mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
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 | 2,386,862 | 0 | G | A | 50.0% | ‑3.8 / 16.7 | 16 | intergenic (+31/‑72) | yfbL/yfbM | putative M28A family peptidase/DUF1877 family protein |
| * | NC_000913 | 1,383,722 | 0 | G | A | 34.2% | 56.9 / 17.4 | 38 | F80F (TTC→TTT) | ycjW | LacI family putative transcriptional repressor |
| * | NC_000913 | 4,604,344 | 0 | C | T | 31.2% | 90.0 / 13.7 | 48 | S62F (TCT→TTT) | bglJ | bgl operon transcriptional activator |
| * | NC_000913 | 4,604,350 | 0 | C | T | 31.2% | 89.2 / 13.5 | 48 | S64F (TCT→TTT) | bglJ | bgl operon transcriptional activator |
| * | NC_000913 | 3,731,713 | 0 | G | A | 29.5% | 83.7 / 13.8 | 44 | E195K (GAA→AAA) | xylF | D‑xylose transporter subunit |
| * | NC_000913 | 75,079 | 0 | C | T | 28.6% | 60.7 / 13.3 | 35 | L134L (CTG→CTA) | thiB | thiamine/thiamine pyrophosphate/thiamine monophosphate ABC transporter periplasmic binding protein |
| * | NC_000913 | 726,344 | 0 | G | A | 28.3% | 83.3 / 14.7 | 46 | V231V (GTC→GTT) | kdpB | potassium translocating ATPase, subunit B |
| * | NC_000913 | 29,496 | 0 | T | A | 27.6% | 59.9 / 13.1 | 29 | intergenic (+301/‑155) | dapB/carA | dihydrodipicolinate reductase/carbamoyl phosphate synthetase small subunit, glutamine amidotransferase |
| * | NC_000913 | 3,401,459 | 0 | T | C | 27.6% | 121.0 / 14.4 | 58 | D625G (GAT→GGT) | csrD | targeting factor for csrBC sRNA degradation |
| * | NC_000913 | 4,101,514 | 0 | G | T | 26.8% | 74.7 / 14.1 | 41 | intergenic (+84/‑176) | sodA/kdgT | superoxide dismutase, Mn/2‑keto‑3‑deoxy‑D‑gluconate transporter |
| * | NC_000913 | 2,378,968 | 0 | C | T | 26.3% | 64.3 / 11.4 | 38 | E98K (GAA→AAA) | menD | 2‑succinyl‑5‑enolpyruvyl‑6‑hydroxy‑3‑ cyclohexene‑1‑carboxylate synthase; SEPHCHC synthase |
| * | NC_000913 | 1,825,031 | 0 | C | T | 23.7% | 80.0 / 14.5 | 38 | intergenic (‑94/+109) | ves/spy | cold‑ and stress‑inducible protein/periplasmic ATP‑independent protein refolding chaperone, stress‑induced |
| * | NC_000913 | 3,135,781 | 0 | G | T | 21.1% | 136.9 / 14.9 | 53 | R197R (CGC→CGA) | pitB | phosphate transporter |
| Marginal new junction evidence (lowest skew 10 of 132 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 315401 = | NA (NA) | 10 (0.170) | 8/308 | 4.7 | NA | noncoding (173/1255 nt) | IS3 | repeat region |
| ? | NC_000913 | 315627 = | NA (NA) | noncoding (399/1255 nt) | IS3 | repeat region | |||||
| * | ? | NC_000913 | 1577046 = | 45 (0.710) | 7 (0.110) | 7/320 | 5.2 | 11.5% | coding (574/2373 nt) | yddB | putative TonB‑dependent outer membrane receptor |
| ? | NC_000913 | 1577256 = | 65 (1.070) | coding (364/2373 nt) | yddB | putative TonB‑dependent outer membrane receptor | |||||
| * | ? | NC_000913 | = 2285177 | 80 (1.260) | 7 (0.110) | 7/322 | 5.3 | 8.9% | coding (802/1761 nt) | yejM | essential inner membrane DUF3413 domain‑containing protein; lipid A production and membrane permeability factor |
| ? | NC_000913 | = 2285589 | 67 (1.090) | coding (1214/1761 nt) | yejM | essential inner membrane DUF3413 domain‑containing protein; lipid A production and membrane permeability factor | |||||
| * | ? | NC_000913 | 2066566 = | 55 (0.870) | 7 (0.110) | 7/324 | 5.3 | 11.6% | noncoding (788/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 2102304 = | NA (NA) | noncoding (640/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 274362 = | NA (NA) | 7 (0.110) | 7/324 | 5.3 | NA | noncoding (788/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274510 = | NA (NA) | noncoding (640/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 3255241 = | NA (NA) | 6 (0.100) | 6/314 | 5.5 | 8.2% | noncoding (25/103 nt) | REP236 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP236 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | 3255294 = | 67 (1.120) | noncoding (78/103 nt) | REP236 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP236 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | = 2791557 | 47 (0.740) | 8 (0.130) | 6/312 | 5.5 | 13.3% | coding (285/1449 nt) | gabD | succinate‑semialdehyde dehydrogenase I, NADP‑dependent |
| ? | NC_000913 | = 2791668 | 60 (1.010) | coding (396/1449 nt) | gabD | succinate‑semialdehyde dehydrogenase I, NADP‑dependent | |||||
| * | ? | NC_000913 | = 3586434 | 53 (0.830) | 6 (0.100) | 6/316 | 5.6 | 12.0% | coding (390/1743 nt) | ggt | gamma‑glutamyltranspeptidase |
| ? | NC_000913 | = 3586844 | 38 (0.630) | intergenic (‑21/‑99) | ggt/yhhA | gamma‑glutamyltranspeptidase/DUF2756 family protein | |||||
| * | ? | NC_000913 | = 2940702 | 88 (1.380) | 8 (0.130) | 6/320 | 5.6 | 9.0% | coding (542/1101 nt) | rlmM | 23S rRNA C2498 2'‑O‑ribose methyltransferase, SAM‑dependent |
| ? | NC_000913 | = 2940881 | 78 (1.280) | coding (363/1101 nt) | rlmM | 23S rRNA C2498 2'‑O‑ribose methyltransferase, SAM‑dependent | |||||
| * | ? | NC_000913 | 3747171 = | 46 (0.720) | 6 (0.100) | 6/322 | 5.7 | 11.2% | coding (88/1497 nt) | lyxK | L‑xylulose kinase |
| ? | NC_000913 | 3747578 = | 51 (0.830) | coding (495/1497 nt) | lyxK | L‑xylulose kinase | |||||