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_0009134,296,0600CT36.0% 54.7 / 46.4 50intergenic (+266/+376)gltP/yjcOglutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
*NC_0009132,440,2950AT25.0% 36.1 / 12.2 24intergenic (‑175/+90)yfcJ/fabBputative arabinose efflux transporter/3‑oxoacyl‑[acyl‑carrier‑protein] synthase I
*NC_0009132,440,2960TG25.0% 37.8 / 15.4 24intergenic (‑176/+89)yfcJ/fabBputative arabinose efflux transporter/3‑oxoacyl‑[acyl‑carrier‑protein] synthase I
*NC_0009132,440,2970CA24.0% 48.5 / 12.7 25intergenic (‑177/+88)yfcJ/fabBputative arabinose efflux transporter/3‑oxoacyl‑[acyl‑carrier‑protein] synthase I
*NC_0009132,440,2980AT24.0% 38.4 / 11.9 25intergenic (‑178/+87)yfcJ/fabBputative arabinose efflux transporter/3‑oxoacyl‑[acyl‑carrier‑protein] synthase I
*NC_0009132,032,3360GC21.2% 74.8 / 17.5 33intergenic (‑19/+48)dcm/yedJDNA cytosine methyltransferase/putative HD superfamily phosphohydrolase

Marginal new junction evidence (lowest skew 10 of 70 shown)
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 417180353 (1.310)14 (0.350) 9/256 2.7 19.3% intergenic (+47/‑254) rrfB/murB 5S ribosomal RNA of rrnB operon/UDP‑N‑acetylenolpyruvoylglucosamine reductase, FAD‑binding
?NC_000913 = 4213162 65 (1.630)intergenic (+3/‑72) rrfE/yjaA 5S ribosomal RNA of rrnE operon/stress‑induced protein
* ? NC_000913 = 396770354 (1.330)8 (0.220) 8/236 2.7 13.3% intergenic (+27/‑213) rho/wecA transcription termination factor/UDP‑GlcNAc:undecaprenylphosphate GlcNAc‑1‑phosphate transferase
?NC_000913 = 3967707 55 (1.490)intergenic (+31/‑209) rho/wecA transcription termination factor/UDP‑GlcNAc:undecaprenylphosphate GlcNAc‑1‑phosphate transferase
* ? NC_000913 3423376 =51 (1.260)9 (0.230)
+TTGATGT
8/246 2.8 15.0% intergenic (+182/+47) yhdZ/rrfF putative amino acid ABC transporter ATPase/5S ribosomal RNA of rrnD operon
?NC_000913 = 4213155 57 (1.400)noncoding (116/120 nt) rrfE 5S ribosomal RNA of rrnE operon
* ? NC_000913 577253 =53 (1.310)7 (0.180) 7/244 3.1 12.3% intergenic (‑428/‑145) nmpC/essD DLP12 prophage; truncated outer membrane porin (pseudogene);IS, phage, Tn; Phage or Prophage Related; outer membrane porin protein; locus of qsr prophage/DLP12 prophage; putative phage lysis protein
?NC_000913 577275 = 50 (1.310)intergenic (‑450/‑123) nmpC/essD DLP12 prophage; truncated outer membrane porin (pseudogene);IS, phage, Tn; Phage or Prophage Related; outer membrane porin protein; locus of qsr prophage/DLP12 prophage; putative phage lysis protein
* ? NC_000913 = 352814246 (1.130)6 (0.160) 6/240 3.3 11.6% coding (1674/2136 nt) yrfF putative RcsCDB‑response attenuator, inner membrane protein
?NC_000913 = 3528152 49 (1.310)coding (1684/2136 nt) yrfF putative RcsCDB‑response attenuator, inner membrane protein
* ? NC_000913 274620 =NA (NA)6 (0.160) 6/242 3.3 NA noncoding (530/1195 nt) IS5 repeat region
?NC_000913 274663 = NA (NA)noncoding (487/1195 nt) IS5 repeat region
* ? NC_000913 1865670 =38 (0.940)5 (0.140) 5/236 3.6 11.3% intergenic (‑34/+56) yeaE/mipA aldo‑keto reductase, methylglyoxal to acetol, NADPH‑dependent/scaffolding protein for murein synthesizing machinery
?NC_000913 1865695 = 44 (1.190)intergenic (‑59/+31) yeaE/mipA aldo‑keto reductase, methylglyoxal to acetol, NADPH‑dependent/scaffolding protein for murein synthesizing machinery
* ? NC_000913 = 355869055 (1.350)5 (0.130) 5/244 3.7 8.2% coding (423/1599 nt) rtcR sigma 54‑dependent transcriptional regulator of rtcBA expression
?NC_000913 = 3558719 60 (1.570)coding (452/1599 nt) rtcR sigma 54‑dependent transcriptional regulator of rtcBA expression
* ? NC_000913 3239599 =29 (0.710)4 (0.140)
+37 bp
3/186 3.7 15.3% intergenic (+54/‑345) alx/sstT putative membrane‑bound redox modulator/sodium:serine/threonine symporter
?NC_000913 3504854 = 33 (0.810)intergenic (+71/+81) frlR/yhfS putative DNA‑binding transcriptional regulator/FNR‑regulated pyridoxal phosphate‑dependent aminotransferase family protein
* ? NC_000913 = 1428264NA (NA)11 (0.280) 5/248 3.7 100% noncoding (531/1196 nt) IS5 repeat region
?NC_000913 = 2066866 0 (0.000)noncoding (488/1195 nt) IS5 repeat region