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
21935 3' -59.4 NC_004913.1 + 39850 0.66 0.477053
Target:  5'- -uGCAauauGCCAuuGCAGGGUGGcCUGuuGCUg -3'
miRNA:   3'- gcCGU----UGGU--CGUCCCGCC-GACuuCGG- -5'
21935 3' -59.4 NC_004913.1 + 19449 0.67 0.457496
Target:  5'- aGGCAACCGGUAaGGCuGUcagUGAugguGCCa -3'
miRNA:   3'- gCCGUUGGUCGUcCCGcCG---ACUu---CGG- -5'
21935 3' -59.4 NC_004913.1 + 26150 0.67 0.44788
Target:  5'- cCGGUuugucacGCCAGCA-GGCGGCgucucuuGCCa -3'
miRNA:   3'- -GCCGu------UGGUCGUcCCGCCGacuu---CGG- -5'
21935 3' -59.4 NC_004913.1 + 15069 0.67 0.44788
Target:  5'- cCGGCAgcuucuGCCAGaacggauauCAGGGCGaauuaCUGGAGUCu -3'
miRNA:   3'- -GCCGU------UGGUC---------GUCCCGCc----GACUUCGG- -5'
21935 3' -59.4 NC_004913.1 + 54340 0.67 0.419723
Target:  5'- uGGuCAGCCAGUGGcGGCagGGCaGAAGUg -3'
miRNA:   3'- gCC-GUUGGUCGUC-CCG--CCGaCUUCGg -5'
21935 3' -59.4 NC_004913.1 + 20138 0.68 0.409671
Target:  5'- gGGCGAUUAaugcggcGCAGGGCGGCUauucacGCUa -3'
miRNA:   3'- gCCGUUGGU-------CGUCCCGCCGAcuu---CGG- -5'
21935 3' -59.4 NC_004913.1 + 21483 0.68 0.375269
Target:  5'- uGGCGACCAGCGGcGuuuucCGGUgccGGAGCUu -3'
miRNA:   3'- gCCGUUGGUCGUC-Cc----GCCGa--CUUCGG- -5'
21935 3' -59.4 NC_004913.1 + 9420 0.73 0.187283
Target:  5'- aCGGgGACCGGCAGGuGauGCUGGuccggcaGGCCc -3'
miRNA:   3'- -GCCgUUGGUCGUCC-CgcCGACU-------UCGG- -5'
21935 3' -59.4 NC_004913.1 + 6919 0.73 0.182907
Target:  5'- aCGGCAcACCAaCGacuGGCGGCUGAAuGCCa -3'
miRNA:   3'- -GCCGU-UGGUcGUc--CCGCCGACUU-CGG- -5'
21935 3' -59.4 NC_004913.1 + 9340 0.75 0.143916
Target:  5'- aCGG-GGCCAGCAGGucCGGCUG-GGCCg -3'
miRNA:   3'- -GCCgUUGGUCGUCCc-GCCGACuUCGG- -5'
21935 3' -59.4 NC_004913.1 + 28313 0.76 0.115794
Target:  5'- uGGCGcuuuuGCaCAGCAGGGCGGUuuccaagggccUGAAGCa -3'
miRNA:   3'- gCCGU-----UG-GUCGUCCCGCCG-----------ACUUCGg -5'
21935 3' -59.4 NC_004913.1 + 19362 0.77 0.103736
Target:  5'- cCGGUGG-CAGCAGGGgGGCUGAugaGGUCa -3'
miRNA:   3'- -GCCGUUgGUCGUCCCgCCGACU---UCGG- -5'
21935 3' -59.4 NC_004913.1 + 8402 1.12 0.000227
Target:  5'- aCGGCAACCAGCAGGGCGGCUGAAGCCg -3'
miRNA:   3'- -GCCGUUGGUCGUCCCGCCGACUUCGG- -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.