miRNA display CGI


Results 1 - 20 of 38 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
23310 3' -57 NC_005259.1 + 55307 0.66 0.702606
Target:  5'- gGCcGCGUGCgACgaccaCAGGGgUGGUCUUGg -3'
miRNA:   3'- -CGaCGCACGgUG-----GUUCCgGCUAGAGC- -5'
23310 3' -57 NC_005259.1 + 52385 0.66 0.698399
Target:  5'- gGCUGCGcagccugccucggGCCAUCGAGGUgUGGgcgCUCGa -3'
miRNA:   3'- -CGACGCa------------CGGUGGUUCCG-GCUa--GAGC- -5'
23310 3' -57 NC_005259.1 + 16370 0.66 0.68148
Target:  5'- -gUGCGUGCCGCUgc-GCCGAcgagCUCc -3'
miRNA:   3'- cgACGCACGGUGGuucCGGCUa---GAGc -5'
23310 3' -57 NC_005259.1 + 58582 0.66 0.670846
Target:  5'- cGCgGCGcgGCUGCC-GGGCCgGAUCUUu -3'
miRNA:   3'- -CGaCGCa-CGGUGGuUCCGG-CUAGAGc -5'
23310 3' -57 NC_005259.1 + 61433 0.66 0.660176
Target:  5'- cUUGCGgGCgCGCC--GGUCGAUCUCa -3'
miRNA:   3'- cGACGCaCG-GUGGuuCCGGCUAGAGc -5'
23310 3' -57 NC_005259.1 + 66670 0.67 0.649482
Target:  5'- uGCUGCGaugcucaucgUGCCGCCcauGAGGUCGAaaauggUgUCGu -3'
miRNA:   3'- -CGACGC----------ACGGUGG---UUCCGGCU------AgAGC- -5'
23310 3' -57 NC_005259.1 + 36432 0.67 0.649482
Target:  5'- uCUGCGcagcGUCGCCGAGGUCGAccgCgUCGa -3'
miRNA:   3'- cGACGCa---CGGUGGUUCCGGCUa--G-AGC- -5'
23310 3' -57 NC_005259.1 + 53443 0.67 0.649482
Target:  5'- aCUGagcagGUGCCACCAcggcGGCUGG-CUCGu -3'
miRNA:   3'- cGACg----CACGGUGGUu---CCGGCUaGAGC- -5'
23310 3' -57 NC_005259.1 + 61256 0.67 0.638773
Target:  5'- gGgUGCGagcaUGCgACCGucGCUGGUCUCGa -3'
miRNA:   3'- -CgACGC----ACGgUGGUucCGGCUAGAGC- -5'
23310 3' -57 NC_005259.1 + 32994 0.67 0.628058
Target:  5'- --aGgGUGCCGCCAcGcCCGAUgUCGg -3'
miRNA:   3'- cgaCgCACGGUGGUuCcGGCUAgAGC- -5'
23310 3' -57 NC_005259.1 + 22787 0.67 0.628058
Target:  5'- aCUGUgcagGUGCuCACCGAGgguGCCGAUUUCc -3'
miRNA:   3'- cGACG----CACG-GUGGUUC---CGGCUAGAGc -5'
23310 3' -57 NC_005259.1 + 29933 0.67 0.617346
Target:  5'- --cGCGUGgCCGCCAcgcGGCcCGGUCgCGg -3'
miRNA:   3'- cgaCGCAC-GGUGGUu--CCG-GCUAGaGC- -5'
23310 3' -57 NC_005259.1 + 33105 0.67 0.606647
Target:  5'- cGCgaGCGUGCCugUAGGGCCa------ -3'
miRNA:   3'- -CGa-CGCACGGugGUUCCGGcuagagc -5'
23310 3' -57 NC_005259.1 + 8656 0.67 0.606647
Target:  5'- gGCUGUGgucggGCUGCCAcgcgggcaacgGGGCCGc-CUCGa -3'
miRNA:   3'- -CGACGCa----CGGUGGU-----------UCCGGCuaGAGC- -5'
23310 3' -57 NC_005259.1 + 1312 0.67 0.606647
Target:  5'- cGCgGuCGUGagCGCCAuGGUCGAUUUCGa -3'
miRNA:   3'- -CGaC-GCACg-GUGGUuCCGGCUAGAGC- -5'
23310 3' -57 NC_005259.1 + 6931 0.67 0.595968
Target:  5'- --cGCc-GCCGCCuuGAGGCCGAgCUCGc -3'
miRNA:   3'- cgaCGcaCGGUGG--UUCCGGCUaGAGC- -5'
23310 3' -57 NC_005259.1 + 43881 0.67 0.594902
Target:  5'- gGCaGCGuUGCCGCCGAcauugcccgcgccGGCUGAUCg-- -3'
miRNA:   3'- -CGaCGC-ACGGUGGUU-------------CCGGCUAGagc -5'
23310 3' -57 NC_005259.1 + 34554 0.68 0.543167
Target:  5'- --aGCuUGCCGUCGGGGCCGAcggcgagguUCUCGg -3'
miRNA:   3'- cgaCGcACGGUGGUUCCGGCU---------AGAGC- -5'
23310 3' -57 NC_005259.1 + 12029 0.68 0.532776
Target:  5'- cGgUGCGggcgGCaaccgguacuCACCGAGGCCGAgCUCu -3'
miRNA:   3'- -CgACGCa---CG----------GUGGUUCCGGCUaGAGc -5'
23310 3' -57 NC_005259.1 + 10250 0.69 0.491992
Target:  5'- gGCgGUGUGCUugAUgAgcGGGCCGGUCUCa -3'
miRNA:   3'- -CGaCGCACGG--UGgU--UCCGGCUAGAGc -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.