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 42 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,348,705 | 0 | A | G | 60.2% | 34.4 / 113.5 | 108 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 1,327,121 | 0 | C | T | 53.3% | 4.3 / 75.6 | 60 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,337,146 | 0 | G | . | 51.1% | 75.2 / 108.4 | 47 | coding (69/885 nt) | PP_3811 | LysR family transcriptional regulator |
| * | NC_002947 | 699,722 | 0 | A | G | 50.8% | ‑3.2 / 83.9 | 63 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 195,634 | 0 | C | T | 45.7% | 27.7 / 99.9 | 81 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,340,089 | 0 | G | C | 41.4% | 16.8 / 26.5 | 31 | intergenic (+74/‑257) | ribAB‑II/PP_3814 | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein |
| * | NC_002947 | 4,340,081 | 0 | A | G | 39.3% | 19.9 / 24.3 | 30 | intergenic (+66/‑265) | ribAB‑II/PP_3814 | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein |
| * | NC_002947 | 4,340,075 | 0 | A | T | 38.7% | 21.2 / 22.6 | 34 | intergenic (+60/‑271) | ribAB‑II/PP_3814 | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein |
| * | NC_002947 | 441,326 | 0 | G | . | 35.0% | 36.5 / 23.0 | 20 | coding (207/1173 nt) | bioF | 8‑amino‑7‑oxononanoate synthase |
| * | NC_002947 | 5,988,911 | 0 | A | . | 34.8% | 96.1 / 58.4 | 46 | intergenic (+205/‑341) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 4,340,090 | 0 | A | T | 34.6% | 23.9 / 18.1 | 31 | intergenic (+75/‑256) | ribAB‑II/PP_3814 | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein |
| * | NC_002947 | 4,340,083 | 0 | A | G | 33.3% | 27.4 / 19.2 | 30 | intergenic (+68/‑263) | ribAB‑II/PP_3814 | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein |
| * | NC_002947 | 5,948,346 | 0 | G | T | 33.3% | 43.8 / 44.2 | 51 | A43E (GCG→GAG) | rho | transcription termination factor Rho |
| * | NC_002947 | 5,988,894 | 0 | C | T | 33.3% | 49.0 / 33.3 | 42 | intergenic (+188/‑358) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,895 | 0 | A | G | 33.3% | 42.7 / 32.9 | 42 | intergenic (+189/‑357) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,905 | 0 | T | C | 32.6% | 55.0 / 37.5 | 49 | intergenic (+199/‑347) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 3,578,433 | 0 | G | T | 32.4% | 56.8 / 14.9 | 37 | intergenic (+110/‑214) | PP_3158/PP_5589 | hypothetical protein/rhs repeat‑associated core domain‑containing protein |
| * | NC_002947 | 5,988,889 | 0 | C | A | 31.8% | 63.9 / 32.0 | 44 | intergenic (+183/‑363) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 195,559 | 0 | C | A | 30.7% | 113.7 / 59.9 | 75 | T355T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,340,082 | 0 | C | T | 30.0% | 36.9 / 17.3 | 30 | intergenic (+67/‑264) | ribAB‑II/PP_3814 | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein |
| Marginal new junction evidence (lowest skew 10 of 329 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 3788571 | 38 (0.610) | 16 (0.260) | 16/280 | 4.0 | 30.3% | coding (64/1392 nt) | PP_3350 | hypothetical protein |
| ? | NC_002947 | 3788595 = | 36 (0.590) | coding (40/1392 nt) | PP_3350 | hypothetical protein | |||||
| * | ? | NC_002947 | 5545321 = | NA (NA) | 17 (0.280) | 14/278 | 4.5 | 33.7% | intergenic (‑461/+416) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB |
| ? | NC_002947 | = 5621245 | 34 (0.550) | coding (19/774 nt) | PP_4939 | hypothetical protein | |||||
| * | ? | NC_002947 | = 1967177 | 36 (0.580) | 8 (0.170) | 8/216 | 5.1 | 23.3% | intergenic (+47/+72) | PP_1762/yciK | hypothetical protein/putative oxidoreductase |
| ? | NC_002947 | = 1967207 | 25 (0.530) | intergenic (+77/+42) | PP_1762/yciK | hypothetical protein/putative oxidoreductase | |||||
| * | ? | NC_002947 | = 1842639 | 41 (0.660) | 12 (0.200) | 11/270 | 5.2 | 23.2% | coding (2155/2754 nt) | gacS | sensor protein GacS |
| ? | NC_002947 | 1842676 = | 40 (0.680) | coding (2118/2754 nt) | gacS | sensor protein GacS | |||||
| * | ? | NC_002947 | = 1682236 | 65 (1.050) | 10 (0.170) | 9/268 | 5.9 | 12.8% | coding (755/1710 nt) | recJ | ssDNA‑specific exonuclease RecJ |
| ? | NC_002947 | = 1682287 | 74 (1.260) | coding (806/1710 nt) | recJ | ssDNA‑specific exonuclease RecJ | |||||
| * | ? | NC_002947 | 1487006 = | 72 (1.160) | 7 (0.140) | 6/222 | 6.1 | 12.5% | intergenic (+22/+108) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS |
| ? | NC_002947 | 1487096 = | 41 (0.840) | intergenic (+112/+18) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS | |||||
| * | ? | NC_002947 | 5653213 = | 82 (1.330) | 9 (0.150) | 8/270 | 6.3 | 10.2% | coding (99/252 nt) | PP_4962 | hypothetical protein |
| ? | NC_002947 | 5653250 = | 80 (1.350) | coding (62/252 nt) | PP_4962 | hypothetical protein | |||||
| * | ? | NC_002947 | 5201579 = | 25 (0.400) | 5 (0.110) | 5/208 | 6.3 | 23.0% | intergenic (‑65/‑115) | PP_4582/PP_4583 | membrane protein/putative Peptidase |
| ? | NC_002947 | 5201674 = | 15 (0.330) | intergenic (‑160/‑20) | PP_4582/PP_4583 | membrane protein/putative Peptidase | |||||
| * | ? | NC_002947 | = 4039387 | 75 (1.210) | 8 (0.130) | 8/276 | 6.4 | 9.4% | coding (244/864 nt) | PP_3560 | LysR family transcriptional regulator |
| ? | NC_002947 | = 4039424 | 80 (1.320) | coding (281/864 nt) | PP_3560 | LysR family transcriptional regulator | |||||
| * | ? | NC_002947 | 2295775 = | 99 (1.600) | 6 (0.120) | 6/234 | 6.4 | 7.5% | intergenic (+21/+112) | PP_5496/PP_2023 | hypothetical protein/glutathione S‑transferase family protein |
| ? | NC_002947 | 2295860 = | 66 (1.290) | intergenic (+106/+27) | PP_5496/PP_2023 | hypothetical protein/glutathione S‑transferase family protein | |||||