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 51 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 339,979 | 0 | G | A | 79.0% | 65.5 / 13.4 | 38 | V71M (GTG→ATG) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 1,298,092 | 0 | G | T | 50.0% | 6.3 / 180.1 | 122 | N10K (AAC→AAA) | adhE | fused acetaldehyde‑CoA dehydrogenase and iron‑dependent alcohol dehydrogenasealdehyde/alcohol dehydrogenase AdhE |
| * | NC_000913 | 1,298,091 | 0 | C | G | 49.2% | 12.3 / 217.4 | 122 | A11P (GCA→CCA) | adhE | fused acetaldehyde‑CoA dehydrogenase and iron‑dependent alcohol dehydrogenasealdehyde/alcohol dehydrogenase AdhE |
| * | NC_000913 | 4,166,892 | 0 | C | T | 46.7% | 6.4 / 41.9 | 30 | noncoding (234/1542 nt) | rrsB | 16S ribosomal RNA |
| * | NC_000913 | 3,054,894 | 0 | G | T | 39.0% | 105.3 / 45.1 | 101 | P184Q (CCA→CAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 4,136,467 | 0 | A | C | 38.6% | 75.6 / 18.4 | 57 | E120D (GAA→GAC) | yijE | cystine exporter |
| * | NC_000913 | 3,054,886 | 0 | G | T | 36.6% | 138.3 / 38.9 | 102 | Q187K (CAA→AAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 1,756,353 | 0 | C | A | 36.0% | 168.9 / 19.6 | 111 | S219Y (TCC→TAC) | pykF | pyruvate kinase 1 |
| * | NC_000913 | 1,427,992 | 0 | G | T | 35.6% | 147.3 / 23.7 | 116 | P245P (CCC→CCA) | insH5 | IS5 family transposase and trans‑activator |
| * | NC_000913 | 4,296,268 | 0 | T | C | 35.1% | 37.4 / 33.1 | 38 | intergenic (+474/+168) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 3,911,533 | 0 | C | A | 33.9% | 175.2 / 20.3 | 121 | intergenic (‑8/+306) | pstS/glmS | phosphate ABC transporter periplasmic binding protein/L‑glutamine‑‑D‑fructose‑6‑phosphate aminotransferase |
| * | NC_000913 | 1,334,966 | 0 | A | C | 33.7% | 251.7 / 34.5 | 169 | intergenic (+137/‑182) | cysB/ymiA | DNA‑binding transcriptional dual regulator CysB/uncharacterized protein YmiA |
| * | NC_000913 | 58,065 | 0 | C | A | 33.0% | 182.2 / 24.5 | 103 | P234P (CCC→CCA) | djlA | co‑chaperone protein DjlA |
| * | NC_000913 | 4,296,191 | 0 | A | C | 30.6% | 34.8 / 18.2 | 36 | intergenic (+397/+245) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 2,326,713 | 0 | C | A | 30.3% | 168.9 / 11.8 | 99 | P202Q (CCG→CAG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 3,602,705 | 0 | T | G | 30.0% | 90.0 / 21.9 | 60 | R15R (AGA→CGA) | ftsE | cell division protein FtsE |
| * | NC_000913 | 2,477,265 | 0 | A | C | 29.4% | 194.3 / 34.4 | 102 | L122* (TTA→TGA) | dsdC | DNA‑binding transcriptional dual regulator DsdC |
| * | NC_000913 | 2,990,480 | 0 | C | A | 28.5% | 430.9 / 34.7 | 246 | intergenic (‑120/‑788) | yqeK/ygeG | protein YqeK/TPR repeat‑containing putative chaperone YgeG |
| * | NC_000913 | 538,075 | 0 | A | G | 28.1% | 131.9 / 17.6 | 82 | D148G (GAT→GGT) | ybbW | putative allantoin transporter |
