miRNA display CGI


Results 1 - 20 of 23 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
1444 5' -55.6 NC_001335.1 + 6479 0.66 0.715623
Target:  5'- cCUCCGaugaAUCGCCUAgcGCUCAUCa--- -3'
miRNA:   3'- -GAGGCag--UAGCGGGU--CGAGUAGcucg -5'
1444 5' -55.6 NC_001335.1 + 22396 0.66 0.715623
Target:  5'- cCUCCGggGUgaUGCCCAGCgccugCAg-GAGCa -3'
miRNA:   3'- -GAGGCagUA--GCGGGUCGa----GUagCUCG- -5'
1444 5' -55.6 NC_001335.1 + 37358 0.66 0.694098
Target:  5'- -gCUGaagAUCGCCCGGUUCAUgGAGa -3'
miRNA:   3'- gaGGCag-UAGCGGGUCGAGUAgCUCg -5'
1444 5' -55.6 NC_001335.1 + 49091 0.66 0.694098
Target:  5'- -aCCG-CAUCGaCCGGCUCGUCa--- -3'
miRNA:   3'- gaGGCaGUAGCgGGUCGAGUAGcucg -5'
1444 5' -55.6 NC_001335.1 + 33192 0.66 0.661389
Target:  5'- --gCGUUGUCaGCCCAGCaCAUCugguaGAGCg -3'
miRNA:   3'- gagGCAGUAG-CGGGUCGaGUAG-----CUCG- -5'
1444 5' -55.6 NC_001335.1 + 37995 0.67 0.650418
Target:  5'- -aCCGUCGgcaGCCCacacAGCUCggcggugaucguGUCGAGUu -3'
miRNA:   3'- gaGGCAGUag-CGGG----UCGAG------------UAGCUCG- -5'
1444 5' -55.6 NC_001335.1 + 45391 0.67 0.63943
Target:  5'- gUCUGUCAagUCGUCCAaCUCAUCcuGCu -3'
miRNA:   3'- gAGGCAGU--AGCGGGUcGAGUAGcuCG- -5'
1444 5' -55.6 NC_001335.1 + 17872 0.67 0.628435
Target:  5'- -cCCGacucCAUCGCCCuggacAGCUCAgccgCGAGa -3'
miRNA:   3'- gaGGCa---GUAGCGGG-----UCGAGUa---GCUCg -5'
1444 5' -55.6 NC_001335.1 + 19689 0.67 0.628435
Target:  5'- gUCCaUCAU--CCCGGUcCAUCGAGCg -3'
miRNA:   3'- gAGGcAGUAgcGGGUCGaGUAGCUCG- -5'
1444 5' -55.6 NC_001335.1 + 19110 0.68 0.573696
Target:  5'- aCUgCGUCAUCGacaccgaCCGGCgCGagGAGCa -3'
miRNA:   3'- -GAgGCAGUAGCg------GGUCGaGUagCUCG- -5'
1444 5' -55.6 NC_001335.1 + 19491 0.68 0.562858
Target:  5'- -gUCGcCAUCGCgCAGCUCuacGUCGGGa -3'
miRNA:   3'- gaGGCaGUAGCGgGUCGAG---UAGCUCg -5'
1444 5' -55.6 NC_001335.1 + 11973 0.68 0.541356
Target:  5'- ---aG-CGUCGCCCGcuGUUCAUCGAGUc -3'
miRNA:   3'- gaggCaGUAGCGGGU--CGAGUAGCUCG- -5'
1444 5' -55.6 NC_001335.1 + 25809 0.69 0.520136
Target:  5'- -gCCGUCGgcgggcuggcguUCGCCCugucguucacGGCUCucagCGAGCu -3'
miRNA:   3'- gaGGCAGU------------AGCGGG----------UCGAGua--GCUCG- -5'
1444 5' -55.6 NC_001335.1 + 23818 0.69 0.519083
Target:  5'- -cCCGUUGUCGaccaagacgaucaCCgGGCUCGUCgGAGCu -3'
miRNA:   3'- gaGGCAGUAGC-------------GGgUCGAGUAG-CUCG- -5'
1444 5' -55.6 NC_001335.1 + 48098 0.7 0.458661
Target:  5'- -aCCGaugaaGUUGCCCAGCUCcgCGccAGCg -3'
miRNA:   3'- gaGGCag---UAGCGGGUCGAGuaGC--UCG- -5'
1444 5' -55.6 NC_001335.1 + 16154 0.7 0.458661
Target:  5'- uCUCggCGUCAUCGCCUAGaUCucCGAGCc -3'
miRNA:   3'- -GAG--GCAGUAGCGGGUCgAGuaGCUCG- -5'
1444 5' -55.6 NC_001335.1 + 29518 0.71 0.4199
Target:  5'- -gCCaUCuUCGaCCAGCUUGUCGAGCa -3'
miRNA:   3'- gaGGcAGuAGCgGGUCGAGUAGCUCG- -5'
1444 5' -55.6 NC_001335.1 + 1117 0.71 0.374349
Target:  5'- uUUCGUCGUCuGuCCCAGUagGUCGGGUa -3'
miRNA:   3'- gAGGCAGUAG-C-GGGUCGagUAGCUCG- -5'
1444 5' -55.6 NC_001335.1 + 32155 0.72 0.340398
Target:  5'- uUCCGgcccgCGaacUCGgCCAGCUCGUCG-GCa -3'
miRNA:   3'- gAGGCa----GU---AGCgGGUCGAGUAGCuCG- -5'
1444 5' -55.6 NC_001335.1 + 39059 0.72 0.332266
Target:  5'- aUCCGg-GUCuCCCAGCUCGUaGAGCu -3'
miRNA:   3'- gAGGCagUAGcGGGUCGAGUAgCUCG- -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.