miRNA display CGI


Results 1 - 20 of 24 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
18084 3' -59.6 NC_004680.1 + 12134 1.1 0.00035
Target:  5'- cAUCAGGCGACCUUGAGGACCGCGCCCg -3'
miRNA:   3'- -UAGUCCGCUGGAACUCCUGGCGCGGG- -5'
18084 3' -59.6 NC_004680.1 + 11081 0.78 0.081237
Target:  5'- -cCGGGCGGCCUUGguGGcGGCCccgGCGCCCa -3'
miRNA:   3'- uaGUCCGCUGGAAC--UC-CUGG---CGCGGG- -5'
18084 3' -59.6 NC_004680.1 + 11378 0.73 0.193141
Target:  5'- --gAGGCGACUgaaGAGGACCG-GCUCa -3'
miRNA:   3'- uagUCCGCUGGaa-CUCCUGGCgCGGG- -5'
18084 3' -59.6 NC_004680.1 + 46092 0.71 0.231248
Target:  5'- --gGGGCGGCCUUG-GGugCGgGCgCa -3'
miRNA:   3'- uagUCCGCUGGAACuCCugGCgCGgG- -5'
18084 3' -59.6 NC_004680.1 + 12047 0.71 0.235389
Target:  5'- -aCGGGCGcgguccucaaggucGCCUgaugGAGGACCGgggcaGCCCu -3'
miRNA:   3'- uaGUCCGC--------------UGGAa---CUCCUGGCg----CGGG- -5'
18084 3' -59.6 NC_004680.1 + 14686 0.71 0.262205
Target:  5'- -cCAGGCGACUUcgcGGGGaucGCCGCGUUCu -3'
miRNA:   3'- uaGUCCGCUGGAa--CUCC---UGGCGCGGG- -5'
18084 3' -59.6 NC_004680.1 + 31869 0.7 0.282349
Target:  5'- -aCAGGC-ACCUgGGGGAgUGCGCaCCg -3'
miRNA:   3'- uaGUCCGcUGGAaCUCCUgGCGCG-GG- -5'
18084 3' -59.6 NC_004680.1 + 12322 0.7 0.289331
Target:  5'- --gGGGCGACCgccgcuucGGGuGCCGCGCCg -3'
miRNA:   3'- uagUCCGCUGGaac-----UCC-UGGCGCGGg -5'
18084 3' -59.6 NC_004680.1 + 22677 0.7 0.296449
Target:  5'- uUCGGGUGGg--UGGGGGCCGuCGCCg -3'
miRNA:   3'- uAGUCCGCUggaACUCCUGGC-GCGGg -5'
18084 3' -59.6 NC_004680.1 + 40404 0.69 0.350065
Target:  5'- -cCAGGC--CCUaGcGGACCGCGCCg -3'
miRNA:   3'- uaGUCCGcuGGAaCuCCUGGCGCGGg -5'
18084 3' -59.6 NC_004680.1 + 44944 0.68 0.358265
Target:  5'- uUCGGuacuccGCcACCgUGGGGACaCGCGCCCc -3'
miRNA:   3'- uAGUC------CGcUGGaACUCCUG-GCGCGGG- -5'
18084 3' -59.6 NC_004680.1 + 13235 0.67 0.410229
Target:  5'- ---cGGCGGuCCggucGGGGACCGCcaggccGCCCa -3'
miRNA:   3'- uaguCCGCU-GGaa--CUCCUGGCG------CGGG- -5'
18084 3' -59.6 NC_004680.1 + 13523 0.67 0.418418
Target:  5'- -gCGGuGCG-CCUUGGaaccagcGGACCGgUGCCCa -3'
miRNA:   3'- uaGUC-CGCuGGAACU-------CCUGGC-GCGGG- -5'
18084 3' -59.6 NC_004680.1 + 6136 0.67 0.428562
Target:  5'- -cCAGGCaGCCacacgcgcccaUUGAcGACCuGCGCCCg -3'
miRNA:   3'- uaGUCCGcUGG-----------AACUcCUGG-CGCGGG- -5'
18084 3' -59.6 NC_004680.1 + 16750 0.66 0.466628
Target:  5'- -cCcuGCGGCCgcaacugGAGGaucGCCGCGCCa -3'
miRNA:   3'- uaGucCGCUGGaa-----CUCC---UGGCGCGGg -5'
18084 3' -59.6 NC_004680.1 + 17191 0.66 0.466628
Target:  5'- -aCuGGCGGCaacgUGAucGGACgGUGCCCc -3'
miRNA:   3'- uaGuCCGCUGga--ACU--CCUGgCGCGGG- -5'
18084 3' -59.6 NC_004680.1 + 52274 0.66 0.476416
Target:  5'- -aCGGGUgugGACCUgacucgucuugcUGAGG-CCGCGUUCg -3'
miRNA:   3'- uaGUCCG---CUGGA------------ACUCCuGGCGCGGG- -5'
18084 3' -59.6 NC_004680.1 + 29063 0.66 0.476416
Target:  5'- uUUGGGCGAacgUGcGGGCCGCGCg- -3'
miRNA:   3'- uAGUCCGCUggaACuCCUGGCGCGgg -5'
18084 3' -59.6 NC_004680.1 + 13144 0.66 0.476416
Target:  5'- --uGGGCGGCCUggcGGuccccgaccGGACCGcCGCaCCa -3'
miRNA:   3'- uagUCCGCUGGAa--CU---------CCUGGC-GCG-GG- -5'
18084 3' -59.6 NC_004680.1 + 34236 0.66 0.476416
Target:  5'- -aCAGGCGACCgacUGuaaa-UGCGCCCu -3'
miRNA:   3'- uaGUCCGCUGGa--ACuccugGCGCGGG- -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.