosome modulation factor/beta‑hydroxydecanoyl thioester dehydrase
* ? NC_000913 = 128708441 (0.390)8 (0.090) 5/246 11.8 11.4% noncoding (153/171 nt) rttR rtT sRNA, processed from tyrT transcript
?NC_000913 1287557 = 89 (0.970)noncoding (66/85 nt) tyrT tRNA‑Tyr
* ? NC_000913 = 4343292113 (1.060)5 (0.050) 5/270 12.6 4.5% intergenic (+26/‑77) melA/melB alpha‑galactosidase, NAD(P)‑binding/melibiose:sodium symporter
?NC_000913 = 4343302 105 (1.040)intergenic (+36/‑67) melA/melB alpha‑galactosidase, NAD(P)‑binding/melibiose:sodium symporter
* ? NC_000913 1757141 =123 (1.160)6 (0.060) 5/270 12.6 5.0% intergenic (+31/‑280) pykF/lpp pyruvate kinase I/murein lipoprotein
?NC_000913 1757161 = 110 (1.090)intergenic (+51/‑260) pykF/lpp pyruvate kinase I/murein lipoprotein
* ? NC_000913 = 4027503113 (1.060)4 (0.040)
+CTACGGTTCGGACTATT
4/252 12.7 3.9% noncoding (182/281 nt) REP291 (repetitive extragenic palindromic) element; contains 6 REP sequences REP291 (repetitive extragenic palindromic) element; contains 6 REP sequences
?NC_000913 = 4027554 NA (NA)noncoding (233/281 nt) REP291 (repetitive extragenic palindromic) element; contains 6 REP sequences REP291 (repetitive extragenic palindromic) element; contains 6 REP sequences