miRNA display CGI


Results 1 - 20 of 30 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
18794 3' -58.2 NC_004683.1 + 20456 0.66 0.545174
Target:  5'- -cGCCGaugGC-CGGCGAGCggaaaGCCGGa -3'
miRNA:   3'- auCGGCa--CGaGCUGCUCGaac--CGGUC- -5'
18794 3' -58.2 NC_004683.1 + 5692 0.66 0.545174
Target:  5'- aGGCCGUGacccucaCGACcGGCaccGGCCAGg -3'
miRNA:   3'- aUCGGCACga-----GCUGcUCGaa-CCGGUC- -5'
18794 3' -58.2 NC_004683.1 + 51277 0.66 0.534565
Target:  5'- aGGCCGgugagGCacucaUCGcCGAGCUggagGGCCGc -3'
miRNA:   3'- aUCGGCa----CG-----AGCuGCUCGAa---CCGGUc -5'
18794 3' -58.2 NC_004683.1 + 13666 0.66 0.534565
Target:  5'- aUAGCCGaucGCgcggUUGGCGAGCUUGauGCCGa -3'
miRNA:   3'- -AUCGGCa--CG----AGCUGCUCGAAC--CGGUc -5'
18794 3' -58.2 NC_004683.1 + 53686 0.66 0.524029
Target:  5'- -cGCCGcaGCUCGGCG-GCgaagacgcGGCCGGc -3'
miRNA:   3'- auCGGCa-CGAGCUGCuCGaa------CCGGUC- -5'
18794 3' -58.2 NC_004683.1 + 46932 0.66 0.502172
Target:  5'- aGGCCGUGgUgugugccCGACGcGGUgaccgUGGCCAGc -3'
miRNA:   3'- aUCGGCACgA-------GCUGC-UCGa----ACCGGUC- -5'
18794 3' -58.2 NC_004683.1 + 24515 0.67 0.492927
Target:  5'- cAGCuuCGaGCUCGGCGAGCUguGCCGa -3'
miRNA:   3'- aUCG--GCaCGAGCUGCUCGAacCGGUc -5'
18794 3' -58.2 NC_004683.1 + 23953 0.67 0.492927
Target:  5'- cUGGCCaaGCUCGuCGAGCacGGCUAc -3'
miRNA:   3'- -AUCGGcaCGAGCuGCUCGaaCCGGUc -5'
18794 3' -58.2 NC_004683.1 + 51371 0.67 0.492927
Target:  5'- aUGGCCGccaucCUCGACGAccGCgUGaGCCAGg -3'
miRNA:   3'- -AUCGGCac---GAGCUGCU--CGaAC-CGGUC- -5'
18794 3' -58.2 NC_004683.1 + 42106 0.67 0.482747
Target:  5'- -cGCCGuUGCcCGACccGCcUGGCCAGu -3'
miRNA:   3'- auCGGC-ACGaGCUGcuCGaACCGGUC- -5'
18794 3' -58.2 NC_004683.1 + 926 0.67 0.47267
Target:  5'- gGGCCGUcCUCcagccGCUUGGCCAGa -3'
miRNA:   3'- aUCGGCAcGAGcugcuCGAACCGGUC- -5'
18794 3' -58.2 NC_004683.1 + 16749 0.67 0.466675
Target:  5'- gAGCgGUcCUUGACGgucaccacguacgucGGCUUGGUCAGg -3'
miRNA:   3'- aUCGgCAcGAGCUGC---------------UCGAACCGGUC- -5'
18794 3' -58.2 NC_004683.1 + 43932 0.67 0.452842
Target:  5'- -cGCCGUugacaccggGCUCGAgacCGAGCgcGGCCGa -3'
miRNA:   3'- auCGGCA---------CGAGCU---GCUCGaaCCGGUc -5'
18794 3' -58.2 NC_004683.1 + 28712 0.67 0.443099
Target:  5'- --cCCGUG-UCGACGAGCaUGGCUg- -3'
miRNA:   3'- aucGGCACgAGCUGCUCGaACCGGuc -5'
18794 3' -58.2 NC_004683.1 + 45222 0.68 0.433476
Target:  5'- cAGcCCGUGCUgaGAU-AGCgUGGCCAGg -3'
miRNA:   3'- aUC-GGCACGAg-CUGcUCGaACCGGUC- -5'
18794 3' -58.2 NC_004683.1 + 25755 0.68 0.423975
Target:  5'- gGGCCGcUGC-CGuCGAGCacgcUGGCCGa -3'
miRNA:   3'- aUCGGC-ACGaGCuGCUCGa---ACCGGUc -5'
18794 3' -58.2 NC_004683.1 + 7644 0.68 0.4146
Target:  5'- cGGCCGaGUUgCGAauauGCUUGGCCAGu -3'
miRNA:   3'- aUCGGCaCGA-GCUgcu-CGAACCGGUC- -5'
18794 3' -58.2 NC_004683.1 + 25838 0.68 0.4146
Target:  5'- cGGCCagcGUGCUCGACG-GCagcGGCCc- -3'
miRNA:   3'- aUCGG---CACGAGCUGCuCGaa-CCGGuc -5'
18794 3' -58.2 NC_004683.1 + 5503 0.68 0.396237
Target:  5'- cGGCCGUGCa-GugGAGCUgggacGCCGa -3'
miRNA:   3'- aUCGGCACGagCugCUCGAac---CGGUc -5'
18794 3' -58.2 NC_004683.1 + 56343 0.69 0.361124
Target:  5'- --aCCGUGCUCGACGGGCUgcucacCCAc -3'
miRNA:   3'- aucGGCACGAGCUGCUCGAacc---GGUc -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.