miRNA display CGI


Results 1 - 20 of 36 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
18134 3' -57.9 NC_004680.1 + 35206 0.66 0.620895
Target:  5'- aGaCGCCGcGACCAGUGaCACgaCGCAGc -3'
miRNA:   3'- gC-GCGGCcCUGGUUACaGUGg-GUGUC- -5'
18134 3' -57.9 NC_004680.1 + 2865 0.66 0.620895
Target:  5'- uGCGCCGGGACgaCGAcUG-CACaaagCACGGa -3'
miRNA:   3'- gCGCGGCCCUG--GUU-ACaGUGg---GUGUC- -5'
18134 3' -57.9 NC_004680.1 + 22206 0.66 0.610177
Target:  5'- gGCGUCGGGAaCAGcGaCACCgACGGa -3'
miRNA:   3'- gCGCGGCCCUgGUUaCaGUGGgUGUC- -5'
18134 3' -57.9 NC_004680.1 + 38791 0.66 0.609106
Target:  5'- cCGCGCCGGGACCcuccaacggcuggGAcgaacUG-CACaaGCAGg -3'
miRNA:   3'- -GCGCGGCCCUGG-------------UU-----ACaGUGggUGUC- -5'
18134 3' -57.9 NC_004680.1 + 41928 0.66 0.599477
Target:  5'- uGCGgUGaGGugUucgaaccgGUCACCCGCAGg -3'
miRNA:   3'- gCGCgGC-CCugGuua-----CAGUGGGUGUC- -5'
18134 3' -57.9 NC_004680.1 + 19688 0.66 0.599477
Target:  5'- gGCGgCGGaGACCAGaagGUCAUgggcggCCACGGu -3'
miRNA:   3'- gCGCgGCC-CUGGUUa--CAGUG------GGUGUC- -5'
18134 3' -57.9 NC_004680.1 + 24846 0.66 0.599477
Target:  5'- gGCGCCGGGGacuaCAAcgcUGcgggCGCCCcCGGa -3'
miRNA:   3'- gCGCGGCCCUg---GUU---ACa---GUGGGuGUC- -5'
18134 3' -57.9 NC_004680.1 + 13936 0.67 0.567568
Target:  5'- uGCuGUCGcGGCCcAUGcgCGCCCACAGg -3'
miRNA:   3'- gCG-CGGCcCUGGuUACa-GUGGGUGUC- -5'
18134 3' -57.9 NC_004680.1 + 12227 0.67 0.567568
Target:  5'- aGCGCCGgacGGGuuGAUGUUGCCCGgGu -3'
miRNA:   3'- gCGCGGC---CCUggUUACAGUGGGUgUc -5'
18134 3' -57.9 NC_004680.1 + 4471 0.67 0.567568
Target:  5'- aGCGCCGuaacGGAgCCAGUGgaACCgGCAGu -3'
miRNA:   3'- gCGCGGC----CCU-GGUUACagUGGgUGUC- -5'
18134 3' -57.9 NC_004680.1 + 12709 0.67 0.564399
Target:  5'- aGCGCCGGGuGCCAucgcguccagcgccAUGcCGCCgGCc- -3'
miRNA:   3'- gCGCGGCCC-UGGU--------------UACaGUGGgUGuc -5'
18134 3' -57.9 NC_004680.1 + 54379 0.67 0.557022
Target:  5'- uGcCGaCCGGGAucCCGAUGUgGaCCCACGa -3'
miRNA:   3'- gC-GC-GGCCCU--GGUUACAgU-GGGUGUc -5'
18134 3' -57.9 NC_004680.1 + 51234 0.67 0.536106
Target:  5'- cCGUGCCuGGGACCAGUcGUgcgaagacugCGCUCAguGg -3'
miRNA:   3'- -GCGCGG-CCCUGGUUA-CA----------GUGGGUguC- -5'
18134 3' -57.9 NC_004680.1 + 21635 0.67 0.536106
Target:  5'- uCG-GCCGGGGCCGgggggGUGUCgucguccaaGCUCACAa -3'
miRNA:   3'- -GCgCGGCCCUGGU-----UACAG---------UGGGUGUc -5'
18134 3' -57.9 NC_004680.1 + 14816 0.67 0.536106
Target:  5'- uCGgGCCGGGGCU--UGcCACuCCAgGGg -3'
miRNA:   3'- -GCgCGGCCCUGGuuACaGUG-GGUgUC- -5'
18134 3' -57.9 NC_004680.1 + 42766 0.67 0.525751
Target:  5'- uGCGCUGaauGGCgAGUGaUCGCCCGCAu -3'
miRNA:   3'- gCGCGGCc--CUGgUUAC-AGUGGGUGUc -5'
18134 3' -57.9 NC_004680.1 + 28322 0.68 0.505275
Target:  5'- gGCGUCGGGGCCGAUc-CACCagggaACAc -3'
miRNA:   3'- gCGCGGCCCUGGUUAcaGUGGg----UGUc -5'
18134 3' -57.9 NC_004680.1 + 21257 0.68 0.495165
Target:  5'- uCGUcgGCCGGGGCUggUGUCgguaGCgCCACu- -3'
miRNA:   3'- -GCG--CGGCCCUGGuuACAG----UG-GGUGuc -5'
18134 3' -57.9 NC_004680.1 + 17152 0.68 0.485149
Target:  5'- uGCGCCGGGAUCGA---CACCUgggcCAGa -3'
miRNA:   3'- gCGCGGCCCUGGUUacaGUGGGu---GUC- -5'
18134 3' -57.9 NC_004680.1 + 44891 0.68 0.47523
Target:  5'- aGCGCUGGcGGCCGAg---ACCCugAGg -3'
miRNA:   3'- gCGCGGCC-CUGGUUacagUGGGugUC- -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.