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 | 1,852,229 | G→T | A425S (GCC→TCC) | 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 | 171354–176295 | 176295 | 1–4942 | 11 [10] | [8] 11 | PP_16SA–[PP_5SA] | PP_16SA,PP_23SA,[PP_5SA] |
| * | * | ÷ | NC_002947 | 176665–181689 | 181689 | 1–5025 | 11 [10] | [10] 11 | PP_16SB–[PP_r01] | PP_16SB,PP_23SB,[PP_r01] |
| * | * | ÷ | NC_002947 | 1131709 | 1131804 | 96 | 11 [10] | [10] 11 | PP_0992 | hypothetical protein |
| * | * | ÷ | NC_002947 | 4808225 | 4808297 | 73 | 25 [0] | [10] 11 | 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) | 26 (0.710) +CGAAA |
15/260 | 1.7 | 37.5% | intergenic (+43/‑420) | PP_5SA/PP_16SB | 5S ribosomal RNA/16S ribosomal RNA |
| ? | NC_002947 | = 182013 | 45 (1.190) | intergenic (+2/+63) | PP_5SB/PP_0160 | 5S ribosomal RNA/ferrioxamine receptor | |||||
| * | ? | NC_002947 | 401317 = | 24 (0.630) | 10 (0.290) | 10/244 | 2.5 | 25.4% | coding (900/1059 nt) | PP_0334 | transposase |
| ? | NC_002947 | 401373 = | 37 (1.080) | coding (956/1059 nt) | PP_0334 | transposase | |||||
| * | ? | NC_002947 | 413997 = | 45 (1.190) | 10 (0.330) | 7/214 | 2.9 | 26.5% | intergenic (+14/‑189) | glnE/waaF | glutamate‑ammonia‑ligase adenylyltransferase/ADP‑heptose:LPS heptosyltransferase II |
| ? | NC_002947 | 414083 = | 20 (0.670) | intergenic (+100/‑103) | glnE/waaF | glutamate‑ammonia‑ligase adenylyltransferase/ADP‑heptose:LPS heptosyltransferase II | |||||
| * | ? | NC_002947 | 1114875 = | 35 (0.930) | 8 (0.260) | 8/220 | 2.7 | 22.7% | intergenic (‑64/+115) | rlmF/valS | ribosomal RNA large subunit methyltransferase F/valine‑‑tRNA ligase |
| ? | NC_002947 | 1114951 = | 26 (0.850) | intergenic (‑140/+39) | rlmF/valS | ribosomal RNA large subunit methyltransferase F/valine‑‑tRNA ligase | |||||
| * | ? | NC_002947 | = 1149994 | 45 (1.190) | 13 (0.380) | 12/246 | 2.1 | 25.0% | intergenic (‑235/+22) | PP_1008/gapA | RNA polymerase subunit sigma‑24/glyceraldehyde‑3‑phosphate dehydrogenase |
| ? | NC_002947 | 2071272 = | 37 (1.080) | intergenic (+181/+46) | PP_1846/PP_1847 | group II intron‑encoding maturase/TonB‑dependent ferric siderophore receptor | |||||
| * | ? | NC_002947 | 1844176 = | 0 (0.000) | 50 (1.370) | 39/260 | 0.1 | 76.3% | coding (660/2754 nt) | gacS | sensor protein GacS |
| ? | NC_002947 | = 2179419 | 31 (0.850) | intergenic (+175/+93) | PP_1931/PP_5486 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_002947 | = 1844179 | 0 (0.000) | 31 (0.850) | 28/262 | 0.4 | 66.7% | coding (657/2754 nt) | gacS | sensor protein GacS |
| ? | NC_002947 | 2177745 = | 31 (0.850) | intergenic (+103/‑63) | PP_5485/PP_1931 | GNAT family acetyltransferase/hypothetical protein | |||||
| * | ? | NC_002947 | = 4586100 | 23 (0.610) | 12 (0.440) | 12/194 | 1.4 | 41.8% | intergenic (+139/+78) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947 | = 4586128 | 17 (0.630) | intergenic (+167/+50) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||
| * | ? | NC_002947 | 4647603 = | 23 (0.610) | 8 (0.300) | 7/192 | 2.5 | 41.8% | intergenic (+10/+121) | fusB/PP_4112 | elongation factor G 2/sulfate transporter |
| ? | NC_002947 | 4647711 = | 6 (0.220) | intergenic (+118/+13) | fusB/PP_4112 | elongation factor G 2/sulfate transporter | |||||
| * | ? | NC_002947 | = 4808224 | 0 (0.000) | 23 (0.670) | 16/246 | 1.4 | 50.5% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 5988821 = | 45 (1.310) | intergenic (+59/‑487) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | 4896423 = | 39 (1.030) | 12 (0.380) | 11/228 | 2.1 | 31.2% | intergenic (+11/‑197) | PP_4304/sbp‑I | VIC family cation transporter/sulfate ABC transporter substrate‑binding protein |
| ? | NC_002947 | 4896512 = | 20 (0.630) | intergenic (+100/‑108) | PP_4304/sbp‑I | VIC family cation transporter/sulfate ABC transporter substrate‑binding protein | |||||
| * | ? | NC_002947 | 5162618 = | 38 (1.010) | 7 (0.230) | 7/218 | 2.9 | 22.4% | intergenic (+93/+108) | PP_4544/PP_4545 | hypothetical protein/beta‑ketodecanoyl‑ACP synthase |
| ? | NC_002947 | 5162702 = | 18 (0.590) | intergenic (+177/+24) | PP_4544/PP_4545 | hypothetical protein/beta‑ketodecanoyl‑ACP synthase | |||||
| * | ? | NC_002947 | = 5288471 | 20 (0.530) | 9 (0.310) | 9/210 | 2.3 | 34.3% | intergenic (‑104/+80) | PP_4660/mdaB | LysR family transcriptional regulator/drug activity modulator B |
| ? | NC_002947 | = 5288505 | 19 (0.650) | intergenic (‑138/+46) | PP_4660/mdaB | LysR family transcriptional regulator/drug activity modulator B | |||||
| * | ? | NC_002947 | 5382446 = | 36 (0.950) | 6 (0.210) | 6/200 | 3.0 | 23.3% | intergenic (+18/+115) | smpB/pdhR | SsrA‑binding protein/DNA‑binding transcriptional regulator LldR |
| ? | NC_002947 | 5382544 = | 13 (0.470) | intergenic (+116/+17) | smpB/pdhR | SsrA‑binding protein/DNA‑binding transcriptional regulator LldR | |||||
| * | ? | NC_002947 | 5947143 = | 44 (1.160) | 10 (0.290) | 9/248 | 2.8 | 21.6% | intergenic (‑79/+127) | ubiD/rho | 3‑octaprenyl‑4‑hydroxybenzoate carboxy‑lyase/transcription termination factor Rho |
| ? | NC_002947 | 5947248 = | 32 (0.920) | intergenic (‑184/+22) | ubiD/rho | 3‑octaprenyl‑4‑hydroxybenzoate carboxy‑lyase/transcription termination factor Rho | |||||