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 | 5,684,230 | 3 | . | G | 100.0% | 10.3 / NA | 5 | intergenic (‑133/+71) | PP_4986/PP_4987 | hemolysin III family channel protein/putative Chemotaxis protein |
| * | NC_002947_CJ‑RC | 5,684,230 | 4 | . | G | 100.0% | 10.3 / NA | 5 | intergenic (‑133/+71) | PP_4986/PP_4987 | hemolysin III family channel protein/putative Chemotaxis protein |
| * | NC_002947_CJ‑RC | 278,742 | 1 | . | A | 74.1% | 63.2 / 21.1 | 27 | intergenic (‑237/+77) | PP_0224/sctC | DszC family monooxygenase/sulfur compound ABC transporter ATP‑binding protein |
| * | NC_002947_CJ‑RC | 699,722 | 0 | A | G | 61.6% | 49.4 / 85.8 | 86 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947_CJ‑RC | 195,634 | 0 | C | T | 61.5% | 25.6 / 92.0 | 86 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947_CJ‑RC | 6,083,796 | 0 | C | A | 52.4% | 17.1 / 27.2 | 23 | intergenic (+28/+34) | PP_5332/PP_5333 | hypothetical protein/hypothetical protein |
| * | NC_002947_CJ‑RC | 1,327,121 | 0 | C | T | 49.6% | 54.1 / 176.0 | 123 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947_CJ‑RC | 4,348,812 | 0 | A | G | 47.2% | 42.0 / 152.7 | 106 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947_CJ‑RC | 5,211,931 | 0 | A | G | 45.8% | 10.5 / 14.7 | 25 | intergenic (‑94/+84) | rnd/PP_4592 | ribonuclease D/metal dependent hydrolase |
| * | NC_002947_CJ‑RC | 195,559 | 0 | C | A | 38.0% | 63.1 / 52.2 | 51 | T355T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947_CJ‑RC | 5,773,949 | 0 | T | G | 34.7% | 82.6 / 14.3 | 51 | E610A (GAG→GCG) | betT‑I | choline transporter |
| * | NC_002947_CJ‑RC | 197,590 | 0 | T | C | 20.4% | 192.5 / 40.8 | 88 | D1032D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947_CJ‑RC | 3,631,226 | 0 | G | C | 20.0% | 170.5 / 10.1 | 65 | L40L (CTG→CTC) | PP_5590 | hypothetical protein |
| Marginal new junction evidence (lowest skew 10 of 31 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947_CJ‑RC | = 2472115 | 25 (0.420) | 9 (0.160) | 9/278 | 6.2 | 20.1% | intergenic (+19/+130) | PP_2166/PP_2167 | anti‑anti‑sigma factor/PhoD‑like phosphatase |
| ? | NC_002947_CJ‑RC | 2472313 = | 48 (0.850) | coding (1783/1851 nt) | PP_2167 | PhoD‑like phosphatase | |||||
| * | ? | NC_002947_CJ‑RC | = 652782 | 40 (0.670) | 8 (0.160) | 7/252 | 6.5 | 31.7% | 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 | = 1780066 | 11 (0.190) | 8 (0.140) | 8/278 | 6.6 | 33.0% | intergenic (+25/+81) | PP_1587/dapC | NhaP‑type Na+(K+)/H+ antiporter/N‑succinyl‑L,L‑diaminopimelate aminotransferase |
| ? | NC_002947_CJ‑RC | 1780129 = | 22 (0.390) | intergenic (+88/+18) | PP_1587/dapC | NhaP‑type Na+(K+)/H+ antiporter/N‑succinyl‑L,L‑diaminopimelate aminotransferase | |||||
| * | ? | NC_002947_CJ‑RC | = 2957080 | 36 (0.610) | 8 (0.140) | 7/282 | 7.2 | 16.9% | intergenic (+35/‑161) | PP_2588/PP_2589 | class III aminotransferase/aldehyde dehydrogenase family protein |
| ? | NC_002947_CJ‑RC | 2957165 = | 44 (0.770) | intergenic (+120/‑76) | PP_2588/PP_2589 | class III aminotransferase/aldehyde dehydrogenase family protein | |||||
| * | ? | NC_002947_CJ‑RC | = 5558423 | 3 (0.050) | 8 (0.140) +GCC |
7/286 | 7.3 | 73.1% | intergenic (‑84/+87) | PP_4887/PP_4888 | hypothetical protein/methyl‑accepting chemotaxis transducer |
| ? | NC_002947_CJ‑RC | 5558424 = | 3 (0.050) | intergenic (‑85/+86) | PP_4887/PP_4888 | hypothetical protein/methyl‑accepting chemotaxis transducer | |||||
| * | ? | NC_002947_CJ‑RC | = 2958779 | 24 (0.400) | 6 (0.110) | 6/280 | 7.7 | 24.0% | intergenic (+45/+97) | PP_2589/PP_2590 | aldehyde dehydrogenase family protein/ferric siderophore receptor |
| ? | NC_002947_CJ‑RC | 2958841 = | 15 (0.260) | intergenic (+107/+35) | PP_2589/PP_2590 | aldehyde dehydrogenase family protein/ferric siderophore receptor | |||||
| * | ? | NC_002947_CJ‑RC | = 5684230 | 0 (0.000) | 6 (0.100) +CGGG |
6/284 | 7.8 | 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 | = 4809882 | 2 (0.030) | 6 (0.110) | 5/268 | 7.9 | 28.7% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947_CJ‑RC | 5991580 = | 28 (0.510) | intergenic (+59/‑487) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947_CJ‑RC | 4593943 = | 42 (0.710) | 4 (0.080) | 4/244 | 7.9 | 13.1% | intergenic (+142/+157) | mccA/PP_4068 | methylcrotonyl‑CoA carboxylase biotin‑containing subunit alpha/Cro/CI family transcriptional regulator |
| ? | NC_002947_CJ‑RC | 4594036 = | 18 (0.360) | intergenic (+235/+64) | mccA/PP_4068 | methylcrotonyl‑CoA carboxylase biotin‑containing subunit alpha/Cro/CI family transcriptional regulator | |||||
| * | ? | NC_002947_CJ‑RC | 1622485 = | 48 (0.810) | 4 (0.080) | 4/256 | 8.2 | 10.1% | intergenic (+7/+59) | PP_1421/PP_1422 | sensor histidine kinase TctE/hypothetical protein |
| ? | NC_002947_CJ‑RC | 1622535 = | 29 (0.560) | intergenic (+57/+9) | PP_1421/PP_1422 | sensor histidine kinase TctE/hypothetical protein | |||||