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 70 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP016816 | 202,485 | 0 | T | . | 74.4% | 1104.5 / inf | 910 | intergenic (+263/‑412) | JCVSYN2_00840/JCVSYN2_00845 | hypothetical protein/lipoprotein |
| * | CP016816 | 311,150 | 0 | A | . | 66.4% | 2603.9 / inf | 2208 | intergenic (‑73/‑241) | JCVSYN2_01300/JCVSYN2_01305 | hypothetical protein/30S ribosomal protein S21 |
| * | CP016816 | 311,149 | 0 | T | . | 65.7% | 2459.7 / inf | 2186 | intergenic (‑72/‑242) | JCVSYN2_01300/JCVSYN2_01305 | hypothetical protein/30S ribosomal protein S21 |
| * | CP016816 | 76,893 | 0 | T | . | 61.0% | 262.2 / inf | 3546 | intergenic (‑142/+43) | JCVSYN2_00300/JCVSYN2_00305 | UTP‑‑glucose‑1‑phosphate uridylyltransferase/hypothetical protein |
| * | CP016816 | 203,895 | 1 | . | T | 59.1% | inf / inf | 1671 | intergenic (+279/+179) | JCVSYN2_00845/JCVSYN2_00850 | lipoprotein/inorganic diphosphatase |
| * | CP016816 | 202,486 | 0 | T | . | 58.9% | 461.9 / inf | 908 | intergenic (+264/‑411) | JCVSYN2_00840/JCVSYN2_00845 | hypothetical protein/lipoprotein |
| * | CP016816 | 202,494 | 0 | A | T | 55.7% | 118.2 / inf | 912 | intergenic (+272/‑403) | JCVSYN2_00840/JCVSYN2_00845 | hypothetical protein/lipoprotein |
| * | CP016816 | 105,339 | 0 | T | G | 55.3% | 2664.3 / inf | 2502 | intergenic (+834/+92) | JCVSYN2_00420/JCVSYN2_00430 | translation elongation factor Tu/alanine‑‑tRNA ligase |
| * | CP016816 | 420,253 | 0 | C | A | 43.8% | 3143.6 / inf | 3645 | intergenic (‑536/+307) | JCVSYN2_01895/JCVSYN2_01900 | 30S ribosomal protein S10/tRNA‑Thr |
| * | CP016816 | 202,477 | 0 | C | A | 43.7% | 999.4 / inf | 1209 | intergenic (+255/‑420) | JCVSYN2_00840/JCVSYN2_00845 | hypothetical protein/lipoprotein |
| * | CP016816 | 203,912 | 0 | G | T | 39.0% | 2479.0 / inf | 2019 | intergenic (+296/+162) | JCVSYN2_00845/JCVSYN2_00850 | lipoprotein/inorganic diphosphatase |
| * | CP016816 | 165,303 | 0 | C | A | 37.6% | 6293.4 / inf | 3965 | intergenic (+267/‑275) | JCVSYN2_00665/JCVSYN2_00670 | tRNA N6‑adenosine(37)‑N6‑threonylcarbamoyltransferase complex dimerization subunit TsaB/tRNA‑Ser |
| * | CP016816 | 202,481 | 0 | C | A | 37.2% | 969.0 / 178.8 | 995 | intergenic (+259/‑416) | JCVSYN2_00840/JCVSYN2_00845 | hypothetical protein/lipoprotein |
| * | CP016816 | 202,460 | 0 | C | A | 34.3% | 2099.2 / 239.8 | 1529 | intergenic (+238/‑437) | JCVSYN2_00840/JCVSYN2_00845 | hypothetical protein/lipoprotein |
| * | CP016816 | 203,937 | 0 | C | A | 33.9% | 3792.1 / inf | 2446 | intergenic (+321/+137) | JCVSYN2_00845/JCVSYN2_00850 | lipoprotein/inorganic diphosphatase |
| * | CP016816 | 165,311 | 0 | C | A | 33.8% | 7422.2 / inf | 4054 | intergenic (+275/‑267) | JCVSYN2_00665/JCVSYN2_00670 | tRNA N6‑adenosine(37)‑N6‑threonylcarbamoyltransferase complex dimerization subunit TsaB/tRNA‑Ser |
| * | CP016816 | 165,275 | 0 | G | T | 33.5% | 4916.9 / inf | 3714 | intergenic (+239/‑303) | JCVSYN2_00665/JCVSYN2_00670 | tRNA N6‑adenosine(37)‑N6‑threonylcarbamoyltransferase complex dimerization subunit TsaB/tRNA‑Ser |
| * | CP016816 | 203,952 | 0 | C | A | 33.0% | 4200.8 / inf | 2564 | intergenic (+336/+122) | JCVSYN2_00845/JCVSYN2_00850 | lipoprotein/inorganic diphosphatase |
| * | CP016816 | 203,924 | 0 | G | T | 32.6% | 3248.4 / inf | 2239 | intergenic (+308/+150) | JCVSYN2_00845/JCVSYN2_00850 | lipoprotein/inorganic diphosphatase |
| * | CP016816 | 420,271 | 0 | G | T | 31.9% | 5375.1 / inf | 3490 | intergenic (‑554/+289) | JCVSYN2_01895/JCVSYN2_01900 | 30S ribosomal protein S10/tRNA‑Thr |
