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 119,500 A→C intergenic (+157/‑4) pdhR → / → aceE pyruvate dehydrogenase complex transcriptional repressor PdhR/pyruvate dehydrogenase (acetyl‑transferring), homodimeric type
MC JC 1,290,924 2651 bp→80 bp coding (4‑2654/2676 nt) adhE ← bifunctional acetaldehyde‑CoA/alcohol dehydrogenase
MC JC 1,749,959 1388 bp→80 bp coding (5‑1392/1413 nt) pykF → pyruvate kinase PykF
MC JC 1,931,909 1419 bp→81 bp coding (4‑1422/1443 nt) pyk → pyruvate kinase
RA 3,081,838 G→A A66T (GCA→ACA)  galP → galactose/proton symporter
RA 4,140,482 G→T R849S (CGC→AGC)  ppc ← phosphoenolpyruvate carboxylase

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ NZ_CP009273 946675 949072 2398 47 [45] [40] 51 pflB–[focA] pflB,[focA]
* * ÷ NZ_CP009273 1459316 1459628 313 47 [46] [46] 47 [paaY]–BW25113_RS25580 [paaY],BW25113_RS25580
* * ÷ NZ_CP009273 1972971 1973196 226 107 [0] [46] 48 flhD/uspC flagellar transcriptional regulator FlhD/universal stress protein UspC
* * ÷ NZ_CP009273 2050062 2050339 278 47 [44] [40] 48 [yeeN] [yeeN]
* * ÷ NZ_CP009273 2061876 2062151 276 47 [46] [46] 50 [BW25113_RS24005] [BW25113_RS24005]
* * ÷ NZ_CP009273 2449057 2449671 615 47 [44] [43] 51 [yfcV] [yfcV]
* * ÷ NZ_CP009273 2462537 2463319 783 47 [44] [37] 48 [yfdH]–[BW25113_RS12270] [yfdH],[BW25113_RS12270]
* * ÷ NZ_CP009273 2897015 2897311 297 47 [38] [46] 47 ygcE/queE FGGY‑family carbohydrate kinase/7‑carboxy‑7‑deazaguanine synthase QueE
* * ÷ NZ_CP009273 2988447 2988757 311 48 [46] [46] 47 [BW25113_RS14850]–[BW25113_RS26010] [BW25113_RS14850],[BW25113_RS26010]
* * ÷ NZ_CP009273 3575041 3575598 558 52 [43] [46] 48 [hcp] [hcp]
* * ÷ NZ_CP009273 3786929 3787156 228 47 [45] [45] 52 [yibB] [yibB]
* * ÷ NZ_CP009273 3792308 3792941 634 50 [40] [43] 48 [waaU]–[waaZ] [waaU],[waaZ]
* * ÷ NZ_CP009273 3797527 3798549 1023 48 [44] [43] 51 rfaS–[rfaP] rfaS,[rfaP]
* * ÷ NZ_CP009273 4127797 4128997 1201 49 [44] [46] 48 gldA–[fsa] gldA,[fsa]

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NZ_CP009273 360104 =70 (0.630)71 (0.640) 50/454 1.3 48.3% intergenic (‑35/+251) lacZ/BW25113_RS23320 beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein
?NZ_CP009273 = 360286 82 (0.740)intergenic (‑217/+69) lacZ/BW25113_RS23320 beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein
* ? NZ_CP009273 1203246 =22 (0.200)85 (0.820) 52/422 0.9 76.8% coding (290/630 nt) BW25113_RS05990 protein StfP
?NZ_CP009273 1205075 = 31 (0.300)coding (40/540 nt) BW25113_RS06005 phage tail protein
* ? NZ_CP009273 = 120326121 (0.190)93 (0.900) 65/422 0.3 78.6% coding (305/630 nt) BW25113_RS05990 protein StfP
?NZ_CP009273 = 1205058 31 (0.300)coding (57/540 nt) BW25113_RS06005 phage tail protein
* ? NZ_CP009273 = 19729700 (0.000)107 (0.960) 76/454 0.2 100% intergenic (‑516/‑264) 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