miRNA display CGI


Results 1 - 14 of 14 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
228 5' -52.5 AC_000008.1 + 10796 0.66 0.744596
Target:  5'- uGCGCuagcuuuuuuGGCCAcUGGCCGcgcgcagcguaagcgGuuAGGCUGGa -3'
miRNA:   3'- -CGCG----------CCGGUcACCGGU---------------UuuUUCGAUC- -5'
228 5' -52.5 AC_000008.1 + 13669 0.66 0.728952
Target:  5'- cGCuGCGGCCccgcGGUCAGAu--GCUAGu -3'
miRNA:   3'- -CG-CGCCGGuca-CCGGUUUuuuCGAUC- -5'
228 5' -52.5 AC_000008.1 + 10377 0.66 0.717645
Target:  5'- aGgGUGGCCGG-GGCUccGGGGGCgAGa -3'
miRNA:   3'- -CgCGCCGGUCaCCGGuuUUUUCGaUC- -5'
228 5' -52.5 AC_000008.1 + 17278 0.67 0.683204
Target:  5'- gGCGCGGCgCAGggacgcgcGGCUAGGAcGGGUUAc -3'
miRNA:   3'- -CGCGCCG-GUCa-------CCGGUUUU-UUCGAUc -5'
228 5' -52.5 AC_000008.1 + 8220 0.67 0.648265
Target:  5'- aGCGCGGCuCAGaGGaCGAGgucugcAGAGUUAGg -3'
miRNA:   3'- -CGCGCCG-GUCaCCgGUUU------UUUCGAUC- -5'
228 5' -52.5 AC_000008.1 + 17871 0.68 0.613174
Target:  5'- gGCGCGaGCCGuGUcgcggGGCCAGAGAcGCa-- -3'
miRNA:   3'- -CGCGC-CGGU-CA-----CCGGUUUUUuCGauc -5'
228 5' -52.5 AC_000008.1 + 22150 0.69 0.555199
Target:  5'- gGCGCgGGCgGGUGGUgCGAGu--GCUGGu -3'
miRNA:   3'- -CGCG-CCGgUCACCG-GUUUuuuCGAUC- -5'
228 5' -52.5 AC_000008.1 + 8530 0.69 0.521163
Target:  5'- cGCGCGGCgGGcggugGGCCGcgGGGGUg-- -3'
miRNA:   3'- -CGCGCCGgUCa----CCGGUuuUUUCGauc -5'
228 5' -52.5 AC_000008.1 + 30408 0.7 0.497829
Target:  5'- uGCGC-GCCAagGGCCAcgccgcgGAGGGGCUGGa -3'
miRNA:   3'- -CGCGcCGGUcaCCGGU-------UUUUUCGAUC- -5'
228 5' -52.5 AC_000008.1 + 32078 0.7 0.477128
Target:  5'- cCGCGGgCGGUGGCUgcAGcGGCUGa -3'
miRNA:   3'- cGCGCCgGUCACCGGuuUUuUCGAUc -5'
228 5' -52.5 AC_000008.1 + 5360 0.71 0.414776
Target:  5'- cGCGCuGGCCagGGUGcGCUu--GAGGCUGGu -3'
miRNA:   3'- -CGCG-CCGG--UCAC-CGGuuuUUUCGAUC- -5'
228 5' -52.5 AC_000008.1 + 14199 0.73 0.339919
Target:  5'- aGCGCGgcGCCAGUGGCgGcggc-GCUGGg -3'
miRNA:   3'- -CGCGC--CGGUCACCGgUuuuuuCGAUC- -5'
228 5' -52.5 AC_000008.1 + 16261 0.75 0.240209
Target:  5'- cGgGCGGCCAugcgGGCCGcucGAAGGCUGGc -3'
miRNA:   3'- -CgCGCCGGUca--CCGGUu--UUUUCGAUC- -5'
228 5' -52.5 AC_000008.1 + 25078 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.