miRNA display CGI


Results 1 - 20 of 38 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
16380 3' -54.5 NC_004084.1 + 22566 0.66 0.811903
Target:  5'- -aCGA-GCAuguCCcCGGCGUcgccggggucGGCGGCCg -3'
miRNA:   3'- caGCUaUGUu--GGaGCCGCA----------CCGCUGG- -5'
16380 3' -54.5 NC_004084.1 + 46968 0.71 0.506482
Target:  5'- ----cUGCAGCCgccggGGCGUGGCGGCa -3'
miRNA:   3'- cagcuAUGUUGGag---CCGCACCGCUGg -5'
16380 3' -54.5 NC_004084.1 + 46412 0.68 0.667955
Target:  5'- cGUCG-UACGA-CUCGGCGaaGGUGACa -3'
miRNA:   3'- -CAGCuAUGUUgGAGCCGCa-CCGCUGg -5'
16380 3' -54.5 NC_004084.1 + 8721 0.68 0.667955
Target:  5'- -gCGAggacUACAGCCUCGGUGUucuCGAUCg -3'
miRNA:   3'- caGCU----AUGUUGGAGCCGCAcc-GCUGG- -5'
16380 3' -54.5 NC_004084.1 + 2231 0.67 0.742623
Target:  5'- -gUGAUGaaguCCUCGGuCGUcuGGUGACCu -3'
miRNA:   3'- caGCUAUguu-GGAGCC-GCA--CCGCUGG- -5'
16380 3' -54.5 NC_004084.1 + 52370 0.66 0.770192
Target:  5'- gGUCGAUGCGauuccgcgaccagcGCCggGGUuccUGGCGAUCg -3'
miRNA:   3'- -CAGCUAUGU--------------UGGagCCGc--ACCGCUGG- -5'
16380 3' -54.5 NC_004084.1 + 28184 0.72 0.4308
Target:  5'- cGUCGAgGCGcaccccgaaccguugACCgUCGGCGaGGUGGCCg -3'
miRNA:   3'- -CAGCUaUGU---------------UGG-AGCCGCaCCGCUGG- -5'
16380 3' -54.5 NC_004084.1 + 1978 0.69 0.6134
Target:  5'- uGUCGGU-CGGCCccauccccgacUUGGCGUGGCaGuCCa -3'
miRNA:   3'- -CAGCUAuGUUGG-----------AGCCGCACCG-CuGG- -5'
16380 3' -54.5 NC_004084.1 + 45602 0.67 0.742623
Target:  5'- aUCccgGCGuCCUCGGaGUGGcCGACCg -3'
miRNA:   3'- cAGcuaUGUuGGAGCCgCACC-GCUGG- -5'
16380 3' -54.5 NC_004084.1 + 3245 0.66 0.772197
Target:  5'- cGUCGAcgacgucUACggUCggCGGCGUGuaGAUCg -3'
miRNA:   3'- -CAGCU-------AUGuuGGa-GCCGCACcgCUGG- -5'
16380 3' -54.5 NC_004084.1 + 35938 0.66 0.809095
Target:  5'- uUCGAUGuucgacucggcguuCGGCCgaUCGGCGUcuggGGgGGCCu -3'
miRNA:   3'- cAGCUAU--------------GUUGG--AGCCGCA----CCgCUGG- -5'
16380 3' -54.5 NC_004084.1 + 20691 0.73 0.398239
Target:  5'- aUCGAUGCGgugACCUCGGUcUGGCccuccuggaggauGACCu -3'
miRNA:   3'- cAGCUAUGU---UGGAGCCGcACCG-------------CUGG- -5'
16380 3' -54.5 NC_004084.1 + 11719 0.66 0.80627
Target:  5'- cGUCGAcgugcuguacugguuUACuucACCgaacUCGGCGUccGGCGGCUc -3'
miRNA:   3'- -CAGCU---------------AUGu--UGG----AGCCGCA--CCGCUGG- -5'
16380 3' -54.5 NC_004084.1 + 47351 0.68 0.646161
Target:  5'- cGUCGu--CGACCUCGuaGUaGGCG-CCg -3'
miRNA:   3'- -CAGCuauGUUGGAGCcgCA-CCGCuGG- -5'
16380 3' -54.5 NC_004084.1 + 44670 0.74 0.363871
Target:  5'- cUCGGcgAUGACCUCuGCGUGGCaGCCa -3'
miRNA:   3'- cAGCUa-UGUUGGAGcCGCACCGcUGG- -5'
16380 3' -54.5 NC_004084.1 + 3137 0.71 0.496179
Target:  5'- cGUCGAcgaguuCCUCGaGgGUGGCGAUCa -3'
miRNA:   3'- -CAGCUauguu-GGAGC-CgCACCGCUGG- -5'
16380 3' -54.5 NC_004084.1 + 22281 0.67 0.742623
Target:  5'- aGUCGAgGCAacgcACCUC-GCGUucGGCGAUg -3'
miRNA:   3'- -CAGCUaUGU----UGGAGcCGCA--CCGCUGg -5'
16380 3' -54.5 NC_004084.1 + 32265 0.67 0.71106
Target:  5'- cGUCGAcugcccgccCAACCUgGGCGUGcucaccgacaacGCGAUCg -3'
miRNA:   3'- -CAGCUau-------GUUGGAgCCGCAC------------CGCUGG- -5'
16380 3' -54.5 NC_004084.1 + 53256 0.68 0.700371
Target:  5'- cGUCGAcgGCGacgagaucggGCCg-GGCGacguccUGGCGACCa -3'
miRNA:   3'- -CAGCUa-UGU----------UGGagCCGC------ACCGCUGG- -5'
16380 3' -54.5 NC_004084.1 + 21880 0.68 0.700371
Target:  5'- cGUCGAUACcguugucGCgaUCGGCGUcucGGuCGGCCu -3'
miRNA:   3'- -CAGCUAUGu------UGg-AGCCGCA---CC-GCUGG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.