mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.7 revision b7a44cd89118
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 108 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_007779 | 3,018,219 | 0 | T | G | 65.0% | ‑1.7 / 34.7 | 40 | S135A (TCG→GCG) | ssnA | chlorohydrolase/aminohydrolase |
| * | NC_007779 | 2,604,001 | 0 | T | G | 56.4% | 31.9 / 50.5 | 39 | L179V (TTG→GTG) | hyfD | hydrogenase 4, membrane subunit |
| * | NC_007779 | 3,421,203 | 0 | T | C | 53.5% | 23.3 / 65.3 | 43 | H8H (CAT→CAC) | yhdY | amino‑acid transporter subunit |
| * | NC_007779 | 1,417,524 | 0 | T | C | 51.9% | 34.3 / 79.3 | 52 | D526G (GAT→GGT) | recE | exonuclease VIII, 5' ‑> 3' specific dsDNA exonuclease |
| * | NC_007779 | 3,284,776 | 0 | T | G | 50.0% | 40.4 / 14.8 | 36 | G79G (GGT→GGG) | agaC | PTS system N‑acetylgalactosamine‑specific transporter subunit IIC |
| * | NC_007779 | 4,615,146 | 0 | T | G | 47.8% | 43.3 / 26.5 | 47 | G351G (GGT→GGG) | prfC | peptide chain release factor RF‑3 |
| * | NC_007779 | 2,648,595 | 0 | A | C | 47.2% | 39.3 / 19.8 | 37 | G783G (GGT→GGG) | yfhM | hypothetical protein |
| * | NC_007779 | 884,768 | 0 | C | G | 46.9% | 31.5 / 22.5 | 32 | A225G (GCG→GGG) | cmr | multidrug efflux system protein |
| * | NC_007779 | 3,300,073 | 0 | T | G | 46.2% | 40.8 / 18.5 | 40 | F85V (TTT→GTT) | yhbQ | endonuclease |
| * | NC_007779 | 357,146 | 0 | C | G | 43.3% | 38.4 / 13.2 | 30 | A257P (GCC→CCC) | cynR | DNA‑binding transcriptional dual regulator |
| * | NC_007779 | 1,253,404 | 0 | A | C | 43.2% | 69.7 / 12.2 | 44 | L254F (TTA→TTC) | dhaR | DNA‑binding transcriptional regulator |
| * | NC_007779 | 4,062,114 | 0 | T | G | 42.9% | 84.8 / 29.1 | 63 | G142G (GGT→GGG) | gntR | DNA‑binding transcriptional repressor |
| * | NC_007779 | 1,512,930 | 0 | T | C | 42.5% | 43.9 / 12.3 | 40 | L405P (CTC→CCC) | ydcR | fused DNA‑binding transcriptional regulator and amino transferase |
| * | NC_007779 | 1,164,944 | 0 | T | G | 42.4% | 43.2 / 11.7 | 34 | S36R (AGT→AGG) | ycfN | thiamin kinase |
| * | NC_007779 | 298,184 | 0 | A | C | 42.3% | 72.7 / 19.6 | 53 | Y659D (TAT→GAT) | yagR | oxidoreductase with molybdenum‑binding domain |
| * | NC_007779 | 598,799 | 0 | T | G | 42.3% | 21.3 / 12.9 | 26 | V288G (GTG→GGG) | cusA | copper/silver efflux system, membrane component |
| * | NC_007779 | 2,225,700 | 0 | T | G | 42.2% | 64.1 / 16.7 | 45 | V61G (GTG→GGG) | dld | D‑lactate dehydrogenase, FAD‑binding, NADH independent |
| * | NC_007779 | 2,692,951 | 0 | T | C | 41.9% | 54.0 / 24.5 | 43 | I417V (ATC→GTC) | purL | phosphoribosylformyl‑glycineamide synthetase |
