mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913_3_pae_pgi | 3,732,030 | 0 | C | T | 58.3% | 24.5 / 67.2 | 69 | V300V (GTC→GTT) | xylF | D‑xylose transporter subunit |
| * | NC_000913_3_pae_pgi | 3,732,028 | 0 | G | . | 54.7% | 68.9 / 170.6 | 72 | coding (898/993 nt) | xylF | D‑xylose transporter subunit |
| * | NC_000913_3_pae_pgi | 2,799,029 | 0 | G | T | 48.0% | 11.3 / 156.3 | 103 | intergenic (‑534/‑135) | stpA/alaE | DNA binding protein, nucleoid‑associated/alanine exporter, alanine‑inducible, stress‑responsive |
| * | NC_000913_3_pae_pgi | 1,376,866 | 0 | T | G | 35.8% | 52.0 / 92.2 | 81 | V12G (GTC→GGC) | ycjS | putative NADH‑binding oxidoreductase |
| * | NC_000913_3_pae_pgi | 4,295,320 | 0 | C | T | 31.4% | 118.5 / 62.4 | 87 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913_3_pae_pgi | 526,796 | 0 | C | G | 22.7% | 216.8 / 56.5 | 88 | A1179G (GCG→GGG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_pae_pgi | 526,792 | 0 | A | C | 22.5% | 177.8 / 58.2 | 89 | S1178R (AGC→CGC) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_pae_pgi | 526,800 | 0 | A | G | 20.9% | 183.8 / 39.4 | 87 | E1180E (GAA→GAG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| Marginal new junction evidence (lowest skew 10 of 121 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_pae_pgi | = 4234838 | 1834 (20.900) | 45 (0.550) | 31/272 | 2.6 | 2.5% | intergenic (‑1605/‑328) | lysC/yjbE | lysine‑sensitive aspartokinase 3/extracellular polysaccharide production threonine‑rich protein |
| ? | NC_000913_3_pae_pgi | = 4234843 | 1828 (22.220) | intergenic (‑1610/‑323) | lysC/yjbE | lysine‑sensitive aspartokinase 3/extracellular polysaccharide production threonine‑rich protein | |||||
| * | ? | NC_000913_3_pae_pgi | = 4235485 | 1803 (20.540) | 54 (0.660) | 29/270 | 2.9 | 3.0% | intergenic (+77/‑37) | yjbE/yjbF | extracellular polysaccharide production threonine‑rich protein/extracellular polysaccharide production lipoprotein |
| ? | NC_000913_3_pae_pgi | = 4235489 | 1817 (22.250) | intergenic (+81/‑33) | yjbE/yjbF | extracellular polysaccharide production threonine‑rich protein/extracellular polysaccharide production lipoprotein | |||||
| * | ? | NC_000913_3_pae_pgi | = 4239999 | 1791 (20.410) | 35 (0.400) | 31/290 | 3.0 | 1.9% | intergenic (+4/+40) | psiE/xylE | phosphate starvation inducible protein/D‑xylose transporter |
| ? | NC_000913_3_pae_pgi | = 4240029 | 1821 (20.750) | intergenic (+34/+10) | psiE/xylE | phosphate starvation inducible protein/D‑xylose transporter | |||||
| * | ? | NC_000913_3_pae_pgi | = 4219847 | 1665 (18.970) | 45 (0.560) | 27/266 | 3.2 | 2.9% | coding (1252/1737 nt) | aceK | isocitrate dehydrogenase kinase/phosphatase |
| ? | NC_000913_3_pae_pgi | = 4219854 | 1506 (18.720) | coding (1259/1737 nt) | aceK | isocitrate dehydrogenase kinase/phosphatase | |||||
| * | ? | NC_000913_3_pae_pgi | = 4229386 | 1977 (22.530) | 39 (0.470) | 25/276 | 3.8 | 2.0% | noncoding (11/70 nt) | REP312 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP312 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913_3_pae_pgi | = 4229405 | NA (NA) | noncoding (30/70 nt) | REP312 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP312 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913_3_pae_pgi | = 4241805 | 1790 (20.400) | 34 (0.410) | 24/274 | 4.0 | 2.0% | intergenic (‑291/+81) | xylE/malG | D‑xylose transporter/maltose transporter subunit |
| ? | NC_000913_3_pae_pgi | = 4241807 | 1670 (20.150) | intergenic (‑293/+79) | xylE/malG | D‑xylose transporter/maltose transporter subunit | |||||
| * | ? | NC_000913_3_pae_pgi | 4235476 = | 1708 (19.460) | 33 (0.400) | 23/270 | 4.1 | 1.9% | intergenic (+68/‑46) | yjbE/yjbF | extracellular polysaccharide production threonine‑rich protein/extracellular polysaccharide production lipoprotein |
| ? | NC_000913_3_pae_pgi | 4235500 = | 1815 (22.220) | intergenic (+92/‑22) | yjbE/yjbF | extracellular polysaccharide production threonine‑rich protein/extracellular polysaccharide production lipoprotein | |||||
| * | ? | NC_000913_3_pae_pgi | = 4251563 | 1788 (20.370) | 31 (0.380) | 21/272 | 4.6 | 1.8% | intergenic (+20/‑203) | yjbI/ubiC | pseudogene, SopA‑related, pentapeptide repeats‑containing/chorismate‑‑pyruvate lyase |
| ? | NC_000913_3_pae_pgi | = 4251577 | 1641 (19.940) | intergenic (+34/‑189) | yjbI/ubiC | pseudogene, SopA‑related, pentapeptide repeats‑containing/chorismate‑‑pyruvate lyase | |||||
| * | ? | NC_000913_3_pae_pgi | = 4240010 | 1803 (20.540) | 31 (0.380) | 21/270 | 4.6 | 1.8% | intergenic (+15/+29) | psiE/xylE | phosphate starvation inducible protein/D‑xylose transporter |
| ? | NC_000913_3_pae_pgi | = 4240018 | 1713 (20.980) | intergenic (+23/+21) | psiE/xylE | phosphate starvation inducible protein/D‑xylose transporter | |||||
| * | ? | NC_000913_3_pae_pgi | 4234830 = | 1686 (19.210) | 38 (0.460) | 21/272 | 4.6 | 2.2% | intergenic (‑1597/‑336) | lysC/yjbE | lysine‑sensitive aspartokinase 3/extracellular polysaccharide production threonine‑rich protein |
| ? | NC_000913_3_pae_pgi | 4234853 = | 1805 (21.940) | intergenic (‑1620/‑313) | lysC/yjbE | lysine‑sensitive aspartokinase 3/extracellular polysaccharide production threonine‑rich protein | |||||