mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.30.0 revision f53f5bf51c1f
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_000913 | 623,865 | 1 | . | C | 41.9% | 9.1 / 88.6 | 43 | intergenic (‑131/‑244) | fepB/entC | ferrienterobactin ABC transporter periplasmic binding protein/isochorismate synthase 1 |
| * | NC_000913 | 623,865 | 2 | . | C | 41.9% | 4.8 / 92.9 | 43 | intergenic (‑131/‑244) | fepB/entC | ferrienterobactin ABC transporter periplasmic binding protein/isochorismate synthase 1 |
| * | NC_000913 | 623,865 | 3 | . | C | 41.9% | 5.6 / 92.1 | 43 | intergenic (‑131/‑244) | fepB/entC | ferrienterobactin ABC transporter periplasmic binding protein/isochorismate synthase 1 |
| * | NC_000913 | 623,865 | 4 | . | T | 41.9% | ‑1.4 / 92.3 | 43 | intergenic (‑131/‑244) | fepB/entC | ferrienterobactin ABC transporter periplasmic binding protein/isochorismate synthase 1 |
| * | NC_000913 | 623,865 | 5 | . | C | 41.9% | 6.2 / 91.5 | 43 | intergenic (‑131/‑244) | fepB/entC | ferrienterobactin ABC transporter periplasmic binding protein/isochorismate synthase 1 |
| * | NC_000913 | 623,865 | 6 | . | A | 41.9% | ‑4.2 / 95.4 | 43 | intergenic (‑131/‑244) | fepB/entC | ferrienterobactin ABC transporter periplasmic binding protein/isochorismate synthase 1 |
| * | NC_000913 | 623,865 | 7 | . | C | 41.9% | 6.7 / 91.0 | 43 | intergenic (‑131/‑244) | fepB/entC | ferrienterobactin ABC transporter periplasmic binding protein/isochorismate synthase 1 |
| * | NC_000913 | 623,865 | 8 | . | C | 41.9% | 5.8 / 91.8 | 43 | intergenic (‑131/‑244) | fepB/entC | ferrienterobactin ABC transporter periplasmic binding protein/isochorismate synthase 1 |
| * | NC_000913 | 623,865 | 10 | . | C | 41.9% | 4.5 / 93.2 | 43 | intergenic (‑131/‑244) | fepB/entC | ferrienterobactin ABC transporter periplasmic binding protein/isochorismate synthase 1 |
| * | NC_000913 | 623,865 | 11 | . | A | 41.9% | ‑4.0 / 95.2 | 43 | intergenic (‑131/‑244) | fepB/entC | ferrienterobactin ABC transporter periplasmic binding protein/isochorismate synthase 1 |
| * | NC_000913 | 623,865 | 12 | . | G | 41.9% | 3.1 / 94.1 | 43 | intergenic (‑131/‑244) | fepB/entC | ferrienterobactin ABC transporter periplasmic binding protein/isochorismate synthase 1 |
| * | NC_000913 | 623,865 | 9 | . | C | 39.0% | 11.8 / 85.8 | 43 | intergenic (‑131/‑244) | fepB/entC | ferrienterobactin ABC transporter periplasmic binding protein/isochorismate synthase 1 |
| * | NC_000913 | 4,293,439 | 0 | A | C | 37.1% | 60.3 / 79.7 | 90 | intergenic (+397/+247) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 4,293,438 | 0 | A | G | 35.2% | 82.8 / 59.0 | 90 | intergenic (+396/+248) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 1,309,222 | 0 | G | T | 20.8% | 330.3 / 19.4 | 149 | E37* (GAA→TAA) | tonB | membrane spanning protein in TonB‑ExbB‑ExbD transport complex |
| Marginal new junction evidence (lowest skew 10 of 40 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 623865 | 13 (0.080) | 44 (0.270) +CCCTCACCCCAG |
28/502 | 6.4 | 76.0% | intergenic (‑131/‑244) | fepB/entC | ferrienterobactin ABC transporter periplasmic binding protein/isochorismate synthase 1 |
