miRNA display CGI


Results 1 - 17 of 17 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
7334 5' -55.2 NC_001900.1 + 43864 0.66 0.714268
Target:  5'- gGCUGGGccGaCUGGUGccacuUCGGCAUGUc -3'
miRNA:   3'- gCGGCCCuaC-GGUCACu----AGCUGUACG- -5'
7334 5' -55.2 NC_001900.1 + 2432 0.66 0.670661
Target:  5'- uGCCGGGuggcUGUguGaGGUCGACG-GCc -3'
miRNA:   3'- gCGGCCCu---ACGguCaCUAGCUGUaCG- -5'
7334 5' -55.2 NC_001900.1 + 11606 0.67 0.65964
Target:  5'- gGCCGGaGUGCCuucgguaguugcGGUG-UCGgACAUGUg -3'
miRNA:   3'- gCGGCCcUACGG------------UCACuAGC-UGUACG- -5'
7334 5' -55.2 NC_001900.1 + 20972 0.67 0.648593
Target:  5'- gGCUGGaGAcgGCCAGgucgaaggGGUCGACGUa- -3'
miRNA:   3'- gCGGCC-CUa-CGGUCa-------CUAGCUGUAcg -5'
7334 5' -55.2 NC_001900.1 + 45094 0.67 0.604354
Target:  5'- uCGCCGaGGAgauucugaagGCCGaccaGGUUGACGUGCu -3'
miRNA:   3'- -GCGGC-CCUa---------CGGUca--CUAGCUGUACG- -5'
7334 5' -55.2 NC_001900.1 + 3080 0.67 0.604354
Target:  5'- cCGgCGGGAagGUCGuugacGUGAcCGACGUGCu -3'
miRNA:   3'- -GCgGCCCUa-CGGU-----CACUaGCUGUACG- -5'
7334 5' -55.2 NC_001900.1 + 11253 0.68 0.593331
Target:  5'- uGCCuGGuGGUGCCuGUcuUCGACGUGg -3'
miRNA:   3'- gCGG-CC-CUACGGuCAcuAGCUGUACg -5'
7334 5' -55.2 NC_001900.1 + 6843 0.68 0.593331
Target:  5'- uCGCaGGGA-GCCAucGUGGUUGGCcagGUGCu -3'
miRNA:   3'- -GCGgCCCUaCGGU--CACUAGCUG---UACG- -5'
7334 5' -55.2 NC_001900.1 + 3504 0.68 0.59003
Target:  5'- cCGCaGGGucugGCCGGUGAcauccaggacgccaUCGACGcgGCg -3'
miRNA:   3'- -GCGgCCCua--CGGUCACU--------------AGCUGUa-CG- -5'
7334 5' -55.2 NC_001900.1 + 23992 0.68 0.571392
Target:  5'- cCGCUGGGGucguUGUCGuUGAUCGugAcGCg -3'
miRNA:   3'- -GCGGCCCU----ACGGUcACUAGCugUaCG- -5'
7334 5' -55.2 NC_001900.1 + 24298 0.69 0.507022
Target:  5'- uGCCacuGGGAUGUCGGUGA---GCGUGUu -3'
miRNA:   3'- gCGG---CCCUACGGUCACUagcUGUACG- -5'
7334 5' -55.2 NC_001900.1 + 14702 0.69 0.496579
Target:  5'- aCGCCccGAagcugcacucgcUGCCGGUGGUCGAgAUGUc -3'
miRNA:   3'- -GCGGccCU------------ACGGUCACUAGCUgUACG- -5'
7334 5' -55.2 NC_001900.1 + 30732 0.69 0.482126
Target:  5'- gGCCGGGGguccaccagcuucGCCAG-GAUCuGCGUGUc -3'
miRNA:   3'- gCGGCCCUa------------CGGUCaCUAGcUGUACG- -5'
7334 5' -55.2 NC_001900.1 + 47641 0.73 0.313416
Target:  5'- uGCCuugcGGAUgacggugucGCCAGUGAUCGugAUGUc -3'
miRNA:   3'- gCGGc---CCUA---------CGGUCACUAGCugUACG- -5'
7334 5' -55.2 NC_001900.1 + 3524 0.75 0.223956
Target:  5'- gGCCGGGGUGUCGGUGccGUUGAgguucaggguguaCGUGCc -3'
miRNA:   3'- gCGGCCCUACGGUCAC--UAGCU-------------GUACG- -5'
7334 5' -55.2 NC_001900.1 + 8225 0.77 0.166948
Target:  5'- uGCCGGGAUGUgGGcguugcaGAUCGACAgggUGCg -3'
miRNA:   3'- gCGGCCCUACGgUCa------CUAGCUGU---ACG- -5'
7334 5' -55.2 NC_001900.1 + 30025 1.13 0.000517
Target:  5'- gCGCCGGGAUGCCAGUGAUCGACAUGCg -3'
miRNA:   3'- -GCGGCCCUACGGUCACUAGCUGUACG- -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.