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 60 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,741,298 | 1 | . | T | 59.2% | 100.4 / 70.1 | 49 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 59.2% | 30.8 / 44.7 | 49 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | . | 59.2% | 29.7 / 86.3 | 49 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,327,127 | 0 | C | T | 56.4% | ‑0.8 / 138.1 | 117 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,348,749 | 0 | A | G | 49.5% | 17.1 / 154.3 | 112 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 699,725 | 0 | A | G | 49.5% | 1.2 / 141.5 | 101 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 195,634 | 0 | C | T | 44.9% | 66.2 / 213.7 | 168 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,741,299 | 0 | C | T | 40.8% | 34.6 / 44.2 | 49 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 40.8% | 40.4 / 55.7 | 49 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 38.8% | 32.7 / 47.2 | 49 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 2,282,817 | 0 | G | C | 35.6% | 135.0 / 88.7 | 87 | intergenic (‑166/+63) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,822 | 0 | C | A | 35.2% | 132.6 / 71.0 | 88 | intergenic (‑171/+58) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,818 | 0 | G | C | 34.5% | 138.0 / 90.5 | 87 | intergenic (‑167/+62) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,813 | 0 | T | G | 33.0% | 113.6 / 94.7 | 100 | intergenic (‑162/+67) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 5,988,967 | 0 | A | . | 31.5% | 254.1 / 127.4 | 112 | intergenic (+205/‑341) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 1,921,591 | 0 | T | A | 31.5% | 128.7 / 76.2 | 93 | intergenic (+24/+37) | PP_1720/PP_1721 | alcohol dehydrogenase/phosphoserine phosphatase |
| * | NC_002947 | 1,921,592 | 0 | T | A | 31.5% | 130.4 / 80.0 | 93 | intergenic (+25/+36) | PP_1720/PP_1721 | alcohol dehydrogenase/phosphoserine phosphatase |
| * | NC_002947 | 5,988,950 | 0 | C | T | 29.0% | 225.4 / 85.6 | 125 | intergenic (+188/‑358) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,945 | 0 | C | A | 28.8% | 270.3 / 76.4 | 125 | intergenic (+183/‑363) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,951 | 0 | A | G | 28.8% | 229.3 / 80.5 | 125 | intergenic (+189/‑357) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| Marginal new junction evidence (lowest skew 10 of 896 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 2429960 | 69 (0.870) | 17 (0.280) | 16/200 | 3.7 | 25.8% | intergenic (+47/+66) | PP_2129/PP_2130 | hypothetical protein/lytic transglycosylase |
| ? | NC_002947 | = 2429975 | 46 (0.770) | intergenic (+62/+51) | PP_2129/PP_2130 | hypothetical protein/lytic transglycosylase | |||||
| * | ? | NC_002947 | = 528049 | 13 (0.160) | 35 (0.460) | 21/252 | 3.8 | 74.0% | noncoding (1284/2902 nt) | PP_23SC | 23S ribosomal RNA |
| ? | NC_002947 | = 701118 | NA (NA) | noncoding (1265/2902 nt) | PP_23SD | 23S ribosomal RNA | |||||
| * | ? | NC_002947 | 1296580 = | NA (NA) | 29 (0.390) | 20/248 | 3.9 | NA | intergenic (‑327/‑239) | nhaA‑I/PP_1133 | Na(+)/H(+) antiporter NhaA/transposase |
| ? | NC_002947 | 1296616 = | NA (NA) | intergenic (‑363/‑203) | nhaA‑I/PP_1133 | Na(+)/H(+) antiporter NhaA/transposase | |||||
| * | ? | NC_002947 | = 174474 | NA (NA) | 35 (0.460) | 20/252 | 4.0 | NA | noncoding (1272/2902 nt) | PP_23SA | 23S ribosomal RNA |
| ? | NC_002947 | = 174479 | NA (NA) | noncoding (1277/2902 nt) | PP_23SA | 23S ribosomal RNA | |||||
| * | ? | NC_002947 | = 5477178 | 56 (0.700) | 18 (0.330) | 13/184 | 4.1 | 37.6% | intergenic (+43/+69) | PP_4813/PP_4814 | PAP2 family protein/DedA family protein/ATP‑dependent protease La domain‑containing protein |
| ? | NC_002947 | = 5477195 | 21 (0.380) | intergenic (+60/+52) | PP_4813/PP_4814 | PAP2 family protein/DedA family protein/ATP‑dependent protease La domain‑containing protein | |||||
| * | ? | NC_002947 | 1114875 = | 57 (0.720) | 18 (0.280) | 16/216 | 4.1 | 26.6% | intergenic (‑64/+115) | rlmF/valS | ribosomal RNA large subunit methyltransferase F/valine‑‑tRNA ligase |
| ? | NC_002947 | 1114951 = | 53 (0.820) | intergenic (‑140/+39) | rlmF/valS | ribosomal RNA large subunit methyltransferase F/valine‑‑tRNA ligase | |||||
| * | ? | NC_002947 | 4340085 = | 48 (0.600) | 24 (0.410) | 14/198 | 4.2 | 42.2% | intergenic (+26/‑305) | ribAB‑II/PP_3814 | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein |
| ? | NC_002947 | 4340169 = | 30 (0.510) | intergenic (+110/‑221) | ribAB‑II/PP_3814 | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein | |||||
| * | ? | NC_002947 | = 6013891 | 77 (0.970) | 19 (0.300) | 15/212 | 4.3 | 23.4% | intergenic (+40/+70) | xpt/PP_5266 | xanthine phosphoribosyltransferase/acetyl‑CoA hydrolase family protein |
| ? | NC_002947 | = 6013919 | 63 (0.990) | intergenic (+68/+42) | xpt/PP_5266 | xanthine phosphoribosyltransferase/acetyl‑CoA hydrolase family protein | |||||
| * | ? | NC_002947 | = 4896443 | 50 (0.630) | 23 (0.340) | 15/224 | 4.6 | 30.9% | intergenic (+31/‑177) | PP_4304/sbp‑I | VIC family cation transporter/sulfate ABC transporter substrate‑binding protein |
| ? | NC_002947 | = 4896490 | 61 (0.910) | intergenic (+78/‑130) | PP_4304/sbp‑I | VIC family cation transporter/sulfate ABC transporter substrate‑binding protein | |||||
| * | ? | NC_002947 | = 4340118 | 50 (0.630) | 18 (0.300) | 12/198 | 4.7 | 34.9% | intergenic (+59/‑272) | ribAB‑II/PP_3814 | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein |
| ? | NC_002947 | = 4340134 | 30 (0.510) | intergenic (+75/‑256) | ribAB‑II/PP_3814 | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein | |||||