breseq  version 0.18  
mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Predicted mutations
evidence position mutation annotation gene description
RA 615,483 T→C L422P (CTG→CCG)  treB PTS system beta‑glucoside‑specific transporter subunit IIABC
RA 751,632 2 bp→GC intergenic (+65/‑193) napA/gph Na/H antiporter/haloacid dehalogenase‑like family hydrolase
RA 1,030,390 T→G H294Q (CAT→CAG camS lipoprotein
RA 1,877,343 2 bp→AA intergenic (‑372/‑78) LGG_01847/LGG_01848 membrane protein/hypothetical protein
RA 1,877,348 G→A intergenic (‑377/‑74) LGG_01847/LGG_01848 membrane protein/hypothetical protein
RA 1,877,374 C→G intergenic (‑403/‑48) LGG_01847/LGG_01848 membrane protein/hypothetical protein
RA 1,883,242 C→A intergenic (‑292/+93) ABC‑SBP/LGG_01854 ABC transporter substrate‑binding protein/hypothetical protein
RA 2,353,548 G→A S767F (TCC→TTC)  LGG_02282 hypothetical protein
RA 2,762,662 +C coding (325/537 nt) is66 transposase IS3/IS911 family protein
RA 2,765,383 G→A H249Y (CAC→TAC)  glvA maltose‑6'‑phosphate glucosidase (GH4)

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ NC_013198 1873046–1873059 1873917–1873874 816–872 138 [134] [136] 144 [LGG_01843]–[LGG_01844] [LGG_01843], [LGG_01844]
* * ÷ NC_013198 2574289–2574343 2574591–2574418 76–303 142 [116] [136] 138 [LGG_02511]–[LGG_02512] [LGG_02511], [LGG_02512]

Unassigned new junction evidence...
  seq id position reads (cov) reads (cov) score skew annotation gene product
* ? NC_013198 = 103804594 (0.168)330 (0.590) 85/190 0.8 coding (872/978 nt) LGG_01023 adenine specific DNA methylase Mod
?NC_013198 1038906 = 38 (0.065)intergenic (+13/‑238) is36/LGG_01026 transposase IS4 family protein/type III restriction‑modification system methylation subunit
* ? NC_013198 1058951 =638 (1.105)210 (0.364) 54/196 2.5 coding (53/183 nt) LGG_01046 hypothetical protein
?NC_013198 = 2898115 592 (1.005)coding (225/237 nt) LGG_02835 hypothetical protein
* ? NC_013198 = 187730810 (0.019)344 (0.642) 83/182 0.8 intergenic (‑337/‑114) LGG_01847/LGG_01848 membrane protein/hypothetical protein
?NC_013198 1878895 = 18 (0.031)intergenic (+70/‑60) LGG_01848/tRNA‑Leu hypothetical protein/tRNA‑Leu
* ? NC_013198 1998770 =NA (NA)2262 (4.001) 94/192 0.6 intergenic (+363/‑314) lciIC/LGG_01955 XRE family transcriptional regulator/reverse transcriptase‑like protein
?NC_013198 = 1998907 NA (NA)intergenic (+500/‑177) lciIC/LGG_01955 XRE family transcriptional regulator/reverse transcriptase‑like protein