breseq  version 0.35.4  revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Predicted mutations
evidence position mutation annotation gene description
RA 103,231 G→A C63Y (TGT→TAT)  lpxC → UDP‑3‑O‑acyl‑N‑acetylglucosamine deacetylase
RA 667,478 T→G L55F (TTA→TTC lptE ← LPS assembly lipoprotein LptE
RA 874,860 G→A M221I (ATG→ATA yliI → aldose sugar dehydrogenase YliI
RA 914,598 +T intergenic (‑58/‑93) ybjX ← / → macA VirK/YbjX family protein/macrolide transporter subunit MacA
RA 1,431,900 G→A Q1048* (CAG→TAG)  nifJ ← pyruvate:ferredoxin (flavodoxin) oxidoreductase
RA 4,322,729 C→T E124K (GAA→AAA)  pmrB ← two‑component system sensor histidine kinase PmrB

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NZ_CP009273 360104 =43 (0.480)46 (0.510) 42/496 2.5 50.3% intergenic (‑35/+251) lacZ/BW25113_RS23320 beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein
?NZ_CP009273 = 360286 48 (0.540)intergenic (‑217/+69) lacZ/BW25113_RS23320 beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein
* ? NZ_CP009273 1203246 =10 (0.110)63 (0.750) 57/464 0.9 87.9% coding (290/630 nt) BW25113_RS05990 protein StfP
?NZ_CP009273 1205075 = 8 (0.100)coding (40/540 nt) BW25113_RS06005 phage tail protein
* ? NZ_CP009273 = 120326110 (0.110)65 (0.780) 61/464 0.7 88.2% coding (305/630 nt) BW25113_RS05990 protein StfP
?NZ_CP009273 = 1205058 8 (0.100)coding (57/540 nt) BW25113_RS06005 phage tail protein
* ? NZ_CP009273 = 1391495NA (NA)92 (1.030) 77/496 0.3 98.9% intergenic (+146/‑127) BW25113_RS06980/ynaJ IS5‑like element IS5 family transposase/DUF2534 family protein
?NZ_CP009273 = 1796931 1 (0.010)intergenic (‑104/‑420) thrS/espL1 threonine‑‑tRNA ligase/type III secretion system effector EspL1
* ? NZ_CP009273 1796928 =1 (0.010)73 (0.820) 65/496 0.7 98.7% intergenic (‑101/‑423) thrS/espL1 threonine‑‑tRNA ligase/type III secretion system effector EspL1
?NZ_CP009273 = 2096424 NA (NA)intergenic (‑68/+3) BW25113_RS10605/wbbL IS5‑like element IS5 family transposase/N‑acetylglucosaminyl‑diphospho‑decaprenol L‑rhamnosyltransferase WbbL
* ? NZ_CP009273 2282398 =NA (NA)99 (1.110) 74/496 0.4 99.0% pseudogene (3/2532 nt) yejO autotransporter YejO
?NZ_CP009273 3801098 = 1 (0.010)coding (397/1071 nt) rfaQ lipopolysaccharide core heptosyltransferase RfaQ
* ? NZ_CP009273 = 2283591NA (NA)99 (1.110) 79/494 0.2 98.0% intergenic (‑67/‑388) BW25113_RS11435/narP IS5‑like element IS5 family transposase/nitrate/nitrite response regulator protein NarP
?NZ_CP009273 = 3801102 2 (0.020)coding (393/1071 nt) rfaQ lipopolysaccharide core heptosyltransferase RfaQ
* ? NZ_CP009273 3123505 =NA (NA)370 (4.140) 259/496 0.0 79.6% coding (34/1137 nt) yghO protein YghO
?NZ_CP009273 = 3185768 95 (1.060)coding (202/630 nt) yqiJ DUF1449 family protein