miRNA display CGI


Results 1 - 20 of 57 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
23065 3' -62.3 NC_005178.1 + 37248 0.7 0.149201
Target:  5'- -uGGCGUCaaacucgGCCuCCAGGCGCaGCGGGu -3'
miRNA:   3'- gcUCGUAG-------CGGcGGUCCGCGcCGUCC- -5'
23065 3' -62.3 NC_005178.1 + 36105 0.67 0.228078
Target:  5'- gGAGUAcaUGCCGcCCAGGUuggGCuGGCGGGu -3'
miRNA:   3'- gCUCGUa-GCGGC-GGUCCG---CG-CCGUCC- -5'
23065 3' -62.3 NC_005178.1 + 33963 1.1 0.000111
Target:  5'- cCGAGCAUCGCCGCCAGGCGCGGCAGGa -3'
miRNA:   3'- -GCUCGUAGCGGCGGUCCGCGCCGUCC- -5'
23065 3' -62.3 NC_005178.1 + 32891 0.69 0.162161
Target:  5'- aGAGCAUCaGCgGCUGGGUgaucuccaGCGGCGuGGu -3'
miRNA:   3'- gCUCGUAG-CGgCGGUCCG--------CGCCGU-CC- -5'
23065 3' -62.3 NC_005178.1 + 32883 0.66 0.292421
Target:  5'- gCGAugGUCGCCaacgacuGCCgugcAGGUGCGGCAGu -3'
miRNA:   3'- -GCUcgUAGCGG-------CGG----UCCGCGCCGUCc -5'
23065 3' -62.3 NC_005178.1 + 31374 0.66 0.299655
Target:  5'- -cGGCG-CGgCGCCAGGCGCauagcccGGCGcuGGg -3'
miRNA:   3'- gcUCGUaGCgGCGGUCCGCG-------CCGU--CC- -5'
23065 3' -62.3 NC_005178.1 + 29412 0.67 0.228078
Target:  5'- --cGCgAUC-CCGCCGGGCGCuGGCucGGu -3'
miRNA:   3'- gcuCG-UAGcGGCGGUCCGCG-CCGu-CC- -5'
23065 3' -62.3 NC_005178.1 + 29161 0.7 0.145225
Target:  5'- -cAGUAgUCGCCGCCAGGCG-GGauugcucCAGGa -3'
miRNA:   3'- gcUCGU-AGCGGCGGUCCGCgCC-------GUCC- -5'
23065 3' -62.3 NC_005178.1 + 29043 0.69 0.175659
Target:  5'- -cGGUGcCGCCcagGCCAGGgGCGcGCAGGg -3'
miRNA:   3'- gcUCGUaGCGG---CGGUCCgCGC-CGUCC- -5'
23065 3' -62.3 NC_005178.1 + 28666 0.73 0.081582
Target:  5'- uGAGCggCGCCcauGCuUGGGCGUGGUAGGg -3'
miRNA:   3'- gCUCGuaGCGG---CG-GUCCGCGCCGUCC- -5'
23065 3' -62.3 NC_005178.1 + 28621 0.69 0.175659
Target:  5'- -cGGCGaCGCCcCCGguGGCGCGGCGGa -3'
miRNA:   3'- gcUCGUaGCGGcGGU--CCGCGCCGUCc -5'
23065 3' -62.3 NC_005178.1 + 28261 0.71 0.13063
Target:  5'- gGAGCGU-GCCGCCagcagucgccaGGGCGCcGGCcgAGGc -3'
miRNA:   3'- gCUCGUAgCGGCGG-----------UCCGCG-CCG--UCC- -5'
23065 3' -62.3 NC_005178.1 + 27293 0.7 0.145618
Target:  5'- cCGAGCAgaaGCU-CCAGGCGCaGCAGc -3'
miRNA:   3'- -GCUCGUag-CGGcGGUCCGCGcCGUCc -5'
23065 3' -62.3 NC_005178.1 + 27164 0.67 0.240035
Target:  5'- uCGGGUua-GCCGCCuGGauCGCGGCAa- -3'
miRNA:   3'- -GCUCGuagCGGCGGuCC--GCGCCGUcc -5'
23065 3' -62.3 NC_005178.1 + 26784 0.68 0.194696
Target:  5'- cCGAGCAuuUCGUC-CCAGGCGCccuuggccaccccGGCAacGGu -3'
miRNA:   3'- -GCUCGU--AGCGGcGGUCCGCG-------------CCGU--CC- -5'
23065 3' -62.3 NC_005178.1 + 26369 0.71 0.127111
Target:  5'- gCGAGUGaCGCCGCCAuGGCGgacaguugccCGGCGGu -3'
miRNA:   3'- -GCUCGUaGCGGCGGU-CCGC----------GCCGUCc -5'
23065 3' -62.3 NC_005178.1 + 26185 0.67 0.258945
Target:  5'- -cGGCgGUgGCCGCUgcGGGCGUGGCGcuGGc -3'
miRNA:   3'- gcUCG-UAgCGGCGG--UCCGCGCCGU--CC- -5'
23065 3' -62.3 NC_005178.1 + 25857 0.68 0.205677
Target:  5'- -cGGCAuuUCGgcaggucaguaCCGCCAGGCcauGCGGCAGu -3'
miRNA:   3'- gcUCGU--AGC-----------GGCGGUCCG---CGCCGUCc -5'
23065 3' -62.3 NC_005178.1 + 25607 0.68 0.200382
Target:  5'- cCGAGCAacgaGCgGCCgAGGCuGCGGCGa- -3'
miRNA:   3'- -GCUCGUag--CGgCGG-UCCG-CGCCGUcc -5'
23065 3' -62.3 NC_005178.1 + 23967 0.68 0.211093
Target:  5'- cCGAGaa-CGCCGUugacgaUAGGCGCGGCGu- -3'
miRNA:   3'- -GCUCguaGCGGCG------GUCCGCGCCGUcc -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.