miRNA display CGI


Results 1 - 19 of 19 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
21213 3' -55.2 NC_004778.3 + 105714 0.66 0.901981
Target:  5'- uGAUAGUggcuuacgaagCGGCGGAGaGGCGCUacaacggGGUGa -3'
miRNA:   3'- gUUAUCA-----------GCCGUUUCgCCGCGG-------CCAC- -5'
21213 3' -55.2 NC_004778.3 + 118803 0.66 0.896063
Target:  5'- aCAAUuacgaGGCccAGCGGCGCCGuGUa -3'
miRNA:   3'- -GUUAucag-CCGuuUCGCCGCGGC-CAc -5'
21213 3' -55.2 NC_004778.3 + 71272 0.66 0.889259
Target:  5'- gCGAggguGUCGGCGAGGguguCGGCGagGGUGu -3'
miRNA:   3'- -GUUau--CAGCCGUUUC----GCCGCggCCAC- -5'
21213 3' -55.2 NC_004778.3 + 107941 0.66 0.882219
Target:  5'- ---cGGcCGGCGGuGGCGGCGCCa--- -3'
miRNA:   3'- guuaUCaGCCGUU-UCGCCGCGGccac -5'
21213 3' -55.2 NC_004778.3 + 36633 0.67 0.867451
Target:  5'- -----uUCGGCAAA-CGGCGCUGGc- -3'
miRNA:   3'- guuaucAGCCGUUUcGCCGCGGCCac -5'
21213 3' -55.2 NC_004778.3 + 77124 0.67 0.859733
Target:  5'- -----uUUGGCGAaaaggcAGCGGCGCUGGa- -3'
miRNA:   3'- guuaucAGCCGUU------UCGCCGCGGCCac -5'
21213 3' -55.2 NC_004778.3 + 81922 0.67 0.851801
Target:  5'- ---cAGUCGGUGu--UGGCGCCGGg- -3'
miRNA:   3'- guuaUCAGCCGUuucGCCGCGGCCac -5'
21213 3' -55.2 NC_004778.3 + 93395 0.67 0.851801
Target:  5'- gGAU-GUCGuGCAcgGAGCcGaCGCCGGUGg -3'
miRNA:   3'- gUUAuCAGC-CGU--UUCGcC-GCGGCCAC- -5'
21213 3' -55.2 NC_004778.3 + 76340 0.68 0.809178
Target:  5'- -uGUGG-CGGCGGuugcuGCGGCGgCGGUu -3'
miRNA:   3'- guUAUCaGCCGUUu----CGCCGCgGCCAc -5'
21213 3' -55.2 NC_004778.3 + 93627 0.68 0.809178
Target:  5'- ----uGUUGGU---GCGGCGCCGGg- -3'
miRNA:   3'- guuauCAGCCGuuuCGCCGCGGCCac -5'
21213 3' -55.2 NC_004778.3 + 34501 0.68 0.800117
Target:  5'- ---cGGcCGGCAAAaCGGCGUuuCGGUGg -3'
miRNA:   3'- guuaUCaGCCGUUUcGCCGCG--GCCAC- -5'
21213 3' -55.2 NC_004778.3 + 121999 0.68 0.789968
Target:  5'- gGAUGuUCGGCGgcuggugGAGUGGCGCCGa-- -3'
miRNA:   3'- gUUAUcAGCCGU-------UUCGCCGCGGCcac -5'
21213 3' -55.2 NC_004778.3 + 114071 0.69 0.78153
Target:  5'- uGAgcGUCGGCgAAAGCGGUgucuugcuGCCGcGUGu -3'
miRNA:   3'- gUUauCAGCCG-UUUCGCCG--------CGGC-CAC- -5'
21213 3' -55.2 NC_004778.3 + 113896 0.69 0.732786
Target:  5'- ----cGUCgGGCgAAGGCGGCGCCGcGg- -3'
miRNA:   3'- guuauCAG-CCG-UUUCGCCGCGGC-Cac -5'
21213 3' -55.2 NC_004778.3 + 113994 0.71 0.660994
Target:  5'- -cGUGGUCGcGCgGAGGCGGCGCUGcGa- -3'
miRNA:   3'- guUAUCAGC-CG-UUUCGCCGCGGC-Cac -5'
21213 3' -55.2 NC_004778.3 + 12426 0.72 0.577619
Target:  5'- -cGUGGUCGuGCcgguGGCGGgGUCGGUGu -3'
miRNA:   3'- guUAUCAGC-CGuu--UCGCCgCGGCCAC- -5'
21213 3' -55.2 NC_004778.3 + 61002 0.73 0.546811
Target:  5'- ---cGG-CGGCGGcGGCGGCGgCGGUGg -3'
miRNA:   3'- guuaUCaGCCGUU-UCGCCGCgGCCAC- -5'
21213 3' -55.2 NC_004778.3 + 118129 0.75 0.439573
Target:  5'- -----aUCGGC--GGCGGCGCCGGUu -3'
miRNA:   3'- guuaucAGCCGuuUCGCCGCGGCCAc -5'
21213 3' -55.2 NC_004778.3 + 90008 1.07 0.003579
Target:  5'- gCAAUAGUCGGCAAAGCGGCGCCGGUGc -3'
miRNA:   3'- -GUUAUCAGCCGUUUCGCCGCGGCCAC- -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.