mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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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 | 188,837 | C→T | R316C (CGC→TGC) | PP_0165 → | GGDEF domain‑containing protein |
| RA | 233,545 | C→T | G548G (GGC→GGT) | PP_0180 → | cytochrome c family protein |
| RA | 476,133 | A→T | Q141L (CAG→CTG) | tsaD → | tRNA N6‑adenosine(37)‑threonylcarbamoyltransferase complex transferase subunit TsaD |
| RA | 1,011,323 | +T | intergenic (‑258/+192) | PP_0871 ← / ← SBRG_Ecoli_galM | glycine betaine/carnitine/choline ABC transporter permease/SBRG_Ecoli_galM |
| MC JC | 1,515,811 | (33-bp)2→1 | pseudogene (715‑747/1851 nt) | PP_1325 ← | putative lipoprotein |
| RA | 1,856,513 | A→G | D203G (GAT→GGT) | relA → | ATP:GTP 3'‑pyrophosphotransferase |
| RA | 4,018,201 | G→A | intergenic (+144/‑36) | mvaB → / → PP_mr44 | hydroxymethylglutaryl‑CoA lyase/CrcZ ncRNA |
| RA | 4,746,232 | C→G | intergenic (+474/+278) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,746,234 | 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 | 171376–176292 | 176292 | 1–4917 | 16 [15] | [14] 16 | PP_16SA–[PP_5SA] | PP_16SA,PP_23SA,[PP_5SA] |
| * | * | ÷ | NC_002947 | 176632–181704 | 181704 | 1–5073 | 17 [15] | [12] 16 | PP_16SB–[PP_r01] | PP_16SB,PP_23SB,[PP_r01] |
| * | * | ÷ | NC_002947 | 4813154 | 4813167 | 14 | 40 [2] | [0] 51 | 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 | = 176399 | NA (NA) | 34 (0.720) +CGAAA |
25/246 | 1.2 | 33.9% | intergenic (+43/‑420) | PP_5SA/PP_16SB | 5S ribosomal RNA/16S ribosomal RNA |
| ? | NC_002947 | = 182013 | 69 (1.410) | intergenic (+2/+63) | PP_5SB/PP_0160 | 5S ribosomal RNA/ferrioxamine receptor | |||||
| * | ? | NC_002947 | 413997 = | 47 (0.960) | 15 (0.390) | 13/200 | 2.4 | 30.4% | intergenic (+14/‑189) | glnE/waaF | glutamate‑ammonia‑ligase adenylyltransferase/ADP‑heptose:LPS heptosyltransferase II |
| ? | NC_002947 | 414083 = | 32 (0.840) | intergenic (+100/‑103) | glnE/waaF | glutamate‑ammonia‑ligase adenylyltransferase/ADP‑heptose:LPS heptosyltransferase II | |||||
| * | ? | NC_002947 | = 652785 | 45 (0.920) | 31 (0.750) | 27/216 | 0.7 | 62.1% | coding (1961/1962 nt) | ctpL | methyl‑accepting chemotaxis protein CtpL |
| ? | NC_002947 | = 4813153 | 0 (0.000) | intergenic (‑268/‑287) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | 1161277 = | 35 (0.710) | 15 (0.380) | 13/206 | 2.5 | 36.5% | intergenic (+25/‑191) | PP_1013/yihS | sensor histidine kinase/aldose‑ketose isomerase |
| ? | NC_002947 | 1161350 = | 24 (0.610) | intergenic (+98/‑118) | PP_1013/yihS | sensor histidine kinase/aldose‑ketose isomerase | |||||
| * | ? | NC_002947 | 1301529 = | NA (NA) | 22 (0.480) | 20/238 | 1.7 | NA | intergenic (‑327/‑239) | nhaA‑I/PP_1133 | Na(+)/H(+) antiporter NhaA/transposase |
| ? | NC_002947 | 1301565 = | NA (NA) | intergenic (‑363/‑203) | nhaA‑I/PP_1133 | Na(+)/H(+) antiporter NhaA/transposase | |||||
| * | ? | NC_002947 | 1491962 = | 37 (0.750) | 16 (0.430) | 13/196 | 2.3 | 44.3% | intergenic (+22/+108) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS |
| ? | NC_002947 | 1492052 = | 12 (0.320) | intergenic (+112/+18) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS | |||||
