miRNA display CGI


Results 1 - 20 of 43 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
12413 5' -54.8 NC_003324.1 + 30734 0.66 0.729639
Target:  5'- cCGCGCAGCuaucuccgugGCGUCGGGgaaUCGGCc- -3'
miRNA:   3'- cGCGUGUUGua--------CGCGGUCU---AGCCGuu -5'
12413 5' -54.8 NC_003324.1 + 14470 0.66 0.729639
Target:  5'- uGCGCGCucgguuGCG-GCGCguuGAUUGGCAGc -3'
miRNA:   3'- -CGCGUGu-----UGUaCGCGgu-CUAGCCGUU- -5'
12413 5' -54.8 NC_003324.1 + 23191 0.66 0.729639
Target:  5'- aGCGCgguaccgcucuGCAuCGUGCGCCAGAUgaagcucuucUGGUg- -3'
miRNA:   3'- -CGCG-----------UGUuGUACGCGGUCUA----------GCCGuu -5'
12413 5' -54.8 NC_003324.1 + 37512 0.66 0.718816
Target:  5'- uGUGCGCGGCaAUGCGCUcGAUa-GCAAc -3'
miRNA:   3'- -CGCGUGUUG-UACGCGGuCUAgcCGUU- -5'
12413 5' -54.8 NC_003324.1 + 11838 0.66 0.718816
Target:  5'- cUGCGCGACcgG-GCCGGGcaCGGCAu -3'
miRNA:   3'- cGCGUGUUGuaCgCGGUCUa-GCCGUu -5'
12413 5' -54.8 NC_003324.1 + 54047 0.66 0.718816
Target:  5'- gGCGCGCAgaggcuuucGC-UGCGgCGGAaUCGGCc- -3'
miRNA:   3'- -CGCGUGU---------UGuACGCgGUCU-AGCCGuu -5'
12413 5' -54.8 NC_003324.1 + 53412 0.66 0.707903
Target:  5'- uGCGCACGGaugaagucCAUGCGCUcaa-CGGCGAc -3'
miRNA:   3'- -CGCGUGUU--------GUACGCGGucuaGCCGUU- -5'
12413 5' -54.8 NC_003324.1 + 44313 0.66 0.707903
Target:  5'- cGUGCACAGCGuUGCGCgC-GAUCaGCu- -3'
miRNA:   3'- -CGCGUGUUGU-ACGCG-GuCUAGcCGuu -5'
12413 5' -54.8 NC_003324.1 + 1469 0.66 0.696914
Target:  5'- -aGCACcgUcgGCGCaucgaugucaCGGAUCGGCAu -3'
miRNA:   3'- cgCGUGuuGuaCGCG----------GUCUAGCCGUu -5'
12413 5' -54.8 NC_003324.1 + 39450 0.66 0.696914
Target:  5'- -aGUACAGguucucgAUGCGCCacaucGGGUCGGCGAa -3'
miRNA:   3'- cgCGUGUUg------UACGCGG-----UCUAGCCGUU- -5'
12413 5' -54.8 NC_003324.1 + 1602 0.66 0.696914
Target:  5'- cGCGCACcAC-UGcCGCCGGAUCcucgcuGGCc- -3'
miRNA:   3'- -CGCGUGuUGuAC-GCGGUCUAG------CCGuu -5'
12413 5' -54.8 NC_003324.1 + 43997 0.66 0.6792
Target:  5'- uGCGgGCucgguGCcgGCGCCaaaggcuucaacaagGGAUCGGCu- -3'
miRNA:   3'- -CGCgUGu----UGuaCGCGG---------------UCUAGCCGuu -5'
12413 5' -54.8 NC_003324.1 + 50127 0.66 0.674752
Target:  5'- gGCGC-CAugccuuuggaGCGUGCccGCCAGAUcguuaCGGCGAu -3'
miRNA:   3'- -CGCGuGU----------UGUACG--CGGUCUA-----GCCGUU- -5'
12413 5' -54.8 NC_003324.1 + 44593 0.66 0.674752
Target:  5'- aCGCACcGCAUGCgcguGCCGuccGAUCGGgAAa -3'
miRNA:   3'- cGCGUGuUGUACG----CGGU---CUAGCCgUU- -5'
12413 5' -54.8 NC_003324.1 + 40495 0.67 0.663602
Target:  5'- gGCG-ACGACGaaGCGCCAGAcgaaGGCGAa -3'
miRNA:   3'- -CGCgUGUUGUa-CGCGGUCUag--CCGUU- -5'
12413 5' -54.8 NC_003324.1 + 18104 0.67 0.663602
Target:  5'- uCGCAUGGCccgugGCGCCGGccaAUCGGUAu -3'
miRNA:   3'- cGCGUGUUGua---CGCGGUC---UAGCCGUu -5'
12413 5' -54.8 NC_003324.1 + 25888 0.67 0.663602
Target:  5'- gGCGCGCAgGCGUGCGUCucgacuauGA-CGGUAc -3'
miRNA:   3'- -CGCGUGU-UGUACGCGGu-------CUaGCCGUu -5'
12413 5' -54.8 NC_003324.1 + 29754 0.67 0.663602
Target:  5'- uCGUACGccuCgAUGCGCCcaaGGAUCGGCu- -3'
miRNA:   3'- cGCGUGUu--G-UACGCGG---UCUAGCCGuu -5'
12413 5' -54.8 NC_003324.1 + 17355 0.67 0.652422
Target:  5'- cGUGCAUGACGUGguCGCaCAGGcgcUCGGCu- -3'
miRNA:   3'- -CGCGUGUUGUAC--GCG-GUCU---AGCCGuu -5'
12413 5' -54.8 NC_003324.1 + 21862 0.67 0.652422
Target:  5'- aGCGCucgACAACAUGuCGCCGGAcgaguuccUCGcccuGCAGa -3'
miRNA:   3'- -CGCG---UGUUGUAC-GCGGUCU--------AGC----CGUU- -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.