miRNA display CGI


Results 1 - 20 of 65 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
27695 3' -53.9 NC_005882.1 + 8066 0.66 0.717609
Target:  5'- uCGuCuGCauugGCCGAGCCagcguaGAAGUCGAGCa -3'
miRNA:   3'- -GCcGcCGa---UGGUUUGG------CUUCAGCUCG- -5'
27695 3' -53.9 NC_005882.1 + 34527 0.66 0.717609
Target:  5'- aCGGCccGCUGCaCAAacGCCGucGUugCGAGCu -3'
miRNA:   3'- -GCCGc-CGAUG-GUU--UGGCuuCA--GCUCG- -5'
27695 3' -53.9 NC_005882.1 + 19038 0.66 0.717609
Target:  5'- uCGGcCGGCaACCugcAGGCCGAacccacccaGGUCGAucccGCa -3'
miRNA:   3'- -GCC-GCCGaUGG---UUUGGCU---------UCAGCU----CG- -5'
27695 3' -53.9 NC_005882.1 + 13778 0.66 0.717609
Target:  5'- gCGGCGuGCaacGCCu-GCCGAAGgcCGuGCg -3'
miRNA:   3'- -GCCGC-CGa--UGGuuUGGCUUCa-GCuCG- -5'
27695 3' -53.9 NC_005882.1 + 29615 0.66 0.716506
Target:  5'- aGGuCGGCUACCAcaacCCGAAaacgaagaagcucGUCGucuacGGCg -3'
miRNA:   3'- gCC-GCCGAUGGUuu--GGCUU-------------CAGC-----UCG- -5'
27695 3' -53.9 NC_005882.1 + 29047 0.66 0.714298
Target:  5'- uCGGUGGCguaUACCGAcuucuugucagGCCaguccgacgagaucGAGGUCGuGCu -3'
miRNA:   3'- -GCCGCCG---AUGGUU-----------UGG--------------CUUCAGCuCG- -5'
27695 3' -53.9 NC_005882.1 + 21763 0.66 0.706542
Target:  5'- cCGGCucgGGCgucGCCGGGCCGcucGGGUCGccgaucgucAGCu -3'
miRNA:   3'- -GCCG---CCGa--UGGUUUGGC---UUCAGC---------UCG- -5'
27695 3' -53.9 NC_005882.1 + 21231 0.66 0.706542
Target:  5'- gCGGcCGGCcaaGCCAuuCCGAAGgcaacCGGcGCa -3'
miRNA:   3'- -GCC-GCCGa--UGGUuuGGCUUCa----GCU-CG- -5'
27695 3' -53.9 NC_005882.1 + 31646 0.66 0.695398
Target:  5'- --cCGGCUGCCAGccguucCCGA--UCGAGCc -3'
miRNA:   3'- gccGCCGAUGGUUu-----GGCUucAGCUCG- -5'
27695 3' -53.9 NC_005882.1 + 13079 0.66 0.695398
Target:  5'- -cGCGGCUGCgGcGGCUGgcGUCGAcGUg -3'
miRNA:   3'- gcCGCCGAUGgU-UUGGCuuCAGCU-CG- -5'
27695 3' -53.9 NC_005882.1 + 11967 0.66 0.695398
Target:  5'- aGGCgcuGGCUACCGcGCCGAGcuGaCGcGCa -3'
miRNA:   3'- gCCG---CCGAUGGUuUGGCUU--CaGCuCG- -5'
27695 3' -53.9 NC_005882.1 + 5667 0.66 0.695398
Target:  5'- aCGcCGuGUUcGCCGAuCCGgcGUCGAGCa -3'
miRNA:   3'- -GCcGC-CGA-UGGUUuGGCuuCAGCUCG- -5'
27695 3' -53.9 NC_005882.1 + 6663 0.66 0.684189
Target:  5'- uCGGCGuGCUgcGCCAAGguuUCGAAGgCG-GCa -3'
miRNA:   3'- -GCCGC-CGA--UGGUUU---GGCUUCaGCuCG- -5'
27695 3' -53.9 NC_005882.1 + 23121 0.66 0.684189
Target:  5'- cCGGCGuaCUGCacgcaGAACuCGGucucGGUCGAGCu -3'
miRNA:   3'- -GCCGCc-GAUGg----UUUG-GCU----UCAGCUCG- -5'
27695 3' -53.9 NC_005882.1 + 26951 0.66 0.672926
Target:  5'- aGGCGGgaGCCGccACCGGcccaGAGCg -3'
miRNA:   3'- gCCGCCgaUGGUu-UGGCUucagCUCG- -5'
27695 3' -53.9 NC_005882.1 + 17808 0.66 0.672926
Target:  5'- aCGGCuggGGCUGCCGGuGCCGcguGGUgGcGCu -3'
miRNA:   3'- -GCCG---CCGAUGGUU-UGGCu--UCAgCuCG- -5'
27695 3' -53.9 NC_005882.1 + 35389 0.66 0.672926
Target:  5'- uGGCaGGcCUACCgGAGCCGAucgaaGGGCa -3'
miRNA:   3'- gCCG-CC-GAUGG-UUUGGCUucag-CUCG- -5'
27695 3' -53.9 NC_005882.1 + 19711 0.66 0.672926
Target:  5'- uCGGCgaaGGCgaUGCCAAgcaGCCGcuGgCGAGCg -3'
miRNA:   3'- -GCCG---CCG--AUGGUU---UGGCuuCaGCUCG- -5'
27695 3' -53.9 NC_005882.1 + 13884 0.66 0.672926
Target:  5'- ---gGGCUACCAGAUCaGcAAGUCG-GCg -3'
miRNA:   3'- gccgCCGAUGGUUUGG-C-UUCAGCuCG- -5'
27695 3' -53.9 NC_005882.1 + 22715 0.66 0.666148
Target:  5'- cCGGCGaGCUG-CGGGCCGAAcugcgccgcgucgacGUCGgacAGCg -3'
miRNA:   3'- -GCCGC-CGAUgGUUUGGCUU---------------CAGC---UCG- -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.