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 253 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 581,185 | 0 | C | T | 54.4% | 14.2 / 190.0 | 138 | L118L (CTG→TTG) | nohD | putative DNA‑packaging protein NohD |
| * | NC_000913 | 581,227 | 0 | A | C | 53.8% | 28.6 / 164.2 | 130 | I132L (ATC→CTC) | nohD | putative DNA‑packaging protein NohD |
| * | NC_000913 | 579,671 | 0 | T | C | 53.3% | 15.6 / inf | 315 | intergenic (‑77/‑209) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| * | NC_000913 | 578,809 | 0 | T | C | 53.3% | 34.5 / inf | 256 | T29A (ACA→GCA) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 578,811 | 0 | T | G | 53.1% | 65.8 / inf | 254 | Q28P (CAG→CCG) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 579,811 | 0 | C | T | 53.0% | 67.1 / inf | 247 | intergenic (‑217/‑69) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| * | NC_000913 | 578,605 | 0 | T | G | 52.8% | 68.6 / inf | 233 | K97Q (AAA→CAA) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 578,831 | 0 | T | C | 52.7% | 5.4 / inf | 279 | T21T (ACA→ACG) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 579,540 | 0 | T | C | 52.6% | 21.5 / inf | 351 | N19D (AAC→GAC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,717 | 0 | A | C | 52.4% | 90.5 / inf | 338 | intergenic (‑123/‑163) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| * | NC_000913 | 579,146 | 0 | A | G | 52.0% | ‑0.9 / inf | 248 | intergenic (‑253/+38) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,004 | 0 | C | T | 51.8% | 63.3 / inf | 279 | intergenic (‑111/+180) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,651 | 0 | C | T | 51.6% | 78.4 / inf | 335 | intergenic (‑57/‑229) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| * | NC_000913 | 579,457 | 0 | A | G | 51.5% | ‑0.1 / inf | 322 | I46I (ATT→ATC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 580,115 | 0 | C | T | 51.5% | 71.0 / inf | 228 | intergenic (+29/+136) | ybcW/ylcI | uncharacterized protein YbcW/DUF3950 domain‑containing protein YlcI |
| * | NC_000913 | 579,127 | 0 | T | C | 51.4% | ‑1.3 / inf | 243 | intergenic (‑234/+57) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,502 | 0 | A | G | 51.4% | ‑3.0 / inf | 371 | N31N (AAT→AAC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 580,119 | 0 | A | G | 51.3% | ‑1.3 / inf | 225 | intergenic (+33/+132) | ybcW/ylcI | uncharacterized protein YbcW/DUF3950 domain‑containing protein YlcI |
| * | NC_000913 | 580,120 | 0 | C | T | 51.1% | 53.0 / inf | 225 | intergenic (+34/+131) | ybcW/ylcI | uncharacterized protein YbcW/DUF3950 domain‑containing protein YlcI |
| * | NC_000913 | 579,134 | 0 | T | C | 51.0% | 9.1 / inf | 239 | intergenic (‑241/+50) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| Marginal new junction evidence (lowest skew 10 of 83 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 566774 | 109 (1.030) | 56 (0.530) | 27/594 | 3.2 | 33.7% | pseudogene (91/93 nt) | renD | protein RenD |
| ? | NC_000913 | 568036 = | 112 (1.070) | pseudogene (2/213 nt) | renD | protein RenD | |||||
| * | ? | NC_000913 | 2288919 = | NA (NA) | 26 (0.250) | 23/598 | 3.9 | 59.1% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3889258 | 18 (0.170) | coding (529/1416 nt) | tnaA | tryptophanase | |||||
| * | ? | NC_000913 | 3186096 = | NA (NA) | 31 (0.290) | 22/598 | 4.1 | 22.5% | noncoding (1/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 3374874 | 107 (1.010) | coding (6/1368 nt) | dcuD | putative transporter DcuD | |||||
| * | ? | NC_000913 | = 270552 | NA (NA) | 37 (0.360) | 20/574 | 4.3 | NA | noncoding (12/1221 nt) | IS30 | repeat region |
| ? | NC_000913 | = 1470504 | NA (NA) | noncoding (1209/1221 nt) | IS30 | repeat region | |||||
| * | ? | NC_000913 | 2288919 = | NA (NA) | 24 (0.230) | 20/598 | 4.6 | 21.4% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3888428 | 88 (0.830) | intergenic (+236/‑7) | mnmE/tnaC | 5‑carboxymethylaminomethyluridine‑tRNA synthase GTPase subunit/tnaAB operon leader peptide | |||||
| * | ? | NC_000913 | 2068941 = | NA (NA) | 18 (0.170) | 17/598 | 5.3 | 12.0% | noncoding (1331/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 2389017 = | 132 (1.250) | coding (383/423 nt) | yfbO | uncharacterized protein YfbO | |||||
| * | ? | NC_000913 | 3652036 = | NA (NA) | 17 (0.160) | 16/598 | 5.5 | 13.4% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3888325 | 110 (1.040) | intergenic (+133/‑110) | mnmE/tnaC | 5‑carboxymethylaminomethyluridine‑tRNA synthase GTPase subunit/tnaAB operon leader peptide | |||||
| * | ? | NC_000913 | 2288919 = | NA (NA) | 17 (0.160) | 16/598 | 5.5 | 18.1% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3888549 | 77 (0.730) | intergenic (+40/‑181) | tnaC/tnaA | tnaAB operon leader peptide/tryptophanase | |||||
| * | ? | NC_000913 | = 4190530 | 131 (1.240) | 16 (0.150) | 12/598 | 6.7 | 10.9% | intergenic (‑43/+205) | sroH/thiH | small RNA SroH/2‑iminoacetate synthase |
| ? | NC_000913 | = 4499511 | NA (NA) | noncoding (1331/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 4190526 = | 128 (1.220) | 20 (0.190) | 12/596 | 6.7 | 13.5% | intergenic (‑39/+209) | sroH/thiH | small RNA SroH/2‑iminoacetate synthase |
| ? | NC_000913 | 4498181 = | NA (NA) | noncoding (1/1331 nt) | IS2 | repeat region | |||||