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 | 1,851,535 | +TAC | coding (579/2241 nt) | relA → | ATP:GTP 3'‑pyrophosphotransferase |
| 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 |
| RA | 5,610,105 | C→G | G154A (GGC→GCC) | PP_4929 ← | LysR family transcriptional regulator |
| MC JC | 5,912,986 | Δ42 bp | coding (199‑240/1377 nt) | spuI → | glutamylpolyamine synthetase |
| RA | 6,180,715 | A→T | I263N (ATC→AAC) | atpB ← | ATP synthase subunit a |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_002947 | 171367–176290 | 176290 | 1–4924 | 15 [12] | [14] 15 | PP_16SA–[PP_5SA] | PP_16SA,PP_23SA,[PP_5SA] |
| * | * | ÷ | NC_002947 | 176652–181702 | 181702 | 1–5051 | 15 [14] | [13] 16 | PP_16SB–[PP_r01] | PP_16SB,PP_23SB,[PP_r01] |
| * | * | ÷ | NC_002947 | 4808205 | 4808218 | 14 | 36 [0] | [0] 32 | 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 | = 652785 | 41 (0.830) | 25 (0.590) | 21/224 | 1.2 | 59.0% | 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 | = 883865 | 34 (0.680) | 22 (0.580) | 14/200 | 1.9 | 42.4% | intergenic (+100/‑228) | PP_0766/PP_0767 | hypothetical protein/LuxR family transcriptional regulator |
| ? | NC_002947 | = 883875 | 34 (0.900) | intergenic (+110/‑218) | PP_0766/PP_0767 | hypothetical protein/LuxR family transcriptional regulator | |||||
| * | ? | NC_002947 | 1296580 = | NA (NA) | 20 (0.430) | 16/246 | 2.2 | 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 | 1780109 = | 48 (0.970) | 13 (0.310) | 13/226 | 2.5 | 25.7% | intergenic (+26/+80) | PP_1587/dapC | NhaP‑type Na+(K+)/H+ antiporter/N‑succinyl‑L,L‑diaminopimelate aminotransferase |
| ? | NC_002947 | 1780171 = | 34 (0.800) | intergenic (+88/+18) | PP_1587/dapC | NhaP‑type Na+(K+)/H+ antiporter/N‑succinyl‑L,L‑diaminopimelate aminotransferase | |||||
| * | ? | NC_002947 | 1844176 = | 3 (0.060) | 50 (1.050) | 44/254 | 0.2 | 75.2% | coding (660/2754 nt) | gacS | sensor protein GacS |
| ? | NC_002947 | = 2179419 | 30 (0.630) | intergenic (+175/+93) | PP_1931/PP_5486 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_002947 | = 1844179 | 3 (0.060) | 31 (0.640) | 30/256 | 0.8 | 53.0% | coding (657/2754 nt) | gacS | sensor protein GacS |
| ? | NC_002947 | 2177745 = | 52 (1.080) | intergenic (+103/‑63) | PP_5485/PP_1931 | GNAT family acetyltransferase/hypothetical protein | |||||
| * | ? | NC_002947 | 1967188 = | 44 (0.890) | 19 (0.510) | 13/198 | 2.1 | 38.8% | intergenic (+15/+104) | PP_1762/yciK | hypothetical protein/putative oxidoreductase |
| ? | NC_002947 | 1967284 = | 27 (0.730) | intergenic (+111/+8) | PP_1762/yciK | hypothetical protein/putative oxidoreductase | |||||
| * | ? | NC_002947 | = 1970782 | 62 (1.250) | 14 (0.330) | 11/224 | 2.9 | 20.3% | intergenic (+33/‑233) | mtnA/PP_mr25 | methylthioribose‑1‑phosphate isomerase/gyrA regulatory region |
| ? | NC_002947 | = 1970844 | 57 (1.350) | intergenic (+95/‑171) | mtnA/PP_mr25 | methylthioribose‑1‑phosphate isomerase/gyrA regulatory region | |||||
| * | ? | NC_002947 | = 2087064 | NA (NA) | 22 (0.460) | 17/254 | 2.2 | NA | coding (1136/1302 nt) | PP_1865 | transposase |
| ? | NC_002947 | = 2087083 | NA (NA) | coding (1155/1302 nt) | PP_1865 | transposase | |||||
| * | ? | NC_002947 | 4808219 = | 0 (0.000) | 14 (0.380) | 11/194 | 2.4 | 56.0% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5988991 | 22 (0.600) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | 5201627 = | 48 (0.970) | 10 (0.280) | 9/190 | 2.9 | 24.8% | intergenic (‑65/‑115) | PP_4582/PP_4583 | membrane protein/putative Peptidase |
| ? | NC_002947 | 5201722 = | 26 (0.730) | intergenic (‑160/‑20) | PP_4582/PP_4583 | membrane protein/putative Peptidase | |||||
| * | ? | NC_002947 | 5477138 = | 12 (0.240) | 13 (0.380) | 10/182 | 2.5 | 49.7% | intergenic (+3/+109) | PP_4813/PP_4814 | PAP2 family protein/DedA family protein/ATP‑dependent protease La domain‑containing protein |
| ? | NC_002947 | 5477237 = | 18 (0.530) | intergenic (+102/+10) | PP_4813/PP_4814 | PAP2 family protein/DedA family protein/ATP‑dependent protease La domain‑containing protein | |||||
| * | ? | NC_002947 | = 5477178 | 12 (0.240) | 12 (0.350) | 11/182 | 2.2 | 47.7% | intergenic (+43/+69) | PP_4813/PP_4814 | PAP2 family protein/DedA family protein/ATP‑dependent protease La domain‑containing protein |
| ? | NC_002947 | = 5477195 | 18 (0.530) | intergenic (+60/+52) | PP_4813/PP_4814 | PAP2 family protein/DedA family protein/ATP‑dependent protease La domain‑containing protein | |||||
| * | ? | NC_002947 | = 5506637 | 56 (1.130) | 23 (0.590) | 15/206 | 1.8 | 33.2% | intergenic (+48/‑151) | PP_4839/cycA | iron‑regulated membrane protein/D‑alanine/beta‑alanine/D‑serine/glycine permease |
| ? | NC_002947 | = 5506650 | 49 (1.260) | intergenic (+61/‑138) | PP_4839/cycA | iron‑regulated membrane protein/D‑alanine/beta‑alanine/D‑serine/glycine permease | |||||
| * | ? | NC_002947 | = 5816927 | 51 (1.030) | 16 (0.370) | 12/228 | 2.8 | 26.7% | intergenic (+57/+72) | PP_5092/pilT | NLP/P60 protein/twitching motility protein |
| ? | NC_002947 | = 5816954 | 44 (1.030) | intergenic (+84/+45) | PP_5092/pilT | NLP/P60 protein/twitching motility protein | |||||
| * | ? | NC_002947 | = 6000988 | 41 (0.830) | 11 (0.290) | 10/204 | 2.9 | 21.4% | intergenic (+39/+70) | PP_5256/amaA | cyclic nucleotide‑binding protein/L‑pipecolate oxidase |
| ? | NC_002947 | = 6001022 | 49 (1.280) | intergenic (+73/+36) | PP_5256/amaA | cyclic nucleotide‑binding protein/L‑pipecolate oxidase | |||||