Mercurial > repos > iuc > meme_psp_gen
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
| author | iuc | 
|---|---|
| date | Mon, 14 Jul 2025 21:32:53 +0000 | 
| parents | |
| children | 
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"options": { "mod": "zoops", "revcomp": false, "nmotifs": 1, "objfun": "E-value of product of p-values", "spfun": "E-value of product of p-values", "minw": 8, "maxw": 50, "minsites": 2, "maxsites": 30, "wnsites": 0.8, "spmap": "uni", "spfuzz": 0.5, "searchsize": 1500, "maxsize": 1000000, "norand": "no", "csites": 1000, "hsfrac": 0, "prior": "dirichlet", "b": 0.01, "maxiter": 50, "distance": 0.001, "wg": 11, "ws": 1, "noendgaps": false, "substring": true, "seed": 0, "brief": 1000 }, "alphabet": { "name": "DNA with covalent modifications", "like": "dna", "ncore": 16, "symbols": [ { "symbol": "A", "name": "Adenine", "colour": "8510A8", "complement": "T" }, { "symbol": "C", "name": "Cytosine", "colour": "A50026", "complement": "G" }, { "symbol": "G", "name": "Guanine", "colour": "313695", "complement": "C" }, { "symbol": "T", "name": "Thymine", "colour": "A89610", "complement": "A" }, { "symbol": "a", "name": "N6-methyladenine", "colour": "8510A8", "complement": "t" }, { "symbol": "c", "name": "5-Carboxylcytosine", "colour": "FEE090", "complement": "4" }, { "symbol": "f", "name": "5-Formylcytosine", "colour": "FDAE61", "complement": "3" }, { "symbol": "g", "name": "modified_g", "colour": "00897B", "complement": "5" }, { "symbol": "h", "name": "5-Hydroxymethylcytosine", "colour": "F46D43", "complement": "2" }, { "symbol": "m", "name": "5-Methylcytosine", "colour": "D73027", "complement": "1" }, { "symbol": "t", "name": "Thymine_lowercase", "colour": "756BB1", "complement": "a" }, { "symbol": "1", "name": "Guanine:5-Methylcytosine", "colour": "4575B4", "complement": "m" }, { "symbol": "2", "name": "Guanine:5-Hydroxymethylcytosine", "colour": "74ADD1", "complement": "h" }, { "symbol": "3", "name": "Guanine:5-Formylcytosine", "colour": "ABD9E9", "complement": "f" }, { "symbol": "4", "name": "Guanine:5-Carboxylcytosine", "colour": "E0F3F8", "complement": "c" }, { "symbol": "5", "name": "cytosine_lowercase", "colour": "53698A", "complement": "g" }, { "symbol": "?", "equals": "ACGTacfghmt12345" } ] }, "background": { "source": "--sequences--", "order": 0, "freqs": [ 0.263, 0.2, 0.249, 0.189, 0.0297, 0.027, 0.00066, 0.00726, 0.00066, 0.00396, 0.0277, 0.00066, 0.00066, 0.00066, 0.00066, 0.00066 ] }, "sequence_db": { "primary_source": "Galaxy_FASTA_Input", "primary_count": 30, "primary_positions": 1500, "control_source": "--none--", "control_count": 0, "control_positions": 0, "freqs": [ 0.265, 0.201, 0.251, 0.19, 0.0293, 0.0267, 0, 0.00667, 0, 0.00333, 0.0273, 0, 0, 0, 0, 0 ], "sequences": [ { "name": "chr21_19617074_19617124_+", "length": 50, "weight": 1.000000 }, { "name": "chr21_26934381_26934431_+", "length": 50, "weight": 1.000000 }, { "name": "chr21_28217753_28217803_-", "length": 50, "weight": 1.000000 }, { "name": "chr21_31710037_31710087_-", "length": 50, "weight": 1.000000 }, { "name": "chr21_31744582_31744632_-", "length": 50, "weight": 1.000000 }, { "name": "chr21_31768316_31768366_+", "length": 50, "weight": 1.000000 }, { "name": "chr21_31914206_31914256_-", "length": 50, "weight": 1.000000 }, { "name": "chr21_31933633_31933683_-", "length": 50, "weight": 1.000000 }, { "name": "chr21_31962741_31962791_-", "length": 50, "weight": 1.000000 }, { "name": "chr21_31964683_31964733_+", "length": 50, "weight": 1.000000 }, { "name": "chr21_31973364_31973414_+", "length": 50, "weight": 1.000000 }, { "name": "chr21_31992870_31992920_+", "length": 50, "weight": 1.000000 }, { "name": "chr21_32185595_32185645_-", "length": 50, "weight": 1.000000 }, { "name": "chr21_32202076_32202126_-", "length": 50, "weight": 1.000000 }, { "name": "chr21_32253899_32253949_-", "length": 50, "weight": 1.000000 }, { "name": "chr21_32410820_32410870_-", "length": 50, "weight": 1.000000 }, { "name": "chr21_36411748_36411798_-", "length": 50, "weight": 1.000000 }, { "name": "chr21_37838750_37838800_-", "length": 50, "weight": 1.000000 }, { "name": "chr21_45705687_45705737_+", "length": 50, "weight": 1.000000 }, { "name": "chr21_45971413_45971463_-", "length": 50, "weight": 1.000000 }, { "name": "chr21_45978668_45978718_-", "length": 50, "weight": 1.000000 }, { "name": "chr21_45993530_45993580_+", "length": 50, "weight": 1.000000 }, { "name": "chr21_46020421_46020471_+", "length": 50, "weight": 1.000000 }, { "name": "chr21_46031920_46031970_+", "length": 50, "weight": 1.000000 }, { "name": "chr21_46046964_46047014_+", "length": 50, "weight": 1.000000 }, { "name": "chr21_46057197_46057247_+", "length": 50, "weight": 1.000000 }, { "name": "chr21_46086869_46086919_-", "length": 50, "weight": 1.000000 }, { "name": "chr21_46102103_46102153_-", "length": 50, "weight": 1.000000 }, { "name": "chr21_47517957_47518007_+", "length": 50, "weight": 1.000000 }, { "name": "chr21_47575506_47575556_-", "length": 50, "weight": 1.000000 } ] }, "motifs": [ { "db": 0, "id": "taCaaACAGtataactctcac", "alt": "MEME-1", "len": 21, "nsites": 5, "evalue": "4.6e-028", "ic": 55.7, "re": 68.0, "llr": 236, "bt": 7.73664,
