miRNA display CGI


Results 1 - 20 of 46 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
23338 3' -53.6 NC_005259.1 + 1326 0.69 0.694803
Target:  5'- -cCAUGgUCGauuUCGAGAUCGAGCGcaacGGUg -3'
miRNA:   3'- cuGUGCgAGU---AGCUCUAGCUCGU----CCG- -5'
23338 3' -53.6 NC_005259.1 + 1578 0.71 0.585542
Target:  5'- aGCGCGCcccaCAcCGAGGUCGAGgucaGGGCa -3'
miRNA:   3'- cUGUGCGa---GUaGCUCUAGCUCg---UCCG- -5'
23338 3' -53.6 NC_005259.1 + 2120 0.68 0.737406
Target:  5'- cACACGCUCGcCGAGGUCacGCAGacccGCa -3'
miRNA:   3'- cUGUGCGAGUaGCUCUAGcuCGUC----CG- -5'
23338 3' -53.6 NC_005259.1 + 4208 1.11 0.001362
Target:  5'- cGACACGCUCAUCGAGAUCGAGCAGGCc -3'
miRNA:   3'- -CUGUGCGAGUAGCUCUAGCUCGUCCG- -5'
23338 3' -53.6 NC_005259.1 + 4427 0.7 0.639174
Target:  5'- cGCGCGCc---CGAGGUCGAGCcgcccgugcgaguGGGCa -3'
miRNA:   3'- cUGUGCGaguaGCUCUAGCUCG-------------UCCG- -5'
23338 3' -53.6 NC_005259.1 + 6001 0.73 0.449945
Target:  5'- --aACGCUCAuccgcgUCGAGAUCGAGCucgauGaGCg -3'
miRNA:   3'- cugUGCGAGU------AGCUCUAGCUCGu----C-CG- -5'
23338 3' -53.6 NC_005259.1 + 8065 0.67 0.797927
Target:  5'- cGC-CGCcgaCAUCGAGAUCGuGCcgcgcuGGCg -3'
miRNA:   3'- cUGuGCGa--GUAGCUCUAGCuCGu-----CCG- -5'
23338 3' -53.6 NC_005259.1 + 8741 0.67 0.778325
Target:  5'- aGGCAgucaGCcCGUCGAGGUCGAGgCccuuGGCc -3'
miRNA:   3'- -CUGUg---CGaGUAGCUCUAGCUC-Gu---CCG- -5'
23338 3' -53.6 NC_005259.1 + 10746 0.66 0.85228
Target:  5'- cGCGCGCUgc-CGGGcgaucaucauGUCGGGCGGGUc -3'
miRNA:   3'- cUGUGCGAguaGCUC----------UAGCUCGUCCG- -5'
23338 3' -53.6 NC_005259.1 + 14029 0.67 0.807475
Target:  5'- cGGCACGaUCAUCGAG--CG-GCAGcGCa -3'
miRNA:   3'- -CUGUGCgAGUAGCUCuaGCuCGUC-CG- -5'
23338 3' -53.6 NC_005259.1 + 14226 0.69 0.716269
Target:  5'- cGGCGCGCgUCGUgCGu-AUCGGGcCGGGCa -3'
miRNA:   3'- -CUGUGCG-AGUA-GCucUAGCUC-GUCCG- -5'
23338 3' -53.6 NC_005259.1 + 14726 0.66 0.86866
Target:  5'- -cCGCGCUCGUcgcCGAGAUguacgcgcuggcCGGGCcGGUg -3'
miRNA:   3'- cuGUGCGAGUA---GCUCUA------------GCUCGuCCG- -5'
23338 3' -53.6 NC_005259.1 + 17346 0.69 0.673095
Target:  5'- aACGuCGC-CGUCGAGGUCGgcGGCucGGCg -3'
miRNA:   3'- cUGU-GCGaGUAGCUCUAGC--UCGu-CCG- -5'
23338 3' -53.6 NC_005259.1 + 18111 0.67 0.807475
Target:  5'- -uCGCGCUCAUCGAcuacgaGGGCAacaucGGCa -3'
miRNA:   3'- cuGUGCGAGUAGCUcuag--CUCGU-----CCG- -5'
23338 3' -53.6 NC_005259.1 + 18661 0.69 0.677451
Target:  5'- cGAUAUGCcgccgcccgaguacgUCAUCGAGGgucugcUUGAGCAcGGCg -3'
miRNA:   3'- -CUGUGCG---------------AGUAGCUCU------AGCUCGU-CCG- -5'
23338 3' -53.6 NC_005259.1 + 19665 0.81 0.165844
Target:  5'- gGGCAgcCGCUaCAuccccggucaggUCGGGAUCGAGCAGGCu -3'
miRNA:   3'- -CUGU--GCGA-GU------------AGCUCUAGCUCGUCCG- -5'
23338 3' -53.6 NC_005259.1 + 21268 0.7 0.618334
Target:  5'- -cCAUGgUCGUCGGccuGA-CGAGCAGGCc -3'
miRNA:   3'- cuGUGCgAGUAGCU---CUaGCUCGUCCG- -5'
23338 3' -53.6 NC_005259.1 + 23019 0.69 0.699118
Target:  5'- cGGCuCGgUCAUCGAGAUCGAacccgacgacgagcuGCccGGCg -3'
miRNA:   3'- -CUGuGCgAGUAGCUCUAGCU---------------CGu-CCG- -5'
23338 3' -53.6 NC_005259.1 + 24882 0.66 0.869454
Target:  5'- uGAC-CGCU-AUCGAGucagccgaggacggCGAGCGGGUc -3'
miRNA:   3'- -CUGuGCGAgUAGCUCua------------GCUCGUCCG- -5'
23338 3' -53.6 NC_005259.1 + 27169 0.67 0.816841
Target:  5'- --gAUGC-CGUCGGcGAU-GAGCAGGCu -3'
miRNA:   3'- cugUGCGaGUAGCU-CUAgCUCGUCCG- -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.