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_0009134,296,0600CT31.9% 63.7 / 36.8 47intergenic (+266/+376)gltP/yjcOglutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
*NC_0009131,344,0330AG24.0% 41.0 / 10.9 25L105P (CTG→CCG) yciTglobal regulator of transcription; DeoR family
*NC_0009131,344,0360GC24.0% 46.9 / 15.1 25T104S (ACT→AGT) yciTglobal regulator of transcription; DeoR family
*NC_0009131,344,0390CT24.0% 41.9 / 10.7 25R103Q (CGG→CAG) yciTglobal regulator of transcription; DeoR family
*NC_0009132,462,8810C.22.2% 62.7 / 17.3 27intergenic (+235/‑131)fadL/yfdFlong‑chain fatty acid outer membrane transporter/uncharacterized protein
*NC_000913922,3141.C20.8% 55.5 / 21.2 24intergenic (+21/+52)macB/cspDmacrolide ABC transporter peremase/ATPase/inhibitor of DNA replication, cold shock protein homolog
*NC_000913420,9450AC20.5% 81.1 / 18.6 39intergenic (+35/‑41)brnQ/proYbranched‑chain amino acid transport system 2 carrier protein; LIV‑II transport system for Ile, Leu, and Val/proline‑specific permease
*NC_000913420,9460TA20.5% 83.8 / 14.7 39intergenic (+36/‑40)brnQ/proYbranched‑chain amino acid transport system 2 carrier protein; LIV‑II transport system for Ile, Leu, and Val/proline‑specific permease
*NC_000913420,9410TA20.0% 82.9 / 14.4 40intergenic (+31/‑45)brnQ/proYbranched‑chain amino acid transport system 2 carrier protein; LIV‑II transport system for Ile, Leu, and Val/proline‑specific permease

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 = 342355458 (1.490)9 (0.230) 7/254 3.6 13.5% intergenic (‑12/+26) rrfF/thrV 5S ribosomal RNA of rrnD operon/tRNA‑Thr
?NC_000913 4171603 = NA (NA)intergenic (+59/‑34) rrlB/rrfB 23S ribosomal RNA of rrnB operon/5S ribosomal RNA of rrnB operon
* ? NC_000913 = 342355458 (1.490)9 (0.230) 7/254 3.6 21.3% intergenic (‑12/+26) rrfF/thrV 5S ribosomal RNA of rrnD operon/tRNA‑Thr
?NC_000913 4040483 = 9 (0.230)intergenic (+60/‑34) rrlA/rrfA 23S ribosomal RNA of rrnA operon/5S ribosomal RNA of rrnA operon
* ? NC_000913 = 342355458 (1.490)9 (0.230) 7/254 3.6 13.5% intergenic (‑12/+26) rrfF/thrV 5S ribosomal RNA of rrnD operon/tRNA‑Thr
?NC_000913 = 3423821 NA (NA)intergenic (‑34/+59) rrfD/rrlD 5S ribosomal RNA of rrnD operon/23S ribosomal RNA of rrnD operon
* ? NC_000913 274620 =NA (NA)9 (0.250) 6/238 3.7 NA noncoding (530/1195 nt) IS5 repeat region
?NC_000913 274663 = NA (NA)noncoding (487/1195 nt) IS5 repeat region
* ? NC_000913 4037399 =NA (NA)8 (0.210) 6/252 3.9 73.0% intergenic (+64/‑120) alaT/rrlA tRNA‑Ala/23S ribosomal RNA of rrnA operon
?NC_000913 4209883 = 3 (0.080)intergenic (+34/‑160) gltV/rrlE tRNA‑Glu/23S ribosomal RNA of rrnE operon
* ? NC_000913 4037399 =NA (NA)8 (0.210) 6/252 3.9 12.7% intergenic (+64/‑120) alaT/rrlA tRNA‑Ala/23S ribosomal RNA of rrnA operon
?NC_000913 4168481 = 56 (1.440)intergenic (+34/‑160) gltT/rrlB tRNA‑Glu/23S ribosomal RNA of rrnB operon
* ? NC_000913 3943544 =2 (0.050)8 (0.210) 6/252 3.9 80.2% intergenic (+34/‑160) gltU/rrlC tRNA‑Glu/23S ribosomal RNA of rrnC operon
?NC_000913 4037399 = NA (NA)intergenic (+64/‑120) alaT/rrlA tRNA‑Ala/23S ribosomal RNA of rrnA operon
* ? NC_000913 = 243289638 (0.980)6 (0.160) 6/246 3.9 13.6% coding (47/1269 nt) folC bifunctional folylpolyglutamate synthase/ dihydrofolate synthase
?NC_000913 = 2432915 40 (1.070)coding (28/1269 nt) folC bifunctional folylpolyglutamate synthase/ dihydrofolate synthase
* ? NC_000913 1552011 =26 (0.670)4 (0.130)
+26 bp
4/204 4.0 16.2% intergenic (+20/+387) fdnI/yddM formate dehydrogenase‑N, cytochrome B556 (gamma) subunit, nitrate‑inducible/putative DNA‑binding transcriptional regulator
?NC_000913 2673774 = NA (NA)intergenic (+6/+42) yphA/yphB DoxX family inner membrane protein/mutarotase superfamily protein, YphB family
* ? NC_000913 = 309109730 (0.770)5 (0.140) 5/238 4.1 15.9% intergenic (+43/‑37) endA/rsmE DNA‑specific endonuclease I/16S rRNA m(3)U1498 methyltransferase, SAM‑dependent
?NC_000913 = 3091103 25 (0.690)intergenic (+49/‑31) endA/rsmE DNA‑specific endonuclease I/16S rRNA m(3)U1498 methyltransferase, SAM‑dependent