miRNA display CGI


Results 1 - 20 of 79 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
16068 3' -62.5 NC_004065.1 + 1 0.71 0.462278
Target:  5'- ----GGGCCCGcGCGCacUCAGACGGCc -3'
miRNA:   3'- gaggCUCGGGC-CGCGc-AGUCUGCCGu -5'
16068 3' -62.5 NC_004065.1 + 484 0.69 0.560631
Target:  5'- cCUCCGGGCCgCGcGcCGCGUCcgcgggaAGGCGGgGu -3'
miRNA:   3'- -GAGGCUCGG-GC-C-GCGCAG-------UCUGCCgU- -5'
16068 3' -62.5 NC_004065.1 + 616 0.67 0.675201
Target:  5'- --aCGcGCUCaGGCuCGUCAGGCGGCGg -3'
miRNA:   3'- gagGCuCGGG-CCGcGCAGUCUGCCGU- -5'
16068 3' -62.5 NC_004065.1 + 8292 0.66 0.731066
Target:  5'- aUCgGGGCCgCGGUguuaGCGgucguguaccUCAGACGGCc -3'
miRNA:   3'- gAGgCUCGG-GCCG----CGC----------AGUCUGCCGu -5'
16068 3' -62.5 NC_004065.1 + 18128 0.72 0.388351
Target:  5'- cCUCCGGGCCCGcCGCG--GGACGGgAu -3'
miRNA:   3'- -GAGGCUCGGGCcGCGCagUCUGCCgU- -5'
16068 3' -62.5 NC_004065.1 + 24739 0.7 0.506408
Target:  5'- --gCGAGUCUGGCGCacucGUUGGGCGGCc -3'
miRNA:   3'- gagGCUCGGGCCGCG----CAGUCUGCCGu -5'
16068 3' -62.5 NC_004065.1 + 26437 0.69 0.574692
Target:  5'- gUCCGAGUCCGGacuGCGguacgCAuacacguugguggucGACGGCAc -3'
miRNA:   3'- gAGGCUCGGGCCg--CGCa----GU---------------CUGCCGU- -5'
16068 3' -62.5 NC_004065.1 + 31567 0.71 0.453694
Target:  5'- uCUCCGA-CCCgaacgcggacgcGGCGaCGUCGGugGGCu -3'
miRNA:   3'- -GAGGCUcGGG------------CCGC-GCAGUCugCCGu -5'
16068 3' -62.5 NC_004065.1 + 32342 0.66 0.749174
Target:  5'- -gUCGAGUCgagCGGCG-GUCGGuACGGCGa -3'
miRNA:   3'- gaGGCUCGG---GCCGCgCAGUC-UGCCGU- -5'
16068 3' -62.5 NC_004065.1 + 33655 0.67 0.703367
Target:  5'- gCUUCGAccGUCCGGCGCGcggGGAgGGCc -3'
miRNA:   3'- -GAGGCU--CGGGCCGCGCag-UCUgCCGu -5'
16068 3' -62.5 NC_004065.1 + 34917 0.66 0.731066
Target:  5'- ----cAGCCCGGUGCGgugCGGACGaaGCAu -3'
miRNA:   3'- gaggcUCGGGCCGCGCa--GUCUGC--CGU- -5'
16068 3' -62.5 NC_004065.1 + 35101 0.66 0.749174
Target:  5'- uCUCUGuGCgagCCGGUGUaUCgAGACGGCGg -3'
miRNA:   3'- -GAGGCuCG---GGCCGCGcAG-UCUGCCGU- -5'
16068 3' -62.5 NC_004065.1 + 47144 0.66 0.749174
Target:  5'- uCUCCGAGCUCGuGgGCGa-AGGCguGGCGa -3'
miRNA:   3'- -GAGGCUCGGGC-CgCGCagUCUG--CCGU- -5'
16068 3' -62.5 NC_004065.1 + 49718 0.66 0.749174
Target:  5'- uCUCCauGAuGCCCGGCGagaGuUCGGAcCGGUg -3'
miRNA:   3'- -GAGG--CU-CGGGCCGCg--C-AGUCU-GCCGu -5'
16068 3' -62.5 NC_004065.1 + 56376 0.66 0.749174
Target:  5'- -aCgGGGUCCGGCaGgGUCGGA-GGCGc -3'
miRNA:   3'- gaGgCUCGGGCCG-CgCAGUCUgCCGU- -5'
16068 3' -62.5 NC_004065.1 + 57027 0.66 0.712662
Target:  5'- gCUCuCGAGCCaUGGCuCGUCGu-CGGCAc -3'
miRNA:   3'- -GAG-GCUCGG-GCCGcGCAGUcuGCCGU- -5'
16068 3' -62.5 NC_004065.1 + 57388 0.68 0.618229
Target:  5'- uCUCCgGAGCUcgCGGU-CGUCAcGGCGGCAu -3'
miRNA:   3'- -GAGG-CUCGG--GCCGcGCAGU-CUGCCGU- -5'
16068 3' -62.5 NC_004065.1 + 62016 0.66 0.758098
Target:  5'- -aCCG-GCCCGaGaCGCGUC-GACGGa- -3'
miRNA:   3'- gaGGCuCGGGC-C-GCGCAGuCUGCCgu -5'
16068 3' -62.5 NC_004065.1 + 65546 0.66 0.749174
Target:  5'- -gCUGAcGCUgGGCGCGUC-GcCGGCGg -3'
miRNA:   3'- gaGGCU-CGGgCCGCGCAGuCuGCCGU- -5'
16068 3' -62.5 NC_004065.1 + 66742 0.66 0.749174
Target:  5'- gUCgGAcCCCGGCgGCGUCgcgaccgaagAGACGGUc -3'
miRNA:   3'- gAGgCUcGGGCCG-CGCAG----------UCUGCCGu -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.