miRNA display CGI


Results 1 - 20 of 21 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
29178 3' -56.4 NC_006150.1 + 71052 0.66 0.946137
Target:  5'- aGGAGGAgccgcguaucagugcGGCGCaAGGggUGcGCUCGCUg -3'
miRNA:   3'- aCUUUCU---------------CCGCGaUCCa-AC-CGGGCGG- -5'
29178 3' -56.4 NC_006150.1 + 171091 0.66 0.935211
Target:  5'- gUGAgGAGuGGUGgUAuGGaccaaagGGCCCGCCu -3'
miRNA:   3'- -ACU-UUCuCCGCgAU-CCaa-----CCGGGCGG- -5'
29178 3' -56.4 NC_006150.1 + 157400 0.66 0.935211
Target:  5'- cUGAGGGuGGUGCUGGGaucuugGGCuuGg- -3'
miRNA:   3'- -ACUUUCuCCGCGAUCCaa----CCGggCgg -5'
29178 3' -56.4 NC_006150.1 + 48847 0.67 0.919707
Target:  5'- ----cGGGGUGCUAGGUUGcuUCCGUa -3'
miRNA:   3'- acuuuCUCCGCGAUCCAACc-GGGCGg -5'
29178 3' -56.4 NC_006150.1 + 38103 0.67 0.914082
Target:  5'- cGAAugcGGGGCGCUGGcugccucucgcUUGGCCCcCCc -3'
miRNA:   3'- aCUUu--CUCCGCGAUCc----------AACCGGGcGG- -5'
29178 3' -56.4 NC_006150.1 + 56883 0.67 0.906431
Target:  5'- cGAAuaAGGCGuCUAGGcgGGCguuaccccaaacaaCCGCCu -3'
miRNA:   3'- aCUUucUCCGC-GAUCCaaCCG--------------GGCGG- -5'
29178 3' -56.4 NC_006150.1 + 108980 0.67 0.900286
Target:  5'- cGGguGAGAGGCGCc-GGUUGGCguaguugcacgcguCCGUg -3'
miRNA:   3'- aCU--UUCUCCGCGauCCAACCG--------------GGCGg -5'
29178 3' -56.4 NC_006150.1 + 117676 0.67 0.889332
Target:  5'- cGAuucGGGGGGUGCacaGGGUggcGGUCuCGCCa -3'
miRNA:   3'- aCU---UUCUCCGCGa--UCCAa--CCGG-GCGG- -5'
29178 3' -56.4 NC_006150.1 + 113919 0.67 0.889332
Target:  5'- aGAGGGAGGCaUUucGGGaccgcggGGCCuCGCCa -3'
miRNA:   3'- aCUUUCUCCGcGA--UCCaa-----CCGG-GCGG- -5'
29178 3' -56.4 NC_006150.1 + 39266 0.68 0.882595
Target:  5'- ----cGAGGgcucguguguguCGUUGGGcUGGCCCGCUc -3'
miRNA:   3'- acuuuCUCC------------GCGAUCCaACCGGGCGG- -5'
29178 3' -56.4 NC_006150.1 + 149133 0.68 0.845817
Target:  5'- gUGAGAGuGGCGCggaugaGGCCUGCg -3'
miRNA:   3'- -ACUUUCuCCGCGauccaaCCGGGCGg -5'
29178 3' -56.4 NC_006150.1 + 101917 0.68 0.845817
Target:  5'- cGAGAGAGG-GCUGcg-UGGCuuGCUg -3'
miRNA:   3'- aCUUUCUCCgCGAUccaACCGggCGG- -5'
29178 3' -56.4 NC_006150.1 + 143802 0.69 0.829766
Target:  5'- -aGAAGAGGCGCcgcuGcUGGCgCGCCg -3'
miRNA:   3'- acUUUCUCCGCGauc-CaACCGgGCGG- -5'
29178 3' -56.4 NC_006150.1 + 596 0.69 0.813026
Target:  5'- gGAGGGAGGgGgaAGGgccgcguguucUUGGCagaCCGCCa -3'
miRNA:   3'- aCUUUCUCCgCgaUCC-----------AACCG---GGCGG- -5'
29178 3' -56.4 NC_006150.1 + 88703 0.7 0.749914
Target:  5'- cGucGGA-GCGCUAGGgcGGCCCGg- -3'
miRNA:   3'- aCuuUCUcCGCGAUCCaaCCGGGCgg -5'
29178 3' -56.4 NC_006150.1 + 182296 0.71 0.691847
Target:  5'- uUGAGAGAcGGC-C-GGGUaaccGGCCCGCCc -3'
miRNA:   3'- -ACUUUCU-CCGcGaUCCAa---CCGGGCGG- -5'
29178 3' -56.4 NC_006150.1 + 314 0.72 0.652068
Target:  5'- cGGAGGAcGGCuGCccgGGGUUGGCgguCUGCCa -3'
miRNA:   3'- aCUUUCU-CCG-CGa--UCCAACCG---GGCGG- -5'
29178 3' -56.4 NC_006150.1 + 139374 0.74 0.542797
Target:  5'- cGGGAGGuGCGCUGGcGgacGGUCCGCCg -3'
miRNA:   3'- aCUUUCUcCGCGAUC-Caa-CCGGGCGG- -5'
29178 3' -56.4 NC_006150.1 + 89637 0.75 0.523445
Target:  5'- gUGAAucAGGCGCUAGGUU-GCagaCGCCg -3'
miRNA:   3'- -ACUUucUCCGCGAUCCAAcCGg--GCGG- -5'
29178 3' -56.4 NC_006150.1 + 129635 0.79 0.305313
Target:  5'- ----uGGGGCGCgAGGUcccuacgUGGCCCGCCu -3'
miRNA:   3'- acuuuCUCCGCGaUCCA-------ACCGGGCGG- -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.