breseq  version 0.32.0  revision 6ff6de7d1b87
mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Predicted mutations
evidence position mutation annotation gene description
MC JC 257,908 Δ776 bp [crl] [crl]
RA 962,982 G→C V330L (GTT→CTT)  rpsA → 30S ribosomal subunit protein S1
RA 1,020,956 A→G intergenic (‑37/‑182) sulA ← / → sxy SOS cell division inhibitor/CRP‑S‑dependent promoter expression factor
MC JC 1,299,499 Δ1,199 bp intergenic (+254/‑485) ychE → / → oppA UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein
RA 1,547,879 Δ1 bp coding (479/3048 nt) fdnG → formate dehydrogenase‑N, alpha subunit, nitrate‑inducible
RA 1,677,913 T→C intergenic (‑10/‑514) pntA ← / → ydgH pyridine nucleotide transhydrogenase, alpha subunit/DUF1471 family periplasmic protein
MC JC 1,978,503 Δ776 bp insB1–insA insB1, insA
RA 2,132,787 A→C I204S (ATC→AGC)  wcaA ← putative glycosyl transferase
MC JC 3,815,858 Δ82 bp [rph]–[rph] [rph], [rph]
MC JC 4,001,644 Δ5 bp coding (220‑224/951 nt) corA → magnesium/nickel/cobalt transporter
RA 4,184,542 C→A P1100Q (CCG→CAG)  rpoB → RNA polymerase, beta subunit

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ NC_000913 366185 366530 346 32 [31] [31] 32 [lacZ]–[lacI] [lacZ], [lacI]
* * ÷ NC_000913 2099836 2101302 1467 32 [31] [30] 32 gnd gnd

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 257908 =NA (NA)52 (0.770) 48/284 0.3 96.3% intergenic (+9/‑768) crl/crl pseudogene, sigma factor‑binding protein, RNA polymerase holoenzyme formation stimulator,regulator, Surface structures, transcriptional regulator of cryptic csgA gene for curli surface fibers/pseudogene, sigma factor‑binding protein, RNA polymerase holoenzyme formation stimulator,regulator, Surface structures, transcriptional regulator of cryptic csgA gene for curli surface fibers
?NC_000913 = 1293039 2 (0.030)intergenic (‑117/‑488) hns/tdk global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase
* ? NC_000913 1207790 =13 (0.190)66 (1.100) 51/252 0.1 86.0% coding (290/630 nt) stfP e14 prophage, uncharacterized protein
?NC_000913 1209619 = 10 (0.170)pseudogene (1/501 nt) stfE pseudogene, e14 prophage, side tail fiber protein fragment family,Phage or Prophage Related
* ? NC_000913 = 120780513 (0.190)60 (1.000) 53/252 0.1 84.8% coding (305/630 nt) stfP e14 prophage, uncharacterized protein
?NC_000913 = 1209602 10 (0.170)pseudogene (18/501 nt) stfE pseudogene, e14 prophage, side tail fiber protein fragment family,Phage or Prophage Related
* ? NC_000913 1293032 =6 (0.090)67 (0.990) 52/284 0.2 91.8% intergenic (‑110/‑495) hns/tdk global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase
?NC_000913 = 1979270 NA (NA)intergenic (‑55/‑483) insA/uspC IS1 repressor TnpA/universal stress protein
* ? NC_000913 1979486 =2 (0.030)89 (1.320) 56/284 0.1 97.8% intergenic (‑271/‑267) insA/uspC IS1 repressor TnpA/universal stress protein
?NC_000913 2101749 = NA (NA)intergenic (‑5/+146) wbbL/insH1 pseudogene, lipopolysaccharide biosynthesis protein/IS5 transposase and trans‑activator
* ? NC_000913 = 19794892 (0.030)95 (1.410) 53/284 0.2 97.9% intergenic (‑274/‑264) insA/uspC IS1 repressor TnpA/universal stress protein
?NC_000913 = 2290111 NA (NA)intergenic (‑32/+1) insH1/yejO IS5 transposase and trans‑activator/pseudogene, autotransporter outer membrane homology,putative transport, Not classified, putative ATP‑binding component of a transport system