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 | 4,296,060 | 0 | C | T | 31.0% | 79.8 / 45.0 | 58 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 1,706,079 | 1 | . | T | 23.5% | 30.4 / 14.3 | 17 | coding (313/582 nt) | rsxA | SoxR iron‑sulfur cluster reduction factor component; inner membrane protein of electron transport complex |
| * | NC_000913 | 2,282,832 | 0 | C | G | 21.6% | 84.3 / 14.6 | 37 | intergenic (+31/+108) | rplY/yejK | 50S ribosomal subunit protein L25/spermidine nucleoid‑associated protein |
| * | NC_000913 | 2,282,833 | 0 | G | A | 21.6% | 73.6 / 12.8 | 37 | intergenic (+32/+107) | rplY/yejK | 50S ribosomal subunit protein L25/spermidine nucleoid‑associated protein |
| * | NC_000913 | 1,499,365 | 0 | A | T | 21.4% | 56.8 / 10.4 | 28 | Q143L (CAG→CTG) | rimL | ribosomal‑protein‑L7/L12‑serine acetyltransferase |
| * | NC_000913 | 2,282,830 | 0 | T | C | 21.1% | 74.9 / 14.1 | 38 | intergenic (+29/+110) | rplY/yejK | 50S ribosomal subunit protein L25/spermidine nucleoid‑associated protein |
| * | NC_000913 | 2,282,831 | 0 | C | G | 21.1% | 84.4 / 19.6 | 38 | intergenic (+30/+109) | rplY/yejK | 50S ribosomal subunit protein L25/spermidine nucleoid‑associated protein |
| * | NC_000913 | 3,033,631 | 0 | C | T | 20.5% | 77.1 / 15.3 | 39 | intergenic (+18/+26) | idi/lysS | isopentenyl diphosphate isomerase/lysine tRNA synthetase, constitutive |
| * | NC_000913 | 1,555,781 | 0 | G | C | 20.0% | 61.6 / 13.7 | 31 | intergenic (‑112/+45) | maeA/sra | malate dehydrogenase, decarboxylating, NAD‑requiring; malic enzyme/stationary‑phase‑induced ribosome‑associated protein |
| * | NC_000913 | 1,555,784 | 0 | G | C | 20.0% | 62.7 / 13.8 | 30 | intergenic (‑115/+42) | maeA/sra | malate dehydrogenase, decarboxylating, NAD‑requiring; malic enzyme/stationary‑phase‑induced ribosome‑associated protein |
| * | NC_000913 | 2,814,174 | 0 | T | A | 20.0% | 72.1 / 12.8 | 35 | intergenic (+20/+44) | emrB/luxS | multidrug efflux system protein/S‑ribosylhomocysteine lyase |
| * | NC_000913 | 2,814,175 | 0 | T | A | 20.0% | 74.2 / 12.0 | 35 | intergenic (+21/+43) | emrB/luxS | multidrug efflux system protein/S‑ribosylhomocysteine lyase |
| Marginal new junction evidence (lowest skew 10 of 64 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1411899 = | 44 (1.200) | 8 (0.280) | 8/190 | 2.0 | 19.4% | coding (50/936 nt) | ttcA | tRNA s(2)C32 thioltransferase, iron sulfur cluster protein |
| ? | NC_000913 | = 1434958 | 32 (1.110) | pseudogene (51/51 nt) | ttcC | pseudogene, prophage Rac integration site ttcA duplication;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 4467063 = | 37 (1.010) | 8 (0.230) | 7/234 | 2.7 | 18.0% | coding (184/948 nt) | treR | trehalose 6‑phosphate‑inducible trehalose regulon transcriptional repressor |
| ? | NC_000913 | 4467094 = | 37 (1.040) | coding (153/948 nt) | treR | trehalose 6‑phosphate‑inducible trehalose regulon transcriptional repressor | |||||
