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 252 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 169,590 | 0 | G | . | 57.2% | 11.3 / inf | 457 | coding (2107/2244 nt) | fhuA | ferrichrome outer membrane transporter |
| * | NC_000913 | 2,926,772 | 0 | C | A | 57.0% | 170.7 / inf | 525 | G155G (GGC→GGA) | ygdH | UPF0717 family protein |
| * | NC_000913 | 88,571 | 0 | G | A | 56.9% | 200.5 / inf | 508 | V182M (GTG→ATG) | cra | transcriptional repressor‑activator for carbon metabolism |
| * | NC_000913 | 1,308,447 | 0 | G | T | 56.6% | 130.7 / inf | 401 | R67S (CGC→AGC) | clsA | cardiolipin synthase 1 |
| * | NC_000913 | 3,292,312 | 0 | C | T | 56.5% | 234.6 / inf | 581 | P324P (CCC→CCT) | yraK | putative fimbrial‑like adhesin protein |
| * | NC_000913 | 4,486,869 | 0 | T | A | 56.4% | 297.2 / inf | 546 | L218M (TTG→ATG) | lptF | lipopolysaccharide export ABC permease |
| * | NC_000913 | 1,290,669 | 0 | G | A | 56.1% | 145.1 / inf | 409 | W143* (TGG→TAG) | rssB | PcnB‑degradosome interaction factor; response regulator |
| * | NC_000913 | 358,484 | 0 | G | A | 56.1% | 131.3 / inf | 453 | S69S (AGC→AGT) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 42,108 | 0 | G | A | 56.0% | 247.5 / inf | 684 | intergenic (‑177/‑295) | caiT/fixA | putative transporter/anaerobic carnitine reduction putative electron transfer flavoprotein subunit |
| * | NC_000913 | 1,994,637 | 0 | A | G | 55.9% | 269.6 / inf | 486 | Y24H (TAC→CAC) | uvrC | excinuclease UvrABC, endonuclease subunit |
| * | NC_000913 | 2,484,827 | 0 | C | T | 55.6% | 139.6 / inf | 422 | L152F (CTT→TTT) | evgS | hybrid sensory histidine kinase in two‑component regulatory system with EvgA |
| * | NC_000913 | 4,426,929 | 0 | C | T | 55.4% | 185.5 / inf | 620 | C165Y (TGC→TAC) | yjfZ | uncharacterized protein |
| * | NC_000913 | 156,068 | 0 | A | G | 55.1% | 241.2 / inf | 504 | V45A (GTA→GCA) | yadV | putative periplasmic pilin chaperone |
| * | NC_000913 | 3,589,956 | 0 | G | A | 54.7% | 131.4 / inf | 576 | L24L (CTC→CTT) | ugpE | sn‑glycerol‑3‑phosphate ABC transporter permease |
| * | NC_000913 | 4,585,673 | 0 | C | T | 54.7% | 138.2 / inf | 597 | W363* (TGG→TGA) | hsdR | endonuclease R Type I restriction enzyme |
| * | NC_000913 | 3,176,625 | 0 | G | A | 54.7% | 133.4 / inf | 567 | S70F (TCC→TTC) | cpdA | 3',5' cAMP phosphodiesterase |
| * | NC_000913 | 502,232 | 0 | G | A | 54.6% | 111.8 / inf | 471 | T336I (ACC→ATC) | ybaL | inner membrane putative NAD(P)‑binding transporter |
| * | NC_000913 | 3,179,383 | 0 | G | A | 54.5% | 114.9 / inf | 493 | K423K (AAG→AAA) | tolC | transport channel |
| * | NC_000913 | 4,185,777 | 0 | C | T | 54.5% | 121.0 / inf | 571 | S143F (TCC→TTC) | rpoC | RNA polymerase, beta prime subunit |
| * | NC_000913 | 4,570,550 | 0 | C | T | 54.4% | 99.5 / inf | 528 | S342N (AGC→AAC) | yjiR | putative DNA‑binding transcriptional regulator/putative aminotransferase |
| 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 | = 1673531 | 28 (0.050) | 211 (0.410) | 148/300 | 3.0 | 64.7% | intergenic (‑30/‑382) | mdtJ/tqsA | multidrug efflux system transporter/pheromone AI‑2 transporter |
| ? | NC_000913 | 1676567 = | 202 (0.390) | coding (1337/1533 nt) | pntA | pyridine nucleotide transhydrogenase, alpha subunit | |||||
| * | ? | NC_000913 | = 275149 | NA (NA) | 216 (0.420) | 147/300 | 3.1 | 44.9% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 1091173 = | 265 (0.510) | coding (1117/2424 nt) | pgaA | biofilm adhesin polysaccharide PGA secretin; OM porin; poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine export protein | |||||
| * | ? | NC_000913 | 273955 = | NA (NA) | 217 (0.420) | 147/300 | 3.1 | 45.2% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 1091176 | 263 (0.510) | coding (1114/2424 nt) | pgaA | biofilm adhesin polysaccharide PGA secretin; OM porin; poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine export protein | |||||
| * | ? | NC_000913 | 2413601 = | 335 (0.650) | 211 (0.410) | 144/300 | 3.3 | 38.6% | coding (132/1203 nt) | ackA | acetate kinase A and propionate kinase 2 |
| ? | NC_000913 | 3583428 = | NA (NA) | noncoding (1/768 nt) | IS1 | repeat region | |||||
| * | ? | NC_000913 | = 275149 | NA (NA) | 271 (0.530) | 143/300 | 3.4 | 49.4% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 889492 | 278 (0.540) | coding (328/1686 nt) | ybjL | putative transporter | |||||
| * | ? | NC_000913 | 1978503 = | NA (NA) | 211 (0.410) | 140/300 | 3.6 | 39.5% | noncoding (768/768 nt) | IS1 | repeat region |
| ? | NC_000913 | = 2413609 | 323 (0.630) | coding (140/1203 nt) | ackA | acetate kinase A and propionate kinase 2 | |||||
| * | ? | NC_000913 | = 1050545 | NA (NA) | 210 (0.410) | 139/300 | 3.7 | 39.4% | noncoding (768/768 nt) | IS1 | repeat region |
| ? | NC_000913 | = 2413609 | 323 (0.630) | coding (140/1203 nt) | ackA | acetate kinase A and propionate kinase 2 | |||||
| * | ? | NC_000913 | = 2174362 | 253 (0.490) | 216 (0.420) | 138/300 | 3.8 | 46.1% | coding (205/285 nt) | gatB | galactitol‑specific enzyme IIB component of PTS |
| ? | NC_000913 | = 2290113 | NA (NA) | noncoding (1/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 1399593 | 266 (0.520) | 202 (0.400) | 136/298 | 3.8 | 43.2% | 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 | 1399590 = | 259 (0.500) | 219 (0.430) | 138/300 | 3.8 | 45.8% | 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 | |||||