miRNA display CGI


Results 1 - 19 of 19 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
12265 3' -61.5 NC_003309.1 + 46787 0.66 0.366466
Target:  5'- cGCgUgGCCGcuGCGCGAGCUGucacCGCa -3'
miRNA:   3'- uCGaAgCGGCu-CGCGCUCGACc---GCGc -5'
12265 3' -61.5 NC_003309.1 + 32968 0.66 0.383466
Target:  5'- cGCg-CGCUGAgGCGCGAGa--GCGCGa -3'
miRNA:   3'- uCGaaGCGGCU-CGCGCUCgacCGCGC- -5'
12265 3' -61.5 NC_003309.1 + 31932 0.66 0.400983
Target:  5'- -uCUUCGCCGccCGCG-GCcGGCGCc -3'
miRNA:   3'- ucGAAGCGGCucGCGCuCGaCCGCGc -5'
12265 3' -61.5 NC_003309.1 + 28201 0.68 0.2825
Target:  5'- -uCUUCGUCagGGGCGCGAuaGUUGGUGCa -3'
miRNA:   3'- ucGAAGCGG--CUCGCGCU--CGACCGCGc -5'
12265 3' -61.5 NC_003309.1 + 22441 0.69 0.225742
Target:  5'- cGCUgccggCGUCGAGCGCG-GC--GCGCGa -3'
miRNA:   3'- uCGAa----GCGGCUCGCGCuCGacCGCGC- -5'
12265 3' -61.5 NC_003309.1 + 22059 0.67 0.341953
Target:  5'- aAGCUcacCGCCGc-CGCGAGCUGauauGUGCGc -3'
miRNA:   3'- -UCGAa--GCGGCucGCGCUCGAC----CGCGC- -5'
12265 3' -61.5 NC_003309.1 + 19306 0.71 0.165379
Target:  5'- cGUcaCGCCGAGCGCGuuUUcGGCGCGc -3'
miRNA:   3'- uCGaaGCGGCUCGCGCucGA-CCGCGC- -5'
12265 3' -61.5 NC_003309.1 + 18739 0.7 0.198586
Target:  5'- cGGCgccUUGUCGAGCGUGAucgucucgccgGCUgcGGCGCGg -3'
miRNA:   3'- -UCGa--AGCGGCUCGCGCU-----------CGA--CCGCGC- -5'
12265 3' -61.5 NC_003309.1 + 17811 0.7 0.198586
Target:  5'- cGGCgaucgUCGCCGuGUGCGcGUUcGGCGUGa -3'
miRNA:   3'- -UCGa----AGCGGCuCGCGCuCGA-CCGCGC- -5'
12265 3' -61.5 NC_003309.1 + 16927 0.66 0.358162
Target:  5'- cGCgaucgCGCCGAcaGCGaCGAGUgcGGCGCc -3'
miRNA:   3'- uCGaa---GCGGCU--CGC-GCUCGa-CCGCGc -5'
12265 3' -61.5 NC_003309.1 + 12863 0.66 0.392161
Target:  5'- cGCgcgCGCCGAaaaccGCGCGAGgUcGGCGa- -3'
miRNA:   3'- uCGaa-GCGGCU-----CGCGCUCgA-CCGCgc -5'
12265 3' -61.5 NC_003309.1 + 10731 0.75 0.088719
Target:  5'- cGCUgcuGCgCGAGCGCGAGCgaagccucGGCGCGc -3'
miRNA:   3'- uCGAag-CG-GCUCGCGCUCGa-------CCGCGC- -5'
12265 3' -61.5 NC_003309.1 + 10328 0.66 0.349991
Target:  5'- gAGCgcUCGCCGGGCGCcGAcccacGCUGuCGCc -3'
miRNA:   3'- -UCGa-AGCGGCUCGCG-CU-----CGACcGCGc -5'
12265 3' -61.5 NC_003309.1 + 8544 0.66 0.383466
Target:  5'- gAGUUaCGCCGccggcGGCGgcaCGAGCUucGGCGCa -3'
miRNA:   3'- -UCGAaGCGGC-----UCGC---GCUCGA--CCGCGc -5'
12265 3' -61.5 NC_003309.1 + 6361 0.68 0.289461
Target:  5'- -cCUUCGCCGcG-GUGGGCuUGGCGCu -3'
miRNA:   3'- ucGAAGCGGCuCgCGCUCG-ACCGCGc -5'
12265 3' -61.5 NC_003309.1 + 5179 0.66 0.349991
Target:  5'- cGCUcgaUCGCCaguuucGAG-GCGAGCUG-CGCGu -3'
miRNA:   3'- uCGA---AGCGG------CUCgCGCUCGACcGCGC- -5'
12265 3' -61.5 NC_003309.1 + 3320 0.66 0.358162
Target:  5'- cGCgaUGUCGAGCGCGGaaaGGCGCa -3'
miRNA:   3'- uCGaaGCGGCUCGCGCUcgaCCGCGc -5'
12265 3' -61.5 NC_003309.1 + 2480 0.66 0.392161
Target:  5'- -cCUUCGCUGAacgacucgcgcaGCGCGAGCcGcCGCGa -3'
miRNA:   3'- ucGAAGCGGCU------------CGCGCUCGaCcGCGC- -5'
12265 3' -61.5 NC_003309.1 + 1704 0.67 0.326282
Target:  5'- gAGCUUgcgcgccaUGUCGAGCGCGAGCa--CGCa -3'
miRNA:   3'- -UCGAA--------GCGGCUCGCGCUCGaccGCGc -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.