miRNA display CGI


Results 1 - 20 of 22 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
29127 3' -55.9 NC_006146.1 + 72537 0.66 0.902204
Target:  5'- aAGUCAgGUUGuauacguaGCCGCCaaUGGG-CGCCGg -3'
miRNA:   3'- -UCAGUaCAAC--------CGGUGG--ACCCaGUGGU- -5'
29127 3' -55.9 NC_006146.1 + 155896 0.67 0.882156
Target:  5'- aGGUCcgG-UGGCUucGCUUGGGUCuCCc -3'
miRNA:   3'- -UCAGuaCaACCGG--UGGACCCAGuGGu -5'
29127 3' -55.9 NC_006146.1 + 114157 0.67 0.882156
Target:  5'- cAGgcgCAUGcUGGCC-CUgggcagcaGGGUCACCAu -3'
miRNA:   3'- -UCa--GUACaACCGGuGGa-------CCCAGUGGU- -5'
29127 3' -55.9 NC_006146.1 + 143585 0.67 0.882156
Target:  5'- aGGUCcgG-UGGCUucGCUUGGGUCuCCc -3'
miRNA:   3'- -UCAGuaCaACCGG--UGGACCCAGuGGu -5'
29127 3' -55.9 NC_006146.1 + 146663 0.67 0.882156
Target:  5'- aGGUCcgG-UGGCUucGCUUGGGUCuCCc -3'
miRNA:   3'- -UCAGuaCaACCGG--UGGACCCAGuGGu -5'
29127 3' -55.9 NC_006146.1 + 152818 0.67 0.882156
Target:  5'- aGGUCcgG-UGGCUucGCUUGGGUCuCCc -3'
miRNA:   3'- -UCAGuaCaACCGG--UGGACCCAGuGGu -5'
29127 3' -55.9 NC_006146.1 + 149740 0.67 0.882156
Target:  5'- aGGUCcgG-UGGCUucGCUUGGGUCuCCc -3'
miRNA:   3'- -UCAGuaCaACCGG--UGGACCCAGuGGu -5'
29127 3' -55.9 NC_006146.1 + 157620 0.67 0.875022
Target:  5'- uAGUCGcgGgcGGgcaCCGCCUGGGUCuugggcACCAg -3'
miRNA:   3'- -UCAGUa-CaaCC---GGUGGACCCAG------UGGU- -5'
29127 3' -55.9 NC_006146.1 + 33107 0.67 0.86767
Target:  5'- cAGcCGgg-UGGCCGCCggcGGGuUCGCCGg -3'
miRNA:   3'- -UCaGUacaACCGGUGGa--CCC-AGUGGU- -5'
29127 3' -55.9 NC_006146.1 + 116091 0.67 0.86767
Target:  5'- uGGUgCAUGguggcGGCCACCcgaGGGUCcCCGu -3'
miRNA:   3'- -UCA-GUACaa---CCGGUGGa--CCCAGuGGU- -5'
29127 3' -55.9 NC_006146.1 + 33231 0.67 0.86767
Target:  5'- cAGcCGgg-UGGCCGCCggcGGGUcCGCCGg -3'
miRNA:   3'- -UCaGUacaACCGGUGGa--CCCA-GUGGU- -5'
29127 3' -55.9 NC_006146.1 + 87217 0.68 0.8362
Target:  5'- ---gGUGgcGGCCgcagccaucACCUGGGUgGCCAa -3'
miRNA:   3'- ucagUACaaCCGG---------UGGACCCAgUGGU- -5'
29127 3' -55.9 NC_006146.1 + 26192 0.68 0.8362
Target:  5'- aGGUCGgaGggGGCgGCCUGGGa-ACCAa -3'
miRNA:   3'- -UCAGUa-CaaCCGgUGGACCCagUGGU- -5'
29127 3' -55.9 NC_006146.1 + 33353 0.68 0.827849
Target:  5'- cAGcCGgg-UGGCCGCCggUGGGUcCGCCGg -3'
miRNA:   3'- -UCaGUacaACCGGUGG--ACCCA-GUGGU- -5'
29127 3' -55.9 NC_006146.1 + 153781 0.68 0.825309
Target:  5'- cGUCAUGUUGGUgacgaagcuggaugUGCCcucuUGGGUCACa- -3'
miRNA:   3'- uCAGUACAACCG--------------GUGG----ACCCAGUGgu -5'
29127 3' -55.9 NC_006146.1 + 33399 0.69 0.783578
Target:  5'- gGGUgGggggUGGcCCGCCUGGG-CACCGc -3'
miRNA:   3'- -UCAgUaca-ACC-GGUGGACCCaGUGGU- -5'
29127 3' -55.9 NC_006146.1 + 81785 0.7 0.745656
Target:  5'- cGGUCuccgGggGuGCCACCUGGGgcagUGCCGg -3'
miRNA:   3'- -UCAGua--CaaC-CGGUGGACCCa---GUGGU- -5'
29127 3' -55.9 NC_006146.1 + 102159 0.7 0.716135
Target:  5'- ------cUUGGCCACCUGGGccucCACCAc -3'
miRNA:   3'- ucaguacAACCGGUGGACCCa---GUGGU- -5'
29127 3' -55.9 NC_006146.1 + 94640 0.72 0.634901
Target:  5'- gGGUcCAUGaUGGCCGcCCUGGGg-ACCAc -3'
miRNA:   3'- -UCA-GUACaACCGGU-GGACCCagUGGU- -5'
29127 3' -55.9 NC_006146.1 + 153688 0.72 0.624649
Target:  5'- gAGUCAUGguaagccaGGCC-CgaGGGUCACCu -3'
miRNA:   3'- -UCAGUACaa------CCGGuGgaCCCAGUGGu -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.