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 |
| RA | 1,852,269 | C→T | A438V (GCC→GTC) | relA → | ATP:GTP 3'‑pyrophosphotransferase |
| RA | 4,741,273 | +C | intergenic (+464/+288) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,275 | A→G | intergenic (+466/+286) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| 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 | 5,610,405 | A→C | V54G (GTC→GGC) | PP_4929 ← | LysR family transcriptional regulator |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_002947 | 4808205 | 4808218 | 14 | 13 [0] | [0] 18 | 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 | = 174474 | NA (NA) | 11 (0.370) | 7/252 | 2.6 | NA | noncoding (1272/2902 nt) | PP_23SA | 23S ribosomal RNA |
| ? | NC_002947 | = 174479 | NA (NA) | noncoding (1277/2902 nt) | PP_23SA | 23S ribosomal RNA | |||||
| * | ? | NC_002947 | 203692 = | NA (NA) | 8 (0.260) | 7/258 | 2.6 | NA | coding (9198/26049 nt) | PP_0168 | putative surface adhesion protein |
| ? | NC_002947 | 203763 = | NA (NA) | coding (9269/26049 nt) | PP_0168 | putative surface adhesion protein | |||||
| * | ? | NC_002947 | = 445088 | 26 (0.820) | 9 (0.360) | 7/212 | 2.1 | 27.8% | intergenic (+58/‑230) | PP_0367/PP_0368 | hypothetical protein/acyl‑CoA dehydrogenase |
| ? | NC_002947 | = 445127 | 26 (1.030) | intergenic (+97/‑191) | PP_0367/PP_0368 | hypothetical protein/acyl‑CoA dehydrogenase | |||||
| * | ? | NC_002947 | 634164 = | 12 (0.380) | 6 (0.210) | 6/244 | 2.7 | 36.4% | coding (467/2016 nt) | PP_0546 | sigma‑54 dependent transcriptional regulator |
| ? | NC_002947 | 634197 = | 10 (0.340) | coding (500/2016 nt) | PP_0546 | sigma‑54 dependent transcriptional regulator | |||||
| * | ? | NC_002947 | = 652785 | 36 (1.140) | 13 (0.480) | 11/226 | 1.4 | 46.0% | 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 | = 718459 | 33 (1.040) | 8 (0.300) | 6/228 | 2.6 | 21.3% | intergenic (+26/+51) | thiO/PP_0613 | FAD‑dependent glycine/D‑amino acid oxidase/amidase family protein |
| ? | NC_002947 | = 718465 | 31 (1.140) | intergenic (+32/+45) | thiO/PP_0613 | FAD‑dependent glycine/D‑amino acid oxidase/amidase family protein | |||||
| * | ? | NC_002947 | 741602 = | NA (NA) | 6 (0.200) | 6/254 | 2.9 | NA | intergenic (+199/‑301) | PP_t12/PP_0635 | tRNA‑Thr/group II intron‑encoding maturase |
| ? | NC_002947 | 741618 = | NA (NA) | intergenic (+215/‑285) | PP_t12/PP_0635 | tRNA‑Thr/group II intron‑encoding maturase | |||||
| * | ? | NC_002947 | 1296580 = | NA (NA) | 9 (0.310) | 8/248 | 2.3 | 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 | = 1419584 | 20 (0.630) | 10 (0.420) | 7/202 | 2.0 | 35.0% | intergenic (‑67/+70) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein |
| ? | NC_002947 | = 1419614 | 22 (0.920) | intergenic (‑97/+40) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_002947 | 1843149 = | 0 (0.000) | 36 (1.180) | 33/256 | 0.1 | 81.8% | coding (1687/2754 nt) | gacS | sensor protein GacS |
| ? | NC_002947 | = 2179419 | 16 (0.530) | intergenic (+175/+93) | PP_1931/PP_5486 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_002947 | = 1843152 | 0 (0.000) | 24 (0.780) | 21/258 | 0.6 | 64.0% | coding (1684/2754 nt) | gacS | sensor protein GacS |
| ? | NC_002947 | 2177745 = | 27 (0.880) | intergenic (+103/‑63) | PP_5485/PP_1931 | GNAT family acetyltransferase/hypothetical protein | |||||
| * | ? | NC_002947 | 1899260 = | 35 (1.110) | 8 (0.290) | 7/236 | 2.4 | 23.5% | intergenic (+288/‑232) | PP_t18/PP_1703 | tRNA‑Asp/assimilatory nitrate reductase/sulfite reductase |
| ? | NC_002947 | 1899320 = | 21 (0.750) | intergenic (+348/‑172) | PP_t18/PP_1703 | tRNA‑Asp/assimilatory nitrate reductase/sulfite reductase | |||||
| * | ? | NC_002947 | = 1967220 | 7 (0.220) | 12 (0.510) | 10/200 | 1.3 | 61.2% | intergenic (+47/+72) | PP_1762/yciK | hypothetical protein/putative oxidoreductase |
| ? | NC_002947 | = 1967250 | 10 (0.420) | intergenic (+77/+42) | PP_1762/yciK | hypothetical protein/putative oxidoreductase | |||||
| * | ? | NC_002947 | = 2048853 | 26 (0.820) | 8 (0.290) | 8/232 | 2.1 | 24.8% | intergenic (+49/+90) | PP_1821/PP_1822 | glutathione S‑transferase family protein/hypothetical protein |
