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 | 2 | . | A | 61.5% | 40.9 / 32.6 | 26 | 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 | 1 | . | G | 59.1% | 31.9 / 27.7 | 26 | intergenic (+46/+96) | aroP‑I/PP_0928 | aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein |
| * | NC_002947_CJ‑RC | 4,158,466 | 0 | T | G | 57.8% | 1.3 / 22.0 | 50 | L159R (CTG→CGG) | PP_3661 | membrane protein |
| * | NC_002947_CJ‑RC | 699,722 | 0 | A | G | 56.7% | 14.3 / 78.8 | 68 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947_CJ‑RC | 1,327,121 | 0 | C | T | 46.2% | 67.1 / 138.8 | 107 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947_CJ‑RC | 4,158,471 | 0 | A | C | 44.7% | 9.3 / 19.6 | 49 | S161R (AGC→CGC) | PP_3661 | membrane protein |
| * | NC_002947_CJ‑RC | 5,512,711 | 0 | A | C | 44.2% | 24.5 / 14.3 | 46 | Q32P (CAG→CCG) | urtB | urea ABC transporter permease |
| * | NC_002947_CJ‑RC | 4,348,812 | 0 | A | G | 42.9% | 90.2 / 159.5 | 126 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947_CJ‑RC | 5,196,590 | 0 | T | G | 38.2% | 30.4 / 15.8 | 35 | intergenic (+29/+24) | PP_4574/PP_4575 | hypothetical protein/urea amidolyase‑like protein |
| * | NC_002947_CJ‑RC | 6,135,378 | 0 | A | T | 33.3% | 55.4 / 13.5 | 60 | H430Q (CAT→CAA) | copA‑II | copper resistance protein A |
| * | NC_002947_CJ‑RC | 5,773,949 | 0 | T | G | 29.6% | 123.1 / 13.9 | 71 | E610A (GAG→GCG) | betT‑I | choline transporter |
| * | NC_002947_CJ‑RC | 3,631,227 | 0 | A | C | 26.2% | 112.1 / 13.0 | 65 | T41P (ACC→CCC) | PP_5590 | hypothetical protein |
| * | NC_002947_CJ‑RC | 3,941,253 | 0 | T | A | 25.6% | 162.7 / 10.9 | 89 | E102V (GAG→GTG) | PP_3476 | type II secretion system protein G |
| * | NC_002947_CJ‑RC | 6,135,416 | 0 | T | C | 24.5% | 71.6 / 14.7 | 64 | T418A (ACC→GCC) | copA‑II | copper resistance protein A |
| * | NC_002947_CJ‑RC | 2,821,395 | 0 | G | . | 21.7% | 60.9 / 12.7 | 23 | intergenic (‑64/‑327) | PP_2474/PP_2475 | glutathione S‑transferase family protein/TetR family transcriptional regulator |
| Marginal new junction evidence (lowest skew 10 of 42 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947_CJ‑RC | = 2957080 | 53 (0.660) | 23 (0.290) | 21/280 | 4.0 | 31.0% | intergenic (+35/‑161) | PP_2588/PP_2589 | class III aminotransferase/aldehyde dehydrogenase family protein |
| ? | NC_002947_CJ‑RC | 2957165 = | 51 (0.650) | intergenic (+120/‑76) | PP_2588/PP_2589 | class III aminotransferase/aldehyde dehydrogenase family protein | |||||
| * | ? | NC_002947_CJ‑RC | 4809877 = | 7 (0.090) | 13 (0.210) | 10/220 | 5.6 | 46.2% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947_CJ‑RC | = 5991750 | 25 (0.410) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947_CJ‑RC | = 5558423 | 0 (0.000) | 17 (0.210) +GCC |
14/284 | 5.8 | 100% | intergenic (‑84/+87) | PP_4887/PP_4888 | hypothetical protein/methyl‑accepting chemotaxis transducer |
| ? | NC_002947_CJ‑RC | 5558424 = | 0 (0.000) | intergenic (‑85/+86) | PP_4887/PP_4888 | hypothetical protein/methyl‑accepting chemotaxis transducer | |||||
| * | ? | NC_002947_CJ‑RC | = 5684230 | 1 (0.010) | 11 (0.140) +CGGG |
10/282 | 7.1 | 91.9% | intergenic (‑133/+71) | PP_4986/PP_4987 | hemolysin III family channel protein/putative Chemotaxis protein |
| ? | NC_002947_CJ‑RC | 5684231 = | 1 (0.010) | intergenic (‑134/+70) | PP_4986/PP_4987 | hemolysin III family channel protein/putative Chemotaxis protein | |||||
| * | ? | NC_002947_CJ‑RC | = 4809882 | 3 (0.040) | 16 (0.220) | 9/266 | 7.2 | 36.5% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947_CJ‑RC | 5991580 = | 53 (0.710) | intergenic (+59/‑487) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947_CJ‑RC | = 5991572 | 55 (0.680) | 10 (0.130) | 9/274 | 7.3 | 18.5% | intergenic (+51/‑495) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| ? | NC_002947_CJ‑RC | 5991794 = | 36 (0.470) | intergenic (+273/‑273) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947_CJ‑RC | = 1780066 | 16 (0.200) | 9 (0.120) | 8/276 | 7.8 | 35.1% | intergenic (+25/+81) | PP_1587/dapC | NhaP‑type Na+(K+)/H+ antiporter/N‑succinyl‑L,L‑diaminopimelate aminotransferase |
| ? | NC_002947_CJ‑RC | 1780129 = | 18 (0.230) | intergenic (+88/+18) | PP_1587/dapC | NhaP‑type Na+(K+)/H+ antiporter/N‑succinyl‑L,L‑diaminopimelate aminotransferase | |||||
| * | ? | NC_002947_CJ‑RC | 4895256 = | 32 (0.400) | 5 (0.080) | 5/236 | 8.3 | 18.2% | intergenic (+28/‑180) | pyk/PP_4302 | pyruvate kinase/urea transporter |
| ? | NC_002947_CJ‑RC | 4895335 = | 19 (0.290) | intergenic (+107/‑101) | pyk/PP_4302 | pyruvate kinase/urea transporter | |||||
| * | ? | NC_002947_CJ‑RC | = 4647702 | 32 (0.400) | 4 (0.070) | 4/212 | 8.3 | 14.4% | intergenic (+48/+83) | fusB/PP_4112 | elongation factor G 2/sulfate transporter |
| ? | NC_002947_CJ‑RC | = 4647732 | 24 (0.410) | intergenic (+78/+53) | fusB/PP_4112 | elongation factor G 2/sulfate transporter | |||||
| * | ? | NC_002947_CJ‑RC | = 2472115 | 27 (0.330) | 6 (0.080) | 6/276 | 8.8 | 14.9% | intergenic (+19/+130) | PP_2166/PP_2167 | anti‑anti‑sigma factor/PhoD‑like phosphatase |
| ? | NC_002947_CJ‑RC | 2472313 = | 43 (0.560) | coding (1783/1851 nt) | PP_2167 | PhoD‑like phosphatase | |||||