miRNA display CGI


Results 1 - 20 of 29 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
7366 3' -58.8 NC_001900.1 + 30057 0.66 0.548183
Target:  5'- uGGUuacCUCCugguggaUGUCaagcucGGCCCACGACCg -3'
miRNA:   3'- gCCA---GAGGug-----GCAGc-----UCGGGUGCUGG- -5'
7366 3' -58.8 NC_001900.1 + 33816 0.66 0.548183
Target:  5'- aGGUgUCCuuCGUCGGGaUCuCGACCa -3'
miRNA:   3'- gCCAgAGGugGCAGCUCgGGuGCUGG- -5'
7366 3' -58.8 NC_001900.1 + 6986 0.66 0.548183
Target:  5'- aCGGgCUCCACCacGUCaccGGCCCguacaACGACg -3'
miRNA:   3'- -GCCaGAGGUGG--CAGc--UCGGG-----UGCUGg -5'
7366 3' -58.8 NC_001900.1 + 44061 0.66 0.548183
Target:  5'- cCGGcCcccgCCGCCGUgcugGAGCCCgACGAgCa -3'
miRNA:   3'- -GCCaGa---GGUGGCAg---CUCGGG-UGCUgG- -5'
7366 3' -58.8 NC_001900.1 + 7453 0.66 0.527529
Target:  5'- uCGGUgCUCCA---UCGAGCCCGacACCg -3'
miRNA:   3'- -GCCA-GAGGUggcAGCUCGGGUgcUGG- -5'
7366 3' -58.8 NC_001900.1 + 29677 0.66 0.527529
Target:  5'- cCGGgauaCGCCuuGUCGAacccGUCCACGACCu -3'
miRNA:   3'- -GCCagagGUGG--CAGCU----CGGGUGCUGG- -5'
7366 3' -58.8 NC_001900.1 + 28118 0.66 0.527529
Target:  5'- aGGUCUCC-UUGUCGAGUUguCGuuCCa -3'
miRNA:   3'- gCCAGAGGuGGCAGCUCGGguGCu-GG- -5'
7366 3' -58.8 NC_001900.1 + 6502 0.66 0.51731
Target:  5'- gCGGUCccCCAgC-UCG-GCCCGCuGGCCa -3'
miRNA:   3'- -GCCAGa-GGUgGcAGCuCGGGUG-CUGG- -5'
7366 3' -58.8 NC_001900.1 + 33778 0.67 0.507171
Target:  5'- gGcGUCUCgGCCGaacCGuGCggCCACGGCCu -3'
miRNA:   3'- gC-CAGAGgUGGCa--GCuCG--GGUGCUGG- -5'
7366 3' -58.8 NC_001900.1 + 15758 0.67 0.497117
Target:  5'- gGGaUCUCCgaagaugugACCGUCGAGCUgAa-GCCg -3'
miRNA:   3'- gCC-AGAGG---------UGGCAGCUCGGgUgcUGG- -5'
7366 3' -58.8 NC_001900.1 + 18201 0.67 0.497117
Target:  5'- aGGUCUCCGacuUCGUCGgacAGCuCCcCGGCa -3'
miRNA:   3'- gCCAGAGGU---GGCAGC---UCG-GGuGCUGg -5'
7366 3' -58.8 NC_001900.1 + 6274 0.67 0.487154
Target:  5'- aCGGcagaUCCA-CGUCGGGCUggacgccuggCACGACCu -3'
miRNA:   3'- -GCCag--AGGUgGCAGCUCGG----------GUGCUGG- -5'
7366 3' -58.8 NC_001900.1 + 39396 0.67 0.467519
Target:  5'- gGGUCUCCcaGCuCGUUGAGCU-GCGAgCa -3'
miRNA:   3'- gCCAGAGG--UG-GCAGCUCGGgUGCUgG- -5'
7366 3' -58.8 NC_001900.1 + 21069 0.68 0.448299
Target:  5'- aGGgCUCCGCaCGUCGuguucgaagagGGgCCACuGACCg -3'
miRNA:   3'- gCCaGAGGUG-GCAGC-----------UCgGGUG-CUGG- -5'
7366 3' -58.8 NC_001900.1 + 25459 0.68 0.445454
Target:  5'- uGGUCgUCgCACCGgccUGAGCcgccagcguggcucCCACGGCCc -3'
miRNA:   3'- gCCAG-AG-GUGGCa--GCUCG--------------GGUGCUGG- -5'
7366 3' -58.8 NC_001900.1 + 46488 0.68 0.429525
Target:  5'- uGaGUUcCCGCCGUCGGGCUacgcccucaGCGGCUg -3'
miRNA:   3'- gC-CAGaGGUGGCAGCUCGGg--------UGCUGG- -5'
7366 3' -58.8 NC_001900.1 + 20793 0.68 0.429525
Target:  5'- gGGUCUCCACg---GAGCCCucccgGACCu -3'
miRNA:   3'- gCCAGAGGUGgcagCUCGGGug---CUGG- -5'
7366 3' -58.8 NC_001900.1 + 45020 0.68 0.420313
Target:  5'- gCGGUCa-CGCCGUCGAucGUgaACGGCCa -3'
miRNA:   3'- -GCCAGagGUGGCAGCU--CGggUGCUGG- -5'
7366 3' -58.8 NC_001900.1 + 45255 0.68 0.420313
Target:  5'- aGuUCUugaCCGCCGUCGAGgUCACG-CCg -3'
miRNA:   3'- gCcAGA---GGUGGCAGCUCgGGUGCuGG- -5'
7366 3' -58.8 NC_001900.1 + 6404 0.68 0.411222
Target:  5'- aGGUCaCCAggggCGUCGAGCaggugcUCGCGGCCa -3'
miRNA:   3'- gCCAGaGGUg---GCAGCUCG------GGUGCUGG- -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.