| ? | NC_002947 | = 2048910 | 26 (0.940) | intergenic (+106/+33) | PP_1821/PP_1822 | glutathione S‑transferase family protein/hypothetical protein | |||||
| * | ? | NC_002947 | = 2472183 | 15 (0.470) | 6 (0.270) | 6/188 | 2.1 | 28.9% | intergenic (+44/+105) | PP_2166/PP_2167 | anti‑anti‑sigma factor/PhoD‑like phosphatase |
| ? | NC_002947 | = 2472229 | 19 (0.850) | intergenic (+90/+59) | PP_2166/PP_2167 | anti‑anti‑sigma factor/PhoD‑like phosphatase | |||||
| * | ? | NC_002947 | = 3166465 | 24 (0.760) | 9 (0.300) | 8/254 | 2.3 | 27.3% | coding (854/1299 nt) | PP_2780 | 3‑oxoacyl‑ACP synthase |
| ? | NC_002947 | = 3166487 | 25 (0.830) | coding (876/1299 nt) | PP_2780 | 3‑oxoacyl‑ACP synthase | |||||
| * | ? | NC_002947 | = 3556182 | 25 (0.790) | 8 (0.260) | 6/262 | 2.9 | 26.0% | coding (556/1188 nt) | PP_3140 | group 2 family glycosyl transferase |
| ? | NC_002947 | = 3556204 | 21 (0.670) | coding (578/1188 nt) | PP_3140 | group 2 family glycosyl transferase | |||||
| * | ? | NC_002947 | 4537554 = | NA (NA) | 6 (0.190) | 6/260 | 2.9 | NA | coding (845/1533 nt) | PP_4025 | transposase |
| ? | NC_002947 | 4537593 = | NA (NA) | coding (884/1533 nt) | PP_4025 | transposase | |||||
| * | ? | NC_002947 | = 4586100 | 18 (0.570) | 11 (0.490) | 7/190 | 1.8 | 43.3% | intergenic (+139/+78) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947 | = 4586128 | 16 (0.710) | intergenic (+167/+50) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||
| * | ? | NC_002947 | 4808219 = | 0 (0.000) | 13 (0.560) | 9/196 | 1.5 | 52.0% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5988991 | 24 (1.030) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 4860181 | 27 (0.850) | 10 (0.340) | 8/244 | 2.2 | 25.4% | coding (914/2331 nt) | ligA | DNA ligase |
| ? | NC_002947 | = 4860205 | 34 (1.170) | coding (890/2331 nt) | ligA | DNA ligase | |||||
| * | ? | NC_002947 | = 4861197 | 40 (1.260) | 10 (0.390) | 8/216 | 1.9 | 23.4% | intergenic (‑103/+134) | ligA/PP_4275 | DNA ligase/cell division protein ZipA |
| ? | NC_002947 | = 4861238 | 33 (1.290) | intergenic (‑144/+93) | ligA/PP_4275 | DNA ligase/cell division protein ZipA | |||||
| * | ? | NC_002947 | 5038212 = | NA (NA) | 9 (0.280) | 8/266 | 2.4 | NA | coding (1256/1536 nt) | PP_4443 | transposase |
| ? | NC_002947 | 5038234 = | NA (NA) | coding (1278/1536 nt) | PP_4443 | transposase | |||||
| * | ? | NC_002947 | = 5537105 | 28 (0.890) | 7 (0.280) | 6/212 | 2.4 | 22.1% | intergenic (+34/+69) | nadE/PP_4870 | NH(3)‑dependent NAD(+) synthetase/azurin |
| ? | NC_002947 | = 5537127 | 27 (1.070) | intergenic (+56/+47) | nadE/PP_4870 | NH(3)‑dependent NAD(+) synthetase/azurin | |||||
| * | ? | NC_002947 | = 5816927 | 18 (0.570) | 13 (0.480) | 7/230 | 2.3 | 39.1% | intergenic (+57/+72) | PP_5092/pilT | NLP/P60 protein/twitching motility protein |
| ? | NC_002947 | = 5816954 | 25 (0.920) | intergenic (+84/+45) | PP_5092/pilT | NLP/P60 protein/twitching motility protein | |||||
| * | ? | NC_002947 | 5903827 = | 23 (0.730) | 6 (0.220) | 5/234 | 3.0 | 23.0% | intergenic (+27/+80) | PP_5176/spuH | hypothetical protein/spermidine/putrescine ABC transporter permease |
| ? | NC_002947 | 5903887 = | 20 (0.720) | intergenic (+87/+20) | PP_5176/spuH | hypothetical protein/spermidine/putrescine ABC transporter permease | |||||
| * | ? | NC_002947 | 5914213 = | 38 (1.200) | 9 (0.360) | 8/210 | 1.8 | 26.5% | intergenic (+49/+104) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase |
| ? | NC_002947 | 5914309 = | 20 (0.800) | intergenic (+145/+8) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase | |||||
| * | ? | NC_002947 | 5984469 = | 37 (1.170) | 9 (0.340) | 6/220 | 2.5 | 27.1% | intergenic (+9/+80) | PP_5242/ycaC‑II | GAF domain‑containing sensor histidine kinase/putative hydrolase |
| ? | NC_002947 | 5984535 = | 18 (0.690) | intergenic (+75/+14) | PP_5242/ycaC‑II | GAF domain‑containing sensor histidine kinase/putative hydrolase | |||||
| * | ? | NC_002947 | 6032808 = | 31 (0.980) | 8 (0.340) | 10/200 | 1.3 | 28.4% | intergenic (+16/+120) | dppA‑IV/PP_5284 | dipeptide transport protein/hypothetical protein |
| ? | NC_002947 | 6032890 = | 17 (0.720) | intergenic (+98/+38) | dppA‑IV/PP_5284 | dipeptide transport protein/hypothetical protein | |||||