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 | 1,648,882 | +T | intergenic (‑119/+177) | oprB‑II ← / ← PP_1446 | carbohydrate‑selective porin/TonB‑dependent receptor |
| JC | 1,851,823 | (TGCG)2→3 | coding (867/2241 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 |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_002947 | 171384–176319 | 176319 | 1–4936 | 8 [6] | [7] 10 | PP_16SA–[PP_5SA] | PP_16SA,PP_23SA,[PP_5SA] |
| * | * | ÷ | NC_002947 | 176649–181698 | 181698 | 1–5050 | 8 [6] | [7] 11 | PP_16SB–[PP_r01] | PP_16SB,PP_23SB,[PP_r01] |
| * | * | ÷ | NC_002947 | 4808205 | 4808218 | 14 | 15 [0] | [0] 22 | 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) | 24 (0.760) +CGAAA |
12/256 | 1.7 | 30.8% | intergenic (+43/‑420) | PP_5SA/PP_16SB | 5S ribosomal RNA/16S ribosomal RNA |
| ? | NC_002947 | = 182013 | 56 (1.710) | intergenic (+2/+63) | PP_5SB/PP_0160 | 5S ribosomal RNA/ferrioxamine receptor | |||||
| * | ? | NC_002947 | = 401299 | NA (NA) | 10 (0.310) | 8/258 | 2.5 | 22.8% | coding (882/1059 nt) | PP_0334 | transposase |
| ? | NC_002947 | = 401390 | 35 (1.070) | coding (973/1059 nt) | PP_0334 | transposase | |||||
| * | ? | NC_002947 | = 652785 | 28 (0.850) | 12 (0.430) | 12/226 | 1.4 | 50.2% | 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 | = 745617 | NA (NA) | 11 (0.340) | 9/264 | 2.4 | NA | coding (885/1533 nt) | PP_0637 | transposase |
| ? | NC_002947 | = 745658 | NA (NA) | coding (844/1533 nt) | PP_0637 | transposase | |||||
| * | ? | NC_002947 | = 1780127 | 25 (0.760) | 11 (0.390) | 9/228 | 2.0 | 29.6% | intergenic (+44/+62) | PP_1587/dapC | NhaP‑type Na+(K+)/H+ antiporter/N‑succinyl‑L,L‑diaminopimelate aminotransferase |
| ? | NC_002947 | = 1780151 | 31 (1.100) | intergenic (+68/+38) | PP_1587/dapC | NhaP‑type Na+(K+)/H+ antiporter/N‑succinyl‑L,L‑diaminopimelate aminotransferase | |||||
| * | ? | NC_002947 | 1967188 = | 22 (0.670) | 9 (0.370) | 7/200 | 2.1 | 36.3% | intergenic (+15/+104) | PP_1762/yciK | hypothetical protein/putative oxidoreductase |
| ? | NC_002947 | 1967284 = | 15 (0.610) | intergenic (+111/+8) | PP_1762/yciK | hypothetical protein/putative oxidoreductase | |||||
| * | ? | NC_002947 | 2048837 = | 38 (1.160) | 10 (0.350) | 9/232 | 2.0 | 24.3% | intergenic (+33/+106) | PP_1821/PP_1822 | glutathione S‑transferase family protein/hypothetical protein |
| ? | NC_002947 | 2048928 = | 29 (1.010) | intergenic (+124/+15) | PP_1821/PP_1822 | glutathione S‑transferase family protein/hypothetical protein | |||||
| * | ? | NC_002947 | 2050602 = | 15 (0.460) | 4 (0.170) | 4/192 | 3.0 | 25.1% | intergenic (‑52/+123) | PP_1824/PP_1825 | Smr domain‑containing protein/hypothetical protein |
| ? | NC_002947 | 2050712 = | 13 (0.550) | intergenic (‑162/+13) | PP_1824/PP_1825 | Smr domain‑containing protein/hypothetical protein | |||||
| * | ? | NC_002947 | = 2050638 | 15 (0.460) | 4 (0.170) | 4/192 | 3.0 | 25.1% | intergenic (‑88/+87) | PP_1824/PP_1825 | Smr domain‑containing protein/hypothetical protein |
| ? | NC_002947 | = 2050674 | 13 (0.550) | intergenic (‑124/+51) | PP_1824/PP_1825 | Smr domain‑containing protein/hypothetical protein | |||||
| * | ? | NC_002947 | 2295818 = | 36 (1.100) | 10 (0.370) | 9/218 | 1.8 | 28.0% | intergenic (+21/+112) | PP_5496/PP_2023 | hypothetical protein/glutathione S‑transferase family protein |
| ? | NC_002947 | 2295903 = | 22 (0.820) | intergenic (+106/+27) | PP_5496/PP_2023 | hypothetical protein/glutathione S‑transferase family protein | |||||
| * | ? | NC_002947 | 4344327 = | 26 (0.790) | 7 (0.250) | 7/228 | 2.5 | 24.9% | intergenic (+14/‑142) | PP_3817/PP_3818 | polyamine ABC transporter ATP‑binding protein/phosphate‑binding protein |
