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_0009131,629,4350GA25.0% 62.6 / 18.0 36intergenic (+17/+18)ydfZ/ydfIselenoprotein, function unknown/putative NAD‑dependent D‑mannonate oxidoreductase
*NC_0009132,028,1580GC24.1% 54.2 / 17.5 29intergenic (‑141/+30)yedQ/yodCputative membrane‑anchored diguanylate cyclase/uncharacterized protein
*NC_0009132,028,1590TA24.1% 43.2 / 15.0 29intergenic (‑142/+29)yedQ/yodCputative membrane‑anchored diguanylate cyclase/uncharacterized protein
*NC_0009132,028,1600GC24.1% 53.6 / 16.5 29intergenic (‑143/+28)yedQ/yodCputative membrane‑anchored diguanylate cyclase/uncharacterized protein
*NC_0009133,059,7030AT23.8% 79.2 / 23.6 42intergenic (‑2/‑50)yqfE/argPpseudogene, LysR family/transcriptional regulator for arginine transport and DNA replication genes; replication initiation inhibitor
*NC_0009133,059,7040AT23.8% 80.7 / 23.4 42intergenic (‑3/‑49)yqfE/argPpseudogene, LysR family/transcriptional regulator for arginine transport and DNA replication genes; replication initiation inhibitor
*NC_0009131,629,4370TC23.7% 68.6 / 19.2 38intergenic (+19/+16)ydfZ/ydfIselenoprotein, function unknown/putative NAD‑dependent D‑mannonate oxidoreductase
*NC_0009131,629,4360AT23.1% 80.0 / 19.6 39intergenic (+18/+17)ydfZ/ydfIselenoprotein, function unknown/putative NAD‑dependent D‑mannonate oxidoreductase
*NC_0009133,423,3900CT23.1% 85.3 / 19.1 39intergenic (+196/+33)yhdZ/rrfFputative amino acid ABC transporter ATPase/5S ribosomal RNA of rrnD operon
*NC_0009132,604,9800TC22.2% 66.9 / 16.0 37V57A (GTC→GCC) hyfDhydrogenase 4, membrane subunit
*NC_0009134,296,0600CT22.2% 82.2 / 21.6 46intergenic (+266/+376)gltP/yjcOglutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
*NC_0009132,866,4870GC20.6% 86.2 / 15.1 34intergenic (+22/+72)ygbN/rpoSputative transporter/RNA polymerase, sigma S (sigma 38) factor
*NC_0009132,866,4880GC20.6% 84.7 / 16.2 34intergenic (+23/+71)ygbN/rpoSputative transporter/RNA polymerase, sigma S (sigma 38) factor
*NC_0009133,423,4050AG20.0% 89.7 / 15.8 40intergenic (+211/+18)yhdZ/rrfFputative amino acid ABC transporter ATPase/5S ribosomal RNA of rrnD operon

Marginal new junction evidence (lowest skew 10 of 76 shown)
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 1411899 =61 (1.680)9 (0.310) 9/198 2.0 19.1% coding (50/936 nt) ttcA tRNA s(2)C32 thioltransferase, iron sulfur cluster protein
?NC_000913 = 1434958 28 (0.970)pseudogene (51/51 nt) ttcC pseudogene, prophage Rac integration site ttcA duplication;Phage or Prophage Related
* ? NC_000913 178919 =42 (1.150)8 (0.230) 7/238 3.1 17.0% coding (235/699 nt) mtn 5'‑methylthioadenosine/S‑adenosylhomocysteine nucleosidase
?NC_000913 178936 = 38 (1.100)coding (218/699 nt) mtn 5'‑methylthioadenosine/S‑adenosylhomocysteine nucleosidase
* ? NC_000913 2521262 =35 (0.960)4 (0.150)
+33 bp
4/184 3.3 12.5% noncoding (10/76 nt) lysV tRNA‑Lys
?NC_000913 2521467 = 41 (1.130)intergenic (+139/+126) lysV/xapR tRNA‑Lys/transcriptional activator of xapAB
* ? NC_000913 1784702 =43 (1.180)6 (0.180) 6/234 3.3 12.2% intergenic (+25/+32) fadK/ppsA short chain acyl‑CoA synthetase, anaerobic/phosphoenolpyruvate synthase
?NC_000913 1784727 = 46 (1.350)intergenic (+50/+7) fadK/ppsA short chain acyl‑CoA synthetase, anaerobic/phosphoenolpyruvate synthase
* ? NC_000913 781791 =32 (0.880)4 (0.150)
+33 bp
4/184 3.3 14.0% intergenic (+139/‑294) lysQ/nadA tRNA‑Lys/quinolinate synthase, subunit A
?NC_000913 2521262 = 35 (0.960)noncoding (10/76 nt) lysV tRNA‑Lys
* ? NC_000913 781586 =44 (1.210)4 (0.150)
+33 bp
4/184 3.3 11.3% noncoding (10/76 nt) lysQ tRNA‑Lys
?NC_000913 2521467 = 41 (1.130)intergenic (+139/+126) lysV/xapR tRNA‑Lys/transcriptional activator of xapAB
* ? NC_000913 781586 =44 (1.210)4 (0.150)
+33 bp
4/184 3.3 12.5% noncoding (10/76 nt) lysQ tRNA‑Lys
?NC_000913 781791 = 32 (0.880)intergenic (+139/‑294) lysQ/nadA tRNA‑Lys/quinolinate synthase, subunit A
* ? NC_000913 781378 =40 (1.100)4 (0.150)
+33 bp
4/184 3.3 11.8% noncoding (10/76 nt) lysZ tRNA‑Lys
?NC_000913 2521467 = 41 (1.130)intergenic (+139/+126) lysV/xapR tRNA‑Lys/transcriptional activator of xapAB
* ? NC_000913 781378 =40 (1.100)4 (0.150)
+33 bp
4/184 3.3 13.1% noncoding (10/76 nt) lysZ tRNA‑Lys
?NC_000913 781791 = 32 (0.880)intergenic (+139/‑294) lysQ/nadA tRNA‑Lys/quinolinate synthase, subunit A
* ? NC_000913 781156 =19 (0.520)4 (0.150)
+33 bp
4/184 3.3 15.3% noncoding (10/76 nt) lysY tRNA‑Lys
?NC_000913 2521467 = 41 (1.130)intergenic (+139/+126) lysV/xapR tRNA‑Lys/transcriptional activator of xapAB