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 73 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 | . | 74.1% | 224.8 / 284.1 | 218 | intergenic (+263/‑412) | JCVSYN2_00840/JCVSYN2_00845 | hypothetical protein/lipoprotein |
| * | CP016816 | 311,150 | 0 | A | . | 65.8% | 534.5 / inf | 477 | intergenic (‑73/‑241) | JCVSYN2_01300/JCVSYN2_01305 | hypothetical protein/30S ribosomal protein S21 |
| * | CP016816 | 311,149 | 0 | T | . | 65.1% | 509.3 / inf | 473 | intergenic (‑72/‑242) | JCVSYN2_01300/JCVSYN2_01305 | hypothetical protein/30S ribosomal protein S21 |
| * | CP016816 | 87,902 | 1 | . | T | 58.6% | inf / inf | 732 | intergenic (+29/‑831) | JCVSYN2_00345/JCVSYN2_00350 | hypothetical protein/50S ribosomal protein L31 |
| * | CP016816 | 105,339 | 0 | T | G | 57.5% | 696.8 / 184.8 | 656 | intergenic (+834/+92) | JCVSYN2_00420/JCVSYN2_00430 | translation elongation factor Tu/alanine‑‑tRNA ligase |
| * | CP016816 | 165,250 | 0 | T | . | 56.5% | 73.1 / inf | 885 | intergenic (+214/‑328) | JCVSYN2_00665/JCVSYN2_00670 | tRNA N6‑adenosine(37)‑N6‑threonylcarbamoyltransferase complex dimerization subunit TsaB/tRNA‑Ser |
| * | CP016816 | 202,494 | 0 | A | T | 54.1% | ‑4.5 / 173.3 | 218 | intergenic (+272/‑403) | JCVSYN2_00840/JCVSYN2_00845 | hypothetical protein/lipoprotein |
| * | CP016816 | 202,486 | 0 | T | . | 52.9% | 118.2 / inf | 217 | intergenic (+264/‑411) | JCVSYN2_00840/JCVSYN2_00845 | hypothetical protein/lipoprotein |
| * | CP016816 | 203,895 | 1 | . | T | 50.2% | inf / inf | 415 | intergenic (+279/+179) | JCVSYN2_00845/JCVSYN2_00850 | lipoprotein/inorganic diphosphatase |
| * | CP016816 | 202,477 | 0 | C | A | 43.3% | 250.2 / 106.4 | 286 | intergenic (+255/‑420) | JCVSYN2_00840/JCVSYN2_00845 | hypothetical protein/lipoprotein |
| * | CP016816 | 420,253 | 0 | C | A | 38.6% | 906.6 / 293.6 | 915 | intergenic (‑536/+307) | JCVSYN2_01895/JCVSYN2_01900 | 30S ribosomal protein S10/tRNA‑Thr |
| * | CP016816 | 202,481 | 0 | C | A | 37.3% | 222.9 / 37.7 | 247 | intergenic (+259/‑416) | JCVSYN2_00840/JCVSYN2_00845 | hypothetical protein/lipoprotein |
| * | CP016816 | 203,912 | 0 | G | T | 36.5% | 692.1 / 123.7 | 500 | intergenic (+296/+162) | JCVSYN2_00845/JCVSYN2_00850 | lipoprotein/inorganic diphosphatase |
| * | CP016816 | 165,303 | 0 | C | A | 33.7% | 1831.5 / 164.6 | 1086 | intergenic (+267/‑275) | JCVSYN2_00665/JCVSYN2_00670 | tRNA N6‑adenosine(37)‑N6‑threonylcarbamoyltransferase complex dimerization subunit TsaB/tRNA‑Ser |
| * | CP016816 | 76,878 | 0 | G | T | 32.9% | 1935.1 / 171.2 | 1092 | intergenic (‑127/+58) | JCVSYN2_00300/JCVSYN2_00305 | UTP‑‑glucose‑1‑phosphate uridylyltransferase/hypothetical protein |
| * | CP016816 | 203,952 | 0 | C | A | 32.3% | 991.3 / 88.5 | 603 | intergenic (+336/+122) | JCVSYN2_00845/JCVSYN2_00850 | lipoprotein/inorganic diphosphatase |
| * | CP016816 | 202,460 | 0 | C | A | 31.9% | 484.1 / 45.3 | 355 | intergenic (+238/‑437) | JCVSYN2_00840/JCVSYN2_00845 | hypothetical protein/lipoprotein |
| * | CP016816 | 165,311 | 0 | C | A | 31.6% | 2041.2 / 138.2 | 1090 | intergenic (+275/‑267) | JCVSYN2_00665/JCVSYN2_00670 | tRNA N6‑adenosine(37)‑N6‑threonylcarbamoyltransferase complex dimerization subunit TsaB/tRNA‑Ser |
| * | CP016816 | 203,946 | 0 | C | A | 31.0% | 1040.3 / 75.3 | 597 | intergenic (+330/+128) | JCVSYN2_00845/JCVSYN2_00850 | lipoprotein/inorganic diphosphatase |
| * | CP016816 | 203,937 | 0 | C | A | 30.7% | 943.8 / 75.6 | 583 | intergenic (+321/+137) | JCVSYN2_00845/JCVSYN2_00850 | lipoprotein/inorganic diphosphatase |
| Marginal new junction evidence (lowest skew 10 of 109 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP016816 | = 437880 | 303 (0.340) | 255 (0.230) +ATAT |
