mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| JC | 1,852,190 | (GTGGCCTGGCCGAGCAGTTGCGGGTCGACATCG)1→2 | coding (1234/2241 nt) | relA → | ATP:GTP 3'‑pyrophosphotransferase |
| RA | 2,467,162 | C→T | P3P (CCC→CCT) | queF → | NADPH‑dependent 7‑cyano‑7‑deazaguanine reductase |
| MC JC | 3,357,054 | Δ9,542 bp | [PP_2953]–PP_2962 | [PP_2953], PP_2954, PP_5543, PP_2955, PP_2956, PP_2957, grx, PP_2959, PP_2960, PP_2961, PP_2962 | |
| RA | 4,741,277 | C→T | intergenic (+468/+284) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,280 | C→T | intergenic (+471/+281) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,283 | C→G | intergenic (+474/+278) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,285 | 2 bp→CT | intergenic (+476/+275) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_002947 | 171348–176327 | 176327 | 1–4980 | 18 [16] | [16] 21 | PP_16SA–[PP_5SA] | PP_16SA,PP_23SA,[PP_5SA] |
| * | * | ÷ | NC_002947 | 176630–181732 | 181732 | 1–5103 | 19 [17] | [16] 18 | PP_16SB–[PP_r01] | PP_16SB,PP_23SB,[PP_r01] |
| * | * | ÷ | NC_002947 | 4808205 | 4808218 | 14 | 33 [0] | [0] 41 | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 200407 | 50 (0.890) | 25 (0.660) +41 bp |
10/174 | 2.9 | 42.9% | coding (5913/26049 nt) | PP_0168 | putative surface adhesion protein |
| ? | NC_002947 | = 217036 | 48 (0.860) | coding (22542/26049 nt) | PP_0168 | putative surface adhesion protein | |||||
| * | ? | NC_002947 | = 652785 | 46 (0.820) | 28 (0.590) | 23/216 | 1.4 | 59.1% | coding (1961/1962 nt) | ctpL | methyl‑accepting chemotaxis protein CtpL |
| ? | NC_002947 | = 4808204 | 0 (0.000) | intergenic (‑268/‑287) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | 1296580 = | NA (NA) | 40 (0.770) | 28/238 | 1.1 | NA | intergenic (‑327/‑239) | nhaA‑I/PP_1133 | Na(+)/H(+) antiporter NhaA/transposase |
| ? | NC_002947 | 1296616 = | NA (NA) | intergenic (‑363/‑203) | nhaA‑I/PP_1133 | Na(+)/H(+) antiporter NhaA/transposase | |||||
| * | ? | NC_002947 | = 2553944 | NA (NA) | 45 (0.880) | 15/234 | 2.9 | 47.2% | intergenic (+32/‑119) | PP_5SF/PP_2240 | 5S ribosomal RNA/ABC transporter permease/ATP‑binding protein |
| ? | NC_002947 | 5307467 = | 55 (0.980) | intergenic (‑168/+18) | recC/PP_5SG | multifunctional ATP‑dependent DNA helicase/dsDNA/ssDNA exonuclease/ssDNA endonuclease recombinase subunit/5S ribosomal RNA | |||||
| * | ? | NC_002947 | 4340085 = | 14 (0.250) | 14 (0.340) | 11/188 | 3.0 | 54.6% | intergenic (+26/‑305) | ribAB‑II/PP_3814 | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein |
| ? | NC_002947 | 4340169 = | 13 (0.320) | intergenic (+110/‑221) | ribAB‑II/PP_3814 | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein | |||||
| * | ? | NC_002947 | 4808219 = | 0 (0.000) | 28 (0.690) | 22/186 | 1.0 | 59.6% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5988991 | 38 (0.940) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 4861197 | 55 (0.980) | 16 (0.360) | 13/206 | 2.9 | 26.6% | intergenic (‑103/+134) | ligA/PP_4275 | DNA ligase/cell division protein ZipA |
| ? | NC_002947 | = 4861238 | 44 (0.980) | intergenic (‑144/+93) | ligA/PP_4275 | DNA ligase/cell division protein ZipA | |||||
| * | ? | NC_002947 | = 5653009 | 54 (0.970) | 17 (0.360) | 16/214 | 2.4 | 25.0% | intergenic (‑59/+102) | PP_4961/PP_4962 | lipoprotein/hypothetical protein |
| ? | NC_002947 | = 5653023 | 57 (1.220) | intergenic (‑73/+88) | PP_4961/PP_4962 | lipoprotein/hypothetical protein | |||||
| * | ? | NC_002947 | 5743392 = | 62 (1.110) | 19 (0.380) | 16/230 | 2.7 | 27.2% | intergenic (‑169/+78) | fbp/glgP | class 1 fructose‑1,6‑bisphosphatase/glycogen phosphorylase |
| ? | NC_002947 | 5743446 = | 46 (0.920) | intergenic (‑223/+24) | fbp/glgP | class 1 fructose‑1,6‑bisphosphatase/glycogen phosphorylase | |||||
| * | ? | NC_002947 | 6006595 = | 7 (0.130) | 16 (0.400) | 13/184 | 2.4 | 86.4% | intergenic (+7/+92) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator |
| ? | NC_002947 | 6006679 = | 0 (0.000) | intergenic (+91/+8) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator | |||||
| * | ? | NC_002947 | = 6006630 | 7 (0.130) | 23 (0.570) | 12/184 | 2.6 | 90.1% | intergenic (+42/+57) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator |
| ? | NC_002947 | = 6006642 | 0 (0.000) | intergenic (+54/+45) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator | |||||
| * | ? | NC_002947 | = 6013891 | 30 (0.540) | 22 (0.500) | 17/202 | 2.0 | 43.3% | intergenic (+40/+70) | xpt/PP_5266 | xanthine phosphoribosyltransferase/acetyl‑CoA hydrolase family protein |
| ? | NC_002947 | = 6013919 | 34 (0.770) | intergenic (+68/+42) | xpt/PP_5266 | xanthine phosphoribosyltransferase/acetyl‑CoA hydrolase family protein | |||||