miRNA display CGI


Results 1 - 20 of 25 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
31631 3' -58.7 NC_006879.1 + 12421 0.66 0.431168
Target:  5'- --gUUCCGAGccgucaugucuaaaGCCGUGGAAGCGguggcGCCCu -3'
miRNA:   3'- gcgGAGGCUC--------------UGGCGUCUUCGC-----UGGG- -5'
31631 3' -58.7 NC_006879.1 + 18555 0.66 0.424466
Target:  5'- aCGcCCUCgGAGACCGCAGucGGU-ACUUu -3'
miRNA:   3'- -GC-GGAGgCUCUGGCGUCu-UCGcUGGG- -5'
31631 3' -58.7 NC_006879.1 + 22598 0.66 0.424466
Target:  5'- gGCCUUgCaAGACCGCuccGAGGUG-CCCu -3'
miRNA:   3'- gCGGAG-GcUCUGGCGu--CUUCGCuGGG- -5'
31631 3' -58.7 NC_006879.1 + 20277 0.66 0.415001
Target:  5'- gGCCUCgaUGAcGCCGCGGu-GCGGCUg -3'
miRNA:   3'- gCGGAG--GCUcUGGCGUCuuCGCUGGg -5'
31631 3' -58.7 NC_006879.1 + 12785 0.66 0.396466
Target:  5'- uCGCuCUCCcccGGcaACCGCGGgcGCGuuACCCg -3'
miRNA:   3'- -GCG-GAGGc--UC--UGGCGUCuuCGC--UGGG- -5'
31631 3' -58.7 NC_006879.1 + 15843 0.66 0.396466
Target:  5'- aGCCggaCGucaaagucAGGCCGaucaaAGAAGUGGCCCc -3'
miRNA:   3'- gCGGag-GC--------UCUGGCg----UCUUCGCUGGG- -5'
31631 3' -58.7 NC_006879.1 + 16652 0.67 0.3874
Target:  5'- gGCCgcgagCCGuG-CCGCGGAgccAGCGACg- -3'
miRNA:   3'- gCGGa----GGCuCuGGCGUCU---UCGCUGgg -5'
31631 3' -58.7 NC_006879.1 + 14966 0.67 0.369682
Target:  5'- uGCUgcagCCaGGGCCGUgcuGAGGCgGGCCCg -3'
miRNA:   3'- gCGGa---GGcUCUGGCGu--CUUCG-CUGGG- -5'
31631 3' -58.7 NC_006879.1 + 11744 0.67 0.369682
Target:  5'- gCGCCUCCuucacGucGgUGguGAGGCGAUCCa -3'
miRNA:   3'- -GCGGAGG-----CucUgGCguCUUCGCUGGG- -5'
31631 3' -58.7 NC_006879.1 + 25654 0.67 0.369682
Target:  5'- --aCUcCCGGGAgaGUaAGGAGCGGCCCg -3'
miRNA:   3'- gcgGA-GGCUCUggCG-UCUUCGCUGGG- -5'
31631 3' -58.7 NC_006879.1 + 9984 0.67 0.352528
Target:  5'- cCGCCUCaCGGGGCagaGCGugcccaccauGGAGCGcuuucGCCCc -3'
miRNA:   3'- -GCGGAG-GCUCUGg--CGU----------CUUCGC-----UGGG- -5'
31631 3' -58.7 NC_006879.1 + 21240 0.67 0.352528
Target:  5'- uGCCaaccccguguUCCGcaacaGCCGCGGGAGCuccGGCCCu -3'
miRNA:   3'- gCGG----------AGGCuc---UGGCGUCUUCG---CUGGG- -5'
31631 3' -58.7 NC_006879.1 + 11224 0.67 0.344164
Target:  5'- gCGCCUUgGAGGCgGCGG--GCuACCCc -3'
miRNA:   3'- -GCGGAGgCUCUGgCGUCuuCGcUGGG- -5'
31631 3' -58.7 NC_006879.1 + 9273 0.68 0.327869
Target:  5'- -aCCUCCcaacuGcCCGCGGAcgccccccAGCGGCCCa -3'
miRNA:   3'- gcGGAGGcu---CuGGCGUCU--------UCGCUGGG- -5'
31631 3' -58.7 NC_006879.1 + 4413 0.68 0.312151
Target:  5'- uGCCgcaaCCGgugGGACCGUAGA--UGACCCc -3'
miRNA:   3'- gCGGa---GGC---UCUGGCGUCUucGCUGGG- -5'
31631 3' -58.7 NC_006879.1 + 15037 0.69 0.289659
Target:  5'- aCGCCgccgCCGGGAgggcCCGCcGAcaGGCuGCCCg -3'
miRNA:   3'- -GCGGa---GGCUCU----GGCGuCU--UCGcUGGG- -5'
31631 3' -58.7 NC_006879.1 + 32484 0.7 0.235931
Target:  5'- aGCUUUauuGuACUGCAGGAGUGGCCCg -3'
miRNA:   3'- gCGGAGgcuC-UGGCGUCUUCGCUGGG- -5'
31631 3' -58.7 NC_006879.1 + 23726 0.7 0.235931
Target:  5'- gGCgCUCCGGGAagaugauguCCGcCAGAgcgcuGGCGACCg -3'
miRNA:   3'- gCG-GAGGCUCU---------GGC-GUCU-----UCGCUGGg -5'
31631 3' -58.7 NC_006879.1 + 11834 0.71 0.218045
Target:  5'- aGCgCUCUGAGGCUGCugguguccGAGGUGcCCCa -3'
miRNA:   3'- gCG-GAGGCUCUGGCGu-------CUUCGCuGGG- -5'
31631 3' -58.7 NC_006879.1 + 10463 0.71 0.206774
Target:  5'- cCGCCUCCu-GACCGCu---GCGGuCCCu -3'
miRNA:   3'- -GCGGAGGcuCUGGCGucuuCGCU-GGG- -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.