miRNA display CGI


Results 1 - 20 of 20 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
4143 3' -51.7 NC_001664.1 + 1961 0.68 0.954473
Target:  5'- gGGGCGUGCGGAGAgaUGGAc------ -3'
miRNA:   3'- -UCUGCACGCCUCUacACCUcucuuug -5'
4143 3' -51.7 NC_001664.1 + 152724 1.11 0.005631
Target:  5'- cAGACGUGCGGAGAUGUGGAGAGAAACg -3'
miRNA:   3'- -UCUGCACGCCUCUACACCUCUCUUUG- -5'
4143 3' -51.7 NC_001664.1 + 1642 0.99 0.033766
Target:  5'- cAGAC-UGCGGAGAUGUGGAGAGAAACg -3'
miRNA:   3'- -UCUGcACGCCUCUACACCUCUCUUUG- -5'
4143 3' -51.7 NC_001664.1 + 155805 0.71 0.873617
Target:  5'- --cUGUGaCGGGGAgggGUGGGGAGAuaAACa -3'
miRNA:   3'- ucuGCAC-GCCUCUa--CACCUCUCU--UUG- -5'
4143 3' -51.7 NC_001664.1 + 154548 0.71 0.873617
Target:  5'- cGACucgaGCGGGGGUG-GGAGGGAAGg -3'
miRNA:   3'- uCUGca--CGCCUCUACaCCUCUCUUUg -5'
4143 3' -51.7 NC_001664.1 + 4723 0.71 0.873617
Target:  5'- --cUGUGaCGGGGAgggGUGGGGAGAuaAACa -3'
miRNA:   3'- ucuGCAC-GCCUCUa--CACCUCUCU--UUG- -5'
4143 3' -51.7 NC_001664.1 + 3467 0.71 0.873617
Target:  5'- cGACucgaGCGGGGGUG-GGAGGGAAGg -3'
miRNA:   3'- uCUGca--CGCCUCUACaCCUCUCUUUg -5'
4143 3' -51.7 NC_001664.1 + 153581 0.7 0.901694
Target:  5'- gGGACGgGCGGAGcgGaGGGGcgcGAGACa -3'
miRNA:   3'- -UCUGCaCGCCUCuaCaCCUCu--CUUUG- -5'
4143 3' -51.7 NC_001664.1 + 2500 0.7 0.901694
Target:  5'- gGGACGgGCGGAGcgGaGGGGcgcGAGACa -3'
miRNA:   3'- -UCUGCaCGCCUCuaCaCCUCu--CUUUG- -5'
4143 3' -51.7 NC_001664.1 + 153043 0.68 0.954473
Target:  5'- gGGGCGUGCGGAGAgaUGGAc------ -3'
miRNA:   3'- -UCUGCACGCCUCUacACCUcucuuug -5'
4143 3' -51.7 NC_001664.1 + 154654 0.68 0.958004
Target:  5'- cGGCGUGUgugcuccggggagGGGGAUG-GGAGGGGuugGACc -3'
miRNA:   3'- uCUGCACG-------------CCUCUACaCCUCUCU---UUG- -5'
4143 3' -51.7 NC_001664.1 + 3573 0.68 0.958004
Target:  5'- cGGCGUGUgugcuccggggagGGGGAUG-GGAGGGGuugGACc -3'
miRNA:   3'- uCUGCACG-------------CCUCUACaCCUCUCU---UUG- -5'
4143 3' -51.7 NC_001664.1 + 154148 0.67 0.97708
Target:  5'- gGGGCGauaUGCGGAGGUugucagcgGUGGuGgcGGAGGCg -3'
miRNA:   3'- -UCUGC---ACGCCUCUA--------CACCuC--UCUUUG- -5'
4143 3' -51.7 NC_001664.1 + 3066 0.67 0.97708
Target:  5'- gGGGCGauaUGCGGAGGUugucagcgGUGGuGgcGGAGGCg -3'
miRNA:   3'- -UCUGC---ACGCCUCUA--------CACCuC--UCUUUG- -5'
4143 3' -51.7 NC_001664.1 + 153677 0.66 0.987189
Target:  5'- gAGACGggagaggGCGGAGAcaacGgagcgGGAGAGuagGACg -3'
miRNA:   3'- -UCUGCa------CGCCUCUa---Ca----CCUCUCu--UUG- -5'
4143 3' -51.7 NC_001664.1 + 2596 0.66 0.987189
Target:  5'- gAGACGggagaggGCGGAGAcaacGgagcgGGAGAGuagGACg -3'
miRNA:   3'- -UCUGCa------CGCCUCUa---Ca----CCUCUCu--UUG- -5'
4143 3' -51.7 NC_001664.1 + 92934 0.73 0.778909
Target:  5'- cGACuuGUGUGGAGAUGUacugGGAGAGuauGCu -3'
miRNA:   3'- uCUG--CACGCCUCUACA----CCUCUCuu-UG- -5'
4143 3' -51.7 NC_001664.1 + 157814 0.66 0.989961
Target:  5'- gAGACGUGacCGGAGAaaaucaugcauugUGUGGGGuGuguauGCg -3'
miRNA:   3'- -UCUGCAC--GCCUCU-------------ACACCUCuCuu---UG- -5'
4143 3' -51.7 NC_001664.1 + 6733 0.66 0.989961
Target:  5'- gAGACGUGacCGGAGAaaaucaugcauugUGUGGGGuGuguauGCg -3'
miRNA:   3'- -UCUGCAC--GCCUCU-------------ACACCUCuCuu---UG- -5'
4143 3' -51.7 NC_001664.1 + 74175 0.67 0.97708
Target:  5'- -uGCGUGUGGAGuUGaagaucuuuaUGGAGGGAAu- -3'
miRNA:   3'- ucUGCACGCCUCuAC----------ACCUCUCUUug -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.