miRNA display CGI


Results 1 - 20 of 104 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
5399 3' -55.5 NC_001798.1 + 53838 0.66 0.932024
Target:  5'- cGCcgCCuGGGCCCCGcCGAucGCCGguucguggCGCu -3'
miRNA:   3'- -CGaaGG-CCCGGGGU-GCUu-UGGUa-------GUG- -5'
5399 3' -55.5 NC_001798.1 + 122016 0.66 0.926814
Target:  5'- gGCUccgCCaGGGCgCCCugGuccaccAGGCCGUCAg -3'
miRNA:   3'- -CGAa--GG-CCCG-GGGugC------UUUGGUAGUg -5'
5399 3' -55.5 NC_001798.1 + 91960 0.66 0.926814
Target:  5'- ---cCCGGGCCCCcccguccggcGCGAuccgguggcgGGCCAuucUCGCc -3'
miRNA:   3'- cgaaGGCCCGGGG----------UGCU----------UUGGU---AGUG- -5'
5399 3' -55.5 NC_001798.1 + 44037 0.66 0.926814
Target:  5'- gGC-UCCGGcGCCCCccaagcGCGGAGCCu---- -3'
miRNA:   3'- -CGaAGGCC-CGGGG------UGCUUUGGuagug -5'
5399 3' -55.5 NC_001798.1 + 75142 0.66 0.926814
Target:  5'- gGCgacgaCGGG-CCCGCGAGcCCGUCGu -3'
miRNA:   3'- -CGaag--GCCCgGGGUGCUUuGGUAGUg -5'
5399 3' -55.5 NC_001798.1 + 48095 0.66 0.926814
Target:  5'- ---aCCGaGCCCCACGgcGCCGUgGa -3'
miRNA:   3'- cgaaGGCcCGGGGUGCuuUGGUAgUg -5'
5399 3' -55.5 NC_001798.1 + 31210 0.66 0.926814
Target:  5'- cGCcccCUGGcGCCCCGCGGAGCagcaGCa -3'
miRNA:   3'- -CGaa-GGCC-CGGGGUGCUUUGguagUG- -5'
5399 3' -55.5 NC_001798.1 + 128303 0.66 0.925743
Target:  5'- cGCg-CCGcGCCCCcccguccgccgcCGAAGCCGUCGCc -3'
miRNA:   3'- -CGaaGGCcCGGGGu-----------GCUUUGGUAGUG- -5'
5399 3' -55.5 NC_001798.1 + 146652 0.66 0.921364
Target:  5'- gGCggCC-GGCCCCACGcccuuCCAUUAa -3'
miRNA:   3'- -CGaaGGcCCGGGGUGCuuu--GGUAGUg -5'
5399 3' -55.5 NC_001798.1 + 121339 0.66 0.915674
Target:  5'- ---cCCGGGCCCaCGCGAccggcGACUG-CACc -3'
miRNA:   3'- cgaaGGCCCGGG-GUGCU-----UUGGUaGUG- -5'
5399 3' -55.5 NC_001798.1 + 34923 0.66 0.915674
Target:  5'- aGCcUCCgGGGCCCCuuuCGc-GCCuuUCGCg -3'
miRNA:   3'- -CGaAGG-CCCGGGGu--GCuuUGGu-AGUG- -5'
5399 3' -55.5 NC_001798.1 + 57249 0.66 0.915674
Target:  5'- ---gCgGGGCCgaCACGuuuACCAUCACc -3'
miRNA:   3'- cgaaGgCCCGGg-GUGCuu-UGGUAGUG- -5'
5399 3' -55.5 NC_001798.1 + 147217 0.66 0.915674
Target:  5'- ---cCCGGGCCCCcgGCGGAGCgCGg--- -3'
miRNA:   3'- cgaaGGCCCGGGG--UGCUUUG-GUagug -5'
5399 3' -55.5 NC_001798.1 + 153231 0.66 0.909746
Target:  5'- ---cCCGGGCCCgCggcgGCGGagGACCcgCGCg -3'
miRNA:   3'- cgaaGGCCCGGG-G----UGCU--UUGGuaGUG- -5'
5399 3' -55.5 NC_001798.1 + 82066 0.66 0.909746
Target:  5'- ---cCCgGGGCCCCGCG--GCCGgccCACc -3'
miRNA:   3'- cgaaGG-CCCGGGGUGCuuUGGUa--GUG- -5'
5399 3' -55.5 NC_001798.1 + 5739 0.66 0.909746
Target:  5'- ---cCCGGGgCCCGCGucauCCcgCGCu -3'
miRNA:   3'- cgaaGGCCCgGGGUGCuuu-GGuaGUG- -5'
5399 3' -55.5 NC_001798.1 + 84610 0.66 0.909746
Target:  5'- ---gCCGGuGCCCCGcCGAAGCgcgCGUCAg -3'
miRNA:   3'- cgaaGGCC-CGGGGU-GCUUUG---GUAGUg -5'
5399 3' -55.5 NC_001798.1 + 109031 0.67 0.903582
Target:  5'- uGCUccCCGGGCCUC-CGGccGGCCccagguAUCGCg -3'
miRNA:   3'- -CGAa-GGCCCGGGGuGCU--UUGG------UAGUG- -5'
5399 3' -55.5 NC_001798.1 + 71903 0.67 0.903582
Target:  5'- cGCUUCCcGG-CCCugGAGGgCAUcCACc -3'
miRNA:   3'- -CGAAGGcCCgGGGugCUUUgGUA-GUG- -5'
5399 3' -55.5 NC_001798.1 + 18249 0.67 0.903582
Target:  5'- gGUUUCCgGGGgCCCG-GggGCCAgguaCGCa -3'
miRNA:   3'- -CGAAGG-CCCgGGGUgCuuUGGUa---GUG- -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.