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
11964 3' -61.1 NC_003278.1 + 2153 0.68 0.2346
Target:  5'- cGUCGCCcgGCUGAGcAgGCGGUGCGg-- -3'
miRNA:   3'- -CGGCGG--UGGCUCcUgCGCCACGCacg -5'
11964 3' -61.1 NC_003278.1 + 4302 0.66 0.348212
Target:  5'- cGgCGCUACUGAgGGGCGagGGUGgGcgGCa -3'
miRNA:   3'- -CgGCGGUGGCU-CCUGCg-CCACgCa-CG- -5'
11964 3' -61.1 NC_003278.1 + 5213 0.69 0.195557
Target:  5'- uGCCGCCACCGGuGAC-CGGggGCcgcUGCu -3'
miRNA:   3'- -CGGCGGUGGCUcCUGcGCCa-CGc--ACG- -5'
11964 3' -61.1 NC_003278.1 + 7454 0.67 0.301476
Target:  5'- uGUCGUUGCCGcuGGugGUGGUGuCGUaccaGCg -3'
miRNA:   3'- -CGGCGGUGGCu-CCugCGCCAC-GCA----CG- -5'
11964 3' -61.1 NC_003278.1 + 8678 1.12 0.000107
Target:  5'- cGCCGCCACCGAGGACGCGGUGCGUGCc -3'
miRNA:   3'- -CGGCGGUGGCUCCUGCGCCACGCACG- -5'
11964 3' -61.1 NC_003278.1 + 8810 0.72 0.137964
Target:  5'- -gCGCCGCCGAGGGCGgccagggucuuCGGgccaGCGaUGCc -3'
miRNA:   3'- cgGCGGUGGCUCCUGC-----------GCCa---CGC-ACG- -5'
11964 3' -61.1 NC_003278.1 + 9058 0.68 0.246899
Target:  5'- aGCCGCCcgGgCGAGGguucaccaGCGCGGggaacUGUGCg -3'
miRNA:   3'- -CGGCGG--UgGCUCC--------UGCGCCac---GCACG- -5'
11964 3' -61.1 NC_003278.1 + 11903 0.66 0.340075
Target:  5'- aGCagGUCGCCGGucaacacacGGACGCGcUGCGcgGCa -3'
miRNA:   3'- -CGg-CGGUGGCU---------CCUGCGCcACGCa-CG- -5'
11964 3' -61.1 NC_003278.1 + 12103 0.66 0.332077
Target:  5'- cGCCGUCGCgGu--AgGUGGUGCGaUGCa -3'
miRNA:   3'- -CGGCGGUGgCuccUgCGCCACGC-ACG- -5'
11964 3' -61.1 NC_003278.1 + 12703 0.68 0.240684
Target:  5'- uGCCGCCACCac--ACGCGGUG-GaGCa -3'
miRNA:   3'- -CGGCGGUGGcuccUGCGCCACgCaCG- -5'
11964 3' -61.1 NC_003278.1 + 13122 0.69 0.222819
Target:  5'- -gCGCCGCCGAcGGuCGCGucgGCGaUGCc -3'
miRNA:   3'- cgGCGGUGGCU-CCuGCGCca-CGC-ACG- -5'
11964 3' -61.1 NC_003278.1 + 13175 0.68 0.240684
Target:  5'- -aCGCgACCGucGGcGGCGCGG-GCGUGg -3'
miRNA:   3'- cgGCGgUGGC--UC-CUGCGCCaCGCACg -5'
11964 3' -61.1 NC_003278.1 + 13920 0.69 0.195557
Target:  5'- uGCCaCCACuCGAGGAUGuCGGUcaGCGaGCc -3'
miRNA:   3'- -CGGcGGUG-GCUCCUGC-GCCA--CGCaCG- -5'
11964 3' -61.1 NC_003278.1 + 15788 0.71 0.14969
Target:  5'- aGCuCGCCAUCG-GG-CGCGuGUGCGaagGCa -3'
miRNA:   3'- -CG-GCGGUGGCuCCuGCGC-CACGCa--CG- -5'
11964 3' -61.1 NC_003278.1 + 16657 0.73 0.104727
Target:  5'- cGuuGCCAgagccucgucuCCGAgaGGugGUGGUgGCGUGCg -3'
miRNA:   3'- -CggCGGU-----------GGCU--CCugCGCCA-CGCACG- -5'
11964 3' -61.1 NC_003278.1 + 17186 0.72 0.127087
Target:  5'- cGCCGCCACU---GugGUGGUGCGgGUg -3'
miRNA:   3'- -CGGCGGUGGcucCugCGCCACGCaCG- -5'
11964 3' -61.1 NC_003278.1 + 17300 0.76 0.068106
Target:  5'- uGCCGCCAaggcCCGcuuGGGCGUGGUaccgcgcauccucgGCGUGCc -3'
miRNA:   3'- -CGGCGGU----GGCu--CCUGCGCCA--------------CGCACG- -5'
11964 3' -61.1 NC_003278.1 + 17387 0.69 0.222819
Target:  5'- gGCCcgGCaCGCCGAGGauGCGCGGUaccacgcccaaGCGgGCc -3'
miRNA:   3'- -CGG--CG-GUGGCUCC--UGCGCCA-----------CGCaCG- -5'
11964 3' -61.1 NC_003278.1 + 18339 0.67 0.301476
Target:  5'- uGCCGCCcCCGcGGAaggccuccaucuUGCGGgccaGCGgggGCa -3'
miRNA:   3'- -CGGCGGuGGCuCCU------------GCGCCa---CGCa--CG- -5'
11964 3' -61.1 NC_003278.1 + 21052 0.73 0.107679
Target:  5'- aUUGCCGCCGucGugGCGGUGCuGgccgGCg -3'
miRNA:   3'- cGGCGGUGGCucCugCGCCACG-Ca---CG- -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.