miRNA display CGI


Results 1 - 17 of 17 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
28139 3' -50.8 NC_005887.1 + 34643 0.66 0.877426
Target:  5'- cGUCGACGA--GGCGCGCCg------ -3'
miRNA:   3'- cUAGCUGCUacUCGUGCGGaacuugu -5'
28139 3' -50.8 NC_005887.1 + 27759 0.66 0.869158
Target:  5'- --cCGAUGccGAGCGCGCCggcgagguaGAGCGc -3'
miRNA:   3'- cuaGCUGCuaCUCGUGCGGaa-------CUUGU- -5'
28139 3' -50.8 NC_005887.1 + 4540 0.66 0.869158
Target:  5'- cGGUCGagGCGAUGAGCACcgaCgagGAACu -3'
miRNA:   3'- -CUAGC--UGCUACUCGUGcg-Gaa-CUUGu -5'
28139 3' -50.8 NC_005887.1 + 24605 0.66 0.860616
Target:  5'- --gCGGCGAUGAucuugcggccGCACGCgUggucGAACAg -3'
miRNA:   3'- cuaGCUGCUACU----------CGUGCGgAa---CUUGU- -5'
28139 3' -50.8 NC_005887.1 + 16500 0.67 0.823883
Target:  5'- uGGUCGGCGAUGucGCAgGCCgaucGCGu -3'
miRNA:   3'- -CUAGCUGCUACu-CGUgCGGaacuUGU- -5'
28139 3' -50.8 NC_005887.1 + 36216 0.67 0.823883
Target:  5'- -uUCGGCGucGAGCACGCUUUcGAGgCAc -3'
miRNA:   3'- cuAGCUGCuaCUCGUGCGGAA-CUU-GU- -5'
28139 3' -50.8 NC_005887.1 + 17375 0.67 0.804124
Target:  5'- -uUCGGCGA-GGGCuCGCUgUUGAACGc -3'
miRNA:   3'- cuAGCUGCUaCUCGuGCGG-AACUUGU- -5'
28139 3' -50.8 NC_005887.1 + 14916 0.67 0.804124
Target:  5'- uGUUGcuGCGGUGuGCACGCCcgcGAACGu -3'
miRNA:   3'- cUAGC--UGCUACuCGUGCGGaa-CUUGU- -5'
28139 3' -50.8 NC_005887.1 + 10438 0.68 0.75144
Target:  5'- aGUCGACGuc-GGCACGCCgUUGuACGu -3'
miRNA:   3'- cUAGCUGCuacUCGUGCGG-AACuUGU- -5'
28139 3' -50.8 NC_005887.1 + 38948 0.69 0.729325
Target:  5'- aGAUCGugGAuaacuuucaaccUGGGgACGCCgaGGACu -3'
miRNA:   3'- -CUAGCugCU------------ACUCgUGCGGaaCUUGu -5'
28139 3' -50.8 NC_005887.1 + 4012 0.7 0.660808
Target:  5'- gGGUCGACGAgcuucuGCGCGCCgcGGAUg -3'
miRNA:   3'- -CUAGCUGCUacu---CGUGCGGaaCUUGu -5'
28139 3' -50.8 NC_005887.1 + 15742 0.7 0.637594
Target:  5'- cGcgCGGCGGUGAGCugGUC--GAGCu -3'
miRNA:   3'- -CuaGCUGCUACUCGugCGGaaCUUGu -5'
28139 3' -50.8 NC_005887.1 + 29511 0.71 0.591189
Target:  5'- -cUCGACGgcGGGCGCGUUguaGAACAg -3'
miRNA:   3'- cuAGCUGCuaCUCGUGCGGaa-CUUGU- -5'
28139 3' -50.8 NC_005887.1 + 21379 0.72 0.55675
Target:  5'- cGGUCGgcGCGGUGGGCGUGCCcgUGAAUg -3'
miRNA:   3'- -CUAGC--UGCUACUCGUGCGGa-ACUUGu -5'
28139 3' -50.8 NC_005887.1 + 13550 0.73 0.489893
Target:  5'- cGAUCGGCGAUGcGCugcCGCCc-GAGCAg -3'
miRNA:   3'- -CUAGCUGCUACuCGu--GCGGaaCUUGU- -5'
28139 3' -50.8 NC_005887.1 + 29949 0.74 0.417012
Target:  5'- gGAUCGACGGUGucgaGCGCCgcGAACAc -3'
miRNA:   3'- -CUAGCUGCUACucg-UGCGGaaCUUGU- -5'
28139 3' -50.8 NC_005887.1 + 16285 1.09 0.00201
Target:  5'- aGAUCGACGAUGAGCACGCCUUGAACAc -3'
miRNA:   3'- -CUAGCUGCUACUCGUGCGGAACUUGU- -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.