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 275 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 579,099 | 0 | A | . | 65.2% | 341.7 / inf | 273 | intergenic (‑206/+85) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 1,634,724 | 0 | G | A | 65.2% | 35.4 / 176.3 | 179 | F54F (TTC→TTT) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 579,134 | 0 | T | C | 64.8% | 279.9 / 299.1 | 267 | intergenic (‑241/+50) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 1,634,661 | 0 | C | G | 64.8% | 36.0 / 250.5 | 211 | T75T (ACG→ACC) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 579,127 | 0 | T | C | 64.7% | 282.8 / 298.0 | 269 | intergenic (‑234/+57) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 1,634,676 | 0 | A | G | 64.7% | 35.2 / 229.4 | 201 | D70D (GAT→GAC) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,699 | 0 | A | C | 64.2% | 35.6 / 201.9 | 193 | S63A (TCA→GCA) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,658 | 0 | A | G | 63.6% | 25.7 / 258.7 | 217 | V76V (GTT→GTC) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,578 | 0 | T | C | 62.9% | 14.5 / 245.5 | 211 | E103G (GAA→GGA) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,569 | 0 | A | T | 62.7% | 10.5 / inf | 204 | F106Y (TTT→TAT) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,484 | 0 | G | T | 62.7% | 6.1 / 162.0 | 134 | N134K (AAC→AAA) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 579,285 | 0 | T | C | 62.5% | 274.4 / inf | 334 | I104V (ATT→GTT) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 1,634,482 | 0 | T | C | 62.4% | 6.8 / 150.7 | 134 | N135S (AAC→AGC) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 579,271 | 0 | G | A | 62.4% | 334.1 / inf | 326 | H108H (CAC→CAT) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,146 | 0 | A | G | 62.2% | 232.9 / inf | 278 | intergenic (‑253/+38) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 1,634,571 | 0 | C | T | 62.1% | 7.6 / 240.7 | 206 | E105E (GAG→GAA) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,597 | 0 | C | A | 62.0% | 10.5 / 261.8 | 221 | V97F (GTT→TTT) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 579,457 | 0 | A | G | 61.0% | 265.0 / inf | 359 | I46I (ATT→ATC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 566,651 | 0 | T | C | 60.7% | 196.5 / 292.7 | 240 | intergenic (‑673/‑33) | intD/renD | putative integrase/protein RenD |
| * | NC_000913 | 579,502 | 0 | A | G | 60.2% | 250.6 / inf | 401 | N31N (AAT→AAC) | ybcV | DUF1398 domain‑containing protein YbcV |
| Marginal new junction evidence (lowest skew 10 of 28 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 689045 | NA (NA) | 27 (0.280) | 26/598 | 2.9 | 11.7% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 765245 = | 204 (2.100) | coding (631/723 nt) | mngR | DNA‑binding transcriptional repressor MngR | |||||
| * | ? | NC_000913 | = 1897007 | 74 (0.760) | 31 (0.320) | 25/598 | 3.0 | 29.5% | coding (76/1365 nt) | sdaA | L‑serine deaminase I |
| ? | NC_000913 | 2068941 = | NA (NA) | noncoding (1331/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 1469240 | NA (NA) | 21 (0.220) | 18/596 | 4.3 | 20.0% | noncoding (1/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 1897003 = | 84 (0.870) | coding (72/1365 nt) | sdaA | L‑serine deaminase I | |||||
| * | ? | NC_000913 | = 4542690 | 156 (1.610) | 11 (0.120) | 11/580 | 6.0 | 8.0% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 101 (1.070) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 4606166 | 78 (0.800) | 7 (0.100) | 6/420 | 6.2 | 11.5% | intergenic (‑1/+34) | leuV/leuP | tRNA‑Leu/tRNA‑Leu |
| ? | NC_000913 | 4606403 = | 53 (0.780) | intergenic (‑2/+266) | leuQ/rsmC | tRNA‑Leu/16S rRNA m(2)G1207 methyltransferase | |||||
| * | ? | NC_000913 | = 1909891 | 92 (0.950) | 11 (0.110) | 11/598 | 6.2 | 10.7% | coding (209/792 nt) | kdgR | DNA‑binding transcriptional repressor KdgR |
| ? | NC_000913 | = 2070271 | NA (NA) | noncoding (1/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 2290113 | NA (NA) | 10 (0.100) | 10/598 | 6.5 | 9.8% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 2487845 = | 92 (0.950) | coding (3472/3594 nt) | evgS | sensor histidine kinase EvgS | |||||
| * | ? | NC_000913 | = 780631 | 181 (1.870) | 13 (0.130) | 10/596 | 6.5 | 8.1% | intergenic (+2/‑134) | lysT/valT | tRNA‑Lys/tRNA‑Val |
| ? | NC_000913 | 780921 = | 115 (1.190) | intergenic (+3/‑147) | lysW/valZ | tRNA‑Lys/tRNA‑Val | |||||
| * | ? | NC_000913 | = 696741 | 70 (0.720) | 8 (0.110) | 6/442 | 6.5 | 12.5% | intergenic (‑1/+15) | metU/glnW | tRNA‑Met/tRNA‑Gln |
| ? | NC_000913 | 697135 = | 60 (0.840) | intergenic (‑2/+378) | metT/asnB | tRNA‑Met/asparagine synthetase B | |||||
| * | ? | NC_000913 | 303736 = | 114 (1.180) | 13 (0.130) | 10/598 | 6.5 | 10.2% | intergenic (+131/+117) | yagU/ykgJ | DUF1440 domain‑containing inner membrane protein YagU/putative metal‑chelating domain‑containing protein YkgJ |
| ? | NC_000913 | = 1469240 | NA (NA) | noncoding (1/1331 nt) | IS2 | repeat region | |||||