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 69 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 | 64.7% | 70.8 / 37.1 | 34 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 64.7% | 31.3 / 26.7 | 34 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | . | 64.7% | 37.8 / 50.1 | 34 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,327,127 | 0 | C | T | 54.8% | 4.8 / 88.6 | 73 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,348,749 | 0 | A | G | 47.4% | 20.0 / 98.0 | 76 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 699,725 | 0 | A | G | 42.1% | 28.3 / 58.0 | 57 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 4,741,299 | 0 | C | T | 35.3% | 35.1 / 22.2 | 34 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 35.3% | 47.5 / 24.1 | 34 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,530,070 | 0 | T | A | 34.8% | 20.8 / 14.1 | 23 | intergenic (+32/‑136) | PP_4018/topB | acetyltransferase/DNA topoisomerase III |
| * | NC_002947 | 4,741,301 | 0 | A | C | 33.3% | 34.5 / 24.8 | 34 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 5,988,945 | 0 | C | A | 31.0% | 106.0 / 41.7 | 59 | intergenic (+183/‑363) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,997,245 | 1 | . | G | 29.2% | 90.3 / 61.5 | 48 | intergenic (‑158/+42) | PP_5252/PP_5253 | hypothetical protein/arylesterase |
| * | NC_002947 | 5,997,250 | 0 | C | . | 29.2% | 109.7 / 51.1 | 48 | intergenic (‑163/+37) | PP_5252/PP_5253 | hypothetical protein/arylesterase |
| * | NC_002947 | 5,988,950 | 0 | C | T | 28.6% | 114.5 / 40.6 | 63 | intergenic (+188/‑358) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,951 | 0 | A | G | 28.6% | 110.1 / 41.6 | 63 | intergenic (+189/‑357) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 195,634 | 0 | C | T | 28.4% | 117.6 / 54.8 | 82 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 1,703,288 | 0 | A | . | 28.3% | 105.0 / 44.5 | 46 | intergenic (+95/‑72) | lysS/PP_1497 | lysine‑‑tRNA ligase/TetR family transcriptional regulator |
| * | NC_002947 | 883,809 | 0 | T | G | 27.3% | 39.5 / 20.2 | 33 | intergenic (+44/‑284) | PP_0766/PP_0767 | hypothetical protein/LuxR family transcriptional regulator |
| * | NC_002947 | 883,810 | 0 | C | A | 27.3% | 60.2 / 12.9 | 33 | intergenic (+45/‑283) | PP_0766/PP_0767 | hypothetical protein/LuxR family transcriptional regulator |
| * | NC_002947 | 1,703,294 | 1 | . | T | 27.3% | 84.2 / 52.0 | 44 | intergenic (+101/‑66) | lysS/PP_1497 | lysine‑‑tRNA ligase/TetR family transcriptional regulator |
| Marginal new junction evidence (lowest skew 10 of 328 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 1037761 = | 45 (1.010) | 13 (0.300) | 11/266 | 3.1 | 20.5% | intergenic (+3/+113) | PP_0896/PP_0897 | carbon‑nitrogen hydrolase family protein/class 1 fumarate hydratase |
| ? | NC_002947 | 1037865 = | 57 (1.320) | intergenic (+107/+9) | PP_0896/PP_0897 | carbon‑nitrogen hydrolase family protein/class 1 fumarate hydratase | |||||
| * | ? | NC_002947 | = 176399 | NA (NA) | 29 (0.680) +CGAAA |
11/264 | 3.1 | 42.3% | intergenic (+43/‑420) | PP_5SA/PP_16SB | 5S ribosomal RNA/16S ribosomal RNA |
| ? | NC_002947 | = 182013 | 41 (0.920) | intergenic (+2/+63) | PP_5SB/PP_0160 | 5S ribosomal RNA/ferrioxamine receptor | |||||
| * | ? | NC_002947 | 413997 = | 48 (1.080) | 8 (0.230) | 8/218 | 3.2 | 18.6% | intergenic (+14/‑189) | glnE/waaF | glutamate‑ammonia‑ligase adenylyltransferase/ADP‑heptose:LPS heptosyltransferase II |
| ? | NC_002947 | 414083 = | 32 (0.900) | intergenic (+100/‑103) | glnE/waaF | glutamate‑ammonia‑ligase adenylyltransferase/ADP‑heptose:LPS heptosyltransferase II | |||||
| * | ? | NC_002947 | 5162612 = | 53 (1.190) | 11 (0.260) | 10/264 | 3.3 | 18.5% | intergenic (+87/+114) | PP_4544/PP_4545 | hypothetical protein/beta‑ketodecanoyl‑ACP synthase |
| ? | NC_002947 | 5162708 = | 46 (1.070) | intergenic (+183/+18) | PP_4544/PP_4545 | hypothetical protein/beta‑ketodecanoyl‑ACP synthase | |||||
| * | ? | NC_002947 | = 5759491 | 40 (0.900) | 11 (0.320) | 7/210 | 3.4 | 26.9% | intergenic (+44/+112) | trmL/secB | tRNA (cytosine(34)‑2'‑O)‑methyltransferase TrmL/protein‑export protein SecB |
| ? | NC_002947 | = 5759519 | 29 (0.850) | intergenic (+72/+84) | trmL/secB | tRNA (cytosine(34)‑2'‑O)‑methyltransferase TrmL/protein‑export protein SecB | |||||
| * | ? | NC_002947 | 1499443 = | 34 (0.760) | 8 (0.220) | 8/228 | 3.4 | 21.5% | intergenic (+13/‑153) | trpS/zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
| ? | NC_002947 | 1499526 = | 30 (0.810) | intergenic (+96/‑70) | trpS/zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein | |||||
| * | ? | NC_002947 | = 5453186 | 1 (0.020) | 7 (0.240) +48 bp |
5/178 | 3.5 | 39.5% | intergenic (+151/‑204) | lnt/PP_4791 | apolipoprotein N‑acyltransferase/transposase |
| ? | NC_002947 | 5545674 = | 32 (0.720) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | 5224548 = | 3 (0.070) | 7 (0.240) +48 bp |
5/178 | 3.5 | 38.1% | intergenic (‑204/+175) | PP_4603/PP_4604 | transposase/DMT superfamily permease |
| ? | NC_002947 | 5545674 = | 32 (0.720) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | 5201627 = | 31 (0.700) | 8 (0.250) | 6/200 | 3.5 | 28.2% | intergenic (‑65/‑115) | PP_4582/PP_4583 | membrane protein/putative Peptidase |
| ? | NC_002947 | 5201722 = | 18 (0.550) | intergenic (‑160/‑20) | PP_4582/PP_4583 | membrane protein/putative Peptidase | |||||
| * | ? | NC_002947 | 4586063 = | 12 (0.270) | 6 (0.190) | 6/198 | 3.5 | 34.6% | intergenic (+102/+115) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947 | 4586167 = | 14 (0.440) | intergenic (+206/+11) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||