miRNA display CGI


Results 1 - 20 of 85 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
17011 3' -57.5 NC_004333.2 + 34664 0.66 0.601943
Target:  5'- --aGCaCGUCgGACGGCGACcAGCugaaGCa -3'
miRNA:   3'- ugaUGaGCAGgCUGCCGCUG-UCGc---CG- -5'
17011 3' -57.5 NC_004333.2 + 19706 0.66 0.601943
Target:  5'- uGCUGCUCG--CGugcuCGGCGcUGGUGGCg -3'
miRNA:   3'- -UGAUGAGCagGCu---GCCGCuGUCGCCG- -5'
17011 3' -57.5 NC_004333.2 + 40716 0.66 0.601943
Target:  5'- cGCga-UCGUcaCCGGCGGCGGCAaGUcGCu -3'
miRNA:   3'- -UGaugAGCA--GGCUGCCGCUGU-CGcCG- -5'
17011 3' -57.5 NC_004333.2 + 27764 0.66 0.601943
Target:  5'- ---uUUCGaa-GGCGGUGACgAGCGGCg -3'
miRNA:   3'- ugauGAGCaggCUGCCGCUG-UCGCCG- -5'
17011 3' -57.5 NC_004333.2 + 677 0.66 0.601943
Target:  5'- uACUGgUCGcgCCGGcCGGCGccucguucaGC-GCGGCa -3'
miRNA:   3'- -UGAUgAGCa-GGCU-GCCGC---------UGuCGCCG- -5'
17011 3' -57.5 NC_004333.2 + 23964 0.66 0.601943
Target:  5'- --cGC-CGUUUuACGGCGGCcaGGCGGCc -3'
miRNA:   3'- ugaUGaGCAGGcUGCCGCUG--UCGCCG- -5'
17011 3' -57.5 NC_004333.2 + 46737 0.66 0.595458
Target:  5'- aGCUGCagcaagaccucacgaUCaccaaUCCGGCGGuCGGCAaGCGGUa -3'
miRNA:   3'- -UGAUG---------------AGc----AGGCUGCC-GCUGU-CGCCG- -5'
17011 3' -57.5 NC_004333.2 + 31051 0.66 0.591142
Target:  5'- cGCUGCU-GcUCGGCGGUGACGuguuCGGCu -3'
miRNA:   3'- -UGAUGAgCaGGCUGCCGCUGUc---GCCG- -5'
17011 3' -57.5 NC_004333.2 + 22266 0.66 0.591142
Target:  5'- aGCUACgugcaagCG-CagGGCGGCGAagcGCGGCg -3'
miRNA:   3'- -UGAUGa------GCaGg-CUGCCGCUgu-CGCCG- -5'
17011 3' -57.5 NC_004333.2 + 30689 0.66 0.587907
Target:  5'- cGCcGC-CG-CCGGCGGCGGCaacuucguccuggaAGCuGGCa -3'
miRNA:   3'- -UGaUGaGCaGGCUGCCGCUG--------------UCG-CCG- -5'
17011 3' -57.5 NC_004333.2 + 31087 0.66 0.580374
Target:  5'- cCUGCagGUUCGGCgccuGGCccguCAGCGGCg -3'
miRNA:   3'- uGAUGagCAGGCUG----CCGcu--GUCGCCG- -5'
17011 3' -57.5 NC_004333.2 + 21292 0.66 0.569647
Target:  5'- -gUGCUCGaUCCGGCagaaGGUGACAuCGGg -3'
miRNA:   3'- ugAUGAGC-AGGCUG----CCGCUGUcGCCg -5'
17011 3' -57.5 NC_004333.2 + 18402 0.66 0.569647
Target:  5'- -gUGC-CGUCCGaaGCGcaacgccucGCGAuCGGCGGCg -3'
miRNA:   3'- ugAUGaGCAGGC--UGC---------CGCU-GUCGCCG- -5'
17011 3' -57.5 NC_004333.2 + 47466 0.66 0.568578
Target:  5'- ---cCUCG-CC-ACGGCGcucgcggGCGGCGGCa -3'
miRNA:   3'- ugauGAGCaGGcUGCCGC-------UGUCGCCG- -5'
17011 3' -57.5 NC_004333.2 + 14188 0.66 0.558971
Target:  5'- --cGCUCGUCgGGauGCGGCAGCa-- -3'
miRNA:   3'- ugaUGAGCAGgCUgcCGCUGUCGccg -5'
17011 3' -57.5 NC_004333.2 + 33380 0.66 0.558971
Target:  5'- uGCUGCcCGaUCgCGuagaACGGCGAUgccuGCGGCg -3'
miRNA:   3'- -UGAUGaGC-AG-GC----UGCCGCUGu---CGCCG- -5'
17011 3' -57.5 NC_004333.2 + 24742 0.66 0.558971
Target:  5'- -aUACgUCGaCCGAucCGGcCGGCGGCGGg -3'
miRNA:   3'- ugAUG-AGCaGGCU--GCC-GCUGUCGCCg -5'
17011 3' -57.5 NC_004333.2 + 19028 0.66 0.548351
Target:  5'- uACUACgUCGgcuacgCCGAU-GCGAUGGCGGa -3'
miRNA:   3'- -UGAUG-AGCa-----GGCUGcCGCUGUCGCCg -5'
17011 3' -57.5 NC_004333.2 + 38697 0.66 0.548351
Target:  5'- --aGCUCGagcagCuCGGCGGCGgu-GCGGCa -3'
miRNA:   3'- ugaUGAGCa----G-GCUGCCGCuguCGCCG- -5'
17011 3' -57.5 NC_004333.2 + 12811 0.67 0.537795
Target:  5'- -gUGC-CGUCaGGCGGCuuGGgGGCGGCu -3'
miRNA:   3'- ugAUGaGCAGgCUGCCG--CUgUCGCCG- -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.