miRNA display CGI


Results 1 - 12 of 12 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
21742 3' -53 NC_004813.1 + 18455 0.66 0.851207
Target:  5'- uGGUCGcccauUGCUGCCGGAuuuaaGGGAc- -3'
miRNA:   3'- -CCAGU-----ACGACGGUCUcuuugCCCUcg -5'
21742 3' -53 NC_004813.1 + 37852 0.66 0.833572
Target:  5'- cGUCAgGCUGCUgcGGcAGCcaGGGAGCa -3'
miRNA:   3'- cCAGUaCGACGGucUCuUUG--CCCUCG- -5'
21742 3' -53 NC_004813.1 + 31041 0.67 0.785861
Target:  5'- cGGgcgGUGCUGCCGGcuGGGugGGuGAGg -3'
miRNA:   3'- -CCag-UACGACGGUCu-CUUugCC-CUCg -5'
21742 3' -53 NC_004813.1 + 40093 0.67 0.765553
Target:  5'- gGGUaCggGCagggggaacgaGCCAGAGAAcgcauGCGGGAGUu -3'
miRNA:   3'- -CCA-GuaCGa----------CGGUCUCUU-----UGCCCUCG- -5'
21742 3' -53 NC_004813.1 + 35518 0.68 0.755182
Target:  5'- ---gGUGCUGCguGAGGcaacccguGCGGGuGCg -3'
miRNA:   3'- ccagUACGACGguCUCUu-------UGCCCuCG- -5'
21742 3' -53 NC_004813.1 + 46278 0.68 0.712529
Target:  5'- --cUAUGUUGCCGGuauuGGAGCGGGGa- -3'
miRNA:   3'- ccaGUACGACGGUCu---CUUUGCCCUcg -5'
21742 3' -53 NC_004813.1 + 13511 0.68 0.712529
Target:  5'- cGGUU-UGCUaCCAGGGAagAACGGGAa- -3'
miRNA:   3'- -CCAGuACGAcGGUCUCU--UUGCCCUcg -5'
21742 3' -53 NC_004813.1 + 45613 0.69 0.679645
Target:  5'- cGGUC-UGCcGCCGGGGGaauacacccuGACGGucaGGGCg -3'
miRNA:   3'- -CCAGuACGaCGGUCUCU----------UUGCC---CUCG- -5'
21742 3' -53 NC_004813.1 + 43775 0.7 0.635202
Target:  5'- cGGUCuggcGC-GCCGG-GGAGCaGGAGCa -3'
miRNA:   3'- -CCAGua--CGaCGGUCuCUUUGcCCUCG- -5'
21742 3' -53 NC_004813.1 + 3796 0.71 0.567537
Target:  5'- gGGUUGUcggacuugugcaaGUUGCCAgGAGGAGCuGGAGCu -3'
miRNA:   3'- -CCAGUA-------------CGACGGU-CUCUUUGcCCUCG- -5'
21742 3' -53 NC_004813.1 + 35148 0.71 0.535946
Target:  5'- cGUaAUGCUGCCGGAGAaaugacggaagAAUGGGuGUc -3'
miRNA:   3'- cCAgUACGACGGUCUCU-----------UUGCCCuCG- -5'
21742 3' -53 NC_004813.1 + 30091 1.15 0.000701
Target:  5'- uGGUCAUGCUGCCAGAGAAACGGGAGCg -3'
miRNA:   3'- -CCAGUACGACGGUCUCUUUGCCCUCG- -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.