mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.2 revision caddc01d3be9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| RA | 643,952 | C→G | M19I (ATG→ATC) | acoB ← | acetoin:2,6‑dichlorophenolindophenol oxidoreductase subunit beta |
| RA | 1,851,994 | G→T | E346D (GAG→GAT) | 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 |
| MC JC | 6,098,326 | (CAAGCTGCG)2→1 | coding (811‑819/867 nt) | PP_5350 ← | RpiR family transcriptional regulator |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_002947 | 171363–172970 | 176330–172972 | 3–4968 | 8 [7] | [7] 8 | PP_16SA–[PP_5SA] | PP_16SA,PP_23SA,[PP_5SA] |
| * | * | ÷ | NC_002947 | 176665–178400 | 181703–178402 | 3–5039 | 9 [7] | [7] 9 | PP_16SB–[PP_r01] | PP_16SB,PP_23SB,[PP_r01] |
| * | * | ÷ | NC_002947 | 4808205 | 4808218 | 14 | 13 [0] | [0] 21 | 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 | 21 (0.630) | 12 (0.420) | 12/232 | 1.5 | 57.3% | 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 | 1419553 = | 39 (1.170) | 8 (0.310) | 6/208 | 2.5 | 28.7% | intergenic (‑36/+101) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein |
| ? | NC_002947 | 1419647 = | 10 (0.390) | intergenic (‑130/+7) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_002947 | 1844176 = | 4 (0.120) | 38 (1.190) | 34/262 | 0.1 | 67.3% | coding (660/2754 nt) | gacS | sensor protein GacS |
| ? | NC_002947 | = 2179419 | 33 (1.030) | intergenic (+175/+93) | PP_1931/PP_5486 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_002947 | = 1844179 | 4 (0.120) | 36 (1.110) | 33/264 | 0.1 | 66.7% | coding (657/2754 nt) | gacS | sensor protein GacS |
| ? | NC_002947 | 2177745 = | 32 (0.990) | intergenic (+103/‑63) | PP_5485/PP_1931 | GNAT family acetyltransferase/hypothetical protein | |||||
| * | ? | NC_002947 | 1967188 = | 18 (0.540) | 6 (0.240) | 5/206 | 2.8 | 38.0% | intergenic (+15/+104) | PP_1762/yciK | hypothetical protein/putative oxidoreductase |
| ? | NC_002947 | 1967284 = | 6 (0.240) | intergenic (+111/+8) | PP_1762/yciK | hypothetical protein/putative oxidoreductase | |||||
| * | ? | NC_002947 | = 4647641 | 11 (0.330) | 9 (0.380) | 8/194 | 1.8 | 47.6% | intergenic (+48/+83) | fusB/PP_4112 | elongation factor G 2/sulfate transporter |
| ? | NC_002947 | = 4647671 | 12 (0.510) | intergenic (+78/+53) | fusB/PP_4112 | elongation factor G 2/sulfate transporter | |||||
| * | ? | NC_002947 | 4808219 = | 0 (0.000) | 13 (0.530) | 10/202 | 1.5 | 60.5% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5988991 | 17 (0.690) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | 5280943 = | 35 (1.050) | 6 (0.220) | 6/222 | 2.7 | 21.6% | intergenic (+28/+110) | trmA/pcaG | tRNA/tmRNA (uridine(54)‑C5)‑methyltransferase TrmA/protocatechuate 3,4‑dioxygenase subunit alpha |
| ? | NC_002947 | 5281029 = | 15 (0.550) | intergenic (+114/+24) | trmA/pcaG | tRNA/tmRNA (uridine(54)‑C5)‑methyltransferase TrmA/protocatechuate 3,4‑dioxygenase subunit alpha | |||||
| * | ? | NC_002947 | = 5453186 | 1 (0.030) | 4 (0.190) +48 bp |
4/176 | 2.7 | 31.5% | intergenic (+151/‑204) | lnt/PP_4791 | apolipoprotein N‑acyltransferase/transposase |
| ? | NC_002947 | 5545674 = | 26 (0.780) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | = 5506637 | 19 (0.570) | 9 (0.340) | 5/214 | 2.9 | 34.7% | intergenic (+48/‑151) | PP_4839/cycA | iron‑regulated membrane protein/D‑alanine/beta‑alanine/D‑serine/glycine permease |
| ? | NC_002947 | = 5506650 | 19 (0.730) | intergenic (+61/‑138) | PP_4839/cycA | iron‑regulated membrane protein/D‑alanine/beta‑alanine/D‑serine/glycine permease | |||||
| * | ? | NC_002947 | 5903827 = | 43 (1.290) | 12 (0.410) | 10/240 | 1.9 | 26.4% | intergenic (+27/+80) | PP_5176/spuH | hypothetical protein/spermidine/putrescine ABC transporter permease |
| ? | NC_002947 | 5903887 = | 29 (0.990) | intergenic (+87/+20) | PP_5176/spuH | hypothetical protein/spermidine/putrescine ABC transporter permease | |||||
| * | ? | NC_002947 | = 5914240 | 23 (0.690) | 6 (0.230) | 6/216 | 2.6 | 20.6% | intergenic (+76/+77) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase |
| ? | NC_002947 | = 5914280 | 28 (1.060) | intergenic (+116/+37) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase | |||||
| * | ? | NC_002947 | 6006595 = | 25 (0.750) | 10 (0.410) | 8/200 | 1.9 | 49.6% | intergenic (+7/+92) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator |
| ? | NC_002947 | 6006679 = | 2 (0.080) | intergenic (+91/+8) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator | |||||
| * | ? | NC_002947 | 6060487 = | 41 (1.230) | 11 (0.370) | 9/244 | 2.2 | 25.7% | intergenic (+67/+114) | PP_5311/PP_5312 | signal transduction protein/hypothetical protein |
| ? | NC_002947 | 6060574 = | 27 (0.900) | intergenic (+154/+27) | PP_5311/PP_5312 | signal transduction protein/hypothetical protein | |||||