mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 25 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,001,911 | 0 | G | A | 37.1% | 31.5 / 16.6 | 35 | intergenic (‑122/+1) | fliA/fliX | RNA polymerase sigma factor FliA/small RNA FliX |
| * | NC_000913 | 3,875,525 | 0 | G | T | 32.4% | 54.6 / 12.3 | 37 | V30F (GTT→TTT) | yidX | putative lipoprotein YidX |
| * | NC_000913 | 3,875,532 | 0 | A | T | 32.4% | 36.5 / 21.6 | 38 | H32L (CAT→CTT) ‡ | yidX | putative lipoprotein YidX |
| * | NC_000913 | 388,336 | 0 | A | C | 32.1% | 79.2 / 10.1 | 54 | N181T (AAC→ACC) | tauD | taurine dioxygenase |
| * | NC_000913 | 1,984,192 | 0 | G | C | 31.6% | 77.3 / 21.2 | 57 | A293G (GCG→GGG) | araG | arabinose ABC transporter ATP binding subunit |
| * | NC_000913 | 3,875,521 | 0 | T | C | 31.4% | 44.4 / 14.3 | 38 | A28A (GCT→GCC) | yidX | putative lipoprotein YidX |
| * | NC_000913 | 2,828,506 | 0 | T | G | 30.8% | 84.5 / 10.9 | 69 | V257G (GTG→GGG) | srlD | sorbitol‑6‑phosphate 2‑dehydrogenase |
| * | NC_000913 | 4,256,061 | 0 | C | T | 30.2% | 55.9 / 12.4 | 44 | E136K (GAA→AAA) | plsB | glycerol‑3‑phosphate 1‑O‑acyltransferase |
| * | NC_000913 | 3,755,363 | 0 | A | C | 29.5% | 121.7 / 18.4 | 78 | G383G (GGT→GGG) | aldB | aldehyde dehydrogenase B |
| * | NC_000913 | 4,256,069 | 0 | G | C | 28.9% | 77.5 / 10.7 | 47 | P133R (CCG→CGG) | plsB | glycerol‑3‑phosphate 1‑O‑acyltransferase |
| * | NC_000913 | 811,721 | 0 | T | G | 28.4% | 145.8 / 11.6 | 96 | V67G (GTG→GGG) | bioC | malonyl‑acyl carrier protein methyltransferase |
| * | NC_000913 | 1,972,090 | 0 | A | C | 28.2% | 135.9 / 12.1 | 79 | V201G (GTG→GGG) | tar | methyl‑accepting chemotaxis protein Tar |
| * | NC_000913 | 3,875,531 | 0 | C | T | 27.8% | 57.4 / 10.9 | 37 | H32Y (CAT→TAT) ‡ | yidX | putative lipoprotein YidX |
| * | NC_000913 | 4,296,268 | 0 | T | C | 27.0% | 41.7 / 16.3 | 38 | intergenic (+474/+168) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 4,561,215 | 0 | G | A | 26.5% | 88.4 / 12.7 | 49 | E96K (GAA→AAA) | kptA | RNA 2'‑phosphotransferase |
| * | NC_000913 | 4,502,761 | 0 | G | C | 25.9% | 124.9 / 14.0 | 60 | A224G (GCG→GGG) | insG | IS4 family putative transposase |
| * | NC_000913 | 1,415,395 | 0 | G | A | 25.4% | 122.8 / 12.2 | 64 | R664R (CGC→CGT) | recE | exonuclease VIII, ds DNA exonuclease, 5' ‑‑> 3' specific |
| * | NC_000913 | 2,370,266 | 0 | T | G | 25.0% | 123.9 / 11.3 | 72 | G83G (GGT→GGG) | arnD | putative 4‑deoxy‑4‑formamido‑L‑arabinose‑phosphoundecaprenol deformylase ArnD |
| * | NC_000913 | 2,917,088 | 0 | G | C | 22.9% | 171.7 / 11.8 | 71 | A678P (GCT→CCT) | barA | sensor histidine kinase BarA |
| * | NC_000913 | 4,166,849 | 0 | G | A | 22.6% | 27.6 / 10.3 | 31 | noncoding (191/1542 nt) | rrsB | 16S ribosomal RNA |
| Marginal new junction evidence (lowest skew 10 of 24 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 4507459 = | NA (NA) | 17 (0.210) | 16/486 | 3.1 | 23.9% | noncoding (1221/1221 nt) | IS30 | repeat region |
| ? | NC_000913 | = 4640419 | 54 (0.670) | coding (18/141 nt) | yjjY | uncharacterized protein YjjY | |||||
| * | ? | NC_000913 | = 280111 | NA (NA) | 17 (0.210) | 16/486 | 3.1 | 23.9% | noncoding (181/181 nt) | IS30 | repeat region |
| ? | NC_000913 | = 4640419 | 54 (0.670) | coding (18/141 nt) | yjjY | uncharacterized protein YjjY | |||||
| * | ? | NC_000913 | = 271761 | NA (NA) | 17 (0.210) | 16/484 | 3.1 | 24.0% | noncoding (1221/1221 nt) | IS30 | repeat region |
| ? | NC_000913 | = 4640419 | 54 (0.670) | coding (18/141 nt) | yjjY | uncharacterized protein YjjY | |||||
| * | ? | NC_000913 | = 4508679 | NA (NA) | 15 (0.190) | 15/488 | 3.3 | 21.4% | noncoding (1/1221 nt) | IS30 | repeat region |
| ? | NC_000913 | 4640418 = | 55 (0.680) | coding (17/141 nt) | yjjY | uncharacterized protein YjjY | |||||
| * | ? | NC_000913 | 668961 = | 96 (1.180) | 13 (0.160) | 12/490 | 3.8 | 11.9% | coding (76/318 nt) | rsfS | ribosomal silencing factor RsfS |
| ? | NC_000913 | = 689045 | NA (NA) | noncoding (1/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 2804741 = | 57 (0.700) | 10 (0.120) | 10/490 | 4.3 | 14.9% | intergenic (+280/‑74) | nrdF/proV | ribonucleoside‑diphosphate reductase 2 subunit beta/glycine betaine ABC transporter ATP binding subunit ProV |
| ? | NC_000913 | = 3131340 | NA (NA) | noncoding (1195/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 607765 = | 31 (0.380) | 8 (0.100) | 8/488 | 4.8 | 20.5% | noncoding (28/60 nt) | sokE | small RNA SokE |
| ? | NC_000913 | = 3722075 | NA (NA) | noncoding (1443/1443 nt) | IS150 | repeat region | |||||
| * | ? | NC_000913 | 1978503 = | NA (NA) | 7 (0.090) | 6/488 | 5.3 | 10.1% | noncoding (768/768 nt) | IS1 | repeat region |
| ? | NC_000913 | 4307900 = | 62 (0.770) | coding (579/696 nt) | alsE | D‑allulose‑6‑phosphate 3‑epimerase | |||||
| * | ? | NC_000913 | = 275149 | NA (NA) | 5 (0.060) | 5/490 | 5.7 | 8.5% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 1091173 = | 54 (0.670) | coding (1117/2424 nt) | pgaA | partially deacetylated poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine export outer membrane porin | |||||
| * | ? | NC_000913 | 273955 = | NA (NA) | 5 (0.060) | 5/490 | 5.7 | 9.4% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 295085 | 48 (0.590) | coding (58/225 nt) | ykgV | protein YkgV | |||||