mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.31.0 revision 69e7c3c0fa11
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 93 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP016816 | 481,761 | 0 | G | A | 69.0% | 1067.0 / inf | 809 | P589L (CCT→CTT) | JCVSYN2_02215 | DNA‑directed RNA polymerase subunit beta |
| * | CP016816 | 393,336 | 0 | C | T | 68.0% | 1049.7 / inf | 851 | A679A (GCG→GCA) | JCVSYN2_01720 | MOLPALP family lipoprotein |
| * | CP016816 | 25,204 | 0 | T | C | 67.8% | 1041.8 / inf | 760 | H247R (CAC→CGC) | JCVSYN2_00095 | ABC transporter ATP‑binding protein |
| * | CP016816 | 20,935 | 0 | C | T | 67.7% | 919.4 / inf | 776 | Q174* (CAA→TAA) | JCVSYN2_00070 | tetracycline resistance ribosomal protection protein Tet(M) |
| * | CP016816 | 176,317 | 0 | G | A | 66.9% | 1024.5 / inf | 878 | intergenic (+155/‑80) | JCVSYN2_00720/JCVSYN2_00725 | FAD synthetase/30S ribosomal protein S15 |
| * | CP016816 | 478,682 | 0 | C | T | 66.8% | 1004.2 / inf | 900 | E320K (GAA→AAA) | JCVSYN2_02210 | DNA‑directed RNA polymerase subunit beta' |
| * | CP016816 | 202,485 | 0 | T | . | 65.8% | 110.6 / 271.0 | 175 | intergenic (+263/‑412) | JCVSYN2_00840/JCVSYN2_00845 | hypothetical protein/lipoprotein |
| * | CP016816 | 214,105 | 0 | G | T | 64.2% | 624.4 / inf | 872 | intergenic (+16/‑75) | JCVSYN2_00905/JCVSYN2_00910 | 50S rRNA methyltransferase/30S ribosomal protein S16 |
| * | CP016816 | 76,893 | 0 | T | . | 62.2% | 166.8 / inf | 685 | intergenic (‑142/+43) | JCVSYN2_00300/JCVSYN2_00305 | UTP‑‑glucose‑1‑phosphate uridylyltransferase/hypothetical protein |
| * | CP016816 | 165,250 | 0 | T | . | 59.9% | 172.6 / inf | 524 | intergenic (+214/‑328) | JCVSYN2_00665/JCVSYN2_00670 | tRNA N6‑adenosine(37)‑N6‑threonylcarbamoyltransferase complex dimerization subunit TsaB/tRNA‑Ser |
| * | CP016816 | 202,486 | 0 | T | . | 55.1% | 141.5 / inf | 175 | intergenic (+264/‑411) | JCVSYN2_00840/JCVSYN2_00845 | hypothetical protein/lipoprotein |
| * | CP016816 | 105,339 | 0 | T | G | 51.7% | 392.1 / 144.8 | 421 | intergenic (+834/+92) | JCVSYN2_00420/JCVSYN2_00430 | translation elongation factor Tu/alanine‑‑tRNA ligase |
| * | CP016816 | 202,496 | 0 | A | . | 46.5% | 76.0 / 136.6 | 109 | intergenic (+274/‑401) | JCVSYN2_00840/JCVSYN2_00845 | hypothetical protein/lipoprotein |
| * | CP016816 | 34,945 | 1 | . | A | 43.4% | 88.4 / inf | 587 | intergenic (+49/+117) | JCVSYN2_00105/JCVSYN2_00110 | ABC transporter permease/cell division protein FtsH |
| * | CP016816 | 202,494 | 0 | A | T | 42.5% | 94.0 / 125.3 | 174 | intergenic (+272/‑403) | JCVSYN2_00840/JCVSYN2_00845 | hypothetical protein/lipoprotein |
| * | CP016816 | 202,477 | 0 | C | A | 40.1% | 237.7 / 67.0 | 222 | intergenic (+255/‑420) | JCVSYN2_00840/JCVSYN2_00845 | hypothetical protein/lipoprotein |
| * | CP016816 | 420,253 | 0 | C | A | 39.5% | 606.5 / 163.3 | 563 | intergenic (‑536/+307) | JCVSYN2_01895/JCVSYN2_01900 | 30S ribosomal protein S10/tRNA‑Thr |
| * | CP016816 | 202,487 | 0 | T | . | 38.4% | 135.6 / 189.0 | 173 | intergenic (+265/‑410) | JCVSYN2_00840/JCVSYN2_00845 | hypothetical protein/lipoprotein |
| * | CP016816 | 437,880 | 2 | . | T | 36.4% | 161.6 / inf | 209 | intergenic (‑184/+238) | JCVSYN2_01985/JCVSYN2_01990 | glycosyl transferase/ABC transporter permease |
| * | CP016816 | 437,880 | 1 | . | A | 36.1% | 168.2 / inf | 209 | intergenic (‑184/+238) | JCVSYN2_01985/JCVSYN2_01990 | glycosyl transferase/ABC transporter permease |