| Marginal new junction evidence (lowest skew 10 of 163 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP016816 | 437881 = | 501 (0.100) | 1513 (0.390) | 192/204 | 3.9 | 76.8% | intergenic (‑185/+237) | JCVSYN2_01985/JCVSYN2_01990 | glycosyl transferase/ABC transporter permease |
| ? | CP016816 | = 437884 | 510 (0.130) | intergenic (‑188/+234) | JCVSYN2_01985/JCVSYN2_01990 | glycosyl transferase/ABC transporter permease | |||||
| * | ? | CP016816 | 311153 = | 2682 (0.550) | 547 (0.140) | 164/208 | 12.1 | 20.6% | intergenic (‑76/‑238) | JCVSYN2_01300/JCVSYN2_01305 | hypothetical protein/30S ribosomal protein S21 |
| ? | CP016816 | = 311148 | 2008 (0.500) | intergenic (‑71/‑243) | JCVSYN2_01300/JCVSYN2_01305 | hypothetical protein/30S ribosomal protein S21 | |||||
| * | ? | CP016816 | 76896 = | 3953 (0.820) | 538 (0.120) | 161/226 | 16.0 | 13.7% | intergenic (‑145/+40) | JCVSYN2_00300/JCVSYN2_00305 | UTP‑‑glucose‑1‑phosphate uridylyltransferase/hypothetical protein |
| ? | CP016816 | = 76892 | 3247 (0.750) | intergenic (‑141/+44) | JCVSYN2_00300/JCVSYN2_00305 | UTP‑‑glucose‑1‑phosphate uridylyltransferase/hypothetical protein | |||||
| * | ? | CP016816 | = 311170 | 1612 (0.330) | 1632 (0.340) | 171/252 | 17.8 | 51.5% | intergenic (‑93/‑221) | JCVSYN2_01300/JCVSYN2_01305 | hypothetical protein/30S ribosomal protein S21 |
| ? | CP016816 | 311174 = | 1461 (0.300) | intergenic (‑97/‑217) | JCVSYN2_01300/JCVSYN2_01305 | hypothetical protein/30S ribosomal protein S21 | |||||
| * | ? | CP016816 | = 203895 | 1188 (0.280) | 755 (0.160) +TTT |
127/214 | 21.5 | 36.5% | intergenic (+279/+179) | JCVSYN2_00845/JCVSYN2_00850 | lipoprotein/inorganic diphosphatase |
| ? | CP016816 | 203896 = | 1335 (0.280) | intergenic (+280/+178) | JCVSYN2_00845/JCVSYN2_00850 | lipoprotein/inorganic diphosphatase | |||||
| * | ? | CP016816 | = 76891 | 3639 (0.750) | 635 (0.130) | 151/252 | 21.6 | 14.5% | intergenic (‑140/+45) | JCVSYN2_00300/JCVSYN2_00305 | UTP‑‑glucose‑1‑phosphate uridylyltransferase/hypothetical protein |
| ? | CP016816 | 76895 = | 3843 (0.790) | intergenic (‑144/+41) | JCVSYN2_00300/JCVSYN2_00305 | UTP‑‑glucose‑1‑phosphate uridylyltransferase/hypothetical protein | |||||
| * | ? | CP016816 | 117946 = | 5493 (1.130) | 208 (0.050) | 115/212 | 23.9 | 4.4% | intergenic (+67/+792) | JCVSYN2_00460/JCVSYN2_00465 | ABC transporter substrate‑binding protein/spermidine/putrescine ABC transporter permease |
| ? | CP016816 | = 117942 | 4520 (1.110) | intergenic (+63/+796) | JCVSYN2_00460/JCVSYN2_00465 | ABC transporter substrate‑binding protein/spermidine/putrescine ABC transporter permease | |||||
| * | ? | CP016816 | = 202486 | 344 (0.070) | 800 (0.170) | 113/252 | 29.4 | 67.6% | intergenic (+264/‑411) | JCVSYN2_00840/JCVSYN2_00845 | hypothetical protein/lipoprotein |
| ? | CP016816 | 202490 = | 424 (0.090) | intergenic (+268/‑407) | JCVSYN2_00840/JCVSYN2_00845 | hypothetical protein/lipoprotein | |||||
| * | ? | CP016816 | = 165049 | 5657 (1.170) | 200 (0.050) | 85/222 | 32.6 | 3.9% | intergenic (+13/‑529) | JCVSYN2_00665/JCVSYN2_00670 | tRNA N6‑adenosine(37)‑N6‑threonylcarbamoyltransferase complex dimerization subunit TsaB/tRNA‑Ser |
| ? | CP016816 | = 165050 | 4841 (1.130) | intergenic (+14/‑528) | JCVSYN2_00665/JCVSYN2_00670 | tRNA N6‑adenosine(37)‑N6‑threonylcarbamoyltransferase complex dimerization subunit TsaB/tRNA‑Ser | |||||
| * | ? | CP016816 | = 143769 | 5846 (1.210) | 199 (0.050) | 85/226 | 33.1 | 3.6% | intergenic (+28/‑134) | JCVSYN2_00565/JCVSYN2_00570 | acetate kinase/phosphoenolpyruvate‑‑protein phosphotransferase |
| ? | CP016816 | = 143772 | 5390 (1.240) | intergenic (+31/‑131) | JCVSYN2_00565/JCVSYN2_00570 | acetate kinase/phosphoenolpyruvate‑‑protein phosphotransferase | |||||