breseq  version 0.33.1  revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Predicted mutations
evidence position mutation annotation gene description
RA 166,580 A→G S376G (AGC→GGC)  xylB → xylulokinase
RA 261,688 C→A D273E (GAC→GAA)  ECOLC_RS01210 → DUF4049 domain‑containing protein
RA 269,146 C→G intergenic (‑64/+182) ECOLC_RS01230 ← / ← ECOLC_RS01240 ISAs1 family transposase/hypothetical protein
RA 340,142 T→G R595S (AGA→AGC)  malT ← HTH‑type transcriptional regulator MalT
RA 454,696 T→C S266P (TCT→CCT)  rpoA → DNA‑directed RNA polymerase subunit alpha
RA 770,649 G→T P188T (CCC→ACC)  ECOLC_RS03815 ← fatty acyl‑AMP ligase
MC JC 922,809 Δ776 bp [ECOLC_RS04555]–[ECOLC_RS04565] [ECOLC_RS04555], ECOLC_RS04560, [ECOLC_RS04565]
RA 991,839 T→A Q213L (CAG→CTG)  ECOLC_RS04900 ← HAAAP family serine/threonine permease
RA 1,344,434 T→G intergenic (+19/‑198) eutG → / → eutH ethanolamine utilization ethanol dehydrogenase EutG/ethanolamine utilization protein EutH
RA 1,558,271 C→A A391D (GCC→GAC)  gyrA → DNA topoisomerase (ATP‑hydrolyzing) subunit A
RA 1,812,310 T→A intergenic (‑135/‑74) sbcB ← / → dacD exodeoxyribonuclease I/serine‑type D‑Ala‑D‑Ala carboxypeptidase DacD
RA 1,857,679 Δ1 bp pseudogene (5724/7076 nt) yeeJ ← inverse autotransporter adhesin YeeJ
RA 2,095,752 A→C I93L (ATA→CTA)  chbC → PTS N,N'‑diacetylchitobiose transporter subunit IIC
RA 2,134,320 T→C Q325Q (CAA→CAG)  ECOLC_RS10385 ← FAD‑dependent oxidoreductase
RA 2,170,196 G→A noncoding (61/77 nt) ECOLC_RS10560 ← tRNA‑Val
RA 2,224,998 T→C W393R (TGG→CGG)  uidC → glucuronide uptake porin UidC
RA 2,423,171 G→A G40G (GGC→GGT)  ECOLC_RS11800 ← ISAs1‑like element ISEc1 family transposase
JC 2,624,634 Δ3 bp coding (810‑812/1632 nt) oppA ← oligopeptide ABC transporter substrate‑binding protein OppA
RA 2,625,746 A→C intergenic (‑301/+437) oppA ← / ← ychE oligopeptide ABC transporter substrate‑binding protein OppA/NAAT family transporter YchE
RA 3,076,597 T→C R342G (AGA→GGA)  gsiB ← glutathione ABC transporter substrate‑binding protein GsiB
RA 3,226,560 C→G L53L (CTG→CTC)  ECOLC_RS15880 ← RHS repeat protein
RA 3,226,566 C→G P51P (CCG→CCC)  ECOLC_RS15880 ← RHS repeat protein
RA 3,634,742 C→T R231H (CGT→CAT)  ECOLC_RS17815 ← (Fe‑S)‑binding protein
RA 3,646,188 T→C intergenic (+395/‑80) ECOLC_RS25550 → / → ECOLC_RS17850 oxidoreductase/hypothetical protein
RA 3,793,428 G→C L414V (CTT→GTT)  dnaE ← DNA polymerase III subunit alpha
RA 3,994,829 C→T A163V (GCG→GTG)  ECOLC_RS19585 → sodium:alanine symporter family protein
RA 4,271,660 A→C pseudogene (118/698 nt) ECOLC_RS20935 → IS1 family transposase
RA 4,287,467 A→C G109G (GGA→GGC)  ECOLC_RS21005 → class I fumarate hydratase
RA 4,341,889 G→A P170L (CCC→CTC)  ECOLC_RS21260 ← heme lyase CcmF/NrfE family subunit
RA 4,419,877 2 bp→GT intergenic (+148/‑46) ECOLC_RS21595 → / → ECOLC_RS26070 acetyltransferase/paraslipin
RA 4,644,660 G→A L330L (TTG→TTA)  hemY → protoheme IX biogenesis protein HemY

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_010468 3031203 =112 (0.110)574 (0.590) 355/566 0.4 83.2% coding (38/531 nt) ECOLC_RS14815 tail fiber protein
?NC_010468 3033060 = 125 (0.130)coding (1048/1422 nt) ECOLC_RS14830 phage tail protein
* ? NC_010468 = 3031215113 (0.110)435 (0.450) 290/566 0.6 78.9% coding (50/531 nt) ECOLC_RS14815 tail fiber protein
?NC_010468 = 3033046 125 (0.130)coding (1062/1422 nt) ECOLC_RS14830 phage tail protein