miRNA display CGI


Results 1 - 20 of 26 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
19152 3' -56.5 NC_004684.1 + 31880 0.66 0.741595
Target:  5'- cGCCGacgUGCUGGugGACgcCGGGa- -3'
miRNA:   3'- -CGGCccaACGACCugCUGauGCUCca -5'
19152 3' -56.5 NC_004684.1 + 8482 0.66 0.731357
Target:  5'- gGCgGGGUgggGCggGGACGGCga-GAcGGUg -3'
miRNA:   3'- -CGgCCCAa--CGa-CCUGCUGaugCU-CCA- -5'
19152 3' -56.5 NC_004684.1 + 14384 0.66 0.721026
Target:  5'- cGCUGGuGgcGCUGGACGACgguUACucGGc -3'
miRNA:   3'- -CGGCC-CaaCGACCUGCUG---AUGcuCCa -5'
19152 3' -56.5 NC_004684.1 + 27541 0.66 0.71061
Target:  5'- aGCCGcc-UGCUGGAgcuaauCGACUAgGAGGc -3'
miRNA:   3'- -CGGCccaACGACCU------GCUGAUgCUCCa -5'
19152 3' -56.5 NC_004684.1 + 67296 0.66 0.700122
Target:  5'- cGCCGGGcgaGCUGccaaacggcGAUGACUugguCGAGGc -3'
miRNA:   3'- -CGGCCCaa-CGAC---------CUGCUGAu---GCUCCa -5'
19152 3' -56.5 NC_004684.1 + 21433 0.66 0.700122
Target:  5'- -aCGGuuccgUGCUGGACGACgacggaGAGGa -3'
miRNA:   3'- cgGCCca---ACGACCUGCUGaug---CUCCa -5'
19152 3' -56.5 NC_004684.1 + 31655 0.67 0.678968
Target:  5'- cGCCGGGacGCUGGcacuguCGGCggUGCG-GGUg -3'
miRNA:   3'- -CGGCCCaaCGACCu-----GCUG--AUGCuCCA- -5'
19152 3' -56.5 NC_004684.1 + 7334 0.67 0.668323
Target:  5'- cGCCGGGccGCgcgccACGAgUGCGAGGc -3'
miRNA:   3'- -CGGCCCaaCGacc--UGCUgAUGCUCCa -5'
19152 3' -56.5 NC_004684.1 + 6860 0.67 0.657645
Target:  5'- cGCCGuGGUggUGCUGcACuGGCUcugggGCGAGGUc -3'
miRNA:   3'- -CGGC-CCA--ACGACcUG-CUGA-----UGCUCCA- -5'
19152 3' -56.5 NC_004684.1 + 39147 0.67 0.657645
Target:  5'- gGCCGGGUccaccgcgcugUGCUccgGGugGGCgGCcAGGUa -3'
miRNA:   3'- -CGGCCCA-----------ACGA---CCugCUGaUGcUCCA- -5'
19152 3' -56.5 NC_004684.1 + 7567 0.67 0.625515
Target:  5'- cCCGGGUggcGCUGGuGCGGCUgguGCGcGGc -3'
miRNA:   3'- cGGCCCAa--CGACC-UGCUGA---UGCuCCa -5'
19152 3' -56.5 NC_004684.1 + 62798 0.68 0.593434
Target:  5'- gGCgGGGUUGCcGGGCag--GCGGGGg -3'
miRNA:   3'- -CGgCCCAACGaCCUGcugaUGCUCCa -5'
19152 3' -56.5 NC_004684.1 + 27129 0.69 0.557422
Target:  5'- uGCCGGGacgcugaucgacgUGCUGGGCGauucgaucaccaGCUACGGcGGc -3'
miRNA:   3'- -CGGCCCa------------ACGACCUGC------------UGAUGCU-CCa -5'
19152 3' -56.5 NC_004684.1 + 15344 0.69 0.544853
Target:  5'- cGCCGGGUUcaagaccauucaGGAUGGCUACGAGa- -3'
miRNA:   3'- -CGGCCCAAcga---------CCUGCUGAUGCUCca -5'
19152 3' -56.5 NC_004684.1 + 10624 0.69 0.520006
Target:  5'- uGCCGuauGGgcgUGCUGGcCGAggACGAGGa -3'
miRNA:   3'- -CGGC---CCa--ACGACCuGCUgaUGCUCCa -5'
19152 3' -56.5 NC_004684.1 + 4944 0.69 0.509783
Target:  5'- cCCGGagcGCUGGcAgGACUACGAGGc -3'
miRNA:   3'- cGGCCcaaCGACC-UgCUGAUGCUCCa -5'
19152 3' -56.5 NC_004684.1 + 40706 0.7 0.489599
Target:  5'- aGCUGGGcgGCgguggccgGGACGACcagcgcgGCGGGGg -3'
miRNA:   3'- -CGGCCCaaCGa-------CCUGCUGa------UGCUCCa -5'
19152 3' -56.5 NC_004684.1 + 36935 0.7 0.489599
Target:  5'- gGCCGGGUggacacgccUGCUGGugGuCaACGAcGGc -3'
miRNA:   3'- -CGGCCCA---------ACGACCugCuGaUGCU-CCa -5'
19152 3' -56.5 NC_004684.1 + 873 0.7 0.489599
Target:  5'- cGCCGGGccgcGCUGaaGGCGGCccGCGAGGc -3'
miRNA:   3'- -CGGCCCaa--CGAC--CUGCUGa-UGCUCCa -5'
19152 3' -56.5 NC_004684.1 + 17872 0.7 0.479647
Target:  5'- cGCCGGGUgcacGCUGGGCcGCUACa---- -3'
miRNA:   3'- -CGGCCCAa---CGACCUGcUGAUGcucca -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.