miRNA display CGI


Results 1 - 20 of 88 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
20404 3' -57.1 NC_004687.1 + 2569 0.66 0.906875
Target:  5'- cCCAGGCU-GCCGUCGGUCUUGGcGAc- -3'
miRNA:   3'- -GGUUCGAcCGGCAGCUGGAGUC-CUcc -5'
20404 3' -57.1 NC_004687.1 + 65603 0.66 0.906875
Target:  5'- gUCGAGCcGcaguuCCGUCGGCgUCGGGuGGc -3'
miRNA:   3'- -GGUUCGaCc----GGCAGCUGgAGUCCuCC- -5'
20404 3' -57.1 NC_004687.1 + 14849 0.66 0.906875
Target:  5'- cCCAcgcGCUGGUCGUCaagcagaacGCC-CAGGAGa -3'
miRNA:   3'- -GGUu--CGACCGGCAGc--------UGGaGUCCUCc -5'
20404 3' -57.1 NC_004687.1 + 51491 0.66 0.900746
Target:  5'- aCCAAGCaGGCCaUCauGCgC-CAGGAGGa -3'
miRNA:   3'- -GGUUCGaCCGGcAGc-UG-GaGUCCUCC- -5'
20404 3' -57.1 NC_004687.1 + 17581 0.66 0.900746
Target:  5'- aCCu-GgUGGCCGgugucugGACCggCAGGGGGu -3'
miRNA:   3'- -GGuuCgACCGGCag-----CUGGa-GUCCUCC- -5'
20404 3' -57.1 NC_004687.1 + 151952 0.66 0.900746
Target:  5'- gCGAGCgcGGCCucuUCGGCCUCgaugauGGuGAGGa -3'
miRNA:   3'- gGUUCGa-CCGGc--AGCUGGAG------UC-CUCC- -5'
20404 3' -57.1 NC_004687.1 + 154997 0.66 0.900746
Target:  5'- cCCAGgaagcGCUGGCCgGUCuGCCugcUCAGGAa- -3'
miRNA:   3'- -GGUU-----CGACCGG-CAGcUGG---AGUCCUcc -5'
20404 3' -57.1 NC_004687.1 + 14742 0.66 0.900746
Target:  5'- -gAAGCUGGCCGgaaucCGGCCcauggcaucCAGcGGGGc -3'
miRNA:   3'- ggUUCGACCGGCa----GCUGGa--------GUC-CUCC- -5'
20404 3' -57.1 NC_004687.1 + 25072 0.66 0.900746
Target:  5'- cCCAGGUgauGCCGUgccCGGCCUCGauGAGGc -3'
miRNA:   3'- -GGUUCGac-CGGCA---GCUGGAGUc-CUCC- -5'
20404 3' -57.1 NC_004687.1 + 94062 0.66 0.898864
Target:  5'- cCCGAGCgGuGCCGUCGuCCUugaaccgcagcagcCAGGGcuGGc -3'
miRNA:   3'- -GGUUCGaC-CGGCAGCuGGA--------------GUCCU--CC- -5'
20404 3' -57.1 NC_004687.1 + 107743 0.66 0.895039
Target:  5'- aCCAGGCUGGUgcUCGauGCCggucaucggacgggcCGGGGGGg -3'
miRNA:   3'- -GGUUCGACCGgcAGC--UGGa--------------GUCCUCC- -5'
20404 3' -57.1 NC_004687.1 + 16754 0.66 0.894394
Target:  5'- -uGAGgUGGCCGUUGGgggUCAGGuAGGg -3'
miRNA:   3'- ggUUCgACCGGCAGCUgg-AGUCC-UCC- -5'
20404 3' -57.1 NC_004687.1 + 143635 0.66 0.894394
Target:  5'- cCCGAGCUGaCgGU-GcCCUUGGGAGGc -3'
miRNA:   3'- -GGUUCGACcGgCAgCuGGAGUCCUCC- -5'
20404 3' -57.1 NC_004687.1 + 31448 0.66 0.894394
Target:  5'- uCCAGGaUGGCC-UUGAcguacuCCUCGGGcAGGa -3'
miRNA:   3'- -GGUUCgACCGGcAGCU------GGAGUCC-UCC- -5'
20404 3' -57.1 NC_004687.1 + 150580 0.66 0.894394
Target:  5'- gCGAGCaGGCCGUuggucuucuUGGCCUCGGccagcAGGu -3'
miRNA:   3'- gGUUCGaCCGGCA---------GCUGGAGUCc----UCC- -5'
20404 3' -57.1 NC_004687.1 + 148051 0.66 0.894394
Target:  5'- gCCGAGCUGGCgCGaUCcGCUguucccgCAGGAccGGg -3'
miRNA:   3'- -GGUUCGACCG-GC-AGcUGGa------GUCCU--CC- -5'
20404 3' -57.1 NC_004687.1 + 59652 0.66 0.887823
Target:  5'- gCCAAGgaGGCuCG-CG-CCuggaagcgugaUCAGGAGGu -3'
miRNA:   3'- -GGUUCgaCCG-GCaGCuGG-----------AGUCCUCC- -5'
20404 3' -57.1 NC_004687.1 + 82316 0.66 0.887823
Target:  5'- uCCcAGCUGGCgGUCGuCCagggUCGGGccaagcuggagcAGGa -3'
miRNA:   3'- -GGuUCGACCGgCAGCuGG----AGUCC------------UCC- -5'
20404 3' -57.1 NC_004687.1 + 54236 0.66 0.887823
Target:  5'- aCC-GGCUGGa-GUCGAUC-CGGGAGu -3'
miRNA:   3'- -GGuUCGACCggCAGCUGGaGUCCUCc -5'
20404 3' -57.1 NC_004687.1 + 114579 0.66 0.885809
Target:  5'- aCAAGCUGGUcgaCGUCGAgguggacggcaagaCCUacCAGGGGc -3'
miRNA:   3'- gGUUCGACCG---GCAGCU--------------GGA--GUCCUCc -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.