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 232 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 579,271 | 0 | G | A | 61.5% | 317.9 / inf | 323 | H108H (CAC→CAT) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,146 | 0 | A | G | 60.9% | 234.5 / inf | 298 | intergenic (‑253/+38) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,285 | 0 | T | C | 60.6% | 207.3 / inf | 322 | I104V (ATT→GTT) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,457 | 0 | A | G | 60.4% | 242.0 / inf | 356 | I46I (ATT→ATC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,099 | 0 | A | . | 60.2% | 201.0 / inf | 322 | intergenic (‑206/+85) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,134 | 0 | T | C | 60.0% | 186.7 / inf | 285 | intergenic (‑241/+50) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,127 | 0 | T | C | 59.9% | 195.2 / inf | 287 | intergenic (‑234/+57) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 580,115 | 0 | C | T | 59.1% | 213.3 / 311.1 | 252 | intergenic (+29/+136) | ybcW/ylcI | uncharacterized protein YbcW/DUF3950 domain‑containing protein YlcI |
| * | NC_000913 | 579,540 | 0 | T | C | 58.6% | 221.9 / inf | 406 | N19D (AAC→GAC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,004 | 0 | C | T | 58.5% | 224.7 / inf | 311 | intergenic (‑111/+180) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 578,809 | 0 | T | C | 58.3% | 136.0 / inf | 266 | T29A (ACA→GCA) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 580,119 | 0 | A | G | 58.3% | 129.0 / inf | 252 | intergenic (+33/+132) | ybcW/ylcI | uncharacterized protein YbcW/DUF3950 domain‑containing protein YlcI |
| * | NC_000913 | 579,385 | 0 | A | G | 58.3% | 189.2 / inf | 355 | N70N (AAT→AAC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 580,120 | 0 | C | T | 58.2% | 192.4 / inf | 252 | intergenic (+34/+131) | ybcW/ylcI | uncharacterized protein YbcW/DUF3950 domain‑containing protein YlcI |
| * | NC_000913 | 578,811 | 0 | T | G | 58.1% | 189.9 / inf | 265 | Q28P (CAG→CCG) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 580,302 | 0 | C | T | 57.9% | 170.1 / inf | 271 | R48R (AGG→AGA) | ylcI | DUF3950 domain‑containing protein YlcI |
| * | NC_000913 | 579,717 | 0 | A | C | 57.4% | 253.2 / inf | 405 | intergenic (‑123/‑163) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| * | NC_000913 | 579,502 | 0 | A | G | 57.4% | 169.8 / inf | 398 | N31N (AAT→AAC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,671 | 0 | T | C | 57.0% | 125.1 / inf | 373 | intergenic (‑77/‑209) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| * | NC_000913 | 579,651 | 0 | C | T | 56.0% | 209.9 / inf | 395 | intergenic (‑57/‑229) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| Marginal new junction evidence (lowest skew 10 of 238 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1470516 | NA (NA) | 30 (0.270) | 26/594 | 3.7 | 25.2% | noncoding (1221/1221 nt) | IS30 | repeat region |
| ? | NC_000913 | 3991038 = | 89 (0.800) | intergenic (‑272/‑115) | hemC/cyaA | hydroxymethylbilane synthase/adenylate cyclase | |||||
| * | ? | NC_000913 | = 2290113 | NA (NA) | 30 (0.270) | 25/598 | 3.9 | 18.2% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 3584260 = | 135 (1.200) | pseudogene (56/105 nt) | yrhA | putative uncharacterized protein YrhA | |||||
| * | ? | NC_000913 | 2698402 = | 56 (0.500) | 29 (0.260) | 24/594 | 4.0 | 34.1% | coding (149/636 nt) | pgpC | phosphatidylglycerophosphatase C |
| ? | NC_000913 | = 4508679 | NA (NA) | noncoding (1/1221 nt) | IS30 | repeat region | |||||
| * | ? | NC_000913 | 2288919 = | NA (NA) | 24 (0.210) | 24/596 | 4.0 | 14.9% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 3656725 = | 137 (1.220) | coding (16/333 nt) | hdeA | periplasmic acid stress chaperone HdeA | |||||
| * | ? | NC_000913 | = 566774 | 111 (0.990) | 69 (0.620) | 24/594 | 4.0 | 36.8% | pseudogene (91/93 nt) | renD | protein RenD |
| ? | NC_000913 | 568036 = | 127 (1.140) | pseudogene (2/213 nt) | renD | protein RenD | |||||
| * | ? | NC_000913 | 1909271 = | 100 (0.890) | 34 (0.300) | 23/596 | 4.2 | 25.4% | intergenic (+107/+37) | yobH/kdgR | uncharacterized protein YobH/DNA‑binding transcriptional repressor KdgR |
| ? | NC_000913 | 4507459 = | NA (NA) | noncoding (1221/1221 nt) | IS30 | repeat region | |||||
| * | ? | NC_000913 | = 1371054 | 88 (0.790) | 23 (0.210) | 23/594 | 4.2 | 20.7% | coding (839/1680 nt) | ycjM | glucosylglycerate phosphorylase |
| ? | NC_000913 | = 1470516 | NA (NA) | noncoding (1221/1221 nt) | IS30 | repeat region | |||||
| * | ? | NC_000913 | = 891858 | 108 (0.960) | 27 (0.240) | 22/598 | 4.4 | 20.0% | coding (675/723 nt) | nfsA | NADPH‑dependent nitro/quinone reductase NfsA |
| ? | NC_000913 | = 1470516 | NA (NA) | noncoding (1221/1221 nt) | IS30 | repeat region | |||||
| * | ? | NC_000913 | 257908 = | NA (NA) | 17 (0.190) +63 bp |
16/472 | 4.5 | NA | noncoding (768/768 nt) | IS1 | repeat region |
| ? | NC_000913 | 574586 = | NA (NA) | pseudogene (1/58 nt) | nmpC | putative outer membrane porin NmpC | |||||
| * | ? | NC_000913 | 2288919 = | NA (NA) | 25 (0.220) | 21/598 | 4.6 | 15.8% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3584263 | 133 (1.180) | pseudogene (59/105 nt) | yrhA | putative uncharacterized protein YrhA | |||||