| Marginal new junction evidence (lowest skew 10 of 98 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP016816 | 311155 = | 347 (0.380) | 167 (0.220) | 106/210 | 13.8 | 38.7% | intergenic (‑78/‑236) | JCVSYN2_01300/JCVSYN2_01305 | hypothetical protein/30S ribosomal protein S21 |
| ? | CP016816 | = 311148 | 238 (0.310) | intergenic (‑71/‑243) | JCVSYN2_01300/JCVSYN2_01305 | hypothetical protein/30S ribosomal protein S21 | |||||
| * | ? | CP016816 | 76896 = | 661 (0.730) | 203 (0.250) | 112/224 | 14.3 | 26.7% | intergenic (‑145/+40) | JCVSYN2_00300/JCVSYN2_00305 | UTP‑‑glucose‑1‑phosphate uridylyltransferase/hypothetical protein |
| ? | CP016816 | = 76892 | 525 (0.650) | intergenic (‑141/+44) | JCVSYN2_00300/JCVSYN2_00305 | UTP‑‑glucose‑1‑phosphate uridylyltransferase/hypothetical protein | |||||
| * | ? | CP016816 | = 34945 | 417 (0.520) | 275 (0.310) +AAA |
83/214 | 21.2 | 37.8% | intergenic (+49/+117) | JCVSYN2_00105/JCVSYN2_00110 | ABC transporter permease/cell division protein FtsH |
| ? | CP016816 | 34946 = | 452 (0.500) | intergenic (+50/+116) | JCVSYN2_00105/JCVSYN2_00110 | ABC transporter permease/cell division protein FtsH | |||||
| * | ? | CP016816 | = 437880 | 114 (0.160) | 206 (0.240) +ATAT |
68/186 | 21.8 | 57.9% | intergenic (‑184/+238) | JCVSYN2_01985/JCVSYN2_01990 | glycosyl transferase/ABC transporter permease |
| ? | CP016816 | 437881 = | 163 (0.180) | intergenic (‑185/+237) | JCVSYN2_01985/JCVSYN2_01990 | glycosyl transferase/ABC transporter permease | |||||
| * | ? | CP016816 | = 311148 | 176 (0.250) | 194 (0.220) +TATA |
67/190 | 22.8 | 46.0% | intergenic (‑71/‑243) | JCVSYN2_01300/JCVSYN2_01305 | hypothetical protein/30S ribosomal protein S21 |
| ? | CP016816 | 311149 = | 248 (0.270) | intergenic (‑72/‑242) | JCVSYN2_01300/JCVSYN2_01305 | hypothetical protein/30S ribosomal protein S21 | |||||
| * | ? | CP016816 | = 34944 | 501 (0.550) | 248 (0.280) +TAA |
63/244 | 32.8 | 33.7% | intergenic (+48/+118) | JCVSYN2_00105/JCVSYN2_00110 | ABC transporter permease/cell division protein FtsH |
| ? | CP016816 | 34945 = | 501 (0.550) | intergenic (+49/+117) | JCVSYN2_00105/JCVSYN2_00110 | ABC transporter permease/cell division protein FtsH | |||||
| * | ? | CP016816 | 437881 = | 271 (0.300) | 150 (0.200) | 48/206 | 33.4 | 42.1% | intergenic (‑185/+237) | JCVSYN2_01985/JCVSYN2_01990 | glycosyl transferase/ABC transporter permease |
| ? | CP016816 | = 437886 | 189 (0.250) | intergenic (‑190/+232) | JCVSYN2_01985/JCVSYN2_01990 | glycosyl transferase/ABC transporter permease | |||||
| * | ? | CP016816 | = 202486 | 68 (0.080) | 147 (0.160) | 60/250 | 34.8 | 67.9% | intergenic (+264/‑411) | JCVSYN2_00840/JCVSYN2_00845 | hypothetical protein/lipoprotein |
| ? | CP016816 | 202490 = | 71 (0.080) | intergenic (+268/‑407) | JCVSYN2_00840/JCVSYN2_00845 | hypothetical protein/lipoprotein | |||||
| * | ? | CP016816 | 165253 = | 545 (0.600) | 107 (0.140) | 47/218 | 35.8 | 18.5% | intergenic (+217/‑325) | JCVSYN2_00665/JCVSYN2_00670 | tRNA N6‑adenosine(37)‑N6‑threonylcarbamoyltransferase complex dimerization subunit TsaB/tRNA‑Ser |
| ? | CP016816 | = 165249 | 466 (0.590) | intergenic (+213/‑329) | JCVSYN2_00665/JCVSYN2_00670 | tRNA N6‑adenosine(37)‑N6‑threonylcarbamoyltransferase complex dimerization subunit TsaB/tRNA‑Ser | |||||
| * | ? | CP016816 | 437881 = | 279 (0.310) | 134 (0.180) | 38/210 | 39.0 | 37.6% | intergenic (‑185/+237) | JCVSYN2_01985/JCVSYN2_01990 | glycosyl transferase/ABC transporter permease |
| ? | CP016816 | = 437888 | 210 (0.280) | intergenic (‑192/+230) | JCVSYN2_01985/JCVSYN2_01990 | glycosyl transferase/ABC transporter permease | |||||