miRNA display CGI


Results 1 - 20 of 58 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
27079 3' -52.7 NC_005832.1 + 28054 0.66 0.933809
Target:  5'- gCUCAGGCCcuguccagggugGUGGGGACcaaGaGGCCcuuuGCCg -3'
miRNA:   3'- -GAGUCUGG------------UAUUCCUGaa-C-CCGG----UGG- -5'
27079 3' -52.7 NC_005832.1 + 56200 0.69 0.835543
Target:  5'- -aCAGggcACCGUAAccgucgguGGACUUGagcuuGGCCACCg -3'
miRNA:   3'- gaGUC---UGGUAUU--------CCUGAAC-----CCGGUGG- -5'
27079 3' -52.7 NC_005832.1 + 11884 0.69 0.84746
Target:  5'- aCUCGG-CgGUGAGGGCUccgucucccauagcGGGCCGCa -3'
miRNA:   3'- -GAGUCuGgUAUUCCUGAa-------------CCCGGUGg -5'
27079 3' -52.7 NC_005832.1 + 67384 0.69 0.860562
Target:  5'- -cCAGACCuaccUGAGGACggucgGGGCgGaCCu -3'
miRNA:   3'- gaGUCUGGu---AUUCCUGaa---CCCGgU-GG- -5'
27079 3' -52.7 NC_005832.1 + 1592 0.68 0.876121
Target:  5'- gCUguGGCCAUGAGGGCcugcUGGaggcaguuGuCCACCg -3'
miRNA:   3'- -GAguCUGGUAUUCCUGa---ACC--------C-GGUGG- -5'
27079 3' -52.7 NC_005832.1 + 11998 0.68 0.890724
Target:  5'- gUCGGACCGUuucgAAGG-C-UGGGCCGg- -3'
miRNA:   3'- gAGUCUGGUA----UUCCuGaACCCGGUgg -5'
27079 3' -52.7 NC_005832.1 + 47930 0.67 0.910746
Target:  5'- cCUCAGAguuuaCCuccAGGuCcaGGGCCACCa -3'
miRNA:   3'- -GAGUCU-----GGuauUCCuGaaCCCGGUGG- -5'
27079 3' -52.7 NC_005832.1 + 10507 0.67 0.916905
Target:  5'- gUCAGACagcAGGGACa--GGCCGCUg -3'
miRNA:   3'- gAGUCUGguaUUCCUGaacCCGGUGG- -5'
27079 3' -52.7 NC_005832.1 + 6639 0.67 0.928437
Target:  5'- -gCAGAUagc-GGGGCUccUGGGCCAgCa -3'
miRNA:   3'- gaGUCUGguauUCCUGA--ACCCGGUgG- -5'
27079 3' -52.7 NC_005832.1 + 41989 0.69 0.835543
Target:  5'- uUCGG-CCGUGugcuggaccAGGACcgagGGGUCACCu -3'
miRNA:   3'- gAGUCuGGUAU---------UCCUGaa--CCCGGUGG- -5'
27079 3' -52.7 NC_005832.1 + 7447 0.69 0.835543
Target:  5'- gUCAGAaacCCAUGAGGAggcagugcgUGGuGCCGCUg -3'
miRNA:   3'- gAGUCU---GGUAUUCCUga-------ACC-CGGUGG- -5'
27079 3' -52.7 NC_005832.1 + 97877 0.7 0.799386
Target:  5'- gUCAGACCGUccGG-CUcGGGCaCACg -3'
miRNA:   3'- gAGUCUGGUAuuCCuGAaCCCG-GUGg -5'
27079 3' -52.7 NC_005832.1 + 56325 0.74 0.560195
Target:  5'- -aCGGGCC-UGGGGACguagcccaGGGCCACUg -3'
miRNA:   3'- gaGUCUGGuAUUCCUGaa------CCCGGUGG- -5'
27079 3' -52.7 NC_005832.1 + 16783 0.74 0.592013
Target:  5'- ---uGACCAUGuGGACUgGGGCgGCCu -3'
miRNA:   3'- gaguCUGGUAUuCCUGAaCCCGgUGG- -5'
27079 3' -52.7 NC_005832.1 + 67234 0.73 0.634846
Target:  5'- cCUCAGGCCcu-GGGAgaggGGGCUGCCu -3'
miRNA:   3'- -GAGUCUGGuauUCCUgaa-CCCGGUGG- -5'
27079 3' -52.7 NC_005832.1 + 47969 0.73 0.64557
Target:  5'- cCUCGGGCUG-AGGGACgucGGGCCcCCu -3'
miRNA:   3'- -GAGUCUGGUaUUCCUGaa-CCCGGuGG- -5'
27079 3' -52.7 NC_005832.1 + 72557 0.73 0.656283
Target:  5'- -aCGGuccCCGUGGGGACgugGGGCC-CCu -3'
miRNA:   3'- gaGUCu--GGUAUUCCUGaa-CCCGGuGG- -5'
27079 3' -52.7 NC_005832.1 + 79904 0.71 0.719766
Target:  5'- cCUCGGACCcuucGGcGAUggGGGCCugCg -3'
miRNA:   3'- -GAGUCUGGuau-UC-CUGaaCCCGGugG- -5'
27079 3' -52.7 NC_005832.1 + 50246 0.71 0.760575
Target:  5'- aCUCuGACCAagcagagucGGGCgucgaGGGCCACCu -3'
miRNA:   3'- -GAGuCUGGUauu------CCUGaa---CCCGGUGG- -5'
27079 3' -52.7 NC_005832.1 + 74867 0.7 0.780272
Target:  5'- gCUCGGACC-UGGGGucccuCUacgGGGCCcugGCCg -3'
miRNA:   3'- -GAGUCUGGuAUUCCu----GAa--CCCGG---UGG- -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.