| * | ? | NC_000913 | = 4081273 | 39 (1.060) | 6 (0.180) | 6/224 | 2.8 | 13.2% | coding (588/636 nt) | fdoI | formate dehydrogenase‑O, cytochrome b556 subunit |
| ? | NC_000913 | = 4081294 | 43 (1.260) | coding (567/636 nt) | fdoI | formate dehydrogenase‑O, cytochrome b556 subunit | |||||
| * | ? | NC_000913 | = 3385184 | 48 (1.310) | 6 (0.170) | 6/232 | 2.9 | 11.5% | intergenic (+11/‑354) | argR/yhcN | l‑arginine‑responsive arginine metabolism regulon transcriptional regulator/cadmium and peroxide resistance protein, stress‑induced |
| ? | NC_000913 | = 3385197 | 46 (1.310) | intergenic (+24/‑341) | argR/yhcN | l‑arginine‑responsive arginine metabolism regulon transcriptional regulator/cadmium and peroxide resistance protein, stress‑induced | |||||
| * | ? | NC_000913 | 3439574 = | 70 (1.910) | 6 (0.180) | 5/214 | 3.0 | 9.3% | intergenic (‑65/+42) | yhdN/rplQ | DUF1992 family protein/50S ribosomal subunit protein L17 |
| ? | NC_000913 | 3439604 = | 55 (1.690) | intergenic (‑95/+12) | yhdN/rplQ | DUF1992 family protein/50S ribosomal subunit protein L17 | |||||
| * | ? | NC_000913 | 2349901 = | 42 (1.140) | 5 (0.150) | 5/222 | 3.1 | 11.8% | intergenic (+8/+34) | yfaH/glpQ | pseudogene/periplasmic glycerophosphodiester phosphodiesterase |
| ? | NC_000913 | 2349927 = | 36 (1.070) | intergenic (+34/+8) | yfaH/glpQ | pseudogene/periplasmic glycerophosphodiester phosphodiesterase | |||||
| * | ? | NC_000913 | 4599652 = | 49 (1.330) | 5 (0.140) | 5/228 | 3.2 | 10.1% | intergenic (‑211/+43) | opgB/yjjA | OPG periplasmic biosynthetic phosphoglycerol transferases I (membrane‑bound) and II (soluble)/putative DUF2501 family periplasmic protein |
| ? | NC_000913 | 4599685 = | 43 (1.240) | intergenic (‑244/+10) | opgB/yjjA | OPG periplasmic biosynthetic phosphoglycerol transferases I (membrane‑bound) and II (soluble)/putative DUF2501 family periplasmic protein | |||||
| * | ? | NC_000913 | 2658547 = | 25 (0.680) | 5 (0.140) | 5/230 | 3.2 | 14.1% | coding (389/1851 nt) | hscA | DnaK‑like molecular chaperone specific for IscU |
| ? | NC_000913 | 2658585 = | 37 (1.060) | coding (351/1851 nt) | hscA | DnaK‑like molecular chaperone specific for IscU | |||||
| * | ? | NC_000913 | = 2533705 | 28 (0.760) | 5 (0.150) | 5/226 | 3.2 | 16.9% | intergenic (+325/‑59) | cysK/ptsH | cysteine synthase A, O‑acetylserine sulfhydrolase A subunit/phosphohistidinoprotein‑hexose phosphotransferase component of PTS system (Hpr) |
| ? | NC_000913 | = 2533719 | 23 (0.670) | intergenic (+339/‑45) | cysK/ptsH | cysteine synthase A, O‑acetylserine sulfhydrolase A subunit/phosphohistidinoprotein‑hexose phosphotransferase component of PTS system (Hpr) | |||||
| * | ? | NC_000913 | = 1428264 | NA (NA) | 14 (0.400) | 5/230 | 3.2 | 93.6% | noncoding (531/1196 nt) | IS5 | repeat region |
| ? | NC_000913 | = 2066866 | 1 (0.030) | noncoding (488/1195 nt) | IS5 | repeat region | |||||