miRNA display CGI


Results 1 - 20 of 53 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
23332 5' -58.1 NC_005259.1 + 20103 0.66 0.680399
Target:  5'- cCGUGGUGA--GCCGCCGucucaAGGcCGc -3'
miRNA:   3'- -GCGCCACUagCGGCGGCuug--UCCuGC- -5'
23332 5' -58.1 NC_005259.1 + 60505 0.66 0.678316
Target:  5'- gCGcCGGUGuugucguagugCGCCaugGCCGGGcCGGGACGc -3'
miRNA:   3'- -GC-GCCACua---------GCGG---CGGCUU-GUCCUGC- -5'
23332 5' -58.1 NC_005259.1 + 50240 0.66 0.669966
Target:  5'- gCGCGGgcgcgGAUCGUgGCC-AACGGG-Cu -3'
miRNA:   3'- -GCGCCa----CUAGCGgCGGcUUGUCCuGc -5'
23332 5' -58.1 NC_005259.1 + 56220 0.66 0.669966
Target:  5'- -uCGGUGuaugccagucGUCGCCGCCGAccACguuGGGAuCGg -3'
miRNA:   3'- gcGCCAC----------UAGCGGCGGCU--UG---UCCU-GC- -5'
23332 5' -58.1 NC_005259.1 + 35773 0.66 0.659501
Target:  5'- uCGUGGUcGAccacgggaugUCGaCGCCGcgccucAACAGGACGg -3'
miRNA:   3'- -GCGCCA-CU----------AGCgGCGGC------UUGUCCUGC- -5'
23332 5' -58.1 NC_005259.1 + 49376 0.66 0.649012
Target:  5'- gGcCGGUGAgaUCGUucuugaCGCCGAGCGaGACGu -3'
miRNA:   3'- gC-GCCACU--AGCG------GCGGCUUGUcCUGC- -5'
23332 5' -58.1 NC_005259.1 + 32340 0.66 0.642712
Target:  5'- gCGCGGccaucaacgcgagguUGAUgaCCGCCGugUAGGGCGg -3'
miRNA:   3'- -GCGCC---------------ACUAgcGGCGGCuuGUCCUGC- -5'
23332 5' -58.1 NC_005259.1 + 58920 0.66 0.63851
Target:  5'- gGCGGUcuuGUCGUCGgCGGGCGcGGugGc -3'
miRNA:   3'- gCGCCAc--UAGCGGCgGCUUGU-CCugC- -5'
23332 5' -58.1 NC_005259.1 + 13420 0.66 0.637459
Target:  5'- gGcCGG-GGUCGCCGCCGGGgccgcgcUAGG-CGu -3'
miRNA:   3'- gC-GCCaCUAGCGGCGGCUU-------GUCCuGC- -5'
23332 5' -58.1 NC_005259.1 + 42977 0.66 0.636408
Target:  5'- nGcCGGgGAUCaucguugccgccCCGCCGAACAgGGACGa -3'
miRNA:   3'- gC-GCCaCUAGc-----------GGCGGCUUGU-CCUGC- -5'
23332 5' -58.1 NC_005259.1 + 21250 0.66 0.632205
Target:  5'- gCGCGGguucuggaaagcccaUGGUCGUCGgccugaCGAGCAGGcCGa -3'
miRNA:   3'- -GCGCC---------------ACUAGCGGCg-----GCUUGUCCuGC- -5'
23332 5' -58.1 NC_005259.1 + 65893 0.66 0.628002
Target:  5'- gGCGGgacGGUC-CCGCCGGACAaGaGAUa -3'
miRNA:   3'- gCGCCa--CUAGcGGCGGCUUGU-C-CUGc -5'
23332 5' -58.1 NC_005259.1 + 17063 0.67 0.621698
Target:  5'- gGCGGUGcgCgcauuugugcgucagGCCGCCGAuauuGGGCu -3'
miRNA:   3'- gCGCCACuaG---------------CGGCGGCUugu-CCUGc -5'
23332 5' -58.1 NC_005259.1 + 39145 0.67 0.617497
Target:  5'- cCGauGUGAUCGCCgacguugaaaccGCCGAacacgucgaGCAGGuCGa -3'
miRNA:   3'- -GCgcCACUAGCGG------------CGGCU---------UGUCCuGC- -5'
23332 5' -58.1 NC_005259.1 + 31191 0.67 0.617497
Target:  5'- gGCGaG-GAU-GCCGCCGAAgauCGGGAUGc -3'
miRNA:   3'- gCGC-CaCUAgCGGCGGCUU---GUCCUGC- -5'
23332 5' -58.1 NC_005259.1 + 622 0.67 0.600717
Target:  5'- uGCuGGUGAUCGaccgugacaacgccaCCGCCGA---GGACGu -3'
miRNA:   3'- gCG-CCACUAGC---------------GGCGGCUuguCCUGC- -5'
23332 5' -58.1 NC_005259.1 + 58798 0.67 0.586085
Target:  5'- gGCGGUGAUUGCC-UCG-GCGGGcucGCGc -3'
miRNA:   3'- gCGCCACUAGCGGcGGCuUGUCC---UGC- -5'
23332 5' -58.1 NC_005259.1 + 55344 0.67 0.586085
Target:  5'- aGCGGUGG-CGauGCCGAACgccugAGcGACGg -3'
miRNA:   3'- gCGCCACUaGCggCGGCUUG-----UC-CUGC- -5'
23332 5' -58.1 NC_005259.1 + 14158 0.67 0.575675
Target:  5'- gCGCGucgugugGAUC-UCGCCGGGCGGGugGc -3'
miRNA:   3'- -GCGCca-----CUAGcGGCGGCUUGUCCugC- -5'
23332 5' -58.1 NC_005259.1 + 51215 0.67 0.565307
Target:  5'- uGCGGUaGAUCaCCGCCGGAUcguAGGccCGg -3'
miRNA:   3'- gCGCCA-CUAGcGGCGGCUUG---UCCu-GC- -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.