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 | 40.0% | 18.2 / 35.9 | 36 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 447,270 | 0 | G | C | 28.6% | 45.5 / 22.1 | 28 | P146A (CCG→GCG) | cyoE | protoheme IX farnesyltransferase |
| * | NC_000913 | 447,271 | 0 | C | T | 27.6% | 42.8 / 16.1 | 29 | A145A (GCG→GCA) | cyoE | protoheme IX farnesyltransferase |
| * | NC_000913 | 447,274 | 0 | A | G | 27.6% | 39.5 / 17.0 | 29 | A144A (GCT→GCC) ‡ | cyoE | protoheme IX farnesyltransferase |
| * | NC_000913 | 447,275 | 0 | G | C | 27.6% | 50.2 / 21.8 | 29 | A144G (GCT→GGT) ‡ | cyoE | protoheme IX farnesyltransferase |
| * | NC_000913 | 1,540,647 | 0 | G | C | 20.0% | 57.0 / 10.3 | 25 | R648R (CGC→CGG) | narZ | nitrate reductase 2 (NRZ), alpha subunit |
| Marginal new junction evidence (lowest skew 10 of 38 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 2349901 = | 38 (1.190) | 7 (0.240) | 7/238 | 2.3 | 16.1% | intergenic (+8/+34) | yfaH/glpQ | pseudogene/periplasmic glycerophosphodiester phosphodiesterase |
| ? | NC_000913 | 2349927 = | 38 (1.290) | intergenic (+34/+8) | yfaH/glpQ | pseudogene/periplasmic glycerophosphodiester phosphodiesterase | |||||
| * | ? | NC_000913 | 4559490 = | 45 (1.410) | 6 (0.200) | 5/248 | 2.9 | 12.9% | coding (37/1173 nt) | iadA | isoaspartyl dipeptidase |
| ? | NC_000913 | 4559512 = | 38 (1.240) | coding (15/1173 nt) | iadA | isoaspartyl dipeptidase | |||||
| * | ? | NC_000913 | 3033617 = | 35 (1.090) | 5 (0.170) | 5/244 | 2.9 | 14.5% | intergenic (+4/+40) | idi/lysS | isopentenyl diphosphate isomerase/lysine tRNA synthetase, constitutive |
| ? | NC_000913 | 3033639 = | 26 (0.860) | intergenic (+26/+18) | idi/lysS | isopentenyl diphosphate isomerase/lysine tRNA synthetase, constitutive | |||||
| * | ? | NC_000913 | 1759424 = | 30 (0.940) | 6 (0.200) | 5/242 | 2.9 | 17.6% | coding (1100/1221 nt) | sufS | cysteine desulfurase, stimulated by SufE; selenocysteine lyase, PLP‑dependent |
| ? | NC_000913 | 1759462 = | 28 (0.930) | coding (1062/1221 nt) | sufS | cysteine desulfurase, stimulated by SufE; selenocysteine lyase, PLP‑dependent | |||||
| * | ? | NC_000913 | 3805341 = | 62 (1.940) | 5 (0.160) | 5/254 | 3.0 | 8.1% | coding (610/798 nt) | waaP | kinase that phosphorylates core heptose of lipopolysaccharide |
| ? | NC_000913 | 3805362 = | 52 (1.650) | coding (589/798 nt) | waaP | kinase that phosphorylates core heptose of lipopolysaccharide | |||||
| * | ? | NC_000913 | = 639683 | 38 (1.190) | 5 (0.160) | 5/252 | 3.0 | 12.0% | intergenic (+175/‑70) | ahpC/ahpF | alkyl hydroperoxide reductase, C22 subunit/alkyl hydroperoxide reductase, F52a subunit, FAD/NAD(P)‑binding |
| ? | NC_000913 | = 639725 | 36 (1.150) | intergenic (+217/‑28) | ahpC/ahpF | alkyl hydroperoxide reductase, C22 subunit/alkyl hydroperoxide reductase, F52a subunit, FAD/NAD(P)‑binding | |||||
| * | ? | NC_000913 | = 4409173 | 36 (1.270) | 4 (0.140) | 4/228 | 3.1 | 10.0% | noncoding (21/98 nt) | RIP331 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP331 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913 | = 4409234 | NA (NA) | noncoding (82/98 nt) | RIP331 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP331 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | 3368970 = | 46 (1.440) | 4 (0.140) | 4/234 | 3.1 | 8.8% | intergenic (+16/+44) | yhcG/yhcH | DUF1016 family protein in the PD‑(D/E)XK nuclease superfamily/DUF386 family protein, cupin superfamily |
| ? | NC_000913 | 3368995 = | 41 (1.410) | intergenic (+41/+19) | yhcG/yhcH | DUF1016 family protein in the PD‑(D/E)XK nuclease superfamily/DUF386 family protein, cupin superfamily | |||||
| * | ? | NC_000913 | 1115624 = | NA (NA) | 4 (0.140) | 4/236 | 3.1 | NA | intergenic (‑134/+38) | mdtG/lpxL | putative drug efflux system protein/lauryl‑acyl carrier protein (ACP)‑dependent acyltransferase |
| ? | NC_000913 | 1115655 = | NA (NA) | intergenic (‑165/+7) | mdtG/lpxL | putative drug efflux system protein/lauryl‑acyl carrier protein (ACP)‑dependent acyltransferase | |||||
| * | ? | NC_000913 | 4377342 = | 35 (1.090) | 4 (0.130) | 4/242 | 3.2 | 11.0% | coding (381/534 nt) | blc | outer membrane lipoprotein cell division and growth lipocalin |
| ? | NC_000913 | 4377386 = | 32 (1.070) | coding (337/534 nt) | blc | outer membrane lipoprotein cell division and growth lipocalin | |||||