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_0009134,392,5060CG29.4% 17.4 / 11.7 18noncoding (35/76 nt)glyXtRNA‑Gly
*NC_0009134,296,0600CT28.6% 68.7 / 29.0 42intergenic (+266/+376)gltP/yjcOglutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
*NC_0009131,330,4020A.24.2% 83.5 / 24.3 34intergenic (+21/+15)sohB/yciNinner membrane protein, S49 peptidase family protein/DUF2498 protein YciN
*NC_0009131,330,3990AT23.5% 62.2 / 18.0 34intergenic (+18/+18)sohB/yciNinner membrane protein, S49 peptidase family protein/DUF2498 protein YciN
*NC_0009131,795,2280GC23.5% 68.7 / 22.4 36intergenic (‑76/+25)btuC/ihfAvitamin B12 ABC transporter permease/integration host factor (IHF), DNA‑binding protein, alpha subunit
*NC_000913654,5600AC23.1% 42.4 / 14.8 26intergenic (+18/+23)citB/dcuCresponse regulator in two‑component regulatory system with CitA/anaerobic C4‑dicarboxylate transport
*NC_0009131,330,3961.T22.2% 83.3 / 32.9 36intergenic (+15/+21)sohB/yciNinner membrane protein, S49 peptidase family protein/DUF2498 protein YciN
*NC_0009131,795,2270AT22.2% 70.9 / 11.2 36intergenic (‑75/+26)btuC/ihfAvitamin B12 ABC transporter permease/integration host factor (IHF), DNA‑binding protein, alpha subunit
*NC_0009131,795,2290AT22.2% 56.7 / 16.1 36intergenic (‑77/+24)btuC/ihfAvitamin B12 ABC transporter permease/integration host factor (IHF), DNA‑binding protein, alpha subunit
*NC_0009132,462,8810C.22.2% 34.9 / 10.1 18intergenic (+235/‑131)fadL/yfdFlong‑chain fatty acid outer membrane transporter/uncharacterized protein
*NC_0009131,620,2240CG20.8% 49.5 / 10.0 24intergenic (+17/+14)marB/eamAperiplasmic mar operon regulator/cysteine and O‑acetyl‑L‑serine efflux system
*NC_0009131,620,2270CG20.8% 52.9 / 10.9 24intergenic (+20/+11)marB/eamAperiplasmic mar operon regulator/cysteine and O‑acetyl‑L‑serine efflux system
*NC_0009132,521,3440CT20.0% 97.3 / 17.5 45intergenic (+16/+249)lysV/xapRtRNA‑Lys/transcriptional activator of xapAB

Marginal new junction evidence (lowest skew 10 of 59 shown)
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 1570598 =49 (1.240)6 (0.170)
+CCGTTACCGTTAAAC
6/232 3.6 13.1% intergenic (‑109/+47) gadC/gadB glutamate:gamma‑aminobutyric acid antiporter/glutamate decarboxylase B, PLP‑dependent
?NC_000913 3666176 = 41 (1.040)intergenic (‑366/+4) gadX/gadA acid resistance regulon transcriptional activator; autoactivator/glutamate decarboxylase A, PLP‑dependent
* ? NC_000913 = 120780527 (0.680)7 (0.200) 6/230 3.6 21.6% coding (305/630 nt) stfP e14 prophage; uncharacterized protein
?NC_000913 = 1209602 27 (0.780)pseudogene (18/501 nt) stfE pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related
* ? NC_000913 4474083 =61 (1.550)6 (0.170) 6/240 3.7 10.0% intergenic (‑30/‑41) bdcA/bdcR c‑di‑GMP‑binding biofilm dispersal mediator protein/transcriptional repressor for divergent bdcA
?NC_000913 4474127 = 52 (1.440)coding (4/594 nt) bdcR transcriptional repressor for divergent bdcA
* ? NC_000913 = 2539674NA (NA)7 (0.190) 6/248 3.8 NA intergenic (‑91/+43) cysM/cysA cysteine synthase B (O‑acetylserine sulfhydrolase B)/sulfate/thiosulfate transporter subunit
?NC_000913 = 2539688 NA (NA)intergenic (‑105/+29) cysM/cysA cysteine synthase B (O‑acetylserine sulfhydrolase B)/sulfate/thiosulfate transporter subunit
* ? NC_000913 = 230501530 (0.760)5 (0.170)
+33 bp
4/196 3.8 18.3% noncoding (599/655 nt) REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences
?NC_000913 = 2305065 NA (NA)noncoding (649/655 nt) REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences
* ? NC_000913 1784702 =48 (1.220)5 (0.130) 5/246 4.2 9.9% intergenic (+25/+32) fadK/ppsA short chain acyl‑CoA synthetase, anaerobic/phosphoenolpyruvate synthase
?NC_000913 1784727 = 46 (1.240)intergenic (+50/+7) fadK/ppsA short chain acyl‑CoA synthetase, anaerobic/phosphoenolpyruvate synthase
* ? NC_000913 = 1428264NA (NA)18 (0.480) 5/250 4.2 95.0% noncoding (531/1196 nt) IS5 repeat region
?NC_000913 = 2066866 1 (0.030)noncoding (488/1195 nt) IS5 repeat region
* ? NC_000913 1396531 =NA (NA)18 (0.480) 5/250 4.2 NA noncoding (488/1195 nt) IS5 repeat region
?NC_000913 = 1428264 NA (NA)noncoding (531/1196 nt) IS5 repeat region
* ? NC_000913 4502147 =32 (0.810)4 (0.110) 4/248 4.6 13.1% noncoding (1369/1426 nt) IS4 repeat region
?NC_000913 4502181 = 23 (0.620)noncoding (1335/1426 nt) IS4 repeat region
* ? NC_000913 = 444080139 (0.990)4 (0.110) 4/246 4.6 10.7% coding (415/1344 nt) ytfL UPF0053 family inner membrane protein
?NC_000913 = 4440841 30 (0.810)coding (375/1344 nt) ytfL UPF0053 family inner membrane protein