70/188 | 11.0 | 38.4% | intergenic (‑184/+238) | JCVSYN2_01985/JCVSYN2_01990 | glycosyl transferase/ABC transporter permease |
| ? | CP016816 | 437881 = | 455 (0.400) | intergenic (‑185/+237) | JCVSYN2_01985/JCVSYN2_01990 | glycosyl transferase/ABC transporter permease | |||||
| * | ? | CP016816 | 311153 = | 583 (0.510) | 130 (0.140) | 75/208 | 11.5 | 22.4% | intergenic (‑76/‑238) | JCVSYN2_01300/JCVSYN2_01305 | hypothetical protein/30S ribosomal protein S21 |
| ? | CP016816 | = 311148 | 421 (0.450) | intergenic (‑71/‑243) | JCVSYN2_01300/JCVSYN2_01305 | hypothetical protein/30S ribosomal protein S21 | |||||
| * | ? | CP016816 | = 203895 | 290 (0.290) | 189 (0.170) +TTT |
67/214 | 13.2 | 36.7% | intergenic (+279/+179) | JCVSYN2_00845/JCVSYN2_00850 | lipoprotein/inorganic diphosphatase |
| ? | CP016816 | 203896 = | 335 (0.290) | intergenic (+280/+178) | JCVSYN2_00845/JCVSYN2_00850 | lipoprotein/inorganic diphosphatase | |||||
| * | ? | CP016816 | 165253 = | 971 (0.850) | 166 (0.170) | 67/220 | 13.6 | 16.9% | intergenic (+217/‑325) | JCVSYN2_00665/JCVSYN2_00670 | tRNA N6‑adenosine(37)‑N6‑threonylcarbamoyltransferase complex dimerization subunit TsaB/tRNA‑Ser |
| ? | CP016816 | = 165249 | 783 (0.790) | intergenic (+213/‑329) | JCVSYN2_00665/JCVSYN2_00670 | tRNA N6‑adenosine(37)‑N6‑threonylcarbamoyltransferase complex dimerization subunit TsaB/tRNA‑Ser | |||||
| * | ? | CP016816 | = 87902 | 592 (0.590) | 228 (0.210) +TTT |
64/216 | 13.9 | 25.7% | intergenic (+29/‑831) | JCVSYN2_00345/JCVSYN2_00350 | hypothetical protein/50S ribosomal protein L31 |
| ? | CP016816 | 87903 = | 678 (0.600) | intergenic (+30/‑830) | JCVSYN2_00345/JCVSYN2_00350 | hypothetical protein/50S ribosomal protein L31 | |||||
| * | ? | CP016816 | = 202486 | 70 (0.060) | 215 (0.190) | 72/252 | 14.6 | 72.6% | intergenic (+264/‑411) | JCVSYN2_00840/JCVSYN2_00845 | hypothetical protein/lipoprotein |
| ? | CP016816 | 202490 = | 92 (0.080) | intergenic (+268/‑407) | JCVSYN2_00840/JCVSYN2_00845 | hypothetical protein/lipoprotein | |||||
| * | ? | CP016816 | 117946 = | 1272 (1.120) | 37 (0.040) | 35/212 | 20.0 | 3.4% | intergenic (+67/+792) | JCVSYN2_00460/JCVSYN2_00465 | ABC transporter substrate‑binding protein/spermidine/putrescine ABC transporter permease |
| ? | CP016816 | = 117942 | 1027 (1.080) | intergenic (+63/+796) | JCVSYN2_00460/JCVSYN2_00465 | ABC transporter substrate‑binding protein/spermidine/putrescine ABC transporter permease | |||||
| * | ? | CP016816 | 76896 = | 1133 (1.000) | 50 (0.050) | 35/226 | 20.8 | 4.8% | intergenic (‑145/+40) | JCVSYN2_00300/JCVSYN2_00305 | UTP‑‑glucose‑1‑phosphate uridylyltransferase/hypothetical protein |
| ? | CP016816 | = 76892 | 959 (0.940) | intergenic (‑141/+44) | JCVSYN2_00300/JCVSYN2_00305 | UTP‑‑glucose‑1‑phosphate uridylyltransferase/hypothetical protein | |||||
| * | ? | CP016816 | = 165247 | 971 (0.850) | 134 (0.120) | 39/252 | 21.1 | 12.0% | intergenic (+211/‑331) | JCVSYN2_00665/JCVSYN2_00670 | tRNA N6‑adenosine(37)‑N6‑threonylcarbamoyltransferase complex dimerization subunit TsaB/tRNA‑Ser |
| ? | CP016816 | 165251 = | 987 (0.870) | intergenic (+215/‑327) | JCVSYN2_00665/JCVSYN2_00670 | tRNA N6‑adenosine(37)‑N6‑threonylcarbamoyltransferase complex dimerization subunit TsaB/tRNA‑Ser | |||||
| * | ? | CP016816 | 437885 = | 695 (0.610) | 49 (0.050) | 28/204 | 21.6 | 8.4% | intergenic (‑189/+233) | JCVSYN2_01985/JCVSYN2_01990 | glycosyl transferase/ABC transporter permease |
| ? | CP016816 | = 437880 | 510 (0.560) | intergenic (‑184/+238) | JCVSYN2_01985/JCVSYN2_01990 | glycosyl transferase/ABC transporter permease | |||||