miRNA display CGI


Results 1 - 20 of 99 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
8954 5' -59.4 NC_002512.2 + 1107 0.74 0.420626
Target:  5'- -cCUCuCCCGUCuCCGCCGUCUcggucGCCUc -3'
miRNA:   3'- uaGAGcGGGCAGuGGCGGCAGA-----UGGA- -5'
8954 5' -59.4 NC_002512.2 + 1659 0.71 0.556357
Target:  5'- -gUUCGCCCuUC-CCGCCGUCUcGCCc -3'
miRNA:   3'- uaGAGCGGGcAGuGGCGGCAGA-UGGa -5'
8954 5' -59.4 NC_002512.2 + 1693 0.66 0.857928
Target:  5'- uAUC-CGCCCGUCcCCGCU-UCU-CCUg -3'
miRNA:   3'- -UAGaGCGGGCAGuGGCGGcAGAuGGA- -5'
8954 5' -59.4 NC_002512.2 + 2004 0.66 0.865193
Target:  5'- -aCUCGCCCGcgUCGCCugaGCCGgc-ACCa -3'
miRNA:   3'- uaGAGCGGGC--AGUGG---CGGCagaUGGa -5'
8954 5' -59.4 NC_002512.2 + 2209 0.66 0.850478
Target:  5'- cGUCUCGgucgCCGgcggCGCCGCCGcUCUuCCUc -3'
miRNA:   3'- -UAGAGCg---GGCa---GUGGCGGC-AGAuGGA- -5'
8954 5' -59.4 NC_002512.2 + 2360 0.69 0.672929
Target:  5'- cUCcCGCCCGUcCGCCGCCGgacUCUcCCc -3'
miRNA:   3'- uAGaGCGGGCA-GUGGCGGC---AGAuGGa -5'
8954 5' -59.4 NC_002512.2 + 2969 0.71 0.594961
Target:  5'- cGUCUucCGCCCcuUCGCCGUCGUCUuCCg -3'
miRNA:   3'- -UAGA--GCGGGc-AGUGGCGGCAGAuGGa -5'
8954 5' -59.4 NC_002512.2 + 3474 0.74 0.420626
Target:  5'- uUCUCGCCaucuccauCGUCGCCGCCGaCU-CCUg -3'
miRNA:   3'- uAGAGCGG--------GCAGUGGCGGCaGAuGGA- -5'
8954 5' -59.4 NC_002512.2 + 9673 0.67 0.793632
Target:  5'- -aCUCGuccCCCGg-GCCGCCGUCggGCCc -3'
miRNA:   3'- uaGAGC---GGGCagUGGCGGCAGa-UGGa -5'
8954 5' -59.4 NC_002512.2 + 16229 0.67 0.802209
Target:  5'- cUC-CGCcuCCGUCAUCGUCGUCgucGCCg -3'
miRNA:   3'- uAGaGCG--GGCAGUGGCGGCAGa--UGGa -5'
8954 5' -59.4 NC_002512.2 + 17308 0.69 0.692262
Target:  5'- --aUCGCgUCGUCGCCGCCGUCg---- -3'
miRNA:   3'- uagAGCG-GGCAGUGGCGGCAGaugga -5'
8954 5' -59.4 NC_002512.2 + 21086 0.66 0.842847
Target:  5'- gGUCcCGCuCCGgggCgACCGCCGUCUcagacgcggACCUu -3'
miRNA:   3'- -UAGaGCG-GGCa--G-UGGCGGCAGA---------UGGA- -5'
8954 5' -59.4 NC_002512.2 + 22277 0.7 0.663213
Target:  5'- -aCUCGCCgccgcagcaGcCGCCGCCGUCgcagGCCa -3'
miRNA:   3'- uaGAGCGGg--------CaGUGGCGGCAGa---UGGa -5'
8954 5' -59.4 NC_002512.2 + 23679 0.66 0.865193
Target:  5'- uUCaaGCCCcagCACCGCCG-CUGCUUc -3'
miRNA:   3'- uAGagCGGGca-GUGGCGGCaGAUGGA- -5'
8954 5' -59.4 NC_002512.2 + 27364 0.67 0.793632
Target:  5'- cGUC-CGCCCc-CGCCGCCGcCUccGCCUc -3'
miRNA:   3'- -UAGaGCGGGcaGUGGCGGCaGA--UGGA- -5'
8954 5' -59.4 NC_002512.2 + 34867 0.72 0.537319
Target:  5'- uUCgUCGCCguCGUCGCCGCCGcCgggACCg -3'
miRNA:   3'- uAG-AGCGG--GCAGUGGCGGCaGa--UGGa -5'
8954 5' -59.4 NC_002512.2 + 38618 0.72 0.527883
Target:  5'- -cCUC-CCCGUCGCCGCCuccccgcccucUCUACCUg -3'
miRNA:   3'- uaGAGcGGGCAGUGGCGGc----------AGAUGGA- -5'
8954 5' -59.4 NC_002512.2 + 39991 0.73 0.463812
Target:  5'- -cCUCGCcgCCGUCcucgccGCCGCCGUCUccGCCg -3'
miRNA:   3'- uaGAGCG--GGCAG------UGGCGGCAGA--UGGa -5'
8954 5' -59.4 NC_002512.2 + 41310 0.68 0.776089
Target:  5'- gGUCgaCGCagaccgagaagUCGUCGCCGCCGgagCUGCCc -3'
miRNA:   3'- -UAGa-GCG-----------GGCAGUGGCGGCa--GAUGGa -5'
8954 5' -59.4 NC_002512.2 + 43071 0.67 0.784923
Target:  5'- uUCUCGCCgGUUAuCCGgC-UCUACCg -3'
miRNA:   3'- uAGAGCGGgCAGU-GGCgGcAGAUGGa -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.