| * | NC_007779 | 4,639,658 | 0 | G | A | 41.9% | 66.8 / 16.5 | 43 | A111A (GCC→GCT) | rob | DNA‑binding transcriptional activator |
| * | NC_007779 | 556,653 | 0 | A | C | 40.8% | 111.3 / 30.9 | 71 | G104G (GGT→GGG) | folD | bifunctional 5,10‑methylene‑tetrahydrofolate dehydrogenase/5,10‑methylene‑tetrahydrofolate cyclohydrolase |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | GFP_Plasmid_Sequ | 979 = | 34493 (0.820) | 10 (0.000) +32 bp |
7/136 | 2.2 | 0.085% | intergenic (–/–) | –/– | –/– |
| ? | NC_007779 | = 3464932 | 14 (0.300) | noncoding (113/120 nt) | rrfB | 5S ribosomal RNA | |||||
| * | ? | NC_007779 | = 1209382 | 50 (1.080) | 7 (0.180) | 6/168 | 3.0 | 16.9% | coding (305/630 nt) | ycfK | hypothetical protein |
| ? | NC_007779 | = 1211179 | 27 (0.690) | intergenic (‑483/‑83) | tfaE/pin | tail fiber assembly protein/site‑specific DNA recombinase | |||||
| * | ? | GFP_Plasmid_Sequ | 3001 = | 33048 (0.790) | 15 (0.000) +AGTGTGACTCTAGTA |
6/170 | 3.0 | 0.11% | intergenic (–/–) | –/– | –/– |
| ? | NC_007779 | 3464853 = | 17 (0.370) | intergenic (‑229/+72) | murB/rrfB | UDP‑N‑acetylenolpyruvoylglucosamine reductase, FAD‑binding/5S ribosomal RNA | |||||
| * | ? | GFP_Plasmid_Sequ | 1 = | 0 (0.000) | 9 (0.000) +CCAGGCATCAA |
3/178 | 4.1 | 60.9% | intergenic (–/–) | –/– | –/– |
| ? | NC_007779 | 3595998 = | 13 (0.280) | intergenic (+223/+47) | mobB/rrfA | molybdopterin‑guanine dinucleotide biosynthesis protein B/5S ribosomal RNA | |||||
| * | ? | GFP_Plasmid_Sequ | 1 = | 0 (0.000) | 7 (0.000) | 3/198 | 4.4 | 34.2% | intergenic (–/–) | –/– | –/– |
| ? | NC_007779 | = 3596052 | 27 (0.590) | noncoding (113/120 nt) | rrfA | 5S ribosomal RNA | |||||
| * | ? | GFP_Plasmid_Sequ | 2831 = | 40317 (0.960) | 9 (0.000) | 5/174 | 101.4 | 0.026% | intergenic (–/–) | –/– | –/– |
| ? | GFP_Plasmid_Sequ | = 2819 | 34856 (0.960) | intergenic (–/–) | –/– | –/– | |||||
| * | ? | GFP_Plasmid_Sequ | 1 = | 0 (0.000) | 11 (0.000) +CCAGGCATCAA |
5/178 | 103.1 | 100% | intergenic (–/–) | –/– | –/– |
| ? | GFP_Plasmid_Sequ | 3061 = | NA (NA) | intergenic (–/–) | –/– | –/– | |||||
| * | ? | GFP_Plasmid_Sequ | 2820 = | 40418 (0.960) | 5 (0.000) | 4/174 | 103.2 | 0.014% | intergenic (–/–) | –/– | –/– |
| ? | GFP_Plasmid_Sequ | = 2830 | 35364 (0.970) | intergenic (–/–) | –/– | –/– | |||||
| * | ? | GFP_Plasmid_Sequ | 3001 = | 33048 (0.790) | 11 (0.000) | 6/194 | 108.1 | 0.035% | intergenic (–/–) | –/– | –/– |
| ? | GFP_Plasmid_Sequ | 3021 = | 31037 (0.760) | intergenic (–/–) | –/– | –/– | |||||
| * | ? | GFP_Plasmid_Sequ | 1622 = | 66540 (1.590) | 22 (0.000) | 5/192 | 109.0 | 0.036% | intergenic (–/–) | –/– | –/– |
| ? | GFP_Plasmid_Sequ | 1734 = | 59550 (1.480) | intergenic (–/–) | –/– | –/– | |||||