miRNA display CGI


Results 1 - 12 of 12 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
28512 3' -57 NC_005946.1 + 92569 0.66 0.781131
Target:  5'- uCCCUgcugcuGGGguccagGGUGGuGGCCGAGGGc -3'
miRNA:   3'- uGGGAacu---UCCa-----CCGCC-CCGGUUUCU- -5'
28512 3' -57 NC_005946.1 + 46183 0.66 0.77157
Target:  5'- gACCCUUcacGGUGGCGGccggcuGGgCAAGGGu -3'
miRNA:   3'- -UGGGAAcuuCCACCGCC------CCgGUUUCU- -5'
28512 3' -57 NC_005946.1 + 22126 0.66 0.77157
Target:  5'- cGCCuCUcuacacUGAGcGGUGGCGcacuGGGCCAcauAAGAc -3'
miRNA:   3'- -UGG-GA------ACUU-CCACCGC----CCCGGU---UUCU- -5'
28512 3' -57 NC_005946.1 + 43912 0.66 0.770606
Target:  5'- uGCCCUggagcugUGGAGGaGGCuGGGGCUg---- -3'
miRNA:   3'- -UGGGA-------ACUUCCaCCG-CCCCGGuuucu -5'
28512 3' -57 NC_005946.1 + 20654 0.67 0.701529
Target:  5'- --gCUUGGAGG-GaGCugGGGGCCAGGGGa -3'
miRNA:   3'- uggGAACUUCCaC-CG--CCCCGGUUUCU- -5'
28512 3' -57 NC_005946.1 + 21779 0.67 0.691198
Target:  5'- gACCC-UGucGGUGGUGGGGUgGu--- -3'
miRNA:   3'- -UGGGaACuuCCACCGCCCCGgUuucu -5'
28512 3' -57 NC_005946.1 + 56476 0.68 0.680815
Target:  5'- gGCCC-UGGAGG-GGaCGGGGuCCucguAGAc -3'
miRNA:   3'- -UGGGaACUUCCaCC-GCCCC-GGuu--UCU- -5'
28512 3' -57 NC_005946.1 + 26557 0.68 0.649451
Target:  5'- uGCCCaUGggGaUGGUcgaGGGGUCAGAGu -3'
miRNA:   3'- -UGGGaACuuCcACCG---CCCCGGUUUCu -5'
28512 3' -57 NC_005946.1 + 34020 0.68 0.629504
Target:  5'- gGCCCUUgccagGAGGGUagagggaaagagaaaGGCGgccaagaggcccgcGGGCCAGAGGa -3'
miRNA:   3'- -UGGGAA-----CUUCCA---------------CCGC--------------CCCGGUUUCU- -5'
28512 3' -57 NC_005946.1 + 90927 0.69 0.586559
Target:  5'- gACCCcaugUUGGAGGgGGCGGGGU---AGAc -3'
miRNA:   3'- -UGGG----AACUUCCaCCGCCCCGguuUCU- -5'
28512 3' -57 NC_005946.1 + 29568 0.69 0.586559
Target:  5'- gGCCCggacGGAGacGUGGgagguaUGGGGCCAGAGGg -3'
miRNA:   3'- -UGGGaa--CUUC--CACC------GCCCCGGUUUCU- -5'
28512 3' -57 NC_005946.1 + 17760 0.77 0.216859
Target:  5'- gGCCCUguccAGGGUGGUGGGGaCCaAGAGAc -3'
miRNA:   3'- -UGGGAac--UUCCACCGCCCC-GG-UUUCU- -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.