| ? | NC_000913 | 623866 = | 15 (0.090) | intergenic (‑132/‑243) | fepB/entC | ferrienterobactin ABC transporter periplasmic binding protein/isochorismate synthase 1 | |||||
| * | ? | NC_000913 | 623866 = | 24 (0.140) | 40 (0.240) | 30/550 | 6.8 | 64.9% | intergenic (‑132/‑243) | fepB/entC | ferrienterobactin ABC transporter periplasmic binding protein/isochorismate synthase 1 |
| ? | NC_000913 | = 623877 | 20 (0.120) | intergenic (‑143/‑232) | fepB/entC | ferrienterobactin ABC transporter periplasmic binding protein/isochorismate synthase 1 | |||||
| * | ? | NC_000913 | 1096185 = | 148 (0.870) | 37 (0.300) | 9/408 | 11.1 | 27.4% | intergenic (+132/+604) | ycdU/serX | putative inner membrane protein/tRNA‑Ser |
| ? | NC_000913 | = 1096727 | 90 (0.740) | intergenic (+674/+62) | ycdU/serX | putative inner membrane protein/tRNA‑Ser | |||||
| * | ? | NC_000913 | 4293080 = | NA (NA) | 29 (0.200) | 10/490 | 12.3 | NA | intergenic (+38/+606) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| ? | NC_000913 | = 4293644 | NA (NA) | noncoding (562/602 nt) | RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites | RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites | |||||
| * | ? | NC_000913 | 1096185 = | 148 (0.870) | 82 (0.750) +101 bp |
5/366 | 12.4 | 47.5% | intergenic (+132/+604) | ycdU/serX | putative inner membrane protein/tRNA‑Ser |
| ? | NC_000913 | = 1096807 | 134 (0.790) | noncoding (70/88 nt) | serX | tRNA‑Ser | |||||
| * | ? | NC_000913 | 2762667 = | 172 (1.010) | 5 (0.030) | 5/480 | 15.0 | 3.4% | intergenic (‑267/+93) | yfjL/yfjM | CP4‑57 putative defective prophage, DUF4297/DUF1837 polymorphic toxin family protein/CP4‑57 prophage; uncharacterized protein |
| ? | NC_000913 | = 2762658 | 139 (0.970) | intergenic (‑258/+102) | yfjL/yfjM | CP4‑57 putative defective prophage, DUF4297/DUF1837 polymorphic toxin family protein/CP4‑57 prophage; uncharacterized protein | |||||
| * | ? | NC_000913 | 2301710 = | NA (NA) | 6 (0.040) +40 bp |
5/488 | 15.2 | 4.0% | noncoding (47/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences |
| ? | NC_000913 | = 2302234 | 167 (0.980) | noncoding (571/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | |||||
| * | ? | NC_000913 | 4539932 = | 46 (0.270) | 7 (0.040) | 6/550 | 15.7 | 9.5% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | 4540246 = | 89 (0.540) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | 4124487 = | 162 (0.950) | 5 (0.030) | 5/544 | 16.3 | 3.0% | intergenic (+14/+47) | rpmE/yiiX | 50S ribosomal subunit protein L31/putative lipid binding hydrolase, DUF830 family protein |
| ? | NC_000913 | 4124513 = | 164 (1.010) | intergenic (+40/+21) | rpmE/yiiX | 50S ribosomal subunit protein L31/putative lipid binding hydrolase, DUF830 family protein | |||||
| * | ? | NC_000913 | = 2233766 | 171 (1.010) | 4 (0.020) | 4/548 | 17.1 | 2.3% | intergenic (+19/+224) | preA/mglC | dihydropyrimidine dehydrogenase, NADH‑dependent, subunit C/methyl‑galactoside transporter subunit |
| ? | NC_000913 | = 2233780 | 169 (1.030) | intergenic (+33/+210) | preA/mglC | dihydropyrimidine dehydrogenase, NADH‑dependent, subunit C/methyl‑galactoside transporter subunit | |||||