miRNA display CGI


Results 1 - 19 of 19 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
31902 5' -54.2 NC_006938.1 + 40903 0.66 0.844446
Target:  5'- aCCGGGUGAU--GUCGACcccuuGG-CCUCGa -3'
miRNA:   3'- -GGUCUACUGgaUAGCUGu----CCgGGAGC- -5'
31902 5' -54.2 NC_006938.1 + 34787 0.66 0.826896
Target:  5'- aCCAGAUuGCC-AUC-ACagGGGCCUUCGg -3'
miRNA:   3'- -GGUCUAcUGGaUAGcUG--UCCGGGAGC- -5'
31902 5' -54.2 NC_006938.1 + 30436 0.66 0.825997
Target:  5'- cCCu--UGGCgaUGUCGACcgccagcaucuugAGGCCCUCGu -3'
miRNA:   3'- -GGucuACUGg-AUAGCUG-------------UCCGGGAGC- -5'
31902 5' -54.2 NC_006938.1 + 50620 0.66 0.817816
Target:  5'- -aGGAUGuugcACCUGUC--CGGGUCCUCGc -3'
miRNA:   3'- ggUCUAC----UGGAUAGcuGUCCGGGAGC- -5'
31902 5' -54.2 NC_006938.1 + 29874 0.66 0.817816
Target:  5'- uCCu--UGACCUGgu-GCuGGCCCUCGu -3'
miRNA:   3'- -GGucuACUGGAUagcUGuCCGGGAGC- -5'
31902 5' -54.2 NC_006938.1 + 12629 0.66 0.808545
Target:  5'- aCGGucGUGGCgaAgucUCGGucCAGGCCCUCGg -3'
miRNA:   3'- gGUC--UACUGgaU---AGCU--GUCCGGGAGC- -5'
31902 5' -54.2 NC_006938.1 + 21758 0.66 0.808545
Target:  5'- aCAGA-GGCCUGUCcGuuGGCCCUg- -3'
miRNA:   3'- gGUCUaCUGGAUAGcUguCCGGGAgc -5'
31902 5' -54.2 NC_006938.1 + 37599 0.66 0.799093
Target:  5'- cCCAGAcGGCCccgcuggagCGACAGguggcaGCCCUCa -3'
miRNA:   3'- -GGUCUaCUGGaua------GCUGUC------CGGGAGc -5'
31902 5' -54.2 NC_006938.1 + 6316 0.67 0.789471
Target:  5'- --cGAgGGCCUGUCGAUAGGUCaUCu -3'
miRNA:   3'- gguCUaCUGGAUAGCUGUCCGGgAGc -5'
31902 5' -54.2 NC_006938.1 + 52253 0.67 0.779688
Target:  5'- -gAGGUGGCCUGuUCGGaGGGCUCggCGg -3'
miRNA:   3'- ggUCUACUGGAU-AGCUgUCCGGGa-GC- -5'
31902 5' -54.2 NC_006938.1 + 49959 0.67 0.759685
Target:  5'- aCCAGGcaguagUGACCUccacuccuGUCGACuccGGCCgcgCUCGg -3'
miRNA:   3'- -GGUCU------ACUGGA--------UAGCUGu--CCGG---GAGC- -5'
31902 5' -54.2 NC_006938.1 + 5760 0.68 0.707638
Target:  5'- aCCAGAcgUGGCC-GUCGACgagaacgugacGGaGCUCUCGg -3'
miRNA:   3'- -GGUCU--ACUGGaUAGCUG-----------UC-CGGGAGC- -5'
31902 5' -54.2 NC_006938.1 + 33976 0.7 0.610271
Target:  5'- uCCAGGUcGgagcacaucuGCCaUAUCGACuggcacAGGCCCUCGc -3'
miRNA:   3'- -GGUCUA-C----------UGG-AUAGCUG------UCCGGGAGC- -5'
31902 5' -54.2 NC_006938.1 + 61401 0.7 0.609185
Target:  5'- cCUAGGaacgcaGACCaUGUCGGCGuggcaccGGCCCUCGa -3'
miRNA:   3'- -GGUCUa-----CUGG-AUAGCUGU-------CCGGGAGC- -5'
31902 5' -54.2 NC_006938.1 + 46436 0.7 0.599418
Target:  5'- aCCuuGGUGACCUccuUgGACAGGUCCUg- -3'
miRNA:   3'- -GGu-CUACUGGAu--AgCUGUCCGGGAgc -5'
31902 5' -54.2 NC_006938.1 + 18515 0.73 0.443998
Target:  5'- gCCGGAcgacggUGGCCUcUgGGC-GGCCCUCGa -3'
miRNA:   3'- -GGUCU------ACUGGAuAgCUGuCCGGGAGC- -5'
31902 5' -54.2 NC_006938.1 + 54356 0.73 0.443998
Target:  5'- gCCAGGauACUgGUCGGCgAGGCCCUCu -3'
miRNA:   3'- -GGUCUacUGGaUAGCUG-UCCGGGAGc -5'
31902 5' -54.2 NC_006938.1 + 55221 0.77 0.244349
Target:  5'- uCCAGAucUGGCC-GUUGAgCAGGCCCUCc -3'
miRNA:   3'- -GGUCU--ACUGGaUAGCU-GUCCGGGAGc -5'
31902 5' -54.2 NC_006938.1 + 57245 1.11 0.001211
Target:  5'- gCCAGAUGACCUAUCGACAGGCCCUCGa -3'
miRNA:   3'- -GGUCUACUGGAUAGCUGUCCGGGAGC- -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.