miRNA display CGI


Results 1 - 13 of 13 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
1360 3' -53.8 NC_001335.1 + 11769 0.66 0.794848
Target:  5'- cGACCUUGGUCCGCAugGUG-C-CCagguagUUGGc -3'
miRNA:   3'- -CUGGAACUAGGCGU--CGCaGaGG------AACC- -5'
1360 3' -53.8 NC_001335.1 + 11883 0.66 0.78491
Target:  5'- uGCCguccgGGUCCacCAGCGagacCUCCUUGGu -3'
miRNA:   3'- cUGGaa---CUAGGc-GUCGCa---GAGGAACC- -5'
1360 3' -53.8 NC_001335.1 + 17967 0.66 0.77481
Target:  5'- cGACCUUGAgUCGCuuGCG-CUCCUc-- -3'
miRNA:   3'- -CUGGAACUaGGCGu-CGCaGAGGAacc -5'
1360 3' -53.8 NC_001335.1 + 40123 0.66 0.754166
Target:  5'- cGGCCUcgc-CCGCAaCGUCUCCgaGGa -3'
miRNA:   3'- -CUGGAacuaGGCGUcGCAGAGGaaCC- -5'
1360 3' -53.8 NC_001335.1 + 13620 0.67 0.733011
Target:  5'- uGACCUUGuUCCGCucgucucggacGGCGUC-CCUc-- -3'
miRNA:   3'- -CUGGAACuAGGCG-----------UCGCAGaGGAacc -5'
1360 3' -53.8 NC_001335.1 + 34047 0.67 0.733011
Target:  5'- cGACCgcGAagcugCCGUAGCc-CUCCUUGGc -3'
miRNA:   3'- -CUGGaaCUa----GGCGUCGcaGAGGAACC- -5'
1360 3' -53.8 NC_001335.1 + 40751 0.68 0.688449
Target:  5'- uGACCgaagucgUUGAUCUGCauAGUGUCUCCg--- -3'
miRNA:   3'- -CUGG-------AACUAGGCG--UCGCAGAGGaacc -5'
1360 3' -53.8 NC_001335.1 + 16396 0.68 0.678514
Target:  5'- cGGCCUUGAccgucUCCagcgucgggGCAGCGUCgaggcggcugCCUUGa -3'
miRNA:   3'- -CUGGAACU-----AGG---------CGUCGCAGa---------GGAACc -5'
1360 3' -53.8 NC_001335.1 + 13566 0.68 0.656318
Target:  5'- cGACCUUG-UUCGCGuucGCGUagaCCUUGGc -3'
miRNA:   3'- -CUGGAACuAGGCGU---CGCAga-GGAACC- -5'
1360 3' -53.8 NC_001335.1 + 15915 0.68 0.634029
Target:  5'- -gUCUUGAguUCC-CGGCGgaaCUCCUUGGu -3'
miRNA:   3'- cuGGAACU--AGGcGUCGCa--GAGGAACC- -5'
1360 3' -53.8 NC_001335.1 + 32692 0.72 0.431664
Target:  5'- cGCCUUGAacUCgGCGGUGUUgaCCUUGGc -3'
miRNA:   3'- cUGGAACU--AGgCGUCGCAGa-GGAACC- -5'
1360 3' -53.8 NC_001335.1 + 36804 0.74 0.324779
Target:  5'- cGGgCUUGAUCCGCugAGCGaacUCUuCCUUGGu -3'
miRNA:   3'- -CUgGAACUAGGCG--UCGC---AGA-GGAACC- -5'
1360 3' -53.8 NC_001335.1 + 18933 1.12 0.000859
Target:  5'- cGACCUUGAUCCGCAGCGUCUCCUUGGg -3'
miRNA:   3'- -CUGGAACUAGGCGUCGCAGAGGAACC- -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.