mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.35.4 revision f352f80f4bc9
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 | 710,914 | 0 | A | T | 35.0% | 16.6 / 16.7 | 20 | intergenic (‑189/+21) | uof/fldA | ryhB‑regulated fur leader peptide/flavodoxin 1 |
| * | NC_000913 | 4,296,060 | 0 | C | T | 34.1% | 46.7 / 37.5 | 44 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 710,915 | 0 | T | C | 31.8% | 22.6 / 14.5 | 22 | intergenic (‑190/+20) | uof/fldA | ryhB‑regulated fur leader peptide/flavodoxin 1 |
| * | NC_000913 | 710,916 | 0 | G | A | 31.8% | 21.2 / 14.2 | 22 | intergenic (‑191/+19) | uof/fldA | ryhB‑regulated fur leader peptide/flavodoxin 1 |
| * | NC_000913 | 710,917 | 0 | A | T | 29.2% | 27.3 / 16.3 | 24 | intergenic (‑192/+18) | uof/fldA | ryhB‑regulated fur leader peptide/flavodoxin 1 |
| * | NC_000913 | 3,959,515 | 0 | T | A | 23.3% | 86.7 / 19.7 | 43 | intergenic (+70/+17) | ilvC/ppiC | ketol‑acid reductoisomerase, NAD(P)‑binding/peptidyl‑prolyl cis‑trans isomerase C (rotamase C) |
| * | NC_000913 | 1,041,940 | 0 | C | A | 20.6% | 81.6 / 15.2 | 34 | intergenic (+25/+90) | appA/etk | phosphoanhydride phosphorylase/tyrosine‑protein kinase, role in O‑antigen capsule formation |
| Marginal new junction evidence (lowest skew 10 of 27 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 3648358 | 53 (1.500) | 8 (0.250) | 8/232 | 2.6 | 13.6% | noncoding (65/84 nt) | agrB | antisense sRNA antitoxin for the DinQ toxin |
| ? | NC_000913 | = 3648363 | 53 (1.640) | noncoding (70/84 nt) | agrB | antisense sRNA antitoxin for the DinQ toxin | |||||
| * | ? | NC_000913 | = 809273 | 27 (0.770) | 6 (0.190) | 6/230 | 3.2 | 19.9% | intergenic (‑16/‑71) | bioA/bioB | 7,8‑diaminopelargonic acid synthase, PLP‑dependent/biotin synthase |
| ? | NC_000913 | = 809289 | 24 (0.750) | intergenic (‑32/‑55) | bioA/bioB | 7,8‑diaminopelargonic acid synthase, PLP‑dependent/biotin synthase | |||||
| * | ? | NC_000913 | = 1428264 | NA (NA) | 16 (0.480) | 5/242 | 3.7 | 100% | noncoding (531/1196 nt) | IS5 | repeat region |
| ? | NC_000913 | = 2066866 | 0 (0.000) | noncoding (488/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 1396531 = | NA (NA) | 16 (0.480) | 5/242 | 3.7 | NA | noncoding (488/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 1428264 | NA (NA) | noncoding (531/1196 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 253338 = | 36 (1.020) | 3 (0.110) +29 bp |
3/196 | 3.9 | 10.5% | intergenic (+177/‑141) | yafP/ykfJ | GNAT family putative N‑acetyltransferase/pseudogene |
| ? | NC_000913 | = 803472 | 30 (0.850) | intergenic (+152/‑31) | ybhI/ybhJ | putative DASS family tricarboxylate or dicarboxylate transporter/aconitase family protein | |||||
| * | ? | NC_000913 | 3340717 = | 42 (1.190) | 4 (0.120) | 4/236 | 4.0 | 9.4% | coding (443/978 nt) | yrbG | putative calcium/sodium:proton antiporter |
| ? | NC_000913 | 3340751 = | 38 (1.160) | coding (477/978 nt) | yrbG | putative calcium/sodium:proton antiporter | |||||
| * | ? | NC_000913 | = 1859585 | 29 (0.820) | 5 (0.150) | 4/240 | 4.0 | 14.8% | coding (645/1380 nt) | ydjK | putative MFS sugar transporter, membrane protein |
| ? | NC_000913 | = 1859618 | 30 (0.900) | coding (612/1380 nt) | ydjK | putative MFS sugar transporter, membrane protein | |||||
| * | ? | NC_000913 | = 707843 | 26 (0.740) | 4 (0.120) | 4/240 | 4.0 | 14.4% | noncoding (74/165 nt) | RIP63 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | RIP63 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site |
| ? | NC_000913 | = 707854 | 23 (0.690) | noncoding (85/165 nt) | RIP63 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | RIP63 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | = 443959 | 25 (0.710) | 4 (0.120) | 4/236 | 4.0 | 14.8% | coding (557/912 nt) | panE | 2‑dehydropantoate reductase, NADPH‑specific |
| ? | NC_000913 | = 443977 | 23 (0.700) | coding (539/912 nt) | panE | 2‑dehydropantoate reductase, NADPH‑specific | |||||
| * | ? | NC_000913 | = 338240 | 39 (1.110) | 4 (0.120) | 4/240 | 4.0 | 9.7% | coding (1463/1548 nt) | yahF | putative NAD(P)‑binding succinyl‑CoA synthase |
| ? | NC_000913 | = 338262 | 38 (1.140) | coding (1485/1548 nt) | yahF | putative NAD(P)‑binding succinyl‑CoA synthase | |||||