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_0009133,180,5060AC28.6% 24.8 / 12.0 21E29A (GAG→GCG) ygiCATP‑Grasp family ATPase
*NC_000913448,5810AC23.3% 52.6 / 14.4 30F27C (TTC→TGC) ‡cyoCcytochrome o ubiquinol oxidase subunit III
*NC_000913448,5820AG23.3% 51.6 / 12.9 30F27L (TTC→CTC) ‡cyoCcytochrome o ubiquinol oxidase subunit III
*NC_0009132,753,9860AT23.1% 97.0 / 27.1 52intergenic (+40/+22)bamE/ratBlipoprotein component of BamABCDE OM biogenesis complex/UPF0125 family protein
*NC_000913448,5790CT22.6% 56.8 / 13.4 31G28R (GGA→AGA) cyoCcytochrome o ubiquinol oxidase subunit III
*NC_000913448,5800GT22.6% 65.2 / 13.5 31F27L (TTC→TTA) ‡cyoCcytochrome o ubiquinol oxidase subunit III
*NC_0009133,056,1230AC22.6% 50.8 / 16.0 31noncoding (141/183 nt)ssrS6S RNA inhibits RNA polymerase promoter binding
*NC_0009133,056,1240AT22.6% 54.2 / 14.5 31noncoding (142/183 nt)ssrS6S RNA inhibits RNA polymerase promoter binding
*NC_0009133,056,1250GT22.6% 71.0 / 13.6 31noncoding (143/183 nt)ssrS6S RNA inhibits RNA polymerase promoter binding
*NC_0009134,415,5230GC22.2% 59.0 / 11.9 27E417Q (GAG→CAG) aidBDNA alkylation damage repair protein; flavin‑containing DNA binding protein, weak isovaleryl CoA dehydrogenase
*NC_0009134,415,5260AC22.2% 50.6 / 14.0 27M418L (ATG→CTG) ‡aidBDNA alkylation damage repair protein; flavin‑containing DNA binding protein, weak isovaleryl CoA dehydrogenase
*NC_000913884,4070CG21.7% 49.3 / 10.7 23I245M (ATC→ATGmdfAmultidrug efflux system protein
*NC_000913884,4100CG21.7% 45.9 / 10.9 23I246M (ATC→ATGmdfAmultidrug efflux system protein
*NC_0009134,415,5280GC21.4% 62.2 / 12.0 28M418I (ATG→ATC) ‡aidBDNA alkylation damage repair protein; flavin‑containing DNA binding protein, weak isovaleryl CoA dehydrogenase
*NC_0009133,183,3451.T21.1% 91.4 / 33.6 38intergenic (+22/+468)zupT/ribBzinc transporter/3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase
*NC_0009133,269,9690AC20.8% 48.3 / 11.6 25intergenic (+367/+247)yhaC/rnpBpentapetide repeats‑related protein/RNase P, M1 RNA component
*NC_0009134,296,0600CT20.0% 81.1 / 15.0 40intergenic (+266/+376)gltP/yjcOglutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein

Marginal new junction evidence (lowest skew 10 of 67 shown)
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 3185973 =60 (1.670)5 (0.150) 5/238 3.2 8.3% intergenic (+8/‑88) ygiL/yqiG putative fimbrial‑like adhesin protein/pseudogene; fimbrial export usher family;putative membrane; Not classified; putative membrane protein
?NC_000913 3185993 = 54 (1.600)intergenic (+28/‑68) ygiL/yqiG putative fimbrial‑like adhesin protein/pseudogene; fimbrial export usher family;putative membrane; Not classified; putative membrane protein
* ? NC_000913 2304390 =NA (NA)5 (0.140) 5/254 3.3 29.4% coding (486/489 nt) eco ecotin, a serine protease inhibitor
?NC_000913 2304923 = 12 (0.330)noncoding (507/655 nt) REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences
* ? NC_000913 2304390 =NA (NA)5 (0.140) 5/254 3.3 45.5% coding (486/489 nt) eco ecotin, a serine protease inhibitor
?NC_000913 2304697 = 6 (0.170)noncoding (281/655 nt) REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences
* ? NC_000913 2304390 =NA (NA)5 (0.140) 5/254 3.3 NA coding (486/489 nt) eco ecotin, a serine protease inhibitor
?NC_000913 2304584 = NA (NA)noncoding (168/655 nt) REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences
* ? NC_000913 2304390 =NA (NA)5 (0.140) 5/254 3.3 17.2% coding (486/489 nt) eco ecotin, a serine protease inhibitor
?NC_000913 2304471 = 24 (0.670)noncoding (55/655 nt) REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences
* ? NC_000913 740953 =NA (NA)4 (0.120)
+AGAAGCTATAAG
4/230 3.4 NA intergenic (+28/+122) phr/dtpD deoxyribodipyrimidine photolyase, FAD‑binding/dipeptide and tripeptide permease D
?NC_000913 3877544 = NA (NA)intergenic (‑79/+161) yidB/gyrB DUF937 family protein/DNA gyrase, subunit B
* ? NC_000913 = 5670NA (NA)4 (0.120)
+AGAAGCTATAAG
4/230 3.4 NA intergenic (+140/+13) yaaX/yaaA DUF2502 family putative periplasmic protein/peroxide resistance protein, lowers intracellular iron
?NC_000913 3877544 = NA (NA)intergenic (‑79/+161) yidB/gyrB DUF937 family protein/DNA gyrase, subunit B
* ? NC_000913 = 430313136 (1.000)4 (0.120) 4/240 3.5 10.7% coding (979/1032 nt) mdtN membrane fusion protein of efflux pump
?NC_000913 = 4303157 33 (0.970)coding (953/1032 nt) mdtN membrane fusion protein of efflux pump
* ? NC_000913 3521815 =34 (0.940)4 (0.120) 4/236 3.5 11.0% coding (158/540 nt) hofN DNA catabolic putative fimbrial assembly protein
?NC_000913 3521857 = 33 (0.990)coding (116/540 nt) hofN DNA catabolic putative fimbrial assembly protein
* ? NC_000913 = 326218837 (1.030)4 (0.120) 4/236 3.5 10.6% coding (231/2295 nt) tdcE pyruvate formate‑lyase 4/2‑ketobutyrate formate‑lyase
?NC_000913 = 3262210 33 (0.990)coding (209/2295 nt) tdcE pyruvate formate‑lyase 4/2‑ketobutyrate formate‑lyase