miRNA display CGI


Results 21 - 37 of 37 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
12803 3' -57.7 NC_003387.1 + 26807 0.66 0.526708
Target:  5'- gGCCGcgcugguggucGGUGAGcGCGCCgcccuGGaCGCCGGGGa -3'
miRNA:   3'- -CGGU-----------CCACUU-UGCGG-----UC-GUGGCCCUa -5'
12803 3' -57.7 NC_003387.1 + 27148 0.66 0.526708
Target:  5'- cGCCGGGgucGGCGCC---GCCGGGGa -3'
miRNA:   3'- -CGGUCCacuUUGCGGucgUGGCCCUa -5'
12803 3' -57.7 NC_003387.1 + 37787 0.66 0.516189
Target:  5'- aCCGGG-GAuGCGCCGcuGCGCCGGu-- -3'
miRNA:   3'- cGGUCCaCUuUGCGGU--CGUGGCCcua -5'
12803 3' -57.7 NC_003387.1 + 31260 0.66 0.516189
Target:  5'- gGCgCGGGcu--GCGCCAGCgggGCCGGGu- -3'
miRNA:   3'- -CG-GUCCacuuUGCGGUCG---UGGCCCua -5'
12803 3' -57.7 NC_003387.1 + 25296 0.67 0.505756
Target:  5'- aGCCAGG-GcGACGUCGGCGCgGuGGu- -3'
miRNA:   3'- -CGGUCCaCuUUGCGGUCGUGgC-CCua -5'
12803 3' -57.7 NC_003387.1 + 46586 0.67 0.475026
Target:  5'- gGCCucGGgcaGGGuCGCCAGCACCGGcaGGUg -3'
miRNA:   3'- -CGGu-CCa--CUUuGCGGUCGUGGCC--CUA- -5'
12803 3' -57.7 NC_003387.1 + 27500 0.67 0.475026
Target:  5'- gGCCgAGGUGccgcuAAACGUCAGCACCauGAUg -3'
miRNA:   3'- -CGG-UCCAC-----UUUGCGGUCGUGGccCUA- -5'
12803 3' -57.7 NC_003387.1 + 18951 0.68 0.449167
Target:  5'- aGCCGGGccAAACGCUcgcGGCgccgccguugcccuuGCCGGGGUg -3'
miRNA:   3'- -CGGUCCacUUUGCGG---UCG---------------UGGCCCUA- -5'
12803 3' -57.7 NC_003387.1 + 49676 0.68 0.426002
Target:  5'- aGgCGGGcgGGAACGCCuGCGCCuucaccucGGGAUc -3'
miRNA:   3'- -CgGUCCa-CUUUGCGGuCGUGG--------CCCUA- -5'
12803 3' -57.7 NC_003387.1 + 28671 0.68 0.416561
Target:  5'- cGCCAGGUGAAucUGCgAGCACaggccgagcgaCGGGu- -3'
miRNA:   3'- -CGGUCCACUUu-GCGgUCGUG-----------GCCCua -5'
12803 3' -57.7 NC_003387.1 + 23815 0.68 0.397159
Target:  5'- cGCgCAGcagauacGUGAgGGCGCC-GCGCCGGGAc -3'
miRNA:   3'- -CG-GUC-------CACU-UUGCGGuCGUGGCCCUa -5'
12803 3' -57.7 NC_003387.1 + 18697 0.69 0.389024
Target:  5'- aCCAGGUGcggguCGCgCAGCGCCaGGGc -3'
miRNA:   3'- cGGUCCACuuu--GCG-GUCGUGGcCCUa -5'
12803 3' -57.7 NC_003387.1 + 39099 0.7 0.329586
Target:  5'- gGCCGGGUuGAACucacccgguGCCAGCGCgGGGc- -3'
miRNA:   3'- -CGGUCCAcUUUG---------CGGUCGUGgCCCua -5'
12803 3' -57.7 NC_003387.1 + 44408 0.71 0.263409
Target:  5'- gGCCGGGccguagUGAuGCGCC-GCGCCGGuGAUc -3'
miRNA:   3'- -CGGUCC------ACUuUGCGGuCGUGGCC-CUA- -5'
12803 3' -57.7 NC_003387.1 + 50977 0.71 0.263409
Target:  5'- cGCCGGGcucaUGcuguCGaUCAGCACCGGGAUg -3'
miRNA:   3'- -CGGUCC----ACuuu-GC-GGUCGUGGCCCUA- -5'
12803 3' -57.7 NC_003387.1 + 37049 0.72 0.235798
Target:  5'- cGCCGGGauucaucaccugcgUGGgcAACGCCAGCAgCGGGu- -3'
miRNA:   3'- -CGGUCC--------------ACU--UUGCGGUCGUgGCCCua -5'
12803 3' -57.7 NC_003387.1 + 40485 0.66 0.547978
Target:  5'- aUCGGGUGcAcgcucucgccACGCCGGggcaCGCCGGGAa -3'
miRNA:   3'- cGGUCCACuU----------UGCGGUC----GUGGCCCUa -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.