mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.5 revision 9f368df52761
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 30 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | AE015451 | 1,070,246 | 1 | . | G | 76.0% | 65.9 / 17.8 | 25 | intergenic (+46/+96) | aroP‑I/PP_0928 | aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger related‑protein |
| * | AE015451 | 1,070,246 | 2 | . | A | 76.0% | 61.0 / 18.1 | 25 | intergenic (+46/+96) | aroP‑I/PP_0928 | aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger related‑protein |
| * | AE015451 | 2,550,125 | 0 | G | A | 59.8% | ‑4.8 / 98.3 | 83 | noncoding (1436/1522 nt) | PP_16SF | 16S ribosomal RNA |
| * | AE015451 | 4,808,179 | 0 | G | . | 58.3% | ‑5.0 / 19.9 | 12 | intergenic (‑288/‑267) | PP_4234/dsbD‑II | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | AE015451 | 699,722 | 0 | A | G | 51.4% | 32.8 / 203.8 | 140 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | AE015451 | 4,348,705 | 0 | A | G | 51.4% | 48.7 / 211.3 | 146 | intergenic (‑70/+404) | PP_3820/galU | Group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | AE015451 | 4,808,171 | 0 | C | . | 45.5% | 15.3 / 16.4 | 11 | intergenic (‑280/‑275) | PP_4234/dsbD‑II | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | AE015451 | 4,808,172 | 0 | C | . | 45.5% | 14.8 / 16.4 | 11 | intergenic (‑281/‑274) | PP_4234/dsbD‑II | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | AE015451 | 4,808,173 | 0 | G | . | 45.5% | 15.5 / 15.8 | 11 | intergenic (‑282/‑273) | PP_4234/dsbD‑II | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | AE015451 | 4,808,174 | 0 | C | . | 45.5% | 14.3 / 16.4 | 11 | intergenic (‑283/‑272) | PP_4234/dsbD‑II | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | AE015451 | 4,808,175 | 0 | C | . | 45.5% | 15.9 / 16.4 | 11 | intergenic (‑284/‑271) | PP_4234/dsbD‑II | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | AE015451 | 4,808,180 | 0 | A | . | 43.8% | 22.0 / 24.6 | 16 | intergenic (‑289/‑266) | PP_4234/dsbD‑II | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | AE015451 | 1,327,121 | 0 | C | T | 42.5% | 130.5 / 169.6 | 134 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | AE015451 | 195,559 | 0 | C | A | 41.8% | 100.1 / 133.2 | 98 | T355T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 195,634 | 0 | C | T | 41.3% | 61.7 / 141.7 | 121 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 4,808,169 | 0 | C | . | 38.5% | 22.7 / 16.0 | 13 | intergenic (‑278/‑277) | PP_4234/dsbD‑II | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | AE015451 | 4,808,170 | 0 | G | . | 38.5% | 23.5 / 15.3 | 13 | intergenic (‑279/‑276) | PP_4234/dsbD‑II | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | AE015451 | 196,495 | 0 | G | C | 36.4% | 146.0 / 164.0 | 123 | T667T (ACG→ACC) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 196,438 | 0 | T | C | 34.9% | 137.3 / 102.9 | 110 | S648S (AGT→AGC) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 196,459 | 0 | C | A | 32.1% | 187.4 / 106.6 | 116 | T655T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| Marginal new junction evidence (lowest skew 10 of 32 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | AE015451 | = 2472115 | 22 (0.250) | 29 (0.340) | 29/538 | 3.8 | 45.9% | intergenic (+19/+130) | PP_2166/PP_2167 | Anti‑anti‑sigma factor/putative PhoD‑like phosphatase |
| ? | AE015451 | 2472313 = | 47 (0.560) | coding (1783/1851 nt) | PP_2167 | putative PhoD‑like phosphatase | |||||
| * | ? | AE015451 | 4808174 = | 16 (0.190) | 31 (0.410) | 24/482 | 4.0 | 58.0% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | AE015451 | = 5988935 | 31 (0.410) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | AE015451 | = 4808179 | 16 (0.190) | 35 (0.420) | 26/528 | 4.2 | 82.1% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | AE015451 | 5988765 = | 0 (0.000) | intergenic (+59/‑487) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | AE015451 | = 5696567 | 50 (0.580) | 25 (0.300) | 23/536 | 4.9 | 35.8% | intergenic (+19/‑193) | pyrC'/hslV | dihydroorotase‑like protein/peptidase component of the ATP‑dependent HslVU protease |
| ? | AE015451 | 5696629 = | 41 (0.490) | intergenic (+81/‑131) | pyrC'/hslV | dihydroorotase‑like protein/peptidase component of the ATP‑dependent HslVU protease | |||||
| * | ? | AE015451 | = 4892113 | 0 (0.000) | 21 (0.250) +GCGGC |
21/542 | 5.4 | 63.1% | coding (1275/1275 nt) coding (4/1416 nt) |
ttuD pyk |
putative hydroxypyruvate reductase Pyruvate kinase |
| ? | AE015451 | 4893627 = | 25 (0.290) | intergenic (+102/‑106) | pyk/PP_4302 | Pyruvate kinase/Urea transporter | |||||
| * | ? | AE015451 | = 1780066 | 36 (0.420) | 15 (0.180) | 15/538 | 7.0 | 31.9% | intergenic (+25/+81) | PP_1587/dapC | NhaP‑type Na+/H+ and K+/H+ antiporters/N‑succinyl‑L,L‑diaminopimelate aminotransferase alternative |
| ? | AE015451 | 1780129 = | 29 (0.340) | intergenic (+88/+18) | PP_1587/dapC | NhaP‑type Na+/H+ and K+/H+ antiporters/N‑succinyl‑L,L‑diaminopimelate aminotransferase alternative | |||||
| * | ? | AE015451 | = 2282748 | 25 (0.290) | 13 (0.150) | 13/540 | 7.7 | 34.9% | intergenic (‑140/+89) | PP_2010/PP_2011 | Cytochrome b561/conserved exported protein of unknown function |
| ? | AE015451 | 2282815 = | 24 (0.280) | intergenic (‑207/+22) | PP_2010/PP_2011 | Cytochrome b561/conserved exported protein of unknown function | |||||
| * | ? | AE015451 | = 4808174 | 13 (0.150) | 11 (0.130) | 11/536 | 8.4 | 48.2% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | AE015451 | 4808189 = | 11 (0.130) | intergenic (‑298/‑257) | PP_4234/dsbD‑II | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | AE015451 | = 5201567 | 33 (0.380) | 10 (0.120) | 9/546 | 9.3 | 25.4% | intergenic (‑53/‑127) | PP_4582/PP_4583 | conserved membrane protein of unknown function/putative Peptidase |
| ? | AE015451 | 5201666 = | 26 (0.300) | intergenic (‑152/‑28) | PP_4582/PP_4583 | conserved membrane protein of unknown function/putative Peptidase | |||||
| * | ? | AE015451 | = 2957080 | 65 (0.750) | 10 (0.120) | 9/542 | 9.3 | 14.6% | intergenic (+35/‑161) | PP_2588/PP_2589 | Aminotransferase, class III/Aldehyde dehydrogenase family protein |
| ? | AE015451 | 2957165 = | 53 (0.620) | intergenic (+120/‑76) | PP_2588/PP_2589 | Aminotransferase, class III/Aldehyde dehydrogenase family protein | |||||