| * | ? | NC_002947 | = 2104974 | 53 (1.080) | 15 (0.370) | 13/210 | 2.6 | 22.8% | intergenic (‑93/‑112) | PP_1875/PP_1876 | two‑component system sensor histidine kinase/response regulator/AAA family ATP/GTP‑binding protein |
| ? | NC_002947 | = 2105023 | 58 (1.440) | intergenic (‑142/‑63) | PP_1875/PP_1876 | two‑component system sensor histidine kinase/response regulator/AAA family ATP/GTP‑binding protein | |||||
| * | ? | NC_002947 | 4591012 = | 17 (0.350) | 13 (0.380) | 11/180 | 2.4 | 53.2% | intergenic (+102/+115) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947 | 4591116 = | 11 (0.320) | intergenic (+206/+11) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||
| * | ? | NC_002947 | = 4591049 | 17 (0.350) | 15 (0.440) | 14/180 | 1.8 | 56.7% | intergenic (+139/+78) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947 | = 4591077 | 11 (0.320) | intergenic (+167/+50) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||
| * | ? | NC_002947 | 4813168 = | 0 (0.000) | 24 (0.680) | 14/186 | 1.9 | 59.3% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5993940 | 33 (0.930) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | 4901372 = | 40 (0.820) | 18 (0.440) | 16/214 | 2.0 | 37.4% | intergenic (+11/‑197) | PP_4304/sbp‑I | VIC family cation transporter/sulfate ABC transporter substrate‑binding protein |
| ? | NC_002947 | 4901461 = | 27 (0.660) | intergenic (+100/‑108) | PP_4304/sbp‑I | VIC family cation transporter/sulfate ABC transporter substrate‑binding protein | |||||
| * | ? | NC_002947 | = 5206612 | 14 (0.290) | 11 (0.320) | 10/182 | 2.7 | 46.9% | intergenic (‑101/‑79) | PP_4582/PP_4583 | membrane protein/putative Peptidase |
| ? | NC_002947 | = 5206633 | 15 (0.430) | intergenic (‑122/‑58) | PP_4582/PP_4583 | membrane protein/putative Peptidase | |||||
| * | ? | NC_002947 | 5338192 = | 59 (1.200) | 14 (0.320) | 14/226 | 2.6 | 22.8% | intergenic (+27/‑216) | gluQ/PP_5704 | glutamyl‑Q tRNA(Asp) synthetase/hypothetical protein |
| ? | NC_002947 | 5338252 = | 43 (0.990) | intergenic (+87/‑156) | gluQ/PP_5704 | glutamyl‑Q tRNA(Asp) synthetase/hypothetical protein | |||||
| * | ? | NC_002947 | 5482087 = | 48 (0.980) | 19 (0.570) | 13/174 | 1.9 | 53.9% | intergenic (+3/+109) | PP_4813/PP_4814 | PAP2 family protein/DedA family protein/ATP‑dependent protease La domain‑containing protein |
| ? | NC_002947 | 5482186 = | 0 (0.000) | intergenic (+102/+10) | PP_4813/PP_4814 | PAP2 family protein/DedA family protein/ATP‑dependent protease La domain‑containing protein | |||||
| * | ? | NC_002947 | = 5542054 | 63 (1.280) | 15 (0.390) | 12/202 | 2.6 | 21.8% | intergenic (+34/+69) | nadE/PP_4870 | NH(3)‑dependent NAD(+) synthetase/azurin |
| ? | NC_002947 | = 5542076 | 58 (1.500) | intergenic (+56/+47) | nadE/PP_4870 | NH(3)‑dependent NAD(+) synthetase/azurin | |||||
| * | ? | NC_002947 | = 5821876 | 44 (0.900) | 16 (0.380) | 12/220 | 3.0 | 26.3% | intergenic (+57/+72) | PP_5092/pilT | NLP/P60 protein/twitching motility protein |
| ? | NC_002947 | = 5821903 | 52 (1.240) | intergenic (+84/+45) | PP_5092/pilT | NLP/P60 protein/twitching motility protein | |||||
| * | ? | NC_002947 | 6011544 = | 29 (0.590) | 15 (0.430) | 11/184 | 2.5 | 55.8% | intergenic (+7/+92) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator |
| ? | NC_002947 | 6011628 = | 3 (0.090) | intergenic (+91/+8) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator | |||||