| * | NC_000913 | 2,490,240 | 0 | G | T | 28.0% | 227.7 / 12.9 | 126 | intergenic (‑54/+16) | yfdV/oxc | putative transport protein YfdV/oxalyl‑CoA decarboxylase |
| Marginal new junction evidence (lowest skew 10 of 22 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 3722075 | NA (NA) | 32 (0.320) | 26/596 | 3.0 | 25.3% | noncoding (1443/1443 nt) | IS150 | repeat region |
| ? | NC_000913 | = 4354449 | 95 (0.950) | coding (269/1518 nt) | lysU | lysine‑‑tRNA ligase/Ap4A synthetase/Ap3A synthetase | |||||
| * | ? | NC_000913 | 3720633 = | NA (NA) | 20 (0.200) | 16/596 | 5.0 | 17.4% | noncoding (1/1443 nt) | IS150 | repeat region |
| ? | NC_000913 | 4354447 = | 95 (0.950) | coding (271/1518 nt) | lysU | lysine‑‑tRNA ligase/Ap4A synthetase/Ap3A synthetase | |||||
| * | ? | NC_000913 | = 4606166 | 105 (1.050) | 7 (0.100) | 6/420 | 6.5 | 9.1% | intergenic (‑1/+34) | leuV/leuP | tRNA‑Leu/tRNA‑Leu |
| ? | NC_000913 | 4606403 = | 66 (0.940) | intergenic (‑2/+266) | leuQ/rsmC | tRNA‑Leu/16S rRNA m(2)G1207 methyltransferase | |||||
| * | ? | NC_000913 | = 696741 | 72 (0.720) | 6 (0.080) | 6/442 | 6.7 | 9.7% | intergenic (‑1/+15) | metU/glnW | tRNA‑Met/tRNA‑Gln |
| ? | NC_000913 | 697135 = | 58 (0.790) | intergenic (‑2/+378) | metT/asnB | tRNA‑Met/asparagine synthetase B | |||||
| * | ? | NC_000913 | = 781222 | 52 (0.520) | 7 (0.090) | 6/446 | 6.8 | 11.7% | noncoding (76/76 nt) | lysY | tRNA‑Lys |
| ? | NC_000913 | 781653 = | 67 (0.900) | intergenic (+1/‑432) | lysQ/nadA | tRNA‑Lys/quinolinate synthase | |||||
| * | ? | NC_000913 | 2288919 = | NA (NA) | 9 (0.090) | 8/598 | 7.6 | 8.3% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 3455529 = | 100 (1.000) | intergenic (‑131/‑49) | gspA/gspC | Type II secretion system protein GspA/Type II secretion system protein GspC | |||||
| * | ? | NC_000913 | = 4392437 | 66 (0.660) | 4 (0.050) | 4/442 | 7.8 | 5.9% | intergenic (+2/‑35) | glyV/glyX | tRNA‑Gly/tRNA‑Gly |
| ? | NC_000913 | 4392661 = | 78 (1.060) | intergenic (+3/‑231) | glyY/yjeV | tRNA‑Gly/uncharacterized protein YjeV | |||||
| * | ? | NC_000913 | = 1286906 | 53 (0.530) | 6 (0.060) | 6/558 | 8.1 | 9.8% | coding (198/276 nt) | ychS | putative uncharacterized protein YchS |
| ? | NC_000913 | 1287557 = | 61 (0.650) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | = 2357730 | 125 (1.250) | 7 (0.080) | 5/518 | 8.2 | 6.4% | coding (827/900 nt) | rpnE | inactive recombination‑promoting nuclease‑like protein RpnE |
| ? | NC_000913 | 2357926 = | 98 (1.130) | intergenic (+123/+116) | rpnE/yfaU | inactive recombination‑promoting nuclease‑like protein RpnE/2‑keto‑3‑deoxy‑L‑rhamnonate aldolase | |||||
| * | ? | NC_000913 | 1096961 = | 72 (0.720) | 4 (0.050) | 3/438 | 8.4 | 6.0% | intergenic (+132/+604) | ycdU/serX | uncharacterized protein YcdU/tRNA‑Ser |
| ? | NC_000913 | = 1097503 | 72 (0.980) | intergenic (+674/+62) | ycdU/serX | uncharacterized protein YcdU/tRNA‑Ser | |||||