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 100 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,741,277 | 0 | C | T | 68.0% | 23.1 / 14.0 | 25 | intergenic (+468/+284) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,273 | 1 | . | C | 60.0% | 45.0 / 34.4 | 25 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,275 | 0 | A | G | 60.0% | 11.9 / 22.0 | 25 | intergenic (+466/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,327,127 | 0 | C | T | 57.4% | ‑6.0 / 68.2 | 61 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,741,299 | 0 | C | T | 57.1% | 0.8 / 28.8 | 28 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 57.1% | 5.2 / 29.1 | 28 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 57.1% | 2.2 / 37.1 | 28 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | C | 57.1% | 47.4 / 45.2 | 28 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 2,282,818 | 0 | G | C | 55.2% | ‑4.1 / 36.9 | 29 | intergenic (‑167/+62) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,813 | 0 | T | G | 54.3% | 2.1 / 33.9 | 35 | intergenic (‑162/+67) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 699,725 | 0 | A | G | 52.4% | ‑1.1 / 49.8 | 42 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 2,282,817 | 0 | G | C | 51.7% | ‑2.3 / 37.2 | 29 | intergenic (‑166/+63) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 4,348,749 | 0 | A | G | 49.2% | 10.2 / 84.7 | 63 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 2,282,822 | 0 | C | A | 48.4% | 8.4 / 39.0 | 31 | intergenic (‑171/+58) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 4,741,298 | 1 | . | T | 42.9% | ‑1.3 / 53.2 | 28 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 42.9% | 6.9 / 28.8 | 28 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 195,634 | 0 | C | T | 41.8% | 36.2 / 77.4 | 67 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,741,274 | 0 | A | C | 40.0% | 8.6 / 21.3 | 25 | intergenic (+465/+287) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 5,988,961 | 0 | T | C | 38.8% | 69.3 / 64.1 | 67 | intergenic (+199/‑347) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 1,506,932 | 0 | A | G | 37.5% | 11.7 / 20.3 | 24 | intergenic (+44/‑73) | petC/sspA | ubiquinol‑‑cytochrome c reductase cytochrome c1 subunit/stringent starvation protein A |
| Marginal new junction evidence (lowest skew 10 of 169 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 1114899 | 47 (1.190) | 9 (0.280) | 9/216 | 2.6 | 17.8% | intergenic (‑88/+91) | rlmF/valS | ribosomal RNA large subunit methyltransferase F/valine‑‑tRNA ligase |
| ? | NC_002947 | = 1114925 | 45 (1.410) | intergenic (‑114/+65) | rlmF/valS | ribosomal RNA large subunit methyltransferase F/valine‑‑tRNA ligase | |||||
| * | ? | NC_002947 | = 5903842 | 53 (1.350) | 9 (0.260) | 8/234 | 3.1 | 15.6% | intergenic (+42/+65) | PP_5176/spuH | hypothetical protein/spermidine/putrescine ABC transporter permease |
| ? | NC_002947 | = 5903870 | 51 (1.470) | intergenic (+70/+37) | PP_5176/spuH | hypothetical protein/spermidine/putrescine ABC transporter permease | |||||
| * | ? | NC_002947 | = 5513315 | 71 (1.800) | 8 (0.250) | 7/214 | 3.1 | 12.6% | intergenic (+45/‑109) | urtD/urtE | ABC transporter ATP‑binding protein/ABC transporter ATP‑binding protein |
| ? | NC_002947 | = 5513371 | 54 (1.710) | intergenic (+101/‑53) | urtD/urtE | ABC transporter ATP‑binding protein/ABC transporter ATP‑binding protein | |||||
| * | ? | NC_002947 | = 176399 | NA (NA) | 15 (0.400) +CGAAA |
9/256 | 3.1 | 25.3% | intergenic (+43/‑420) | PP_5SA/PP_16SB | 5S ribosomal RNA/16S ribosomal RNA |
| ? | NC_002947 | = 182013 | 46 (1.170) | intergenic (+2/+63) | PP_5SB/PP_0160 | 5S ribosomal RNA/ferrioxamine receptor | |||||
| * | ? | NC_002947 | = 5759491 | 50 (1.270) | 6 (0.200) | 6/202 | 3.2 | 15.4% | intergenic (+44/+112) | trmL/secB | tRNA (cytosine(34)‑2'‑O)‑methyltransferase TrmL/protein‑export protein SecB |
| ? | NC_002947 | = 5759519 | 28 (0.940) | intergenic (+72/+84) | trmL/secB | tRNA (cytosine(34)‑2'‑O)‑methyltransferase TrmL/protein‑export protein SecB | |||||
| * | ? | NC_002947 | = 2429960 | 35 (0.890) | 6 (0.200) | 6/200 | 3.2 | 19.3% | intergenic (+47/+66) | PP_2129/PP_2130 | hypothetical protein/lytic transglycosylase |
| ? | NC_002947 | = 2429975 | 24 (0.810) | intergenic (+62/+51) | PP_2129/PP_2130 | hypothetical protein/lytic transglycosylase | |||||
| * | ? | NC_002947 | 2429928 = | 26 (0.660) | 6 (0.200) | 6/200 | 3.2 | 21.6% | intergenic (+15/+98) | PP_2129/PP_2130 | hypothetical protein/lytic transglycosylase |
| ? | NC_002947 | 2430009 = | 24 (0.810) | intergenic (+96/+17) | PP_2129/PP_2130 | hypothetical protein/lytic transglycosylase | |||||
| * | ? | NC_002947 | = 4886209 | 39 (0.990) | 6 (0.200) | 6/208 | 3.3 | 17.5% | intergenic (+43/+80) | PP_4295/PP_4296 | TetR family transcriptional regulator/hypothetical protein |
| ? | NC_002947 | = 4886238 | 26 (0.850) | intergenic (+72/+51) | PP_4295/PP_4296 | TetR family transcriptional regulator/hypothetical protein | |||||
| * | ? | NC_002947 | 31361 = | 43 (1.090) | 12 (0.330) | 8/244 | 3.3 | 24.1% | intergenic (+25/‑43) | PP_0026/PP_0027 | cobalt/cadmium/zinc exporter/membrane protein |
| ? | NC_002947 | 31389 = | 36 (1.000) | intergenic (+53/‑15) | PP_0026/PP_0027 | cobalt/cadmium/zinc exporter/membrane protein | |||||
| * | ? | NC_002947 | = 5765441 | 39 (0.990) | 8 (0.210) | 8/252 | 3.4 | 17.8% | coding (41/768 nt) | PP_5059 | hypothetical protein |
| ? | NC_002947 | = 5765457 | 37 (0.990) | coding (57/768 nt) | PP_5059 | hypothetical protein | |||||