breseq  version 0.27.1  revision 87c22d663cc3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Marginal read alignment evidence (highest frequency 20 of 43 shown)
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,186,4250CT53.2% 128.8 / inf 519P359L (CCA→CTA) rpoCRNA polymerase, beta prime subunit
*NC_0009131,907,3270GA52.4% 73.9 / inf 430Q37* (CAG→TAG) cspCstress protein, member of the CspA‑family
*NC_0009133,368,2140CT49.0% 39.7 / inf 561Q130* (CAG→TAG) yhcGDUF1016 family protein in the PD‑(D/E)XK nuclease superfamily
*NC_0009132,428,5200AG48.2% 45.6 / inf 450M36T (ATG→ACG) ubiX3‑octaprenyl‑4‑hydroxybenzoate carboxy‑lyase
*NC_0009132,414,4610CT46.4% 130.1 / inf 492T331I (ACT→ATT) ackAacetate kinase A and propionate kinase 2
*NC_0009134,188,5720CA44.3% 420.9 / inf 569R1075S (CGT→AGT) rpoCRNA polymerase, beta prime subunit
*NC_0009132,947,5910A.38.0% 213.7 / 136.6 92intergenic (+18/‑16)metW/metVtRNA‑Met/tRNA‑Met
*NC_0009132,947,4670AC29.7% 261.7 / 138.3 139intergenic (+4/‑30)metZ/metWtRNA‑Met/tRNA‑Met
*NC_0009132,947,4811.A29.2% 193.8 / 140.0 89intergenic (+18/‑16)metZ/metWtRNA‑Met/tRNA‑Met
*NC_0009131,708,8050TA27.6% 102.6 / 39.0 159R629R (CGT→CGArsxCSoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex
*NC_000913422,4290TG27.5% 750.6 / 104.7 420intergenic (+70/‑89)proY/malZproline‑specific permease/maltodextrin glucosidase
*NC_0009131,708,9010AC27.1% 298.7 / 64.6 279R661R (CGA→CGCrsxCSoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex
*NC_0009133,269,9940GT27.0% 251.4 / 23.1 194intergenic (+392/+631)yhaC/garKpentapetide repeats‑related protein/glycerate kinase I
*NC_0009133,270,1510AC26.9% 229.8 / 50.1 256intergenic (+549/+474)yhaC/garKpentapetide repeats‑related protein/glycerate kinase I
*NC_0009134,296,0600CT26.3% 960.3 / inf 726intergenic (+266/+376)gltP/yjcOglutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
*NC_0009131,708,9300CA25.7% 481.4 / 55.0 277P671Q (CCG→CAG) rsxCSoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex
*NC_000913915,2130AC25.7% 247.9 / 31.1 198intergenic (‑356/+139)ybjE/aqpZputative transporter/aquaporin Z
*NC_0009132,818,1450TC25.2% 365.3 / 144.8 246intergenic (‑10/+53)argZ/argYtRNA‑Arg/tRNA‑Arg
*NC_0009133,270,1670CG24.8% 398.0 / 59.7 302intergenic (+565/+458)yhaC/garKpentapetide repeats‑related protein/glycerate kinase I
*NC_0009134,392,4570GC24.3% 375.3 / 46.2 296intergenic (+22/‑15)glyV/glyXtRNA‑Gly/tRNA‑Gly

Marginal new junction evidence (lowest skew 10 of 53 shown)
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 1907451238 (0.480)362 (0.740) 153/300 3.6 60.3% coding (141/144 nt) yobF DUF2527 family heat‑induced protein
?NC_000913 2101749 = NA (NA)noncoding (1195/1195 nt) IS5 repeat region
* ? NC_000913 = 1770322289 (0.590)214 (0.440) 138/300 5.1 42.5% intergenic (+136/‑293) ydiK/ydiL UPF0118 family inner membrane protein/putative HTH domain DNA‑binding protein
?NC_000913 = 2290113 NA (NA)noncoding (1/1195 nt) IS5 repeat region
* ? NC_000913 1770319 =296 (0.600)333 (0.680) 127/300 6.5 52.9% intergenic (+133/‑296) ydiK/ydiL UPF0118 family inner membrane protein/putative HTH domain DNA‑binding protein
?NC_000913 2101749 = NA (NA)noncoding (1195/1195 nt) IS5 repeat region
* ? NC_000913 = 3815858287 (0.580)161 (0.350) 116/280 6.7 38.9% pseudogene (24/48 nt) rph ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH
?NC_000913 3815941 = 238 (0.520)pseudogene (609/669 nt) rph ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH
* ? NC_000913 696863 =171 (0.350)120 (0.270)
+GAAGAAACAATC
57/276 18.3 28.2% intergenic (‑33/+2) glnW/glnU tRNA‑Gln/tRNA‑Gln
?NC_000913 = 697134 493 (1.000)intergenic (‑1/+379) metT/asnB tRNA‑Met/asparagine synthetase B
* ? NC_000913 = 1770322289 (0.590)202 (0.410) 54/300 21.0 41.1% intergenic (+136/‑293) ydiK/ydiL UPF0118 family inner membrane protein/putative HTH domain DNA‑binding protein
?NC_000913 = 2067353 NA (NA)noncoding (1/1195 nt) IS5 repeat region
* ? NC_000913 780554 =541 (1.100)114 (0.240)
+GAAG
51/292 21.3 24.3% noncoding (1/76 nt) lysT tRNA‑Lys
?NC_000913 = 2521006 189 (0.380)noncoding (76/76 nt) valU tRNA‑Val
* ? NC_000913 781577 =330 (0.670)216 (0.450)
+GAAG
50/292 21.6 46.1% noncoding (1/76 nt) lysQ tRNA‑Lys
?NC_000913 = 2521006 189 (0.380)noncoding (76/76 nt) valU tRNA‑Val
* ? NC_000913 781369 =317 (0.650)143 (0.300)
+GAAG
50/292 21.6 36.7% noncoding (1/76 nt) lysZ tRNA‑Lys
?NC_000913 = 2521006 189 (0.380)noncoding (76/76 nt) valU tRNA‑Val
* ? NC_000913 = 1287084184 (0.370)72 (0.170) 31/260 26.1 21.2% intergenic (+558/+3) narI/tpr nitrate reductase 1, gamma (cytochrome b(NR)) subunit/protamine‑like protein
?NC_000913 1287557 = 376 (0.880)noncoding (66/85 nt) tyrT tRNA‑Tyr