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_002947 | 4,348,705 | 0 | A | G | 50.5% | 15.0 / 138.9 | 100 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 1,327,121 | 0 | C | T | 46.6% | 65.1 / 153.5 | 117 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 699,722 | 0 | A | G | 43.3% | 40.3 / 116.7 | 97 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 195,634 | 0 | C | T | 41.2% | 90.1 / 125.7 | 114 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 441,326 | 0 | G | . | 34.6% | 54.2 / 30.0 | 26 | coding (207/1173 nt) | bioF | 8‑amino‑7‑oxononanoate synthase |
| * | NC_002947 | 195,559 | 0 | C | A | 31.9% | 152.9 / 80.9 | 94 | T355T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,390 | 0 | T | C | 26.0% | 114.4 / 44.8 | 74 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,351 | 0 | C | G | 25.6% | 147.4 / 60.8 | 86 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 1,544,489 | 0 | C | A | 25.0% | 48.6 / 12.8 | 28 | intergenic (+48/+66) | mdfA/ampG | multidrug MFS transporter/muropeptide permease AmpG |
| * | NC_002947 | 196,327 | 0 | A | C | 22.5% | 167.5 / 53.0 | 89 | T611T (ACA→ACC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,306 | 0 | T | C | 22.4% | 180.9 / 54.0 | 98 | N604N (AAT→AAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 1,544,492 | 0 | G | C | 20.7% | 50.3 / 12.7 | 29 | intergenic (+51/+63) | mdfA/ampG | multidrug MFS transporter/muropeptide permease AmpG |
| * | NC_002947 | 5,485,162 | 0 | T | C | 20.0% | 71.7 / 11.6 | 40 | intergenic (+68/‑79) | purH/purD | bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase/phosphoribosylamine‑‑glycine ligase |
| Marginal new junction evidence (lowest skew 10 of 142 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 4808174 = | 5 (0.080) | 19 (0.390) | 14/210 | 3.5 | 38.1% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5988935 | 58 (1.210) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 4808179 | 5 (0.080) | 24 (0.410) | 17/256 | 3.8 | 46.3% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 5988765 = | 51 (0.870) | intergenic (+59/‑487) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 5382432 | 39 (0.610) | 10 (0.210) | 8/210 | 5.6 | 23.5% | intergenic (+52/+81) | smpB/pdhR | SsrA‑binding protein/DNA‑binding transcriptional regulator LldR |
| ? | NC_002947 | = 5382460 | 36 (0.750) | intergenic (+80/+53) | smpB/pdhR | SsrA‑binding protein/DNA‑binding transcriptional regulator LldR | |||||
| * | ? | NC_002947 | 181660 = | NA (NA) | 5 (0.130) +55 bp |
5/170 | 5.8 | 11.1% | intergenic (+126/‑7) | PP_23SB/PP_r01 | 23S ribosomal RNA/5S ribosomal RNA |
| ? | NC_002947 | 181794 = | 66 (1.030) | intergenic (+8/‑98) | PP_r01/PP_5SB | 5S ribosomal RNA/5S ribosomal RNA | |||||
| * | ? | NC_002947 | = 2837075 | 13 (0.200) | 8 (0.140) | 8/256 | 6.8 | 48.6% | intergenic (‑27/+156) | sad‑I/PP_2489 | NAD+‑dependent succinate semialdehyde dehydrogenase/xenobiotic reductase |
| ? | NC_002947 | 2837172 = | 5 (0.090) | intergenic (‑124/+59) | sad‑I/PP_2489 | NAD+‑dependent succinate semialdehyde dehydrogenase/xenobiotic reductase | |||||
| * | ? | NC_002947 | 4889569 = | 57 (0.890) | 6 (0.120) | 6/226 | 7.0 | 12.2% | intergenic (+15/‑138) | hyi/glxR | hydroxypyruvate isomerase/2‑hydroxy‑3‑oxopropionate reductase |
| ? | NC_002947 | 4889660 = | 40 (0.770) | intergenic (+106/‑47) | hyi/glxR | hydroxypyruvate isomerase/2‑hydroxy‑3‑oxopropionate reductase | |||||
| * | ? | NC_002947 | = 182013 | 84 (1.310) | 14 (0.230) +TTTCG |
8/270 | 7.1 | 14.7% | intergenic (+2/+63) | PP_5SB/PP_0160 | 5S ribosomal RNA/ferrioxamine receptor |
| ? | NC_002947 | = 1330512 | NA (NA) | intergenic (+43/‑264) | PP_5SE/PP_1157 | 5S ribosomal RNA/acetolactate synthase | |||||
| * | ? | NC_002947 | = 2271213 | 51 (0.790) | 6 (0.110) | 6/248 | 7.6 | 12.1% | intergenic (+34/‑186) | PP_2002/PP_t31 | oxidoreductase/tRNA‑Val |
| ? | NC_002947 | = 2271263 | 42 (0.740) | intergenic (+84/‑136) | PP_2002/PP_t31 | oxidoreductase/tRNA‑Val | |||||
| * | ? | NC_002947 | = 4551973 | 22 (0.340) | 5 (0.100) | 4/214 | 7.8 | 18.9% | intergenic (+67/+114) | pydA/rutR | NADP‑dependent dihydropyrimidine dehydrogenase subunit PreA/transcriptional regulator, TetR family |
| ? | NC_002947 | = 4552024 | 26 (0.530) | intergenic (+118/+63) | pydA/rutR | NADP‑dependent dihydropyrimidine dehydrogenase subunit PreA/transcriptional regulator, TetR family | |||||
| * | ? | NC_002947 | = 5870289 | 35 (0.550) | 4 (0.080) | 4/222 | 8.0 | 15.5% | intergenic (+50/+84) | PP_5144/ptsP | hypothetical protein/phosphoenolpyruvate‑dependent regulator |
| ? | NC_002947 | = 5870324 | 16 (0.310) | intergenic (+85/+49) | PP_5144/ptsP | hypothetical protein/phosphoenolpyruvate‑dependent regulator | |||||