mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947_CJ‑RC | 1,070,246 | 1 | . | G | 60.7% | 54.5 / 37.1 | 28 | intergenic (+46/+96) | aroP‑I/PP_0928 | aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein |
| * | NC_002947_CJ‑RC | 1,070,246 | 2 | . | A | 60.7% | 47.1 / 37.6 | 28 | intergenic (+46/+96) | aroP‑I/PP_0928 | aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein |
| * | NC_002947_CJ‑RC | 1,327,121 | 0 | C | T | 55.0% | 19.4 / 189.0 | 140 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947_CJ‑RC | 699,722 | 0 | A | G | 48.4% | 5.8 / 131.6 | 92 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947_CJ‑RC | 4,348,812 | 0 | A | G | 47.5% | 50.6 / 173.5 | 120 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947_CJ‑RC | 5,462,375 | 0 | T | G | 42.9% | 22.0 / 10.6 | 35 | intergenic (+18/‑22) | PP_4795/holA | lipoprotein/DNA polymerase III subunit delta |
| * | NC_002947_CJ‑RC | 6,000,018 | 0 | C | G | 42.9% | 28.6 / 12.8 | 28 | intergenic (‑172/+28) | PP_5252/PP_5253 | hypothetical protein/arylesterase |
| * | NC_002947_CJ‑RC | 5,743,282 | 0 | T | G | 35.7% | 5.6 / 14.3 | 14 | intergenic (+32/+39) | hutF/PP_5037 | formiminoglutamate deiminase/lipocalin family lipoprotein |
| * | NC_002947_CJ‑RC | 5,743,286 | 0 | A | T | 35.7% | 8.7 / 10.2 | 14 | intergenic (+36/+35) | hutF/PP_5037 | formiminoglutamate deiminase/lipocalin family lipoprotein |
| * | NC_002947_CJ‑RC | 3,989,361 | 0 | A | C | 28.1% | 130.1 / 14.7 | 64 | T627P (ACC→CCC) | oplA | 5‑oxoprolinase A |
| * | NC_002947_CJ‑RC | 2,282,770 | 0 | T | G | 25.0% | 36.7 / 14.5 | 24 | intergenic (‑162/+67) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947_CJ‑RC | 4,844,607 | 1 | . | G | 25.0% | 17.2 / 10.3 | 12 | intergenic (+48/‑249) | ccoP‑II/PP_4259 | cbb3‑type cytochrome c oxidase subunit/iron‑sulfur cluster‑binding protein |
| * | NC_002947_CJ‑RC | 1,438,934 | 0 | C | A | 24.6% | 139.1 / 23.5 | 62 | A246S (GCC→TCC) | yveA | aspartate‑proton symporter |
| * | NC_002947_CJ‑RC | 3,935,396 | 0 | A | T | 24.2% | 115.6 / 16.2 | 66 | I6K (ATA→AAA) | PP_3467 | sigma‑54 dependent transcriptional regulator |
| * | NC_002947_CJ‑RC | 5,392,142 | 0 | C | G | 22.2% | 131.7 / 10.7 | 54 | intergenic (+528/‑194) | PP_4738/PP_mr56 | hypothetical protein/C4 ncRNA |
| * | NC_002947_CJ‑RC | 197,632 | 0 | T | C | 21.2% | 157.3 / 38.7 | 80 | T1046T (ACT→ACC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947_CJ‑RC | 1,438,942 | 0 | G | T | 20.3% | 172.0 / 16.6 | 64 | A243E (GCG→GAG) | yveA | aspartate‑proton symporter |
| * | NC_002947_CJ‑RC | 3,424,887 | 0 | G | C | 20.3% | 191.1 / 11.0 | 74 | intergenic (+475/‑37) | PP_3039/PP_3040 | hypothetical protein/holin |
| * | NC_002947_CJ‑RC | 337,816 | 1 | . | A | 20.0% | 42.3 / 10.2 | 15 | intergenic (‑66/+63) | PP_0279/PP_0280 | hypothetical protein/amino acid ABC transporter permease |
