miRNA display CGI


Results 1 - 20 of 22 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
29069 3' -47.5 NC_006146.1 + 122993 0.66 0.999909
Target:  5'- -cCAGGcCAcgGGGGacUUCUUCUCGGa -3'
miRNA:   3'- caGUCCaGUuuUUCU--AGGAAGAGCCg -5'
29069 3' -47.5 NC_006146.1 + 76051 0.66 0.999845
Target:  5'- -cCAGGUCAAcAAGAUCCg---CGaGUg -3'
miRNA:   3'- caGUCCAGUUuUUCUAGGaagaGC-CG- -5'
29069 3' -47.5 NC_006146.1 + 10027 0.66 0.999845
Target:  5'- cUCAGGgaccuGAGAGAUgCCUUCagUCGGg -3'
miRNA:   3'- cAGUCCagu--UUUUCUA-GGAAG--AGCCg -5'
29069 3' -47.5 NC_006146.1 + 57994 0.66 0.9998
Target:  5'- -cCAGGaCGAGcugGAGGcCCgggUCUCGGCc -3'
miRNA:   3'- caGUCCaGUUU---UUCUaGGa--AGAGCCG- -5'
29069 3' -47.5 NC_006146.1 + 100019 0.67 0.999676
Target:  5'- cGUCGGGaggCGGcgGGGUCCg---CGGCu -3'
miRNA:   3'- -CAGUCCa--GUUuuUCUAGGaagaGCCG- -5'
29069 3' -47.5 NC_006146.1 + 50327 0.67 0.999676
Target:  5'- -cCAGGUCAAAcuugccAUCCgcggcCUCGGCc -3'
miRNA:   3'- caGUCCAGUUUuuc---UAGGaa---GAGCCG- -5'
29069 3' -47.5 NC_006146.1 + 70030 0.67 0.999591
Target:  5'- -aCAGGUCcguGAGacccGAGA-CCUUC-CGGCg -3'
miRNA:   3'- caGUCCAG---UUU----UUCUaGGAAGaGCCG- -5'
29069 3' -47.5 NC_006146.1 + 100877 0.67 0.999362
Target:  5'- cUCGGGUCucacGGA-CCUgucggccugggUCUCGGCc -3'
miRNA:   3'- cAGUCCAGuuuuUCUaGGA-----------AGAGCCG- -5'
29069 3' -47.5 NC_006146.1 + 125457 0.68 0.999029
Target:  5'- gGUCAGGUCcccAAAGAcagCCUUCa-GGUg -3'
miRNA:   3'- -CAGUCCAGuu-UUUCUa--GGAAGagCCG- -5'
29069 3' -47.5 NC_006146.1 + 102326 0.68 0.998814
Target:  5'- -cCGGGggCAGGcccAGAUCgaUCUCGGCu -3'
miRNA:   3'- caGUCCa-GUUUu--UCUAGgaAGAGCCG- -5'
29069 3' -47.5 NC_006146.1 + 163260 0.68 0.998559
Target:  5'- -cCGGGuUCAGAAAGAagaCCaUCUCGGg -3'
miRNA:   3'- caGUCC-AGUUUUUCUa--GGaAGAGCCg -5'
29069 3' -47.5 NC_006146.1 + 109279 0.68 0.998259
Target:  5'- uUCAGGUCGuagcuGGGAgggaUCUCGGCc -3'
miRNA:   3'- cAGUCCAGUuu---UUCUaggaAGAGCCG- -5'
29069 3' -47.5 NC_006146.1 + 98995 0.68 0.998226
Target:  5'- -cCAGGUCAGaggccgcgcgcagGAGGGUCCgcgUgaCGGCc -3'
miRNA:   3'- caGUCCAGUU-------------UUUCUAGGa--AgaGCCG- -5'
29069 3' -47.5 NC_006146.1 + 95676 0.72 0.981181
Target:  5'- gGUCAGGcUCuuuGAGAUCCUgCagGGCa -3'
miRNA:   3'- -CAGUCC-AGuuuUUCUAGGAaGagCCG- -5'
29069 3' -47.5 NC_006146.1 + 78610 0.72 0.973699
Target:  5'- --gAGGUCAGAAccAGAUgCUUCUUGGa -3'
miRNA:   3'- cagUCCAGUUUU--UCUAgGAAGAGCCg -5'
29069 3' -47.5 NC_006146.1 + 9550 0.73 0.96065
Target:  5'- aGUCAGGUCuGAGAGGUUgCUgcgCUUGGUu -3'
miRNA:   3'- -CAGUCCAGuUUUUCUAG-GAa--GAGCCG- -5'
29069 3' -47.5 NC_006146.1 + 101411 0.74 0.938813
Target:  5'- gGUUAGGUaCGAGgcGGUCUUcgUCUCGGCc -3'
miRNA:   3'- -CAGUCCA-GUUUuuCUAGGA--AGAGCCG- -5'
29069 3' -47.5 NC_006146.1 + 149773 0.75 0.922573
Target:  5'- aUCAGG-CAggAGAAGGU-CUUCUCGGCc -3'
miRNA:   3'- cAGUCCaGU--UUUUCUAgGAAGAGCCG- -5'
29069 3' -47.5 NC_006146.1 + 80240 0.75 0.910418
Target:  5'- -aCGGGggCAagaaacGAAAGggCCUUCUCGGCu -3'
miRNA:   3'- caGUCCa-GU------UUUUCuaGGAAGAGCCG- -5'
29069 3' -47.5 NC_006146.1 + 55079 0.76 0.875495
Target:  5'- gGUCAGGaCGGAcGAGAUCCU-CUCGGa -3'
miRNA:   3'- -CAGUCCaGUUU-UUCUAGGAaGAGCCg -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.