miRNA display CGI


Results 1 - 20 of 31 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
23458 3' -56.7 NC_005259.1 + 979 0.66 0.727024
Target:  5'- ----cGGCGACGAgacaccggCAGccGUGUGGUGUa -3'
miRNA:   3'- gacuaCCGCUGCUa-------GUC--CGCGCCACG- -5'
23458 3' -56.7 NC_005259.1 + 3167 0.67 0.621176
Target:  5'- gUGAUgcccGGCGAUGucaAGGuCGuCGGUGCg -3'
miRNA:   3'- gACUA----CCGCUGCuagUCC-GC-GCCACG- -5'
23458 3' -56.7 NC_005259.1 + 14651 0.73 0.333433
Target:  5'- -cGAUGGCGugGGcucagcccgacUCGGGC-CGcGUGCa -3'
miRNA:   3'- gaCUACCGCugCU-----------AGUCCGcGC-CACG- -5'
23458 3' -56.7 NC_005259.1 + 20511 0.66 0.695742
Target:  5'- ----cGGCGACGGUgucccgagcaCGGGUGCGcUGCc -3'
miRNA:   3'- gacuaCCGCUGCUA----------GUCCGCGCcACG- -5'
23458 3' -56.7 NC_005259.1 + 23127 0.66 0.685185
Target:  5'- gCUGuccGGCaGCGAUguGaCGUGGUGCg -3'
miRNA:   3'- -GACua-CCGcUGCUAguCcGCGCCACG- -5'
23458 3' -56.7 NC_005259.1 + 23261 0.67 0.621176
Target:  5'- -cGGUGGCcACcaugagcaccaaGAcCGGGCGCGGUGg -3'
miRNA:   3'- gaCUACCGcUG------------CUaGUCCGCGCCACg -5'
23458 3' -56.7 NC_005259.1 + 24026 0.66 0.706241
Target:  5'- -gGGcUGGCGAaauggaaccgcCGcaacGUCGucGGCGCGGUGCu -3'
miRNA:   3'- gaCU-ACCGCU-----------GC----UAGU--CCGCGCCACG- -5'
23458 3' -56.7 NC_005259.1 + 26377 0.69 0.516014
Target:  5'- -cGGUGGCGagccuguugcucGCGAUuccgacgcCGGGCGCGGcggUGCc -3'
miRNA:   3'- gaCUACCGC------------UGCUA--------GUCCGCGCC---ACG- -5'
23458 3' -56.7 NC_005259.1 + 27386 0.66 0.727024
Target:  5'- gUGAccGGCGGCGGUgucGGCaGCGGcgGCa -3'
miRNA:   3'- gACUa-CCGCUGCUAgu-CCG-CGCCa-CG- -5'
23458 3' -56.7 NC_005259.1 + 28339 0.7 0.475858
Target:  5'- ---uUGGCGGCGAaaUCgAGGCcaCGGUGCu -3'
miRNA:   3'- gacuACCGCUGCU--AG-UCCGc-GCCACG- -5'
23458 3' -56.7 NC_005259.1 + 32897 0.65 0.734218
Target:  5'- -cGggGGCGAgggUGAgccacccggcccgcUCGGGCGCGGcgGUa -3'
miRNA:   3'- gaCuaCCGCU---GCU--------------AGUCCGCGCCa-CG- -5'
23458 3' -56.7 NC_005259.1 + 41634 0.71 0.391774
Target:  5'- aUGGUGGCGGugcCGGUCugcGGGCGCucGGUGa -3'
miRNA:   3'- gACUACCGCU---GCUAG---UCCGCG--CCACg -5'
23458 3' -56.7 NC_005259.1 + 46968 0.66 0.695742
Target:  5'- uUGuUGGCcacgccgccGAUGAUCGGGCcGagGGUGCg -3'
miRNA:   3'- gACuACCG---------CUGCUAGUCCG-Cg-CCACG- -5'
23458 3' -56.7 NC_005259.1 + 50143 0.66 0.706241
Target:  5'- -cGAuUGGUuGGCGAUCcGGCGCGuGaGCg -3'
miRNA:   3'- gaCU-ACCG-CUGCUAGuCCGCGC-CaCG- -5'
23458 3' -56.7 NC_005259.1 + 50494 0.68 0.599815
Target:  5'- -cGAUGaGcCGGuCGAUguGG-GCGGUGCg -3'
miRNA:   3'- gaCUAC-C-GCU-GCUAguCCgCGCCACG- -5'
23458 3' -56.7 NC_005259.1 + 53729 0.72 0.365971
Target:  5'- gCUGAUGGUGAUGucgcCGGGUGUccacucGGUGCc -3'
miRNA:   3'- -GACUACCGCUGCua--GUCCGCG------CCACG- -5'
23458 3' -56.7 NC_005259.1 + 54021 0.81 0.098208
Target:  5'- -----aGCGACGcUCGGGCGCGGUGCg -3'
miRNA:   3'- gacuacCGCUGCuAGUCCGCGCCACG- -5'
23458 3' -56.7 NC_005259.1 + 54508 0.68 0.589169
Target:  5'- --cAUGGCGGCGAUguGGgGUGGcggGUc -3'
miRNA:   3'- gacUACCGCUGCUAguCCgCGCCa--CG- -5'
23458 3' -56.7 NC_005259.1 + 55105 0.67 0.653264
Target:  5'- -cGAUGGCGGCGAaaaaugCAccGGCuGCcGUGCc -3'
miRNA:   3'- gaCUACCGCUGCUa-----GU--CCG-CGcCACG- -5'
23458 3' -56.7 NC_005259.1 + 56502 0.66 0.716673
Target:  5'- -cGGUGGCGAUGAuucccUCAGGCauUGGUa- -3'
miRNA:   3'- gaCUACCGCUGCU-----AGUCCGc-GCCAcg -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.