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 49,905 T→G L28R (CTC→CGC)  folA → type 3 dihydrofolate reductase
RA 2,269,479 T→C V243A (GTC→GCC)  yejE → ABC transporter permease
MC JC 2,399,465 Δ7 bp coding (650‑656/939 nt) lrhA ← transcriptional regulator LrhA
RA 3,754,231 G→T R127S (CGC→AGC)  selA ← L‑seryl‑tRNA(Sec) selenium transferase

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ NZ_CP009273 356981 357571 591 2 [0] [1] 2 lacA galactoside O‑acetyltransferase
* * ÷ NZ_CP009273 404588 404639 52 2 [1] [0] 2 rdgC recombination‑associated protein RdgC
* * ÷ NZ_CP009273 428524 428556 33 2 [1] [1] 2 nrdR transcriptional regulator NrdR
* * ÷ NZ_CP009273 970132 970167 36 4 [0] [1] 2 mukF chromosome partition protein MukF
* * ÷ NZ_CP009273 1062364 1062385 22 2 [1] [1] 3 yccJ YccJ family protein
* * ÷ NZ_CP009273 1092013 1092014 2 3 [1] [0] 2 BW25113_RS05360 hypothetical protein
* * ÷ NZ_CP009273 1764407 1764476 70 2 [1] [1] 2 [ydiK] [ydiK]
* * ÷ NZ_CP009273 1800515 1800538 24 3 [0] [1] 2 ydiY/pfkB YdiY family protein/6‑phosphofructokinase II
* * ÷ NZ_CP009273 2112336 2112341 6 5 [0] [1] 3 wzxC colanic acid undecaprenyl disphosphate flippase WzxC
* * ÷ NZ_CP009273 2132272 2132287 16 2 [1] [0] 2 yegH TerC family protein
* * ÷ NZ_CP009273 2890329 2890339 11 3 [1] [1] 2 ygcS MFS transporter

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NZ_CP009273 = 20563NA (NA)19 (0.950) 14/170 0.3 100% intergenic (‑55/+252) BW25113_RS00100/rpsT IS1‑like element IS1A family transposase/30S ribosomal protein S20
?NZ_CP009273 481365 = 0 (0.000)coding (149/648 nt) acrR multidrug efflux transporter transcriptional repressor AcrR
* ? NZ_CP009273 360104 =NA (NA)30 (1.490) 17/170 0.2 NA intergenic (‑35/+251) lacZ/BW25113_RS23320 beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein
?NZ_CP009273 = 360286 NA (NA)intergenic (‑217/+69) lacZ/BW25113_RS23320 beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein
* ? NZ_CP009273 = 4813720 (0.000)21 (1.050) 16/170 0.2 100% coding (156/648 nt) acrR multidrug efflux transporter transcriptional repressor AcrR
?NZ_CP009273 = 1046001 NA (NA)intergenic (+15/+418) BW25113_RS05135/cspH IS1‑like element IS1D family transposase/cold shock‑like protein CspH
* ? NZ_CP009273 = 19727512 (0.100)20 (1.000) 12/170 0.4 90.9% intergenic (‑297/‑483) flhD/uspC flagellar transcriptional regulator FlhD/universal stress protein UspC
?NZ_CP009273 = 2283592 NA (NA)intergenic (‑68/‑387) BW25113_RS11435/narP IS5‑like element IS5 family transposase/nitrate/nitrite response regulator protein NarP
* ? NZ_CP009273 2282398 =NA (NA)9 (0.450) 6/170 1.1 81.8% pseudogene (3/2532 nt) yejO autotransporter YejO
?NZ_CP009273 3512437 = 2 (0.100)intergenic (‑14/+387) aroK/hofQ shikimate kinase AroK/DNA uptake porin HofQ
* ? NZ_CP009273 = 2283591NA (NA)13 (0.650) 10/168 0.6 92.9% intergenic (‑67/‑388) BW25113_RS11435/narP IS5‑like element IS5 family transposase/nitrate/nitrite response regulator protein NarP
?NZ_CP009273 = 3512441 1 (0.050)intergenic (‑18/+383) aroK/hofQ shikimate kinase AroK/DNA uptake porin HofQ
* ? NZ_CP009273 4532499 =6 (0.300)7 (0.390) 7/152 0.8 42.0% intergenic (+49/‑433) fimE/fimA type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA
?NZ_CP009273 4532813 = 14 (0.780)intergenic (+363/‑119) fimE/fimA type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA
* ? NZ_CP009273 = 45325076 (0.300)7 (0.390) 7/152 0.8 42.0% intergenic (+57/‑425) fimE/fimA type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA
?NZ_CP009273 = 4532803 14 (0.780)intergenic (+353/‑129) fimE/fimA type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA