miRNA display CGI


Results 1 - 11 of 11 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
2233 5' -52.5 NC_001405.1 + 10786 0.66 0.744588
Target:  5'- uGCGCuagcuuuuuuGGCCAcUGGCCGcgcgcggcguaagcgGuuAGGCUGGa -3'
miRNA:   3'- -CGCG----------CCGGUcACCGGU---------------UuuUUCGAUC- -5'
2233 5' -52.5 NC_001405.1 + 10367 0.66 0.694749
Target:  5'- aGgGUGGCCGG-GGCUccGGGGGCgAGg -3'
miRNA:   3'- -CgCGCCGGUCaCCGGuuUUUUCGaUC- -5'
2233 5' -52.5 NC_001405.1 + 18066 0.68 0.613166
Target:  5'- gGCGCGaGCCGuGUcgcggGGCCAGAGAcGCa-- -3'
miRNA:   3'- -CGCGC-CGGU-CA-----CCGGUUUUUuCGauc -5'
2233 5' -52.5 NC_001405.1 + 13779 0.69 0.55519
Target:  5'- gGCGCgGGCgGGUGGUgCGAGu--GCUGGu -3'
miRNA:   3'- -CGCG-CCGgUCACCG-GUUUuuuCGAUC- -5'
2233 5' -52.5 NC_001405.1 + 8520 0.69 0.521155
Target:  5'- cGCGCGGCgGGcggugGGCCGcgGGGGUg-- -3'
miRNA:   3'- -CGCGCCGgUCa----CCGGUuuUUUCGauc -5'
2233 5' -52.5 NC_001405.1 + 5521 0.7 0.49782
Target:  5'- uGCGC-GCCAagGGCCAcgccgcgGAGGGGCUGGa -3'
miRNA:   3'- -CGCGcCGGUcaCCGGU-------UUUUUCGAUC- -5'
2233 5' -52.5 NC_001405.1 + 3852 0.7 0.47712
Target:  5'- cCGCGGgCGGUGGCUgcAGcGGCUGa -3'
miRNA:   3'- cGCGCCgGUCACCGGuuUUuUCGAUc -5'
2233 5' -52.5 NC_001405.1 + 5350 0.71 0.414769
Target:  5'- cGCGCuGGCCagGGUGcGCUu--GAGGCUGGu -3'
miRNA:   3'- -CGCG-CCGG--UCAC-CGGuuuUUUCGAUC- -5'
2233 5' -52.5 NC_001405.1 + 14194 0.73 0.339912
Target:  5'- aGCGCGgcGCCAGUGGCgGcggc-GCUGGg -3'
miRNA:   3'- -CGCGC--CGGUCACCGgUuuuuuCGAUC- -5'
2233 5' -52.5 NC_001405.1 + 16256 0.75 0.240203
Target:  5'- cGgGCGGCCAugcgGGCCGcucGAAGGCUGGc -3'
miRNA:   3'- -CgCGCCGGUca--CCGGUu--UUUUCGAUC- -5'
2233 5' -52.5 NC_001405.1 + 10851 1.11 0.000717
Target:  5'- cGCGCGGCCAGUGGCCAAAAAAGCUAGc -3'
miRNA:   3'- -CGCGCCGGUCACCGGUUUUUUCGAUC- -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.