mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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 86 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,741,273 | 1 | . | C | 72.7% | 48.3 / 16.9 | 22 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,298 | 1 | . | T | 63.0% | 52.8 / 31.7 | 27 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 63.0% | 23.0 / 18.1 | 27 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | . | 61.5% | 15.3 / 42.4 | 27 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 699,725 | 0 | A | G | 56.1% | 13.5 / 38.4 | 41 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 1,327,127 | 0 | C | T | 50.0% | 5.8 / 72.8 | 54 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,348,749 | 0 | A | G | 48.1% | 2.8 / 65.0 | 52 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 5,655,687 | 0 | C | A | 46.4% | 6.3 / 32.9 | 29 | intergenic (‑91/+61) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| * | NC_002947 | 5,655,682 | 0 | T | G | 44.8% | 4.0 / 39.5 | 29 | intergenic (‑86/+66) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| * | NC_002947 | 5,655,692 | 0 | T | . | 41.9% | 50.8 / 46.7 | 31 | intergenic (‑96/+56) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| * | NC_002947 | 195,634 | 0 | C | T | 40.8% | 39.9 / 84.1 | 76 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,741,299 | 0 | C | T | 38.5% | 22.2 / 15.5 | 27 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 37.0% | 17.6 / 21.4 | 27 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 37.0% | 29.7 / 19.8 | 27 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 196,390 | 0 | T | C | 35.2% | 60.1 / 44.9 | 55 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,351 | 0 | C | G | 34.8% | 86.3 / 70.6 | 69 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 5,988,961 | 0 | T | C | 34.6% | 54.0 / 37.1 | 52 | intergenic (+199/‑347) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 1,637,368 | 0 | A | T | 33.3% | 44.4 / 31.8 | 39 | intergenic (+35/+31) | pdxJ/PP_1437 | pyridoxine 5'‑phosphate synthase/heavy metal sensor histidine kinase |
| * | NC_002947 | 4,900,110 | 0 | A | G | 33.3% | 44.8 / 33.8 | 43 | intergenic (+26/‑472) | PP_4308/PP_4309 | AsnC family transcriptional regulator/NCS1 family transporter |
| * | NC_002947 | 5,655,677 | 1 | . | A | 33.3% | 38.4 / 32.7 | 24 | intergenic (‑81/+71) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| Marginal new junction evidence (lowest skew 10 of 198 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 5513315 | 47 (1.330) | 8 (0.280) | 8/220 | 2.3 | 17.2% | intergenic (+45/‑109) | urtD/urtE | ABC transporter ATP‑binding protein/ABC transporter ATP‑binding protein |
| ? | NC_002947 | = 5513371 | 39 (1.370) | intergenic (+101/‑53) | urtD/urtE | ABC transporter ATP‑binding protein/ABC transporter ATP‑binding protein | |||||
| * | ? | NC_002947 | = 4876546 | 59 (1.670) | 5 (0.220) +49 bp |
5/174 | 2.5 | 11.8% | intergenic (+339/+98) | PP_4284/pucM | transporter/5‑hydroxyisourate hydrolase |
| ? | NC_002947 | = 4876555 | 58 (1.640) | intergenic (+348/+89) | PP_4284/pucM | transporter/5‑hydroxyisourate hydrolase | |||||
| * | ? | NC_002947 | = 4643020 | 37 (1.050) | 8 (0.240) | 8/254 | 2.7 | 18.9% | intergenic (+20/‑160) | PP_4107/PP_4108 | LysR family transcriptional regulator/4‑aminobutyrate aminotransferase |
| ? | NC_002947 | = 4643043 | 34 (1.030) | intergenic (+43/‑137) | PP_4107/PP_4108 | LysR family transcriptional regulator/4‑aminobutyrate aminotransferase | |||||
| * | ? | NC_002947 | = 5787692 | 52 (1.470) | 8 (0.230) | 8/264 | 2.8 | 13.2% | coding (157/774 nt) | PP_5070 | ParA family protein |
| ? | NC_002947 | = 5787707 | 55 (1.610) | coding (142/774 nt) | PP_5070 | ParA family protein | |||||
| * | ? | NC_002947 | 4344327 = | 23 (0.650) | 6 (0.200) | 6/234 | 3.1 | 21.9% | intergenic (+14/‑142) | PP_3817/PP_3818 | polyamine ABC transporter ATP‑binding protein/phosphate‑binding protein |
| ? | NC_002947 | 4344385 = | 23 (0.760) | intergenic (+72/‑84) | PP_3817/PP_3818 | polyamine ABC transporter ATP‑binding protein/phosphate‑binding protein | |||||
| * | ? | NC_002947 | 1050232 = | 39 (1.110) | 7 (0.210) | 7/262 | 3.1 | 16.8% | coding (624/1098 nt) | PP_0908 | hypothetical protein |
| ? | NC_002947 | 1050257 = | 32 (0.940) | coding (599/1098 nt) | PP_0908 | hypothetical protein | |||||
| * | ? | NC_002947 | = 626190 | 38 (1.080) | 7 (0.210) | 7/260 | 3.1 | 15.5% | coding (338/816 nt) | mtfA | glucose‑regulated peptidase |
| ? | NC_002947 | = 626200 | 40 (1.190) | coding (328/816 nt) | mtfA | glucose‑regulated peptidase | |||||
| * | ? | NC_002947 | 5485172 = | 38 (1.080) | 6 (0.210) | 5/220 | 3.2 | 19.1% | intergenic (+30/‑117) | purH/purD | bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase/phosphoribosylamine‑‑glycine ligase |
| ? | NC_002947 | 5485246 = | 20 (0.700) | intergenic (+104/‑43) | purH/purD | bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase/phosphoribosylamine‑‑glycine ligase | |||||
| * | ? | NC_002947 | 5038212 = | NA (NA) | 9 (0.260) | 7/272 | 3.2 | NA | coding (1256/1536 nt) | PP_4443 | transposase |
| ? | NC_002947 | 5038234 = | NA (NA) | coding (1278/1536 nt) | PP_4443 | transposase | |||||
| * | ? | NC_002947 | 4586063 = | 6 (0.170) | 4 (0.160) | 4/196 | 3.2 | 28.2% | intergenic (+102/+115) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947 | 4586167 = | 16 (0.630) | intergenic (+206/+11) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||