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 72 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 195,634 | 0 | C | T | 59.7% | 25.8 / 67.2 | 67 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 1,327,127 | 0 | C | T | 59.3% | ‑5.2 / 63.4 | 59 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,741,299 | 0 | C | T | 58.8% | 1.5 / 13.5 | 17 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 58.8% | 0.1 / 14.4 | 17 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | C | 58.8% | 24.8 / 23.0 | 17 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 53.3% | ‑3.2 / 19.7 | 17 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 699,725 | 0 | A | G | 42.0% | 28.0 / 52.6 | 50 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 4,741,298 | 1 | . | T | 41.2% | 1.5 / 27.2 | 17 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 41.2% | 1.7 / 14.5 | 17 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 5,655,682 | 0 | T | G | 40.9% | 5.3 / 23.1 | 22 | intergenic (‑86/+66) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| * | NC_002947 | 5,655,687 | 0 | C | A | 40.9% | 16.0 / 17.3 | 22 | intergenic (‑91/+61) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| * | NC_002947 | 5,655,677 | 1 | . | A | 35.0% | 27.0 / 29.4 | 20 | intergenic (‑81/+71) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| * | NC_002947 | 196,390 | 0 | T | C | 32.7% | 82.1 / 37.3 | 52 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 2,282,817 | 0 | G | C | 31.0% | 44.7 / 22.4 | 29 | intergenic (‑166/+63) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 6,081,044 | 0 | T | A | 30.4% | 27.4 / 13.5 | 23 | intergenic (+35/+27) | PP_5332/PP_5333 | hypothetical protein/hypothetical protein |
| * | NC_002947 | 6,081,045 | 0 | T | A | 30.4% | 29.3 / 14.0 | 23 | intergenic (+36/+26) | PP_5332/PP_5333 | hypothetical protein/hypothetical protein |
| * | NC_002947 | 2,282,822 | 0 | C | A | 30.0% | 49.2 / 18.1 | 30 | intergenic (‑171/+58) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 197,590 | 0 | T | C | 29.6% | 66.8 / 36.1 | 55 | D1032D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 2,282,813 | 0 | T | G | 28.6% | 35.9 / 19.5 | 28 | intergenic (‑162/+67) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 5,655,692 | 0 | T | . | 28.6% | 42.0 / 17.4 | 21 | intergenic (‑96/+56) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| Marginal new junction evidence (lowest skew 10 of 100 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 867923 = | 54 (1.750) | 11 (0.400) | 11/244 | 1.5 | 19.3% | intergenic (+18/+159) | PP_0750/mqo‑I | hypothetical protein/malate:quinone oxidoreductase |
| ? | NC_002947 | 868013 = | 43 (1.540) | intergenic (+108/+69) | PP_0750/mqo‑I | hypothetical protein/malate:quinone oxidoreductase | |||||
| * | ? | NC_002947 | = 4889640 | 31 (1.010) | 6 (0.240) | 6/216 | 2.3 | 15.4% | intergenic (+41/‑112) | hyi/glxR | hydroxypyruvate isomerase/2‑hydroxy‑3‑oxopropionate reductase |
| ? | NC_002947 | = 4889677 | 41 (1.660) | intergenic (+78/‑75) | hyi/glxR | hydroxypyruvate isomerase/2‑hydroxy‑3‑oxopropionate reductase | |||||
| * | ? | NC_002947 | 3798071 = | 31 (1.010) | 7 (0.240) | 7/254 | 2.5 | 20.0% | intergenic (‑35/+41) | vdh/PP_3358 | vanillin dehydrogenase/hydroxycinnamoyl‑CoA hydratase‑lyase |
| ? | NC_002947 | 3798106 = | 27 (0.930) | intergenic (‑70/+6) | vdh/PP_3358 | vanillin dehydrogenase/hydroxycinnamoyl‑CoA hydratase‑lyase | |||||
| * | ? | NC_002947 | = 1149932 | 44 (1.430) | 8 (0.280) | 7/254 | 2.5 | 19.7% | intergenic (‑173/+84) | PP_1008/gapA | RNA polymerase subunit sigma‑24/glyceraldehyde‑3‑phosphate dehydrogenase |
| ? | NC_002947 | = 1149995 | 24 (0.830) | intergenic (‑236/+21) | PP_1008/gapA | RNA polymerase subunit sigma‑24/glyceraldehyde‑3‑phosphate dehydrogenase | |||||
| * | ? | NC_002947 | = 5914240 | 32 (1.040) | 5 (0.200) | 5/214 | 2.6 | 15.3% | intergenic (+76/+77) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase |
| ? | NC_002947 | = 5914280 | 30 (1.230) | intergenic (+116/+37) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase | |||||
| * | ? | NC_002947 | = 2050638 | 25 (0.810) | 4 (0.180) | 4/196 | 2.7 | 17.3% | intergenic (‑88/+87) | PP_1824/PP_1825 | Smr domain‑containing protein/hypothetical protein |
| ? | NC_002947 | = 2050674 | 20 (0.890) | intergenic (‑124/+51) | PP_1824/PP_1825 | Smr domain‑containing protein/hypothetical protein | |||||
| * | ? | NC_002947 | = 380858 | 27 (0.880) | 6 (0.230) | 5/224 | 2.7 | 19.9% | intergenic (+45/+64) | gbcB/PP_0317 | glycine‑betaine dioxygenase subunit/methyl‑accepting chemotaxis transducer |
| ? | NC_002947 | = 380892 | 26 (1.020) | intergenic (+79/+30) | gbcB/PP_0317 | glycine‑betaine dioxygenase subunit/methyl‑accepting chemotaxis transducer | |||||
| * | ? | NC_002947 | = 5815201 | 35 (1.140) | 6 (0.200) | 6/258 | 2.8 | 14.7% | coding (328/699 nt) | PP_5090 | cell division protein |
| ? | NC_002947 | = 5815221 | 36 (1.220) | coding (348/699 nt) | PP_5090 | cell division protein | |||||
| * | ? | NC_002947 | = 4727773 | 37 (1.200) | 6 (0.200) | 6/260 | 2.8 | 16.3% | intergenic (‑346/+58) | brnQ/sucD | branched‑chain amino acid transporter/succinyl‑CoA synthetase subunit alpha |
| ? | NC_002947 | = 4727816 | 26 (0.880) | intergenic (‑389/+15) | brnQ/sucD | branched‑chain amino acid transporter/succinyl‑CoA synthetase subunit alpha | |||||
| * | ? | NC_002947 | 2804013 = | 30 (0.970) | 6 (0.210) | 6/254 | 2.8 | 18.4% | coding (783/996 nt) | rbsC | D‑ribose ABC transporter permease |
| ? | NC_002947 | 2804036 = | 25 (0.860) | coding (806/996 nt) | rbsC | D‑ribose ABC transporter permease | |||||