| ? | NC_002947 | 4344385 = | 20 (0.710) | intergenic (+72/‑84) | PP_3817/PP_3818 | polyamine ABC transporter ATP‑binding protein/phosphate‑binding protein | |||||
| * | ? | NC_002947 | 4586063 = | 4 (0.120) | 6 (0.260) | 6/190 | 2.2 | 57.5% | intergenic (+102/+115) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947 | 4586167 = | 6 (0.260) | intergenic (+206/+11) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||
| * | ? | NC_002947 | = 4586100 | 4 (0.120) | 4 (0.170) | 6/190 | 2.2 | 47.5% | intergenic (+139/+78) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947 | = 4586128 | 6 (0.260) | intergenic (+167/+50) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||
| * | ? | NC_002947 | 4808219 = | 0 (0.000) | 12 (0.500) | 10/196 | 1.4 | 43.6% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5988991 | 31 (1.280) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | 4886181 = | 29 (0.880) | 6 (0.230) | 5/208 | 2.8 | 21.9% | intergenic (+15/+108) | PP_4295/PP_4296 | TetR family transcriptional regulator/hypothetical protein |
| ? | NC_002947 | 4886268 = | 20 (0.780) | intergenic (+102/+21) | PP_4295/PP_4296 | TetR family transcriptional regulator/hypothetical protein | |||||
| * | ? | NC_002947 | = 5147833 | NA (NA) | 7 (0.230) | 7/252 | 2.7 | 100% | coding (890/1302 nt) | mscMB | miniconductance mechanosensitive channel protein |
| ? | NC_002947 | = 5147853 | 0 (0.000) | coding (910/1302 nt) | mscMB | miniconductance mechanosensitive channel protein | |||||
| * | ? | NC_002947 | = 5477178 | 15 (0.460) | 5 (0.220) | 5/184 | 2.5 | 29.1% | intergenic (+43/+69) | PP_4813/PP_4814 | PAP2 family protein/DedA family protein/ATP‑dependent protease La domain‑containing protein |
| ? | NC_002947 | = 5477195 | 14 (0.620) | intergenic (+60/+52) | PP_4813/PP_4814 | PAP2 family protein/DedA family protein/ATP‑dependent protease La domain‑containing protein | |||||
| * | ? | NC_002947 | 5538592 = | 34 (1.040) | 7 (0.250) | 6/224 | 2.7 | 21.7% | intergenic (+34/+87) | PP_4871/PP_4872 | lysine decarboxylase family protein/hypothetical protein |
| ? | NC_002947 | 5538647 = | 22 (0.800) | intergenic (+89/+32) | PP_4871/PP_4872 | lysine decarboxylase family protein/hypothetical protein | |||||
| * | ? | NC_002947 | = 5724339 | 28 (0.850) | 7 (0.260) | 7/218 | 2.3 | 20.0% | intergenic (‑185/+109) | PP_5024/opgH | amino acid ABC transporter substrate‑binding protein/glucans biosynthesis glucosyltransferase H |
| ? | NC_002947 | = 5724358 | 33 (1.230) | intergenic (‑204/+90) | PP_5024/opgH | amino acid ABC transporter substrate‑binding protein/glucans biosynthesis glucosyltransferase H | |||||
| * | ? | NC_002947 | 5914213 = | 15 (0.460) | 7 (0.270) | 5/210 | 2.8 | 29.9% | intergenic (+49/+104) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase |
| ? | NC_002947 | 5914309 = | 21 (0.810) | intergenic (+145/+8) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase | |||||
| * | ? | NC_002947 | = 5914240 | 15 (0.460) | 11 (0.420) | 8/210 | 2.0 | 40.1% | intergenic (+76/+77) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase |
| ? | NC_002947 | = 5914280 | 21 (0.810) | intergenic (+116/+37) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase | |||||
| * | ? | NC_002947 | 6032808 = | 33 (1.010) | 11 (0.450) | 12/200 | 1.1 | 32.4% | intergenic (+16/+120) | dppA‑IV/PP_5284 | dipeptide transport protein/hypothetical protein |
| ? | NC_002947 | 6032890 = | 21 (0.850) | intergenic (+98/+38) | dppA‑IV/PP_5284 | dipeptide transport protein/hypothetical protein | |||||