miRNA display CGI


Results 1 - 20 of 26 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
23514 5' -57.8 NC_005259.1 + 38064 0.66 0.681709
Target:  5'- -cUGCCGACGaGccgccaUCgagcaUGGcCCACGUCGAg -3'
miRNA:   3'- gaGCGGCUGC-C------AGa----ACC-GGUGCAGCU- -5'
23514 5' -57.8 NC_005259.1 + 38655 0.68 0.566214
Target:  5'- aCUCGCCGAaaucgaccaccuCGcUgUUGGCCGCcggGUCGAg -3'
miRNA:   3'- -GAGCGGCU------------GCcAgAACCGGUG---CAGCU- -5'
23514 5' -57.8 NC_005259.1 + 42769 0.67 0.576622
Target:  5'- -cUGCuCGGCGGUCUcggGGCCGCcacCGAu -3'
miRNA:   3'- gaGCG-GCUGCCAGAa--CCGGUGca-GCU- -5'
23514 5' -57.8 NC_005259.1 + 17237 0.67 0.576622
Target:  5'- aUCGCCaGcCGGUCUcacgcUGGCCACcUCa- -3'
miRNA:   3'- gAGCGG-CuGCCAGA-----ACCGGUGcAGcu -5'
23514 5' -57.8 NC_005259.1 + 58836 0.67 0.608069
Target:  5'- cCUCGCCGcccuCGGUCUcacccucgGGCuCGcCGUCGu -3'
miRNA:   3'- -GAGCGGCu---GCCAGAa-------CCG-GU-GCAGCu -5'
23514 5' -57.8 NC_005259.1 + 60294 0.67 0.608069
Target:  5'- aUCGUCGuCGGUgc-GGCCACGgacggCGAa -3'
miRNA:   3'- gAGCGGCuGCCAgaaCCGGUGCa----GCU- -5'
23514 5' -57.8 NC_005259.1 + 3294 0.67 0.629141
Target:  5'- cCUCGCCGGucccuCGG-CgaGcGCUGCGUCGAc -3'
miRNA:   3'- -GAGCGGCU-----GCCaGaaC-CGGUGCAGCU- -5'
23514 5' -57.8 NC_005259.1 + 777 0.66 0.639685
Target:  5'- -gCGCCGAggcggcugcccuCGGUUgggUGGCCAaggggccgggUGUCGAg -3'
miRNA:   3'- gaGCGGCU------------GCCAGa--ACCGGU----------GCAGCU- -5'
23514 5' -57.8 NC_005259.1 + 52921 0.66 0.639685
Target:  5'- -cCGCCGAC--UCgaUGGCCugGUCGc -3'
miRNA:   3'- gaGCGGCUGccAGa-ACCGGugCAGCu -5'
23514 5' -57.8 NC_005259.1 + 20068 0.68 0.566214
Target:  5'- -gCGgUGGCGGUCgucaCCACGUCGAa -3'
miRNA:   3'- gaGCgGCUGCCAGaaccGGUGCAGCU- -5'
23514 5' -57.8 NC_005259.1 + 52608 0.68 0.555855
Target:  5'- -gCGCCGuACGGU---GGCCaacuACGUCGAg -3'
miRNA:   3'- gaGCGGC-UGCCAgaaCCGG----UGCAGCU- -5'
23514 5' -57.8 NC_005259.1 + 49748 0.69 0.485241
Target:  5'- gCUCGUCaguGACGGUCUU-GCCgucuGCGUUGAa -3'
miRNA:   3'- -GAGCGG---CUGCCAGAAcCGG----UGCAGCU- -5'
23514 5' -57.8 NC_005259.1 + 39900 0.74 0.238379
Target:  5'- gUCGCCGcCGcccgccucgauccGUCgagGGCCGCGUCGAg -3'
miRNA:   3'- gAGCGGCuGC-------------CAGaa-CCGGUGCAGCU- -5'
23514 5' -57.8 NC_005259.1 + 58913 0.73 0.304926
Target:  5'- gCUCGUCGGCGGUCUUGu---CGUCGGc -3'
miRNA:   3'- -GAGCGGCUGCCAGAACcgguGCAGCU- -5'
23514 5' -57.8 NC_005259.1 + 46611 0.72 0.334195
Target:  5'- gUCGuuGGCGGUCUUGGUggccugaCugGUCa- -3'
miRNA:   3'- gAGCggCUGCCAGAACCG-------GugCAGcu -5'
23514 5' -57.8 NC_005259.1 + 60568 0.72 0.334972
Target:  5'- -gUGCCGACGGUCaggcGGCCcACGgCGAg -3'
miRNA:   3'- gaGCGGCUGCCAGaa--CCGG-UGCaGCU- -5'
23514 5' -57.8 NC_005259.1 + 43415 0.72 0.342814
Target:  5'- cCUCGgCGGCGGUUUccucgcucgacUGGCUGCGcUCGAu -3'
miRNA:   3'- -GAGCgGCUGCCAGA-----------ACCGGUGC-AGCU- -5'
23514 5' -57.8 NC_005259.1 + 36442 0.72 0.342814
Target:  5'- gUCGCCGA-GGUCga--CCGCGUCGAg -3'
miRNA:   3'- gAGCGGCUgCCAGaaccGGUGCAGCU- -5'
23514 5' -57.8 NC_005259.1 + 58983 0.7 0.428295
Target:  5'- gUCGgCGACGGcgagCUUGGCCuuuucacCGUUGAg -3'
miRNA:   3'- gAGCgGCUGCCa---GAACCGGu------GCAGCU- -5'
23514 5' -57.8 NC_005259.1 + 26506 0.7 0.450612
Target:  5'- gCUCGCCGcccggcgagaagagcGCGGUgagcagCUUGGCCACcaCGAu -3'
miRNA:   3'- -GAGCGGC---------------UGCCA------GAACCGGUGcaGCU- -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.