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 (highest frequency 20 of 78 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 1,852,116 | 0 | T | C | 68.4% | 68.7 / 40.8 | 57 | L387S (TTG→TCG) | relA | ATP:GTP 3'‑pyrophosphotransferase |
| * | NC_002947 | 1,327,127 | 0 | C | T | 54.1% | ‑1.4 / 72.6 | 62 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,741,299 | 0 | C | T | 52.4% | ‑4.4 / 24.1 | 21 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 52.4% | 0.2 / 23.8 | 21 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 52.4% | ‑6.0 / 30.0 | 21 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | C | 52.4% | 30.2 / 37.5 | 21 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 699,725 | 0 | A | G | 50.8% | ‑1.7 / 78.3 | 59 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 4,348,749 | 0 | A | G | 50.0% | ‑1.9 / 58.8 | 48 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 4,741,298 | 1 | . | T | 47.6% | 30.3 / 44.4 | 21 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 47.6% | ‑2.9 / 23.6 | 21 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 195,634 | 0 | C | T | 44.7% | 31.4 / 90.9 | 76 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 195,559 | 0 | C | A | 39.6% | 56.3 / 46.2 | 55 | T355T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 1,544,531 | 0 | C | A | 34.0% | 66.0 / 32.8 | 47 | intergenic (+48/+66) | mdfA/ampG | multidrug MFS transporter/muropeptide permease AmpG |
| * | NC_002947 | 1,544,534 | 0 | G | C | 32.6% | 63.6 / 43.4 | 46 | intergenic (+51/+63) | mdfA/ampG | multidrug MFS transporter/muropeptide permease AmpG |
| * | NC_002947 | 322,135 | 0 | G | A | 31.1% | 73.0 / 48.2 | 61 | intergenic (+420/+38) | aguA/PP_0267 | agmatine deiminase/ferric siderophore receptor |
| * | NC_002947 | 1,544,546 | 0 | T | G | 30.4% | 51.2 / 37.1 | 46 | intergenic (+63/+51) | mdfA/ampG | multidrug MFS transporter/muropeptide permease AmpG |
| * | NC_002947 | 1,544,536 | 0 | C | G | 30.2% | 67.6 / 34.3 | 43 | intergenic (+53/+61) | mdfA/ampG | multidrug MFS transporter/muropeptide permease AmpG |
| * | NC_002947 | 1,544,541 | 0 | C | G | 30.2% | 70.4 / 34.0 | 43 | intergenic (+58/+56) | mdfA/ampG | multidrug MFS transporter/muropeptide permease AmpG |
| * | NC_002947 | 1,544,543 | 0 | G | C | 30.2% | 70.5 / 35.4 | 43 | intergenic (+60/+54) | mdfA/ampG | multidrug MFS transporter/muropeptide permease AmpG |
| * | NC_002947 | 2,282,817 | 0 | G | C | 29.5% | 95.4 / 52.5 | 63 | intergenic (‑166/+63) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| Marginal new junction evidence (lowest skew 10 of 575 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 5162618 = | 65 (1.310) | 11 (0.280) | 10/214 | 3.1 | 17.7% | intergenic (+93/+108) | PP_4544/PP_4545 | hypothetical protein/beta‑ketodecanoyl‑ACP synthase |
| ? | NC_002947 | 5162702 = | 50 (1.250) | intergenic (+177/+24) | PP_4544/PP_4545 | hypothetical protein/beta‑ketodecanoyl‑ACP synthase | |||||
| * | ? | NC_002947 | = 4861197 | 71 (1.430) | 13 (0.320) | 10/216 | 3.1 | 19.4% | intergenic (‑103/+134) | ligA/PP_4275 | DNA ligase/cell division protein ZipA |
| ? | NC_002947 | = 4861238 | 50 (1.240) | intergenic (‑144/+93) | ligA/PP_4275 | DNA ligase/cell division protein ZipA | |||||
| * | ? | NC_002947 | = 4586100 | 35 (0.700) | 8 (0.230) | 8/190 | 3.2 | 27.6% | intergenic (+139/+78) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947 | = 4586128 | 17 (0.480) | intergenic (+167/+50) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||
| * | ? | NC_002947 | 1780096 = | 47 (0.950) | 14 (0.310) | 11/242 | 3.3 | 23.6% | intergenic (+13/+93) | PP_1587/dapC | NhaP‑type Na+(K+)/H+ antiporter/N‑succinyl‑L,L‑diaminopimelate aminotransferase |
| ? | NC_002947 | 1780184 = | 48 (1.060) | intergenic (+101/+5) | PP_1587/dapC | NhaP‑type Na+(K+)/H+ antiporter/N‑succinyl‑L,L‑diaminopimelate aminotransferase | |||||
| * | ? | NC_002947 | 5756714 = | 71 (1.430) | 13 (0.460) +58 bp |
5/150 | 3.4 | 24.5% | intergenic (+335/‑353) | glnG/PP_5050 | two‑component system DNA‑binding response regulator GlnL/GlnG/transposase |
| ? | NC_002947 | = 6039257 | NA (NA) | intergenic (‑221/+73) | PP_5290/pyrE | transposase/orotate phosphoribosyltransferase | |||||
| * | ? | NC_002947 | 5870317 = | 58 (1.170) | 8 (0.210) | 8/208 | 3.5 | 16.8% | intergenic (+22/+112) | PP_5144/ptsP | hypothetical protein/phosphoenolpyruvate‑dependent regulator |
| ? | NC_002947 | 5870410 = | 34 (0.880) | intergenic (+115/+19) | PP_5144/ptsP | hypothetical protein/phosphoenolpyruvate‑dependent regulator | |||||
| * | ? | NC_002947 | 2100003 = | 44 (0.890) | 10 (0.240) | 9/220 | 3.5 | 22.4% | intergenic (‑71/‑134) | PP_1875/PP_1876 | two‑component system sensor histidine kinase/response regulator/AAA family ATP/GTP‑binding protein |
| ? | NC_002947 | 2100098 = | 33 (0.800) | intergenic (‑166/‑39) | PP_1875/PP_1876 | two‑component system sensor histidine kinase/response regulator/AAA family ATP/GTP‑binding protein | |||||
| * | ? | NC_002947 | 1126598 = | 75 (1.510) | 15 (0.360) | 9/224 | 3.5 | 21.0% | intergenic (‑47/+103) | tdcG‑II/gcvP‑I | L‑serine dehydratase/glycine dehydrogenase |
| ? | NC_002947 | 1126656 = | 50 (1.200) | intergenic (‑105/+45) | tdcG‑II/gcvP‑I | L‑serine dehydratase/glycine dehydrogenase | |||||
| * | ? | NC_002947 | 681274 = | 45 (0.910) | 13 (0.310) | 9/224 | 3.5 | 28.6% | intergenic (+11/+58) | PP_0583/PP_0584 | AraC family transcriptional regulator/methyl‑accepting chemotaxis transducer |
| ? | NC_002947 | 681322 = | 27 (0.650) | intergenic (+59/+10) | PP_0583/PP_0584 | AraC family transcriptional regulator/methyl‑accepting chemotaxis transducer | |||||
| * | ? | NC_002947 | = 380858 | 61 (1.230) | 10 (0.240) | 9/220 | 3.5 | 14.4% | intergenic (+45/+64) | gbcB/PP_0317 | glycine‑betaine dioxygenase subunit/methyl‑accepting chemotaxis transducer |
| ? | NC_002947 | = 380892 | 68 (1.660) | intergenic (+79/+30) | gbcB/PP_0317 | glycine‑betaine dioxygenase subunit/methyl‑accepting chemotaxis transducer | |||||