| Marginal new junction evidence (lowest skew 10 of 23 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947_CJ‑RC | 4809877 = | 5 (0.070) | 17 (0.330) | 12/222 | 4.7 | 39.2% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947_CJ‑RC | = 5991750 | 49 (0.960) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947_CJ‑RC | = 4809882 | 3 (0.040) | 15 (0.240) | 15/268 | 4.9 | 44.9% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947_CJ‑RC | 5991580 = | 34 (0.550) | intergenic (+59/‑487) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947_CJ‑RC | = 652782 | 36 (0.540) | 14 (0.240) | 13/252 | 5.2 | 47.4% | coding (1961/1962 nt) | ctpL | methyl‑accepting chemotaxis protein CtpL |
| ? | NC_002947_CJ‑RC | = 4809862 | 0 (0.000) | intergenic (‑268/‑287) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947_CJ‑RC | = 2957080 | 35 (0.520) | 13 (0.200) | 13/282 | 5.9 | 27.4% | intergenic (+35/‑161) | PP_2588/PP_2589 | class III aminotransferase/aldehyde dehydrogenase family protein |
| ? | NC_002947_CJ‑RC | 2957165 = | 35 (0.540) | intergenic (+120/‑76) | PP_2588/PP_2589 | class III aminotransferase/aldehyde dehydrogenase family protein | |||||
| * | ? | NC_002947_CJ‑RC | = 5558423 | 2 (0.030) | 15 (0.230) +GCC |
13/286 | 6.0 | 88.4% | intergenic (‑84/+87) | PP_4887/PP_4888 | hypothetical protein/methyl‑accepting chemotaxis transducer |
| ? | NC_002947_CJ‑RC | 5558424 = | 2 (0.030) | intergenic (‑85/+86) | PP_4887/PP_4888 | hypothetical protein/methyl‑accepting chemotaxis transducer | |||||
| * | ? | NC_002947_CJ‑RC | = 5991572 | 37 (0.550) | 12 (0.190) | 12/276 | 6.1 | 20.3% | intergenic (+51/‑495) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| ? | NC_002947_CJ‑RC | 5991794 = | 59 (0.930) | intergenic (+273/‑273) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947_CJ‑RC | = 4809882 | 3 (0.040) | 10 (0.170) | 10/252 | 6.3 | 25.4% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947_CJ‑RC | = 5991764 | 56 (0.970) | intergenic (+243/‑303) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947_CJ‑RC | = 5684230 | 0 (0.000) | 15 (0.230) +CGGG |
10/284 | 7.1 | 100% | intergenic (‑133/+71) | PP_4986/PP_4987 | hemolysin III family channel protein/putative Chemotaxis protein |
| ? | NC_002947_CJ‑RC | 5684231 = | 0 (0.000) | intergenic (‑134/+70) | PP_4986/PP_4987 | hemolysin III family channel protein/putative Chemotaxis protein | |||||
| * | ? | NC_002947_CJ‑RC | = 1780066 | 15 (0.220) | 7 (0.110) | 7/278 | 8.3 | 29.6% | intergenic (+25/+81) | PP_1587/dapC | NhaP‑type Na+(K+)/H+ antiporter/N‑succinyl‑L,L‑diaminopimelate aminotransferase |
| ? | NC_002947_CJ‑RC | 1780129 = | 19 (0.300) | intergenic (+88/+18) | PP_1587/dapC | NhaP‑type Na+(K+)/H+ antiporter/N‑succinyl‑L,L‑diaminopimelate aminotransferase | |||||
| * | ? | NC_002947_CJ‑RC | = 2050595 | 17 (0.250) | 5 (0.100) | 4/218 | 8.4 | 32.6% | intergenic (‑88/+87) | PP_1824/PP_1825 | Smr domain‑containing protein/hypothetical protein |
| ? | NC_002947_CJ‑RC | = 2050631 | 8 (0.160) | intergenic (‑124/+51) | PP_1824/PP_1825 | Smr domain‑containing protein/hypothetical protein | |||||