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 | 4,391,930 | 0 | C | T | 51.7% | ‑4.4 / 38.4 | 29 | I109I (ATC→ATT) | orn | oligoribonuclease |
| * | NC_000913 | 1,555,781 | 0 | G | C | 25.9% | 47.2 / 19.0 | 27 | intergenic (‑112/+45) | maeA/sra | malate dehydrogenase, decarboxylating, NAD‑requiring; malic enzyme/stationary‑phase‑induced ribosome‑associated protein |
| * | NC_000913 | 1,555,782 | 0 | C | T | 25.9% | 41.3 / 14.0 | 27 | intergenic (‑113/+44) | maeA/sra | malate dehydrogenase, decarboxylating, NAD‑requiring; malic enzyme/stationary‑phase‑induced ribosome‑associated protein |
| * | NC_000913 | 1,113,544 | 0 | G | A | 25.7% | 57.6 / 18.3 | 35 | intergenic (+138/‑35) | opgH/yceK | OPG biosynthetic ACP‑dependent transmembrane UDP‑glucose beta‑1,2 glycosyltransferase; nutrient‑dependent cell size regulator, FtsZ assembly antagonist/outer membrane integrity lipoprotein |
| * | NC_000913 | 1,113,546 | 0 | T | A | 25.7% | 56.2 / 21.2 | 35 | intergenic (+140/‑33) | opgH/yceK | OPG biosynthetic ACP‑dependent transmembrane UDP‑glucose beta‑1,2 glycosyltransferase; nutrient‑dependent cell size regulator, FtsZ assembly antagonist/outer membrane integrity lipoprotein |
| * | NC_000913 | 324,580 | 0 | C | G | 25.0% | 50.7 / 10.7 | 24 | intergenic (+127/+116) | ykgG/ykgH | LutC family protein; putative electron transport chain YkgEFG component/putative inner membrane protein |
| * | NC_000913 | 1,555,783 | 0 | A | G | 25.0% | 41.6 / 13.8 | 28 | intergenic (‑114/+43) | maeA/sra | malate dehydrogenase, decarboxylating, NAD‑requiring; malic enzyme/stationary‑phase‑induced ribosome‑associated protein |
| * | NC_000913 | 1,555,784 | 0 | G | C | 25.0% | 48.8 / 18.8 | 28 | intergenic (‑115/+42) | maeA/sra | malate dehydrogenase, decarboxylating, NAD‑requiring; malic enzyme/stationary‑phase‑induced ribosome‑associated protein |
| * | NC_000913 | 2,217,243 | 0 | G | A | 25.0% | 37.2 / 10.8 | 24 | S55S (AGC→AGT) | yehX | putative ABC transporter ATPase |
| * | NC_000913 | 2,906,607 | 0 | C | T | 24.2% | 58.6 / 14.3 | 33 | intergenic (+24/+36) | ygcG/eno | TPM domain protein, putative phosphatase/enolase |
| * | NC_000913 | 4,296,060 | 0 | C | T | 24.2% | 57.1 / 16.2 | 34 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 1,113,548 | 0 | T | C | 22.5% | 74.7 / 19.0 | 40 | intergenic (+142/‑31) | opgH/yceK | OPG biosynthetic ACP‑dependent transmembrane UDP‑glucose beta‑1,2 glycosyltransferase; nutrient‑dependent cell size regulator, FtsZ assembly antagonist/outer membrane integrity lipoprotein |
| Marginal new junction evidence (lowest skew 10 of 70 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 3302505 = | 23 (0.710) | 5 (0.160) | 5/234 | 3.2 | 17.6% | coding (17/879 nt) | yhbV | U32 peptidase family protein |
| ? | NC_000913 | 3302527 = | 25 (0.820) | coding (39/879 nt) | yhbV | U32 peptidase family protein | |||||
| * | ? | NC_000913 | = 2113846 | 36 (1.120) | 5 (0.160) | 5/240 | 3.2 | 12.5% | coding (482/894 nt) | wcaN | putative regulatory subunit for GalU |
| ? | NC_000913 | = 2113887 | 35 (1.120) | coding (441/894 nt) | wcaN | putative regulatory subunit for GalU | |||||
| * | ? | NC_000913 | 715264 = | NA (NA) | 5 (0.160) | 5/234 | 3.2 | NA | noncoding (1/98 nt) | RIP65 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP65 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913 | 715289 = | NA (NA) | noncoding (26/98 nt) | RIP65 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP65 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | = 141041 | 31 (0.960) | 5 (0.160) | 5/238 | 3.2 | 14.3% | coding (185/2391 nt) | gcd | glucose dehydrogenase |
| ? | NC_000913 | = 141048 | 30 (0.970) | coding (178/2391 nt) | gcd | glucose dehydrogenase | |||||
| * | ? | NC_000913 | 3502298 = | 34 (1.060) | 5 (0.160) | 5/248 | 3.3 | 12.2% | intergenic (+8/‑42) | frlB/frlC | fructoselysine‑6‑P‑deglycase/fructoselysine 3‑epimerase |
| ? | NC_000913 | 3502320 = | 38 (1.180) | intergenic (+30/‑20) | frlB/frlC | fructoselysine‑6‑P‑deglycase/fructoselysine 3‑epimerase | |||||
| * | ? | NC_000913 | = 4550483 | 36 (1.120) | 4 (0.140) | 4/226 | 3.4 | 10.3% | coding (814/1344 nt) | gntP | fructuronate transporter |
| ? | NC_000913 | = 4550562 | 37 (1.260) | coding (735/1344 nt) | gntP | fructuronate transporter | |||||
| * | ? | NC_000913 | 4474083 = | 38 (1.180) | 4 (0.140) | 4/226 | 3.4 | 11.5% | intergenic (‑30/‑41) | bdcA/bdcR | c‑di‑GMP‑binding biofilm dispersal mediator protein/transcriptional repressor for divergent bdcA |
| ? | NC_000913 | 4474127 = | 27 (0.920) | coding (4/594 nt) | bdcR | transcriptional repressor for divergent bdcA | |||||
| * | ? | NC_000913 | 3852834 = | 23 (0.710) | 4 (0.140) | 4/226 | 3.4 | 16.7% | intergenic (‑50/+56) | ilvB/ivbL | acetolactate synthase 2 large subunit/ilvB operon leader peptide |
| ? | NC_000913 | 3852867 = | 19 (0.650) | intergenic (‑83/+23) | ilvB/ivbL | acetolactate synthase 2 large subunit/ilvB operon leader peptide | |||||
| * | ? | NC_000913 | 947028 = | 32 (0.990) | 4 (0.140) | 4/220 | 3.4 | 12.4% | intergenic (+9/‑201) | ycaD/ycaM | putative MFS transporter, inner membrane protein/putative transporter |
| ? | NC_000913 | 947064 = | 28 (0.980) | intergenic (+45/‑165) | ycaD/ycaM | putative MFS transporter, inner membrane protein/putative transporter | |||||
| * | ? | NC_000913 | 4347465 = | 42 (1.310) | 4 (0.130) | 4/234 | 3.5 | 9.7% | coding (1280/1341 nt) | dcuB | C4‑dicarboxylate transporter, anaerobic; DcuS co‑sensor |
| ? | NC_000913 | 4347497 = | 35 (1.150) | coding (1248/1341 nt) | dcuB | C4‑dicarboxylate transporter, anaerobic; DcuS co‑sensor | |||||