miRNA display CGI


Results 1 - 20 of 34 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
21053 3' -61.1 NC_004745.1 + 1688 0.72 0.100094
Target:  5'- --cCGGCCACCAcCGGCggugccaguaccaCGCAuCCGGCa -3'
miRNA:   3'- aucGCCGGUGGU-GCCG-------------GUGUuGGCCG- -5'
21053 3' -61.1 NC_004745.1 + 3825 0.66 0.256225
Target:  5'- cAGCGGUCACCGCuucaugcacGUCAUucaGACgGGCg -3'
miRNA:   3'- aUCGCCGGUGGUGc--------CGGUG---UUGgCCG- -5'
21053 3' -61.1 NC_004745.1 + 5237 0.67 0.218751
Target:  5'- -cGCGGUCAUCGCuGCCGaGACCcGCa -3'
miRNA:   3'- auCGCCGGUGGUGcCGGUgUUGGcCG- -5'
21053 3' -61.1 NC_004745.1 + 5549 0.69 0.157753
Target:  5'- -uGCGGCCAUgCGCGcUCACGcuGCCGGUg -3'
miRNA:   3'- auCGCCGGUG-GUGCcGGUGU--UGGCCG- -5'
21053 3' -61.1 NC_004745.1 + 5818 0.66 0.279708
Target:  5'- aAGCGGUCAcCCGCGcCCcgcguaagacccggaGCGugacACCGGCa -3'
miRNA:   3'- aUCGCCGGU-GGUGCcGG---------------UGU----UGGCCG- -5'
21053 3' -61.1 NC_004745.1 + 6048 0.69 0.171385
Target:  5'- cGGUGGUCAUC----CCGCAACCGGCa -3'
miRNA:   3'- aUCGCCGGUGGugccGGUGUUGGCCG- -5'
21053 3' -61.1 NC_004745.1 + 6379 0.67 0.224654
Target:  5'- -uGCGGUCGCCAUcGCaCACA--CGGCg -3'
miRNA:   3'- auCGCCGGUGGUGcCG-GUGUugGCCG- -5'
21053 3' -61.1 NC_004745.1 + 7144 0.66 0.269837
Target:  5'- cAGUGaCCACCcguucgcgcAUGGCCG--ACCGGCg -3'
miRNA:   3'- aUCGCcGGUGG---------UGCCGGUguUGGCCG- -5'
21053 3' -61.1 NC_004745.1 + 7459 0.66 0.24318
Target:  5'- --cUGGCgUACCGCuGGCgGCGuACCGGCu -3'
miRNA:   3'- aucGCCG-GUGGUG-CCGgUGU-UGGCCG- -5'
21053 3' -61.1 NC_004745.1 + 7639 0.66 0.262959
Target:  5'- aGGUGGCgACaaaacugACGGCCACGcucuGCgGGUa -3'
miRNA:   3'- aUCGCCGgUGg------UGCCGGUGU----UGgCCG- -5'
21053 3' -61.1 NC_004745.1 + 7809 0.7 0.126078
Target:  5'- gAGCcGCCGCC-CGucugcGCCACGgcACCGGCu -3'
miRNA:   3'- aUCGcCGGUGGuGC-----CGGUGU--UGGCCG- -5'
21053 3' -61.1 NC_004745.1 + 7868 0.66 0.262279
Target:  5'- -cGCGGuaaaaauCCACC-CGGCaGCGACCaGCg -3'
miRNA:   3'- auCGCC-------GGUGGuGCCGgUGUUGGcCG- -5'
21053 3' -61.1 NC_004745.1 + 8316 0.7 0.145109
Target:  5'- cUGGC-GUCugCGCaGGCCgggcgcugguGCAACCGGCg -3'
miRNA:   3'- -AUCGcCGGugGUG-CCGG----------UGUUGGCCG- -5'
21053 3' -61.1 NC_004745.1 + 9449 0.69 0.153432
Target:  5'- aGGauGCCGCCG-GGUCAU-ACCGGCg -3'
miRNA:   3'- aUCgcCGGUGGUgCCGGUGuUGGCCG- -5'
21053 3' -61.1 NC_004745.1 + 9571 0.71 0.109382
Target:  5'- -cGcCGGUCugCAcuCGGCaGCGACCGGCg -3'
miRNA:   3'- auC-GCCGGugGU--GCCGgUGUUGGCCG- -5'
21053 3' -61.1 NC_004745.1 + 9639 0.72 0.100382
Target:  5'- aGGUGcCCACCAUGuGCgcgaACGACCGGCa -3'
miRNA:   3'- aUCGCcGGUGGUGC-CGg---UGUUGGCCG- -5'
21053 3' -61.1 NC_004745.1 + 9893 0.68 0.18606
Target:  5'- aGGUGGUCugCACcaacaGGCUGauuACCGGCa -3'
miRNA:   3'- aUCGCCGGugGUG-----CCGGUgu-UGGCCG- -5'
21053 3' -61.1 NC_004745.1 + 10286 0.66 0.274737
Target:  5'- -cGCGucacgcugucaucuGUCACCACGGCgCGCAguuuugACgGGCg -3'
miRNA:   3'- auCGC--------------CGGUGGUGCCG-GUGU------UGgCCG- -5'
21053 3' -61.1 NC_004745.1 + 10639 0.69 0.149218
Target:  5'- gGGCGGUgAUgcUGGCCuguGCAGCCGGUa -3'
miRNA:   3'- aUCGCCGgUGguGCCGG---UGUUGGCCG- -5'
21053 3' -61.1 NC_004745.1 + 11073 0.77 0.040551
Target:  5'- aUGGCGGCagaCugCACGGUCACGcggucggccACCGGCc -3'
miRNA:   3'- -AUCGCCG---GugGUGCCGGUGU---------UGGCCG- -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.