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
2659 5' -56.3 NC_001491.2 + 130404 0.66 0.898953
Target:  5'- aUGUGCUGUuaucgGAGGag-CUGCuGUCGCu -3'
miRNA:   3'- gACGCGACG-----CUUCguaGGCGuCAGCG- -5'
2659 5' -56.3 NC_001491.2 + 35143 0.66 0.892372
Target:  5'- uCUGC-CUGCGccuGGGC-UCCGcCAGgCGCa -3'
miRNA:   3'- -GACGcGACGC---UUCGuAGGC-GUCaGCG- -5'
2659 5' -56.3 NC_001491.2 + 27087 0.66 0.878527
Target:  5'- -cGCGCgGCcAGGCcUCCGCGGgcggcccggCGCc -3'
miRNA:   3'- gaCGCGaCGcUUCGuAGGCGUCa--------GCG- -5'
2659 5' -56.3 NC_001491.2 + 139347 0.66 0.874199
Target:  5'- uCUGCGgucaUGCGAauGGCguggucgaccaugguGUCCGUGGUgGCa -3'
miRNA:   3'- -GACGCg---ACGCU--UCG---------------UAGGCGUCAgCG- -5'
2659 5' -56.3 NC_001491.2 + 9234 0.66 0.871271
Target:  5'- -aGCGCUGCcaaaAAGCG-CCGCAagCGCc -3'
miRNA:   3'- gaCGCGACGc---UUCGUaGGCGUcaGCG- -5'
2659 5' -56.3 NC_001491.2 + 135972 0.67 0.856116
Target:  5'- -cGCGCgUGCGAAGC-UCUGauaGGUaaaaGCg -3'
miRNA:   3'- gaCGCG-ACGCUUCGuAGGCg--UCAg---CG- -5'
2659 5' -56.3 NC_001491.2 + 143591 0.67 0.840146
Target:  5'- uCUGCuGCugUGCGAAGCGUCUcuGC-GcCGCg -3'
miRNA:   3'- -GACG-CG--ACGCUUCGUAGG--CGuCaGCG- -5'
2659 5' -56.3 NC_001491.2 + 3702 0.67 0.840146
Target:  5'- -gGCGCccUGgucccCGGAGCggCCGCGGcCGCg -3'
miRNA:   3'- gaCGCG--AC-----GCUUCGuaGGCGUCaGCG- -5'
2659 5' -56.3 NC_001491.2 + 43787 0.67 0.82256
Target:  5'- -cGCGCUGCGA-----CCGCAGacgacuaUCGCa -3'
miRNA:   3'- gaCGCGACGCUucguaGGCGUC-------AGCG- -5'
2659 5' -56.3 NC_001491.2 + 2628 0.68 0.778672
Target:  5'- gCUGgGCcGCGGAGUGuggcagucUCCGCGGggaaCGCg -3'
miRNA:   3'- -GACgCGaCGCUUCGU--------AGGCGUCa---GCG- -5'
2659 5' -56.3 NC_001491.2 + 125195 0.68 0.769292
Target:  5'- -gGCGCcgGaacccauaaGggGCAUCaGCGGUCGCc -3'
miRNA:   3'- gaCGCGa-Cg--------CuuCGUAGgCGUCAGCG- -5'
2659 5' -56.3 NC_001491.2 + 10062 0.7 0.660033
Target:  5'- -cGCGCUccGUGggGgAcuuugCCGCGGUCGUg -3'
miRNA:   3'- gaCGCGA--CGCuuCgUa----GGCGUCAGCG- -5'
2659 5' -56.3 NC_001491.2 + 110127 0.71 0.639525
Target:  5'- gCUGCGaCUGCcc-GC-UgCGCAGUCGCg -3'
miRNA:   3'- -GACGC-GACGcuuCGuAgGCGUCAGCG- -5'
2659 5' -56.3 NC_001491.2 + 64070 0.72 0.557873
Target:  5'- -cGCGCUGCGccacGCugaugaUGCAGUCGCg -3'
miRNA:   3'- gaCGCGACGCuu--CGuag---GCGUCAGCG- -5'
2659 5' -56.3 NC_001491.2 + 11727 0.72 0.547829
Target:  5'- -cGCGCUGCu-GGCAUCgGCGG-CGUc -3'
miRNA:   3'- gaCGCGACGcuUCGUAGgCGUCaGCG- -5'
2659 5' -56.3 NC_001491.2 + 33628 0.77 0.297636
Target:  5'- cCUGCGCcuccgcgGCGggGCGUCCGCcGUCc- -3'
miRNA:   3'- -GACGCGa------CGCuuCGUAGGCGuCAGcg -5'
2659 5' -56.3 NC_001491.2 + 89400 1.11 0.00191
Target:  5'- cCUGCGCUGCGAAGCAUCCGCAGUCGCc -3'
miRNA:   3'- -GACGCGACGCUUCGUAGGCGUCAGCG- -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.