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_0009131,708,9010AC37.2% 211.0 / 85.9 248R661R (CGA→CGCrsxCSoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex
*NC_0009133,269,9940GT35.0% 204.6 / 36.4 191intergenic (+392/+631)yhaC/garKpentapetide repeats‑related protein/glycerate kinase I
*NC_0009132,947,4670AC34.0% 150.7 / 137.2 108intergenic (+4/‑30)metZ/metWtRNA‑Met/tRNA‑Met
*NC_0009132,947,5910A.31.5% 214.0 / 108.7 92intergenic (+18/‑16)metW/metVtRNA‑Met/tRNA‑Met
*NC_000913422,4290TG31.1% 589.6 / 116.3 386intergenic (+70/‑89)proY/malZproline‑specific permease/maltodextrin glucosidase
*NC_0009132,947,4811.A29.7% 125.2 / 99.0 64intergenic (+18/‑16)metZ/metWtRNA‑Met/tRNA‑Met
*NC_0009131,708,9300CA29.4% 417.5 / 78.1 252P671Q (CCG→CAG) rsxCSoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex
*NC_0009131,552,1910CA28.7% 873.1 / 131.9 470intergenic (+200/+207)fdnI/yddMformate dehydrogenase‑N, cytochrome B556 (gamma) subunit, nitrate‑inducible/putative DNA‑binding transcriptional regulator
*NC_0009134,296,0600CT28.2% 590.2 / inf 535intergenic (+266/+376)gltP/yjcOglutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
*NC_0009131,708,8830CA27.2% 319.1 / 33.4 234V655V (GTC→GTArsxCSoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex
*NC_0009131,708,8050TA27.1% 112.4 / 38.3 155R629R (CGT→CGArsxCSoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex
*NC_000913422,4350TG25.3% 814.3 / 67.9 385intergenic (+76/‑83)proY/malZproline‑specific permease/maltodextrin glucosidase
*NC_0009133,270,1670CG25.1% 296.2 / 36.6 227intergenic (+565/+458)yhaC/garKpentapetide repeats‑related protein/glycerate kinase I
*NC_0009131,708,7580GC24.8% 199.3 / 44.0 159E614Q (GAA→CAA) rsxCSoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex
*NC_0009131,708,9100GC24.8% 412.5 / 28.0 240A664A (GCG→GCCrsxCSoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex
*NC_0009132,818,1450TC24.6% 317.9 / 116.4 203intergenic (‑10/+53)argZ/argYtRNA‑Arg/tRNA‑Arg
*NC_000913696,5340GT23.7% 283.9 / 38.8 140intergenic (‑30/+8)glnX/glnVtRNA‑Gln/tRNA‑Gln
*NC_0009134,392,4570GT23.4% 355.0 / 15.5 226intergenic (+22/‑15)glyV/glyXtRNA‑Gly/tRNA‑Gly
*NC_0009132,304,8420CA23.3% 254.4 / 18.7 223intergenic (+449/+266)eco/mqoecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain
*NC_0009133,270,1510AC23.2% 209.7 / 23.0 192intergenic (+549/+474)yhaC/garKpentapetide repeats‑related protein/glycerate kinase I

Marginal new junction evidence (lowest skew 10 of 43 shown)
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 1207805182 (0.430)215 (0.570) 137/268 3.3 56.5% coding (305/630 nt) stfP e14 prophage; uncharacterized protein
?NC_000913 = 1209602 169 (0.450)pseudogene (18/501 nt) stfE pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related
* ? NC_000913 = 1287084206 (0.480)99 (0.270) 56/260 21.9 29.8% intergenic (+558/+3) narI/tpr nitrate reductase 1, gamma (cytochrome b(NR)) subunit/protamine‑like protein
?NC_000913 1287557 = 287 (0.780)noncoding (66/85 nt) tyrT tRNA‑Tyr
* ? NC_000913 781369 =246 (0.580)145 (0.350)
+GAAG
52/292 27.2 41.7% noncoding (1/76 nt) lysZ tRNA‑Lys
?NC_000913 = 2521006 171 (0.400)noncoding (76/76 nt) valU tRNA‑Val
* ? NC_000913 781577 =315 (0.740)193 (0.470)
+GAAG
51/292 27.6 44.9% noncoding (1/76 nt) lysQ tRNA‑Lys
?NC_000913 = 2521006 171 (0.400)noncoding (76/76 nt) valU tRNA‑Val
* ? NC_000913 780554 =479 (1.130)110 (0.270)
+GAAG
51/292 27.6 25.8% noncoding (1/76 nt) lysT tRNA‑Lys
?NC_000913 = 2521006 171 (0.400)noncoding (76/76 nt) valU tRNA‑Val
* ? NC_000913 696863 =140 (0.330)79 (0.200)
+GAAGAAACAATC
37/276 32.3 23.0% intergenic (‑33/+2) glnW/glnU tRNA‑Gln/tRNA‑Gln
?NC_000913 = 697134 434 (1.020)intergenic (‑1/+379) metT/asnB tRNA‑Met/asparagine synthetase B
* ? NC_000913 = 781446264 (0.620)54 (0.150) 33/260 32.6 15.8% intergenic (+2/‑131) lysZ/lysQ tRNA‑Lys/tRNA‑Lys
?NC_000913 2521487 = 349 (0.950)intergenic (+159/+106) lysV/xapR tRNA‑Lys/transcriptional activator of xapAB
* ? NC_000913 = 2357690288 (0.680)63 (0.160)
+AATTAGAAGGTT
36/276 32.9 19.2% coding (787/900 nt) yfaD transposase_31 family protein
?NC_000913 2357691 = 288 (0.680)coding (788/900 nt) yfaD transposase_31 family protein
* ? NC_000913 = 2817942283 (0.670)49 (0.130) 32/260 33.1 14.2% intergenic (‑82/+117) argQ/argZ tRNA‑Arg/tRNA‑Arg
?NC_000913 2818492 = 348 (0.940)noncoding (58/77 nt) argV tRNA‑Arg
* ? NC_000913 781369 =246 (0.580)96 (0.230)
+G
40/298 33.3 35.4% noncoding (1/76 nt) lysZ tRNA‑Lys
?NC_000913 = 2521128 106 (0.250)intergenic (+2/‑45) valX/valY tRNA‑Val/tRNA‑Val