breseq  version 0.33.1  revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Marginal read alignment evidence (highest frequency 20 of 23 shown, sorted by frequency from high to low)
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029471,499,4971.C71.5% 141.0 / 176.8 159intergenic (+74/‑90)trpS/zapEtryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein
*NC_0029471,499,4980TG71.5% 74.6 / 145.2 159intergenic (+75/‑89)trpS/zapEtryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein
*NC_0029474,741,2290AC57.9% 12.5 / 33.6 38intergenic (+466/+287)gltA/yeiWcitrate synthase/putative oxidoreductase
*NC_0029474,741,2310CG52.6% ‑0.8 / 64.8 38intergenic (+468/+285)gltA/yeiWcitrate synthase/putative oxidoreductase
*NC_0029474,741,2370CG52.6% ‑0.3 / 63.2 38intergenic (+474/+279)gltA/yeiWcitrate synthase/putative oxidoreductase
*NC_0029474,741,2390AG52.6% 37.6 / 43.5 38intergenic (+476/+277)gltA/yeiWcitrate synthase/putative oxidoreductase
*NC_0029474,741,2440CG52.6% ‑2.1 / 70.0 38intergenic (+481/+272)gltA/yeiWcitrate synthase/putative oxidoreductase
*NC_0029474,741,2450AC52.6% 21.5 / 71.0 38intergenic (+482/+271)gltA/yeiWcitrate synthase/putative oxidoreductase
*NC_002947699,7220AG50.0% 318.4 / 71.9 280intergenic (+115/‑129)PP_t06/PP_23SDtRNA‑Ala/23S ribosomal RNA
*NC_0029474,741,2320CT47.4% 53.0 / 57.4 38intergenic (+469/+284)gltA/yeiWcitrate synthase/putative oxidoreductase
*NC_0029474,741,2350CT47.4% 17.1 / 46.6 38intergenic (+472/+281)gltA/yeiWcitrate synthase/putative oxidoreductase
*NC_0029474,741,2380CG47.4% ‑5.6 / 63.9 38intergenic (+475/+278)gltA/yeiWcitrate synthase/putative oxidoreductase
*NC_0029474,741,2400AC47.4% 26.9 / 10.4 38intergenic (+477/+276)gltA/yeiWcitrate synthase/putative oxidoreductase
*NC_0029474,741,2410CT47.4% 46.9 / 55.4 38intergenic (+478/+275)gltA/yeiWcitrate synthase/putative oxidoreductase
*NC_0029474,348,7050AG45.9% 255.6 / 136.0 270intergenic (‑70/+404)PP_3820/galUgroup II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase
*NC_0029471,327,1210CT42.9% 200.7 / inf 345intergenic (+97/‑196)PP_16SE/PP_23SE16S ribosomal RNA/23S ribosomal RNA
*NC_0029474,741,2281.C42.1% 5.9 / 86.4 38intergenic (+465/+288)gltA/yeiWcitrate synthase/putative oxidoreductase
*NC_002947195,6340CT36.1% 19.0 / 183.5 241T380T (ACC→ACTPP_0168putative surface adhesion protein
*NC_0029471,499,4981.G28.3% 121.2 / 224.4 159intergenic (+75/‑89)trpS/zapEtryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein
*NC_0029472,087,2100TG25.2% 284.8 / 59.7 211intergenic (+23/+895)PP_1865/aroHtransposase/3‑deoxy‑7‑phosphoheptulonate synthase

Marginal new junction evidence (lowest skew 10 of 12 shown)
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_002947 4808174 =7 (0.040)28 (0.220) 16/166 9.7 36.4% intergenic (‑283/‑272) PP_4234/dsbD‑II bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2
?NC_002947 = 5988935 93 (0.720)intergenic (+229/‑317) kefB‑III/PP_mr64 glutathione‑regulated potassium/H+ antiporter/C4 ncRNA
* ? NC_002947 = 5988771117 (0.630)16 (0.090) 16/220 12.2 12.3% intergenic (+65/‑481) kefB‑III/PP_mr64 glutathione‑regulated potassium/H+ antiporter/C4 ncRNA
?NC_002947 5988963 = 120 (0.700)intergenic (+257/‑289) kefB‑III/PP_mr64 glutathione‑regulated potassium/H+ antiporter/C4 ncRNA
* ? NC_002947 = 48081744 (0.020)28 (0.160) 15/220 12.6 85.2% intergenic (‑283/‑272) PP_4234/dsbD‑II bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2
?NC_002947 4808189 = 6 (0.030)intergenic (‑298/‑257) PP_4234/dsbD‑II bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2
* ? NC_002947 = 652783202 (1.090)17 (0.130) 9/166 12.7 19.0% coding (1960/1962 nt) ctpL methyl‑accepting chemotaxis protein CtpL
?NC_002947 4808209 = 3 (0.020)intergenic (‑318/‑237) PP_4234/dsbD‑II bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2
* ? NC_002947 4808174 =7 (0.040)20 (0.140) 10/184 13.1 32.1% intergenic (‑283/‑272) PP_4234/dsbD‑II bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2
?NC_002947 5988779 = 79 (0.550)intergenic (+73/‑473) kefB‑III/PP_mr64 glutathione‑regulated potassium/H+ antiporter/C4 ncRNA
* ? NC_002947 = 48081793 (0.020)28 (0.150) 10/234 15.3 80.0% intergenic (‑288/‑267) PP_4234/dsbD‑II bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2
?NC_002947 4808194 = 11 (0.060)intergenic (‑303/‑252) PP_4234/dsbD‑II bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2
* ? NC_002947 = 48081664 (0.020)15 (0.090)
+AGCGCCG
7/206 15.7 75.6% intergenic (‑275/‑280) PP_4234/dsbD‑II bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2
?NC_002947 = 4808179 6 (0.030)intergenic (‑288/‑267) PP_4234/dsbD‑II bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2
* ? NC_002947 2478415 =36 (0.190)6 (0.040) 5/196 16.6 17.9% coding (112/444 nt) PP_2172 hypothetical protein
?NC_002947 = 2478405 25 (0.160)coding (102/444 nt) PP_2172 hypothetical protein
* ? NC_002947 = 3534746206 (1.120)7 (0.040) 6/222 17.0 3.6% intergenic (+33/‑122) atoB/PP_3124 3‑oxoacid CoA‑transferase subunit B/short chain fatty acid transporter
?NC_002947 3534791 = 184 (1.060)intergenic (+78/‑77) atoB/PP_3124 3‑oxoacid CoA‑transferase subunit B/short chain fatty acid transporter
* ? NC_002947 2478409 =35 (0.190)8 (0.060) 3/184 17.5 25.3% coding (106/444 nt) PP_2172 hypothetical protein
?NC_002947 = 2478405 20 (0.140)coding (102/444 nt) PP_2172 hypothetical protein