mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.27.1 revision 87c22d663cc3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 258 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 358,484 | 0 | G | A | 55.9% | 165.7 / inf | 536 | S69S (AGC→AGT) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 3,827,026 | 0 | C | T | 55.1% | 155.7 / inf | 596 | A606V (GCG→GTG) | recG | ATP‑dependent DNA helicase |
| * | NC_000913 | 1,907,570 | 0 | C | A | 55.0% | 91.7 / inf | 506 | E8* (GAA→TAA) | yobF | DUF2527 family heat‑induced protein |
| * | NC_000913 | 1,453,992 | 0 | G | A | 54.2% | 99.3 / inf | 505 | W22* (TGG→TGA) | paaA | ring 1,2‑phenylacetyl‑CoA epoxidase subunit |
| * | NC_000913 | 3,090,968 | 0 | G | A | 53.9% | 113.1 / inf | 573 | E208K (GAG→AAG) | endA | DNA‑specific endonuclease I |
| * | NC_000913 | 311,717 | 0 | G | A | 53.9% | 114.3 / inf | 567 | intergenic (‑381/‑395) | ecpR/ykgL | putative transcriptional regulator for the ecp operon/uncharacterized protein |
| * | NC_000913 | 4,234,479 | 0 | C | T | 53.8% | 114.2 / inf | 620 | A241V (GCG→GTG) | pgi | glucosephosphate isomerase |
| * | NC_000913 | 3,259,283 | 0 | G | A | 53.8% | 121.9 / inf | 621 | H123Y (CAT→TAT) | tdcG | L‑serine dehydratase 3, anaerobic |
| * | NC_000913 | 292,433 | 0 | G | A | 53.4% | 80.7 / inf | 569 | F172F (TTC→TTT) | yagK | CP4‑6 prophage; conserved protein |
| * | NC_000913 | 3,388,041 | 0 | T | G | 53.3% | 339.9 / inf | 595 | T50P (ACG→CCG) | aaeB | p‑hydroxybenzoic acid efflux system component |
| * | NC_000913 | 3,950,099 | 0 | C | T | 53.3% | 86.1 / inf | 692 | intergenic (‑130/‑223) | yifB/ilvL | magnesium chelatase family protein and putative transcriptional regulator/ilvG operon leader peptide |
| * | NC_000913 | 4,325,837 | 0 | C | T | 53.2% | 51.6 / inf | 713 | intergenic (‑96/+562) | yjdN/yjdM | metalloprotein superfamily protein/zinc‑ribbon family protein |
| * | NC_000913 | 3,581,316 | 0 | G | A | 53.2% | 73.3 / inf | 576 | G60E (GGA→GAA) | yhhY | aminoacyl nucleotide detoxifying acetyltransferase |
| * | NC_000913 | 2,814,461 | 0 | C | T | 53.1% | 81.0 / inf | 644 | L91L (CTG→CTA) | luxS | S‑ribosylhomocysteine lyase |
| * | NC_000913 | 3,558,291 | 0 | C | T | 53.0% | 78.7 / inf | 616 | G8G (GGC→GGT) | rtcR | sigma 54‑dependent transcriptional regulator of rtcBA expression |
| * | NC_000913 | 3,560,119 | 0 | A | G | 53.0% | 175.5 / inf | 555 | pseudogene (335/606 nt) | glpR | pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon |
| * | NC_000913 | 3,588,787 | 0 | G | A | 52.7% | 38.4 / inf | 568 | P132S (CCG→TCG) | ugpC | sn‑glycerol‑3‑phosphate ABC transporter ATPase |
| * | NC_000913 | 3,581,850 | 0 | G | A | 52.7% | 90.3 / inf | 778 | intergenic (+224/‑13) | yhhY/yhhZ | aminoacyl nucleotide detoxifying acetyltransferase/putative Hcp1 family polymorphic toxin protein; putative colicin‑like DNase/tRNase activity |
| * | NC_000913 | 4,389,838 | 0 | C | T | 52.6% | 61.2 / inf | 612 | V175M (GTG→ATG) | psd | phosphatidylserine decarboxylase |
| * | NC_000913 | 4,224,483 | 0 | C | T | 52.6% | 53.8 / inf | 613 | S219F (TCC→TTC) | metH | homocysteine‑N5‑methyltetrahydrofolate transmethylase, B12‑dependent |
| Marginal new junction evidence (lowest skew 10 of 64 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 2290113 | NA (NA) | 259 (0.470) | 157/300 | 3.1 | 46.1% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 2413482 = | 303 (0.540) | coding (13/1203 nt) | ackA | acetate kinase A and propionate kinase 2 | |||||
| * | ? | NC_000913 | 273955 = | NA (NA) | 248 (0.450) | 154/300 | 3.3 | 45.3% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 565828 | 299 (0.540) | coding (151/1164 nt) | intD | DLP12 prophage; putative phage integrase | |||||
| * | ? | NC_000913 | = 275149 | NA (NA) | 225 (0.400) | 153/300 | 3.4 | 42.5% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 1091173 = | 304 (0.550) | coding (1117/2424 nt) | pgaA | biofilm adhesin polysaccharide PGA secretin; OM porin; poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine export protein | |||||
| * | ? | NC_000913 | 3583428 = | NA (NA) | 241 (0.430) | 152/300 | 3.5 | 43.0% | noncoding (1/768 nt) | IS1 | repeat region |
| ? | NC_000913 | 4434629 = | 319 (0.570) | coding (1937/1944 nt) | cpdB | 2':3'‑cyclic‑nucleotide 2'‑phosphodiesterase | |||||
| * | ? | NC_000913 | 1399590 = | 306 (0.550) | 239 (0.430) | 152/300 | 3.5 | 43.9% | intergenic (‑64/+131) | fnr/ogt | oxygen‑sensing anaerobic growth regulon transcriptional regulator FNR; autorepressor/O‑6‑alkylguanine‑DNA:cysteine‑protein methyltransferase |
| ? | NC_000913 | 2101749 = | NA (NA) | noncoding (1195/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 1094245 = | NA (NA) | 226 (0.410) | 149/300 | 3.7 | 42.6% | noncoding (1258/1258 nt) | IS3 | repeat region |
| ? | NC_000913 | 1199869 = | 305 (0.550) | coding (938/1128 nt) | intE | e14 prophage; putative integrase | |||||
| * | ? | NC_000913 | = 275149 | NA (NA) | 218 (0.390) | 146/300 | 4.0 | 42.5% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 889492 | 295 (0.530) | coding (328/1686 nt) | ybjL | putative transporter | |||||
| * | ? | NC_000913 | = 1399593 | 307 (0.560) | 214 (0.390) | 143/298 | 4.1 | 41.1% | intergenic (‑67/+128) | fnr/ogt | oxygen‑sensing anaerobic growth regulon transcriptional regulator FNR; autorepressor/O‑6‑alkylguanine‑DNA:cysteine‑protein methyltransferase |
| ? | NC_000913 | = 2290113 | NA (NA) | noncoding (1/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 2101749 = | NA (NA) | 218 (0.390) | 143/300 | 4.2 | 40.8% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 2174359 = | 316 (0.570) | coding (208/285 nt) | gatB | galactitol‑specific enzyme IIB component of PTS | |||||
| * | ? | NC_000913 | = 291401 | NA (NA) | 241 (0.430) | 142/300 | 4.3 | 43.0% | noncoding (1/768 nt) | IS1 | repeat region |
| ? | NC_000913 | 4434629 = | 319 (0.570) | coding (1937/1944 nt) | cpdB | 2':3'‑cyclic‑nucleotide 2'‑phosphodiesterase | |||||