miRNA display CGI


Results 1 - 20 of 27 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
11595 3' -55.7 NC_003085.1 + 30067 0.66 0.68209
Target:  5'- uGGGCCUuGCUgggGUACc-GGcCCACGCg -3'
miRNA:   3'- gCCCGGAcUGA---CGUGuaUCaGGUGCG- -5'
11595 3' -55.7 NC_003085.1 + 42395 0.66 0.68209
Target:  5'- gGGGCC--ACUGaagaGCAUGGgccuUUCGCGCg -3'
miRNA:   3'- gCCCGGacUGACg---UGUAUC----AGGUGCG- -5'
11595 3' -55.7 NC_003085.1 + 14273 0.66 0.660085
Target:  5'- uGcGGCCaGGCUGCugcCGUcaAGcgCCGCGCa -3'
miRNA:   3'- gC-CCGGaCUGACGu--GUA--UCa-GGUGCG- -5'
11595 3' -55.7 NC_003085.1 + 8884 0.66 0.649037
Target:  5'- -cGGCaauGCUGCACuuggGGUCCACcGCg -3'
miRNA:   3'- gcCCGgacUGACGUGua--UCAGGUG-CG- -5'
11595 3' -55.7 NC_003085.1 + 38105 0.66 0.649037
Target:  5'- aCGGuGuCCUGGCUGaCGCcgAGUUCuucCGCc -3'
miRNA:   3'- -GCC-C-GGACUGAC-GUGuaUCAGGu--GCG- -5'
11595 3' -55.7 NC_003085.1 + 40507 0.66 0.637973
Target:  5'- cCGcGGCCcuUGGCccaGCGCAgguUGG-CCACGCg -3'
miRNA:   3'- -GC-CCGG--ACUGa--CGUGU---AUCaGGUGCG- -5'
11595 3' -55.7 NC_003085.1 + 20760 0.67 0.615841
Target:  5'- aGGGCCa-GC-GCGCAgc-UCCGCGCg -3'
miRNA:   3'- gCCCGGacUGaCGUGUaucAGGUGCG- -5'
11595 3' -55.7 NC_003085.1 + 42056 0.67 0.604791
Target:  5'- aGGGCCccagucgGACUcGUGCc-AGUUCACGCg -3'
miRNA:   3'- gCCCGGa------CUGA-CGUGuaUCAGGUGCG- -5'
11595 3' -55.7 NC_003085.1 + 6631 0.67 0.571821
Target:  5'- cCGGcGCCgGACgugaGCGCAaGGUgCugGCg -3'
miRNA:   3'- -GCC-CGGaCUGa---CGUGUaUCAgGugCG- -5'
11595 3' -55.7 NC_003085.1 + 12570 0.68 0.559832
Target:  5'- cCGGGCUgggacggUGgaccGCUGCuCGUGGUCCgacugACGCg -3'
miRNA:   3'- -GCCCGG-------AC----UGACGuGUAUCAGG-----UGCG- -5'
11595 3' -55.7 NC_003085.1 + 30974 0.68 0.554405
Target:  5'- -uGGCCgccuugaggacgggGGCUGCGaGUuugaAGUCCACGCg -3'
miRNA:   3'- gcCCGGa-------------CUGACGUgUA----UCAGGUGCG- -5'
11595 3' -55.7 NC_003085.1 + 47409 0.68 0.547914
Target:  5'- cCGGGCCuuggcauccauggUGACggGCACuUGGUggaacacaucgcgCCACGCc -3'
miRNA:   3'- -GCCCGG-------------ACUGa-CGUGuAUCA-------------GGUGCG- -5'
11595 3' -55.7 NC_003085.1 + 9564 0.68 0.5436
Target:  5'- uGGGCuuCUGcauggggugucuccuACUGCGgGUAGUCCcggACGCu -3'
miRNA:   3'- gCCCG--GAC---------------UGACGUgUAUCAGG---UGCG- -5'
11595 3' -55.7 NC_003085.1 + 46038 0.68 0.539297
Target:  5'- uGGGCU---CUGCGCA---UCCGCGCg -3'
miRNA:   3'- gCCCGGacuGACGUGUaucAGGUGCG- -5'
11595 3' -55.7 NC_003085.1 + 46950 0.68 0.538223
Target:  5'- gGGGCC-GACgcggGCACAccGUCCgucagccACGCc -3'
miRNA:   3'- gCCCGGaCUGa---CGUGUauCAGG-------UGCG- -5'
11595 3' -55.7 NC_003085.1 + 46995 0.68 0.536077
Target:  5'- -uGGCCacacuaugcgucagUGGCUGaCGCAUAGUCaagGCGCu -3'
miRNA:   3'- gcCCGG--------------ACUGAC-GUGUAUCAGg--UGCG- -5'
11595 3' -55.7 NC_003085.1 + 18181 0.68 0.517965
Target:  5'- uCGGGCU--AgUGCACAUuGUCCACa- -3'
miRNA:   3'- -GCCCGGacUgACGUGUAuCAGGUGcg -5'
11595 3' -55.7 NC_003085.1 + 7288 0.68 0.507425
Target:  5'- cCGaGG-CUGGCUGCgACGggagAGUCCAUGUc -3'
miRNA:   3'- -GC-CCgGACUGACG-UGUa---UCAGGUGCG- -5'
11595 3' -55.7 NC_003085.1 + 32173 0.69 0.496977
Target:  5'- -cGGCCaGGCUGCGCcaGUGGUggCGCGCg -3'
miRNA:   3'- gcCCGGaCUGACGUG--UAUCAg-GUGCG- -5'
11595 3' -55.7 NC_003085.1 + 23880 0.69 0.486627
Target:  5'- gGGGCgUGAgCgaacgGCAgCAgccGUCCACGCg -3'
miRNA:   3'- gCCCGgACU-Ga----CGU-GUau-CAGGUGCG- -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.