miRNA display CGI


Results 1 - 20 of 60 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
8052 3' -54.4 NC_001973.1 + 58963 0.66 0.934367
Target:  5'- --uUCCUGCGCGUguacuuggaCGgcGCCGAGCaCAAg -3'
miRNA:   3'- uuuAGGAUGCGCA---------GU--CGGCUCGaGUU- -5'
8052 3' -54.4 NC_001973.1 + 69549 0.66 0.917819
Target:  5'- gGAGUCgaGCGCGacgUAGCCGucGCUCGg -3'
miRNA:   3'- -UUUAGgaUGCGCa--GUCGGCu-CGAGUu -5'
8052 3' -54.4 NC_001973.1 + 2529 0.66 0.911794
Target:  5'- -uGUCCUGCGCGaacucgaccUCGGCCauuuuGAGUUUAAu -3'
miRNA:   3'- uuUAGGAUGCGC---------AGUCGG-----CUCGAGUU- -5'
8052 3' -54.4 NC_001973.1 + 136567 0.67 0.892216
Target:  5'- aAAGUCCagcauggcgcUGCGCGcCGGCgCGAcGCUCAGc -3'
miRNA:   3'- -UUUAGG----------AUGCGCaGUCG-GCU-CGAGUU- -5'
8052 3' -54.4 NC_001973.1 + 115301 0.67 0.877944
Target:  5'- --uUCCUGCGCGUgugucgcaccaCGGUCGuGUUCGAu -3'
miRNA:   3'- uuuAGGAUGCGCA-----------GUCGGCuCGAGUU- -5'
8052 3' -54.4 NC_001973.1 + 83820 0.68 0.870455
Target:  5'- ---gCC-GCGCG-CGGCgGAGCUCGAa -3'
miRNA:   3'- uuuaGGaUGCGCaGUCGgCUCGAGUU- -5'
8052 3' -54.4 NC_001973.1 + 114430 0.68 0.862738
Target:  5'- ---gCCUGCGCGcgAGCCG-GCUCGc -3'
miRNA:   3'- uuuaGGAUGCGCagUCGGCuCGAGUu -5'
8052 3' -54.4 NC_001973.1 + 5268 0.68 0.846646
Target:  5'- cGAUCgUAaCGCGUCAGCaaauAGCUCAGc -3'
miRNA:   3'- uUUAGgAU-GCGCAGUCGgc--UCGAGUU- -5'
8052 3' -54.4 NC_001973.1 + 30081 0.68 0.838285
Target:  5'- ---cCCUGCGCGcccaaCAGCCGcucaucucGGCUCGAa -3'
miRNA:   3'- uuuaGGAUGCGCa----GUCGGC--------UCGAGUU- -5'
8052 3' -54.4 NC_001973.1 + 5428 0.69 0.820972
Target:  5'- ---aCUUGauCGCGUCcaaggAGCCGAGCUCGGg -3'
miRNA:   3'- uuuaGGAU--GCGCAG-----UCGGCUCGAGUU- -5'
8052 3' -54.4 NC_001973.1 + 127290 0.69 0.812037
Target:  5'- ---aCUgAUGCGUCGGCCGcGCUCGg -3'
miRNA:   3'- uuuaGGaUGCGCAGUCGGCuCGAGUu -5'
8052 3' -54.4 NC_001973.1 + 130503 0.69 0.800163
Target:  5'- aGGAUCUUACGCGUCGgcggauaacaucguGCCuaaaccGAGCUCGg -3'
miRNA:   3'- -UUUAGGAUGCGCAGU--------------CGG------CUCGAGUu -5'
8052 3' -54.4 NC_001973.1 + 4737 0.7 0.764939
Target:  5'- cAAGUCgaACGCGUCGGCCGucaccAGUUCu- -3'
miRNA:   3'- -UUUAGgaUGCGCAGUCGGC-----UCGAGuu -5'
8052 3' -54.4 NC_001973.1 + 115049 0.7 0.745151
Target:  5'- ---cCCg--GCGUCcGCCGAGCUCGAg -3'
miRNA:   3'- uuuaGGaugCGCAGuCGGCUCGAGUU- -5'
8052 3' -54.4 NC_001973.1 + 130971 0.7 0.735094
Target:  5'- aAGAUCUUACGCGUCGGCgaGGG-UCGAu -3'
miRNA:   3'- -UUUAGGAUGCGCAGUCGg-CUCgAGUU- -5'
8052 3' -54.4 NC_001973.1 + 83872 0.7 0.735094
Target:  5'- ---gCCcGCGCG-CGGCgCGAGCUCAGg -3'
miRNA:   3'- uuuaGGaUGCGCaGUCG-GCUCGAGUU- -5'
8052 3' -54.4 NC_001973.1 + 41421 0.71 0.694012
Target:  5'- ---gCCUcCGCGUCGGCCGAcagGCUCc- -3'
miRNA:   3'- uuuaGGAuGCGCAGUCGGCU---CGAGuu -5'
8052 3' -54.4 NC_001973.1 + 72227 0.71 0.6731
Target:  5'- aAGAUUUUACGUGcCGGCCGGGgUCAAu -3'
miRNA:   3'- -UUUAGGAUGCGCaGUCGGCUCgAGUU- -5'
8052 3' -54.4 NC_001973.1 + 16457 0.71 0.6731
Target:  5'- aAGAUUUUACGUGcCGGCCGGGgUCAAu -3'
miRNA:   3'- -UUUAGGAUGCGCaGUCGGCUCgAGUU- -5'
8052 3' -54.4 NC_001973.1 + 160817 0.73 0.59927
Target:  5'- aGGAUUUUACGCGUCGGCCgGAGUcgaUCAu -3'
miRNA:   3'- -UUUAGGAUGCGCAGUCGG-CUCG---AGUu -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.