miRNA display CGI


Results 1 - 20 of 75 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
11404 3' -62.8 NC_003085.1 + 48653 1.07 0.000261
Target:  5'- cUGCGGCGGCACGCGGACGUCCACCGUg -3'
miRNA:   3'- -ACGCCGCCGUGCGCCUGCAGGUGGCA- -5'
11404 3' -62.8 NC_003085.1 + 7923 0.77 0.053317
Target:  5'- cGCGGCGGCA-GCaGACGucacUCCACCGg -3'
miRNA:   3'- aCGCCGCCGUgCGcCUGC----AGGUGGCa -5'
11404 3' -62.8 NC_003085.1 + 13911 0.72 0.11797
Target:  5'- gUGCGGCGuGCGCGCguuucGGACGgggcgCgCGCCGa -3'
miRNA:   3'- -ACGCCGC-CGUGCG-----CCUGCa----G-GUGGCa -5'
11404 3' -62.8 NC_003085.1 + 23020 0.72 0.121175
Target:  5'- --aGGCGGUACau-GACGUCCACCGUg -3'
miRNA:   3'- acgCCGCCGUGcgcCUGCAGGUGGCA- -5'
11404 3' -62.8 NC_003085.1 + 288 0.72 0.121175
Target:  5'- aGCGGCGGCAgGacCGGGCGgCCuCCGa -3'
miRNA:   3'- aCGCCGCCGUgC--GCCUGCaGGuGGCa -5'
11404 3' -62.8 NC_003085.1 + 8973 0.72 0.121175
Target:  5'- gGCcGCGGCcCGCGGAC-UUCACCGg -3'
miRNA:   3'- aCGcCGCCGuGCGCCUGcAGGUGGCa -5'
11404 3' -62.8 NC_003085.1 + 42714 0.72 0.134105
Target:  5'- aGCGGCGGCaccucagGCGUGGGCGUCggggcgaugcgggCGCgGUg -3'
miRNA:   3'- aCGCCGCCG-------UGCGCCUGCAG-------------GUGgCA- -5'
11404 3' -62.8 NC_003085.1 + 45359 0.71 0.138079
Target:  5'- cGCGGCgcccaacuccagcGGCGagUGCGGGCGcUCCACCa- -3'
miRNA:   3'- aCGCCG-------------CCGU--GCGCCUGC-AGGUGGca -5'
11404 3' -62.8 NC_003085.1 + 9509 0.71 0.149865
Target:  5'- -aUGGCGGCGCGCGG-CGggUCAUCGg -3'
miRNA:   3'- acGCCGCCGUGCGCCuGCa-GGUGGCa -5'
11404 3' -62.8 NC_003085.1 + 12292 0.71 0.149865
Target:  5'- cGCGaCGGC--GCGGugGUCCGCUGg -3'
miRNA:   3'- aCGCcGCCGugCGCCugCAGGUGGCa -5'
11404 3' -62.8 NC_003085.1 + 11373 0.71 0.162136
Target:  5'- gGUGGCGGCGC-CGGACaccugcgCUGCCGUc -3'
miRNA:   3'- aCGCCGCCGUGcGCCUGca-----GGUGGCA- -5'
11404 3' -62.8 NC_003085.1 + 48565 0.71 0.162136
Target:  5'- aGCGGguUGGCACGggaugccccuCGGACG-CCACCGc -3'
miRNA:   3'- aCGCC--GCCGUGC----------GCCUGCaGGUGGCa -5'
11404 3' -62.8 NC_003085.1 + 32140 0.7 0.17851
Target:  5'- gGgGGCGGCugGUGGcgcgguggguuacgGCGUCgGCCa- -3'
miRNA:   3'- aCgCCGCCGugCGCC--------------UGCAGgUGGca -5'
11404 3' -62.8 NC_003085.1 + 25448 0.7 0.1799
Target:  5'- aGCGGCGGC-CGguuucugGGugGUCgGCCGc -3'
miRNA:   3'- aCGCCGCCGuGCg------CCugCAGgUGGCa -5'
11404 3' -62.8 NC_003085.1 + 38061 0.7 0.1799
Target:  5'- cGCGGCGGUGCgucagccgGCGGuaGCGcUCCACCc- -3'
miRNA:   3'- aCGCCGCCGUG--------CGCC--UGC-AGGUGGca -5'
11404 3' -62.8 NC_003085.1 + 27678 0.7 0.184603
Target:  5'- gGCGGCGacguGCugGUgcugucgcgucuGGGCGUCCGCCc- -3'
miRNA:   3'- aCGCCGC----CGugCG------------CCUGCAGGUGGca -5'
11404 3' -62.8 NC_003085.1 + 47379 0.7 0.189414
Target:  5'- gUGCGGCGGCuGCGCucgucGCGUC-ACCGUc -3'
miRNA:   3'- -ACGCCGCCG-UGCGcc---UGCAGgUGGCA- -5'
11404 3' -62.8 NC_003085.1 + 20541 0.69 0.199368
Target:  5'- uUGgGGCGGUugGCcuGCGUCUGCUGg -3'
miRNA:   3'- -ACgCCGCCGugCGccUGCAGGUGGCa -5'
11404 3' -62.8 NC_003085.1 + 48516 0.69 0.204514
Target:  5'- aGCGGCcugucuGGCACcCGGACG-CgGCCGa -3'
miRNA:   3'- aCGCCG------CCGUGcGCCUGCaGgUGGCa -5'
11404 3' -62.8 NC_003085.1 + 39665 0.69 0.206605
Target:  5'- aGCGGCGcGCGCGUGagcagcagcaGGCGcuggaggcucgucucUCCGCCGUu -3'
miRNA:   3'- aCGCCGC-CGUGCGC----------CUGC---------------AGGUGGCA- -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.