miRNA display CGI


Results 1 - 20 of 204 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
13999 3' -55.5 NC_003521.1 + 88488 0.71 0.758974
Target:  5'- -aGAGGGuGGGCGGguagAGCGGCAcGcGCa -3'
miRNA:   3'- cgCUCUC-CCCGUCa---UCGUCGUuCuCG- -5'
13999 3' -55.5 NC_003521.1 + 43673 0.72 0.720755
Target:  5'- -gGAGAGGaGG-AGcAGCAGCAGGAGg -3'
miRNA:   3'- cgCUCUCC-CCgUCaUCGUCGUUCUCg -5'
13999 3' -55.5 NC_003521.1 + 168355 0.72 0.720755
Target:  5'- gGCGaAGAGcGGCGcGUAGCGGCAGucggcGGGCa -3'
miRNA:   3'- -CGC-UCUCcCCGU-CAUCGUCGUU-----CUCG- -5'
13999 3' -55.5 NC_003521.1 + 24231 0.72 0.720755
Target:  5'- aGCGGGuuGGGCAGcgGGCGGUc-GGGCg -3'
miRNA:   3'- -CGCUCucCCCGUCa-UCGUCGuuCUCG- -5'
13999 3' -55.5 NC_003521.1 + 33644 0.72 0.720755
Target:  5'- cGUG-GAGGGGCGGc--CAGC-AGAGCg -3'
miRNA:   3'- -CGCuCUCCCCGUCaucGUCGuUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 216248 0.72 0.730441
Target:  5'- aGCGGGAGGuggacgaggaGGCcgccgAGUAGUAGCGccagcucguGGAGCg -3'
miRNA:   3'- -CGCUCUCC----------CCG-----UCAUCGUCGU---------UCUCG- -5'
13999 3' -55.5 NC_003521.1 + 92005 0.72 0.740046
Target:  5'- aGCGGGAGcGGCgAGgcGCGGCGGcGGCg -3'
miRNA:   3'- -CGCUCUCcCCG-UCauCGUCGUUcUCG- -5'
13999 3' -55.5 NC_003521.1 + 232343 0.72 0.740046
Target:  5'- ---cGAGGaGCAGUAGCAGCAGucGCg -3'
miRNA:   3'- cgcuCUCCcCGUCAUCGUCGUUcuCG- -5'
13999 3' -55.5 NC_003521.1 + 46431 0.72 0.74956
Target:  5'- uGCGAGGGuauccGGCGG-GGCuGCGGGGGCu -3'
miRNA:   3'- -CGCUCUCc----CCGUCaUCGuCGUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 135774 0.72 0.710996
Target:  5'- gGCG-GuGGcGGCAGUGGCGcuGCGGGAGg -3'
miRNA:   3'- -CGCuCuCC-CCGUCAUCGU--CGUUCUCg -5'
13999 3' -55.5 NC_003521.1 + 228986 0.73 0.681364
Target:  5'- cGCGGGcGGcGCAGgaccGGCAGCAcGGAGCu -3'
miRNA:   3'- -CGCUCuCCcCGUCa---UCGUCGU-UCUCG- -5'
13999 3' -55.5 NC_003521.1 + 149738 0.73 0.681364
Target:  5'- aCGAcGAGuGGCAGgucuucuGCGGCGAGGGCg -3'
miRNA:   3'- cGCU-CUCcCCGUCau-----CGUCGUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 167705 0.77 0.447881
Target:  5'- cGUGgaGGAGGcGGCGGUAGCAGCGGuAGUg -3'
miRNA:   3'- -CGC--UCUCC-CCGUCAUCGUCGUUcUCG- -5'
13999 3' -55.5 NC_003521.1 + 214556 0.77 0.456882
Target:  5'- aGCaccGGGGuGCAGUgAGCAGCAGGGGCg -3'
miRNA:   3'- -CGcucUCCC-CGUCA-UCGUCGUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 215634 0.77 0.465066
Target:  5'- gGUGAGGacGGGGCuccgcauGGUcGCGGCGGGAGCa -3'
miRNA:   3'- -CGCUCU--CCCCG-------UCAuCGUCGUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 186499 0.77 0.478873
Target:  5'- gGCGAGAGccccgucgggaucucGGGCGGUGucGcCAGCGGGGGCu -3'
miRNA:   3'- -CGCUCUC---------------CCCGUCAU--C-GUCGUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 165447 0.74 0.591216
Target:  5'- gGCGAGGGGuGGCAGgccuugAGCAcCAGGuGGCg -3'
miRNA:   3'- -CGCUCUCC-CCGUCa-----UCGUcGUUC-UCG- -5'
13999 3' -55.5 NC_003521.1 + 187901 0.74 0.601212
Target:  5'- gGCGGcGGGGGCAGgucgaucAGCAGCucgcGAGAGUc -3'
miRNA:   3'- -CGCUcUCCCCGUCa------UCGUCG----UUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 234123 0.74 0.615242
Target:  5'- gGCGAGAcccagcagcgcucgcGGGcGCAGgcccuGCAGCAcGAGCg -3'
miRNA:   3'- -CGCUCU---------------CCC-CGUCau---CGUCGUuCUCG- -5'
13999 3' -55.5 NC_003521.1 + 192446 0.73 0.671398
Target:  5'- -gGAGAGGGGCA-UGGCGGC---GGCg -3'
miRNA:   3'- cgCUCUCCCCGUcAUCGUCGuucUCG- -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.