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
18060 5' -59.6 NC_004680.1 + 37847 0.66 0.501525
Target:  5'- gGGGCCGCacuccgugugUGGAgAucgaaguggucACCGGcaugacUGCCGCc -3'
miRNA:   3'- aCCCGGCGa---------ACCUgU-----------UGGCC------ACGGUG- -5'
18060 5' -59.6 NC_004680.1 + 41053 0.66 0.501525
Target:  5'- uUGGGgUGCggcUGGAUgAGCUuGUGCCGCu -3'
miRNA:   3'- -ACCCgGCGa--ACCUG-UUGGcCACGGUG- -5'
18060 5' -59.6 NC_004680.1 + 31407 0.66 0.501525
Target:  5'- cGuGGCCGCgUGGAgGGagcaCGGUcacuaguucgGCCACg -3'
miRNA:   3'- aC-CCGGCGaACCUgUUg---GCCA----------CGGUG- -5'
18060 5' -59.6 NC_004680.1 + 25780 0.66 0.498489
Target:  5'- gGGGCCuguggcgcaggcguGUUUGuaGAUgaGGCCGGUGCCGg -3'
miRNA:   3'- aCCCGG--------------CGAAC--CUG--UUGGCCACGGUg -5'
18060 5' -59.6 NC_004680.1 + 28269 0.66 0.481441
Target:  5'- cGGGCCGggUGuccACGACCG--GCCGCg -3'
miRNA:   3'- aCCCGGCgaACc--UGUUGGCcaCGGUG- -5'
18060 5' -59.6 NC_004680.1 + 28386 0.66 0.471546
Target:  5'- aUGGuGCUGC-UGGGUAGCCgaugGGuUGCCACa -3'
miRNA:   3'- -ACC-CGGCGaACCUGUUGG----CC-ACGGUG- -5'
18060 5' -59.6 NC_004680.1 + 2833 0.66 0.471546
Target:  5'- gUGGGuuCCGgUUGGugAugcuguagugACCGGUucGCCGCc -3'
miRNA:   3'- -ACCC--GGCgAACCugU----------UGGCCA--CGGUG- -5'
18060 5' -59.6 NC_004680.1 + 24868 0.66 0.452073
Target:  5'- cGGG-CGCccccggagUGGAUAACacuaguggCGGUGCCGCc -3'
miRNA:   3'- aCCCgGCGa-------ACCUGUUG--------GCCACGGUG- -5'
18060 5' -59.6 NC_004680.1 + 14130 0.67 0.414496
Target:  5'- gGGGCaucggGUUUGGuauGCAgGCCGGUGgCGCg -3'
miRNA:   3'- aCCCGg----CGAACC---UGU-UGGCCACgGUG- -5'
18060 5' -59.6 NC_004680.1 + 51809 0.67 0.414496
Target:  5'- cGGGCCGCggUGuucGCAAuagccaaugcucUCGGUGCUGCg -3'
miRNA:   3'- aCCCGGCGa-ACc--UGUU------------GGCCACGGUG- -5'
18060 5' -59.6 NC_004680.1 + 53704 0.67 0.414496
Target:  5'- cGGGCgaUGgUUGGAgguacgccuuugUAGCCGGguUGCCACa -3'
miRNA:   3'- aCCCG--GCgAACCU------------GUUGGCC--ACGGUG- -5'
18060 5' -59.6 NC_004680.1 + 5904 0.67 0.396441
Target:  5'- cUGcGG-CGCUUGGAUuGCCGaGcGCCGCa -3'
miRNA:   3'- -AC-CCgGCGAACCUGuUGGC-CaCGGUG- -5'
18060 5' -59.6 NC_004680.1 + 36171 0.68 0.378901
Target:  5'- aGGGCgGCgaGGACcGCUGGUcuGCuCGCu -3'
miRNA:   3'- aCCCGgCGaaCCUGuUGGCCA--CG-GUG- -5'
18060 5' -59.6 NC_004680.1 + 14936 0.68 0.370328
Target:  5'- gGGGUCGCcggacUGGAgGGCCGauUGCCAUg -3'
miRNA:   3'- aCCCGGCGa----ACCUgUUGGCc-ACGGUG- -5'
18060 5' -59.6 NC_004680.1 + 12527 0.68 0.354408
Target:  5'- cGGGCCGCcgccaccaccgguggUGGGCAGCgGG-GCUg- -3'
miRNA:   3'- aCCCGGCGa--------------ACCUGUUGgCCaCGGug -5'
18060 5' -59.6 NC_004680.1 + 14181 0.69 0.329486
Target:  5'- cGGGCCGaguucACuACCGGUGCCGg -3'
miRNA:   3'- aCCCGGCgaaccUGuUGGCCACGGUg -5'
18060 5' -59.6 NC_004680.1 + 13143 0.69 0.306622
Target:  5'- aUGGGCgGCcUGGcggucccCGACCGGaccGCCGCa -3'
miRNA:   3'- -ACCCGgCGaACCu------GUUGGCCa--CGGUG- -5'
18060 5' -59.6 NC_004680.1 + 11189 0.71 0.25165
Target:  5'- -cGGCCGCggcguucugcUUGGGC-GCCGGgGCCGCc -3'
miRNA:   3'- acCCGGCG----------AACCUGuUGGCCaCGGUG- -5'
18060 5' -59.6 NC_004680.1 + 12314 0.71 0.25165
Target:  5'- gUGGGgCGg--GGGCGACCgccgcuucgGGUGCCGCg -3'
miRNA:   3'- -ACCCgGCgaaCCUGUUGG---------CCACGGUG- -5'
18060 5' -59.6 NC_004680.1 + 23081 0.74 0.149254
Target:  5'- cUGGcGCCGC-UGGcACGACCGGggcgaaugaaGCCACg -3'
miRNA:   3'- -ACC-CGGCGaACC-UGUUGGCCa---------CGGUG- -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.