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 49,765 C→T intergenic (+134/‑58) kefC → / → folA glutathione‑regulated potassium‑efflux system protein KefC/type 3 dihydrofolate reductase
RA 49,883 C→T P21S (CCG→TCG)  folA → type 3 dihydrofolate reductase
RA 214,743 A→C Y174D (TAC→GAC)  proS ← proline‑‑tRNA ligase
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
RA 4,267,454 C→T R20C (CGC→TGC)  soxR → redox‑sensitive transcriptional activator SoxR

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ NZ_CP009273 356981 357570 590 5 [0] [2] 4 lacA galactoside O‑acetyltransferase
* * ÷ NZ_CP009273 428513 428546 34 4 [3] [3] 4 nrdR transcriptional regulator NrdR
* * ÷ NZ_CP009273 541861 541949 89 4 [3] [3] 4 allD/fdrA ureidoglycolate dehydrogenase/acyl‑CoA synthetase FdrA
* * ÷ NZ_CP009273 716403 716491 89 5 [3] [3] 4 BW25113_RS26090/kdpE leader peptide SpeFL/two‑component system response regulator KdpE
* * ÷ NZ_CP009273 3792830 3792857 28 5 [3] [3] 4 waaZ 3‑deoxy‑D‑manno‑oct‑2‑ulosonate III transferase WaaZ

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NZ_CP009273 15391 =NA (NA)10 (0.340) 8/160 1.4 36.9% intergenic (+93/‑54) dnaJ/BW25113_RS00080 molecular chaperone DnaJ/IS4‑like element IS421 family transposase
?NZ_CP009273 = 454255 18 (0.580)intergenic (+99/‑89) clpX/lon ATP‑dependent protease ATP‑binding subunit ClpX/endopeptidase La
* ? NZ_CP009273 360104 =NA (NA)76 (2.460) 35/168 0.0 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 454244 =19 (0.620)7 (0.240) 6/160 1.8 27.9% intergenic (+88/‑100) clpX/lon ATP‑dependent protease ATP‑binding subunit ClpX/endopeptidase La
?NZ_CP009273 = 604803 NA (NA)intergenic (+170/+112) BW25113_RS03025/entD IS4‑like element IS421 family transposase/enterobactin synthase subunit EntD
* ? NZ_CP009273 1203246 =1 (0.030)18 (0.720) 10/136 0.8 88.2% coding (290/630 nt) BW25113_RS05990 hypothetical protein
?NZ_CP009273 1205075 = 4 (0.160)coding (40/540 nt) BW25113_RS06005 phage tail protein
* ? NZ_CP009273 = 12032611 (0.030)22 (0.880) 15/136 0.4 90.1% coding (305/630 nt) BW25113_RS05990 hypothetical protein
?NZ_CP009273 = 1205058 4 (0.160)coding (57/540 nt) BW25113_RS06005 phage tail protein
* ? NZ_CP009273 = 1391494NA (NA)19 (0.620) 11/166 1.0 90.6% intergenic (+145/‑128) BW25113_RS06980/ynaJ IS5‑like element IS5 family transposase/DUF2534 family protein
?NZ_CP009273 1972747 = 2 (0.060)intergenic (‑293/‑487) flhD/uspC flagellar transcriptional regulator FlhD/universal stress protein UspC
* ? NZ_CP009273 = 19727510 (0.000)37 (1.200) 21/168 0.3 100% 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 4532499 =4 (0.130)4 (0.150) 4/150 2.2 22.5% intergenic (+49/‑433) fimE/fimA type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA
?NZ_CP009273 4532813 = 24 (0.870)intergenic (+363/‑119) fimE/fimA type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA
* ? NZ_CP009273 = 45325074 (0.130)7 (0.250) 7/150 1.4 33.7% intergenic (+57/‑425) fimE/fimA type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA
?NZ_CP009273 = 4532803 24 (0.870)intergenic (+353/‑129) fimE/fimA type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA