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 (highest frequency 20 of 37 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947_CJ‑RC | 1,070,246 | 1 | . | G | 68.8% | 48.8 / 32.0 | 35 | 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 | 2 | . | A | 68.6% | 58.9 / 36.3 | 35 | intergenic (+46/+96) | aroP‑I/PP_0928 | aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein |
| * | NC_002947_CJ‑RC | 1,464,191 | 0 | T | A | 55.6% | 4.3 / 13.4 | 21 | Q476L (CAG→CTG) | algX | alginate biosynthesis protein AlgX |
| * | NC_002947_CJ‑RC | 1,327,121 | 0 | C | T | 47.6% | 110.3 / 254.8 | 185 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947_CJ‑RC | 4,348,812 | 0 | A | G | 46.2% | 53.6 / 145.4 | 104 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947_CJ‑RC | 699,722 | 0 | A | G | 42.7% | 76.9 / 177.5 | 143 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947_CJ‑RC | 4,344,426 | 0 | A | G | 41.7% | 2.7 / 10.0 | 14 | intergenic (+50/‑106) | PP_3817/PP_3818 | polyamine ABC transporter ATP‑binding protein/phosphate‑binding protein |
| * | NC_002947_CJ‑RC | 4,344,417 | 0 | C | G | 38.5% | 14.7 / 10.5 | 13 | intergenic (+41/‑115) | PP_3817/PP_3818 | polyamine ABC transporter ATP‑binding protein/phosphate‑binding protein |
| * | NC_002947_CJ‑RC | 4,344,420 | 0 | C | G | 38.5% | 10.2 / 12.9 | 13 | intergenic (+44/‑112) | PP_3817/PP_3818 | polyamine ABC transporter ATP‑binding protein/phosphate‑binding protein |
| * | NC_002947_CJ‑RC | 5,512,711 | 0 | A | C | 37.5% | 32.8 / 11.9 | 53 | Q32P (CAG→CCG) | urtB | urea ABC transporter permease |
| * | NC_002947_CJ‑RC | 5,442,133 | 0 | T | G | 36.8% | 43.5 / 10.7 | 39 | Q13P (CAG→CCG) | rluE | 23S rRNA pseudouridine(2457) synthase |
| * | NC_002947_CJ‑RC | 4,344,409 | 0 | A | T | 35.7% | 7.3 / 10.5 | 14 | intergenic (+33/‑123) | PP_3817/PP_3818 | polyamine ABC transporter ATP‑binding protein/phosphate‑binding protein |
| * | NC_002947_CJ‑RC | 1,013,241 | 0 | G | C | 33.3% | 57.5 / 38.8 | 36 | intergenic (+69/+62) | prfC/potF‑I | peptide chain release factor 3/putrescine‑binding protein |
| * | NC_002947_CJ‑RC | 1,013,242 | 0 | G | C | 33.3% | 53.9 / 38.6 | 36 | intergenic (+70/+61) | prfC/potF‑I | peptide chain release factor 3/putrescine‑binding protein |
| * | NC_002947_CJ‑RC | 4,140,143 | 0 | G | C | 33.3% | 74.5 / 11.3 | 39 | intergenic (+35/‑230) | PP_3644/PP_5609 | monooxygenase subunit/hypothetical protein |
| * | NC_002947_CJ‑RC | 5,773,949 | 0 | T | G | 32.7% | 85.7 / 10.4 | 52 | E610A (GAG→GCG) | betT‑I | choline transporter |
| * | NC_002947_CJ‑RC | 1,013,234 | 0 | C | A | 30.3% | 65.4 / 28.1 | 33 | intergenic (+62/+69) | prfC/potF‑I | peptide chain release factor 3/putrescine‑binding protein |
| * | NC_002947_CJ‑RC | 1,013,235 | 0 | A | T | 30.3% | 49.6 / 22.5 | 33 | intergenic (+63/+68) | prfC/potF‑I | peptide chain release factor 3/putrescine‑binding protein |
| * | NC_002947_CJ‑RC | 5,275,725 | 0 | G | C | 28.2% | 73.9 / 11.9 | 39 | intergenic (+44/+62) | rlmG/PP_4649 | ribosomal RNA large subunit methyltransferase G/hypothetical protein |
| * | NC_002947_CJ‑RC | 1,130,199 | 0 | G | T | 28.1% | 118.2 / 13.1 | 59 | intergenic (‑254/+50) | gcvH‑I/PP_0990 | glycine cleavage system protein H/DoxX family protein |
| Marginal new junction evidence (lowest skew 10 of 49 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947_CJ‑RC | = 4809882 | 0 (0.000) | 18 (0.260) | 15/266 | 3.7 | 37.9% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947_CJ‑RC | 5991580 = | 59 (0.850) | intergenic (+59/‑487) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947_CJ‑RC | = 2957080 | 32 (0.420) | 16 (0.220) | 15/280 | 3.9 | 29.4% | intergenic (+35/‑161) | PP_2588/PP_2589 | class III aminotransferase/aldehyde dehydrogenase family protein |
| ? | NC_002947_CJ‑RC | 2957165 = | 46 (0.630) | intergenic (+120/‑76) | PP_2588/PP_2589 | class III aminotransferase/aldehyde dehydrogenase family protein | |||||
| * | ? | NC_002947_CJ‑RC | = 5684230 | 2 (0.030) | 15 (0.200) +CGGG |
12/282 | 4.6 | 88.5% | intergenic (‑133/+71) | PP_4986/PP_4987 | hemolysin III family channel protein/putative Chemotaxis protein |
| ? | NC_002947_CJ‑RC | 5684231 = | 2 (0.030) | intergenic (‑134/+70) | PP_4986/PP_4987 | hemolysin III family channel protein/putative Chemotaxis protein | |||||
| * | ? | NC_002947_CJ‑RC | 550100 = | NA (NA) | 7 (0.100) | 7/264 | 5.8 | 11.9% | coding (775/1194 nt) | tufB | elongation factor Tu‑B |
| ? | NC_002947_CJ‑RC | = 550096 | 57 (0.750) | coding (771/1194 nt) | tufB | elongation factor Tu‑B | |||||
| * | ? | NC_002947_CJ‑RC | = 2472140 | 28 (0.370) | 4 (0.070) | 4/212 | 6.2 | 16.9% | intergenic (+44/+105) | PP_2166/PP_2167 | anti‑anti‑sigma factor/PhoD‑like phosphatase |
| ? | NC_002947_CJ‑RC | = 2472186 | 19 (0.340) | intergenic (+90/+59) | PP_2166/PP_2167 | anti‑anti‑sigma factor/PhoD‑like phosphatase | |||||
| * | ? | NC_002947_CJ‑RC | = 5991572 | 64 (0.840) | 6 (0.080) | 6/274 | 6.4 | 9.0% | intergenic (+51/‑495) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| ? | NC_002947_CJ‑RC | 5991794 = | 61 (0.850) | intergenic (+273/‑273) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947_CJ‑RC | = 2282748 | 20 (0.260) | 6 (0.080) | 6/278 | 6.4 | 22.1% | intergenic (‑140/+89) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| ? | NC_002947_CJ‑RC | 2282815 = | 23 (0.320) | intergenic (‑207/+22) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein | |||||
| * | ? | NC_002947_CJ‑RC | = 5563561 | 98 (1.290) | 6 (0.090) | 5/264 | 6.7 | 6.5% | intergenic (‑250/+52) | hisZ/hflC | ATP phosphoribosyltransferase regulatory subunit/integral membrane ATP‑dependent zinc metallopeptidase |
| ? | NC_002947_CJ‑RC | = 5563572 | 84 (1.210) | intergenic (‑261/+41) | hisZ/hflC | ATP phosphoribosyltransferase regulatory subunit/integral membrane ATP‑dependent zinc metallopeptidase | |||||
| * | ? | NC_002947_CJ‑RC | = 867932 | 24 (0.320) | 5 (0.070) | 5/264 | 6.7 | 17.6% | intergenic (+30/+147) | PP_0750/mqo‑I | hypothetical protein/malate:quinone oxidoreductase |
| ? | NC_002947_CJ‑RC | = 867996 | 25 (0.360) | intergenic (+94/+83) | PP_0750/mqo‑I | hypothetical protein/malate:quinone oxidoreductase | |||||
| * | ? | NC_002947_CJ‑RC | 4079414 = | 46 (0.610) | 4 (0.060) | 4/242 | 6.8 | 11.9% | intergenic (‑218/+166) | sdaC/amaC | serine:H+ symport permease/D‑lysine aminotransferase |
| ? | NC_002947_CJ‑RC | 4079531 = | 21 (0.330) | intergenic (‑335/+49) | sdaC/amaC | serine:H+ symport permease/D‑lysine aminotransferase | |||||