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_KO_pgi | 4,294,494 | 0 | C | T | 30.3% | 128.0 / 78.5 | 99 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913_3_KO_pgi | 3,891,502 | 0 | C | G | 20.2% | 213.4 / 48.5 | 79 | intergenic (+19/‑113) | tnaB/mdtL | tryptophan transporter of low affinity/multidrug efflux system protein |
| Marginal new junction evidence (lowest skew 10 of 203 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_KO_pgi | 3811200 = | 73 (0.970) | 12 (0.180) | 12/246 | 6.9 | 15.8% | intergenic (‑48/+50) | mutM/rpmG | formamidopyrimidine/5‑formyluracil/ 5‑hydroxymethyluracil DNA glycosylase/50S ribosomal subunit protein L33 |
| ? | NC_000913_3_KO_pgi | 3811236 = | 61 (0.890) | intergenic (‑84/+14) | mutM/rpmG | formamidopyrimidine/5‑formyluracil/ 5‑hydroxymethyluracil DNA glycosylase/50S ribosomal subunit protein L33 | |||||
| * | ? | NC_000913_3_KO_pgi | 3155217 = | 75 (1.000) | 12 (0.170) | 12/250 | 7.1 | 14.4% | coding (2/957 nt) | yqhC | transcriptional activator of yqhD |
| ? | NC_000913_3_KO_pgi | 3155241 = | 73 (1.050) | intergenic (‑23/‑114) | yqhC/yqhD | transcriptional activator of yqhD/aldehyde reductase, NADPH‑dependent | |||||
| * | ? | NC_000913_3_KO_pgi | 2304842 = | NA (NA) | 14 (0.200) | 11/256 | 7.6 | 26.5% | noncoding (426/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences |
| ? | NC_000913_3_KO_pgi | 2304923 = | 41 (0.550) | noncoding (507/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | |||||
| * | ? | NC_000913_3_KO_pgi | 4365273 = | 93 (1.240) | 10 (0.150) | 9/240 | 8.0 | 11.7% | intergenic (‑66/+52) | dcuA/aspA | C4‑dicarboxylate antiporter/aspartate ammonia‑lyase |
| ? | NC_000913_3_KO_pgi | 4365305 = | 68 (1.020) | intergenic (‑98/+20) | dcuA/aspA | C4‑dicarboxylate antiporter/aspartate ammonia‑lyase | |||||
| * | ? | NC_000913_3_KO_pgi | = 3781125 | 60 (0.800) | 10 (0.140) | 10/260 | 8.2 | 15.3% | intergenic (+108/‑90) | lldD/trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| ? | NC_000913_3_KO_pgi | = 3781138 | 53 (0.730) | intergenic (+121/‑77) | lldD/trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent | |||||
| * | ? | NC_000913_3_KO_pgi | = 3726897 | 64 (0.850) | 9 (0.130) | 9/248 | 8.3 | 13.8% | intergenic (+15/+27) | wecH/yiaA | O‑acetyltransferase for enterobacterial common antigen (ECA)/YiaAB family inner membrane protein, tandem domains |
| ? | NC_000913_3_KO_pgi | = 3726905 | 54 (0.790) | intergenic (+23/+19) | wecH/yiaA | O‑acetyltransferase for enterobacterial common antigen (ECA)/YiaAB family inner membrane protein, tandem domains | |||||
| * | ? | NC_000913_3_KO_pgi | = 1672798 | 75 (1.000) | 9 (0.130) | 9/250 | 8.4 | 11.2% | intergenic (+17/+22) | ydgD/mdtI | putative peptidase/multidrug efflux system transporter |
| ? | NC_000913_3_KO_pgi | = 1672804 | 73 (1.050) | intergenic (+23/+16) | ydgD/mdtI | putative peptidase/multidrug efflux system transporter | |||||
| * | ? | NC_000913_3_KO_pgi | = 3502306 | 78 (1.040) | 9 (0.130) | 9/254 | 8.5 | 11.2% | intergenic (+16/‑34) | frlB/frlC | fructoselysine‑6‑P‑deglycase/fructoselysine 3‑epimerase |
| ? | NC_000913_3_KO_pgi | = 3502310 | 70 (0.990) | intergenic (+20/‑30) | frlB/frlC | fructoselysine‑6‑P‑deglycase/fructoselysine 3‑epimerase | |||||
| * | ? | NC_000913_3_KO_pgi | 2304616 = | NA (NA) | 12 (0.170) | 9/256 | 8.5 | 28.3% | noncoding (200/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences |
| ? | NC_000913_3_KO_pgi | 2304697 = | 32 (0.430) | noncoding (281/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | |||||
| * | ? | NC_000913_3_KO_pgi | 2304591 = | NA (NA) | 11 (0.150) | 9/256 | 8.5 | 12.4% | noncoding (175/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences |
| ? | NC_000913_3_KO_pgi | 2304609 = | 82 (1.090) | noncoding (193/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | |||||