miRNA display CGI


Results 1 - 13 of 13 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
27023 3' -58.2 NC_005832.1 + 12709 0.66 0.702614
Target:  5'- -gGCCCUCaagCUCAUCAagGCCcaugggUCCAu -3'
miRNA:   3'- gaCGGGAGg--GAGUAGUagCGG------AGGUu -5'
27023 3' -58.2 NC_005832.1 + 72490 0.67 0.661046
Target:  5'- -gGCCCUCCCUac-CAaUGUCUCCGu -3'
miRNA:   3'- gaCGGGAGGGAguaGUaGCGGAGGUu -5'
27023 3' -58.2 NC_005832.1 + 68100 0.67 0.661046
Target:  5'- aCUGCCUgcgagCCCUCAggGUCG-CUCCu- -3'
miRNA:   3'- -GACGGGa----GGGAGUagUAGCgGAGGuu -5'
27023 3' -58.2 NC_005832.1 + 6619 0.67 0.619083
Target:  5'- --cCCCgUCCUCGUCAUCcgccgccuccGCCUCCAGg -3'
miRNA:   3'- gacGGGaGGGAGUAGUAG----------CGGAGGUU- -5'
27023 3' -58.2 NC_005832.1 + 80162 0.67 0.608597
Target:  5'- -aGUCCugcgUCCC-CGUCAUgaCGCCUCCAu -3'
miRNA:   3'- gaCGGG----AGGGaGUAGUA--GCGGAGGUu -5'
27023 3' -58.2 NC_005832.1 + 50965 0.67 0.608597
Target:  5'- aUGCCCUUgCCUC--CGUCGUCUCCc- -3'
miRNA:   3'- gACGGGAG-GGAGuaGUAGCGGAGGuu -5'
27023 3' -58.2 NC_005832.1 + 79804 0.68 0.59813
Target:  5'- cCUGCCCUgCCUCc---UgGCCUCCGc -3'
miRNA:   3'- -GACGGGAgGGAGuaguAgCGGAGGUu -5'
27023 3' -58.2 NC_005832.1 + 29751 0.68 0.587689
Target:  5'- gCUGCCgugUgCCUCAUCuUgGCCUCCAc -3'
miRNA:   3'- -GACGGg--AgGGAGUAGuAgCGGAGGUu -5'
27023 3' -58.2 NC_005832.1 + 18883 0.68 0.556598
Target:  5'- -aGUCCUCUUcgucguggUCAUaGUCGCCUCCAAa -3'
miRNA:   3'- gaCGGGAGGG--------AGUAgUAGCGGAGGUU- -5'
27023 3' -58.2 NC_005832.1 + 52390 0.69 0.505954
Target:  5'- -gGCCacuaUCCCagaCAgCGUCGCCUCCAGg -3'
miRNA:   3'- gaCGGg---AGGGa--GUaGUAGCGGAGGUU- -5'
27023 3' -58.2 NC_005832.1 + 24642 0.69 0.505954
Target:  5'- -cGCUCUCCUUgGUCAU-GCCUCCc- -3'
miRNA:   3'- gaCGGGAGGGAgUAGUAgCGGAGGuu -5'
27023 3' -58.2 NC_005832.1 + 20909 0.71 0.41949
Target:  5'- cCUGCCCUCCCUCAgccuaauUUGguggagCGUCUCCc- -3'
miRNA:   3'- -GACGGGAGGGAGU-------AGUa-----GCGGAGGuu -5'
27023 3' -58.2 NC_005832.1 + 5641 1.06 0.001525
Target:  5'- cCUGCCCUCCCUCAUCAUCGCCUCCAAa -3'
miRNA:   3'- -GACGGGAGGGAGUAGUAGCGGAGGUU- -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.