mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 40 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 339,986 | 0 | G | A | 72.0% | 37.2 / 15.9 | 25 | R73Q (CGA→CAA) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 339,979 | 0 | G | A | 68.0% | 30.3 / 16.7 | 25 | V71M (GTG→ATG) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 3,621,267 | 0 | T | G | 41.2% | 15.2 / 41.7 | 34 | G692G (GGT→GGG) | rhsB | rhs element protein RhsB |
| * | NC_000913 | 3,054,894 | 0 | G | T | 35.0% | 99.7 / 24.7 | 81 | P184Q (CCA→CAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 2,073,613 | 0 | G | T | 34.5% | 132.7 / 13.2 | 84 | R692L (CGG→CTG) | flu | self recognizing antigen 43 (Ag43) autotransporter |
| * | NC_000913 | 866,319 | 0 | C | A | 33.7% | 142.3 / 16.3 | 98 | E16* (GAG→TAG) | moeA | molybdopterin molybdotransferase |
| * | NC_000913 | 2,990,480 | 0 | C | A | 32.8% | 192.9 / 10.7 | 119 | intergenic (‑120/‑788) | yqeK/ygeG | protein YqeK/TPR repeat‑containing putative chaperone YgeG |
| * | NC_000913 | 3,741,871 | 0 | G | T | 32.6% | 167.9 / 10.6 | 92 | S221Y (TCC→TAC) | plaR | DNA‑binding transcriptional repressor PlaR |
| * | NC_000913 | 4,129,740 | 0 | G | T | 31.8% | 131.3 / 11.0 | 88 | E357* (GAG→TAG) | metB | O‑succinylhomoserine(thiol)‑lyase/O‑ succinylhomoserine lyase |
| * | NC_000913 | 1,779,583 | 0 | G | T | 31.5% | 279.6 / 16.6 | 165 | intergenic (‑282/‑34) | ydiP/ydiQ | putative DNA‑binding transcriptional regulator YdiP/putative electron transfer flavoprotein subunit YdiQ |
| * | NC_000913 | 3,054,886 | 0 | G | T | 31.1% | 142.9 / 24.3 | 90 | Q187K (CAA→AAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 3,032,307 | 0 | C | T | 30.3% | 171.5 / 33.9 | 110 | T314M (ACG→ATG) | uacT | urate:H(+) symporter |
| * | NC_000913 | 1,756,353 | 0 | C | A | 29.8% | 191.0 / 15.4 | 114 | S219Y (TCC→TAC) | pykF | pyruvate kinase 1 |
| * | NC_000913 | 1,502,772 | 0 | G | A | 29.5% | 137.6 / 28.9 | 95 | A106T (GCG→ACG) | ydcL | DUF3313 domain‑containing lipoprotein YdcL |
| * | NC_000913 | 1,335,034 | 0 | G | T | 29.3% | 297.3 / 18.2 | 164 | intergenic (+205/‑114) | cysB/ymiA | DNA‑binding transcriptional dual regulator CysB/uncharacterized protein YmiA |
| * | NC_000913 | 2,288,418 | 0 | G | T | 29.2% | 258.3 / 23.5 | 147 | pseudogene (497/2525 nt) | yejO | adhesin‑like autotransporter YejO |
| * | NC_000913 | 2,818,324 | 0 | G | A | 27.9% | 108.8 / 26.6 | 68 | intergenic (‑50/+149) | argY/argV | tRNA‑Arg/tRNA‑Arg |
| * | NC_000913 | 1,995,370 | 0 | C | A | 27.8% | 173.6 / 13.8 | 98 | intergenic (‑11/‑285) | uvrY/yecU | DNA‑binding transcriptional activator UvrY/protein YecU |
| * | NC_000913 | 141,849 | 0 | C | A | 27.2% | 208.3 / 18.0 | 114 | P140Q (CCG→CAG) | hpt | hypoxanthine phosphoribosyltransferase |
| * | NC_000913 | 710,830 | 0 | G | T | 26.6% | 253.3 / 13.2 | 128 | intergenic (‑105/+105) | uof/fldA | RyhB‑regulated fur leader peptide/flavodoxin 1 |
| Marginal new junction evidence (lowest skew 10 of 25 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 4542690 | 132 (1.390) | 33 (0.360) | 21/572 | 3.2 | 22.1% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 104 (1.130) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 4542682 = | 117 (1.230) | 27 (0.290) | 19/572 | 3.5 | 19.8% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 105 (1.140) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 781284 | 62 (0.650) | 22 (0.230) +A |
17/588 | 4.1 | 22.6% | intergenic (+62/‑85) | lysY/lysZ | tRNA‑Lys/tRNA‑Lys |
| ? | NC_000913 | 781774 = | 89 (0.940) | intergenic (+122/‑311) | lysQ/nadA | tRNA‑Lys/quinolinate synthase | |||||
| * | ? | NC_000913 | 1105173 = | 127 (1.340) | 15 (0.160) | 13/588 | 5.1 | 10.6% | coding (213/333 nt) | csgC | curlin chaperone |
| ? | NC_000913 | = 1300693 | NA (NA) | noncoding (1195/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 2357730 | 97 (1.020) | 9 (0.110) | 8/510 | 6.0 | 10.3% | coding (827/900 nt) | rpnE | inactive recombination‑promoting nuclease‑like protein RpnE |
| ? | NC_000913 | 2357926 = | 73 (0.890) | intergenic (+123/+116) | rpnE/yfaU | inactive recombination‑promoting nuclease‑like protein RpnE/2‑keto‑3‑deoxy‑L‑rhamnonate aldolase | |||||
| * | ? | NC_000913 | = 1105176 | 126 (1.330) | 12 (0.130) | 10/590 | 6.0 | 8.7% | coding (216/333 nt) | csgC | curlin chaperone |
| ? | NC_000913 | 1299499 = | NA (NA) | noncoding (1/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 696741 | 60 (0.630) | 7 (0.100) | 6/434 | 6.0 | 12.5% | intergenic (‑1/+15) | metU/glnW | tRNA‑Met/tRNA‑Gln |
| ? | NC_000913 | 697135 = | 54 (0.770) | intergenic (‑2/+378) | metT/asnB | tRNA‑Met/asparagine synthetase B | |||||
| * | ? | NC_000913 | = 696506 | 97 (1.020) | 8 (0.100) +45 bp |
7/500 | 6.3 | 9.6% | intergenic (‑2/+36) | glnX/glnV | tRNA‑Gln/tRNA‑Gln |
| ? | NC_000913 | 697057 = | 80 (0.840) | noncoding (77/77 nt) | metT | tRNA‑Met | |||||
| * | ? | NC_000913 | = 3648068 | 131 (1.380) | 8 (0.090) | 8/576 | 6.6 | 6.5% | noncoding (6/82 nt) | agrA | small RNA AgrA |
| ? | NC_000913 | 3648300 = | 103 (1.110) | noncoding (7/82 nt) | agrB | small regulatory RNA AgrB | |||||
| * | ? | NC_000913 | = 781222 | 83 (0.870) | 7 (0.080) | 7/554 | 6.8 | 8.9% | noncoding (76/76 nt) | lysY | tRNA‑Lys |
| ? | NC_000913 | 781321 = | 66 (0.740) | intergenic (+99/‑48) | lysY/lysZ | tRNA‑Lys/tRNA‑Lys | |||||