miRNA display CGI


Results 1 - 20 of 38 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
9451 5' -52.7 NC_002531.1 + 109442 0.66 0.971602
Target:  5'- aCCAAAGUaGGCC-CCAuuguAACACUuuAUCu -3'
miRNA:   3'- gGGUUUCG-CCGGcGGUu---UUGUGG--UAG- -5'
9451 5' -52.7 NC_002531.1 + 121812 0.66 0.969814
Target:  5'- cCCCAAcAGCcGCCaCCAGAggcucuguauaucccACGCCAUUg -3'
miRNA:   3'- -GGGUU-UCGcCGGcGGUUU---------------UGUGGUAG- -5'
9451 5' -52.7 NC_002531.1 + 120495 0.66 0.968578
Target:  5'- gCCCAAAGCcauauauuauGuGCUGUCGGAGCGCUg-- -3'
miRNA:   3'- -GGGUUUCG----------C-CGGCGGUUUUGUGGuag -5'
9451 5' -52.7 NC_002531.1 + 44512 0.66 0.965332
Target:  5'- uUCAAAGuUGGCCaCCAGAGCACgGg- -3'
miRNA:   3'- gGGUUUC-GCCGGcGGUUUUGUGgUag -5'
9451 5' -52.7 NC_002531.1 + 124586 0.66 0.961857
Target:  5'- gCCCAgcAGGUGGCUuaccuGCCAAAcguCuCCAUCc -3'
miRNA:   3'- -GGGU--UUCGCCGG-----CGGUUUu--GuGGUAG- -5'
9451 5' -52.7 NC_002531.1 + 118365 0.66 0.961857
Target:  5'- aCCAAAGgGGCCagaaggagaauGCCAAAguGgACCAa- -3'
miRNA:   3'- gGGUUUCgCCGG-----------CGGUUU--UgUGGUag -5'
9451 5' -52.7 NC_002531.1 + 44009 0.66 0.961857
Target:  5'- uCCCu--GCGGCCGCUgc-GgACCAa- -3'
miRNA:   3'- -GGGuuuCGCCGGCGGuuuUgUGGUag -5'
9451 5' -52.7 NC_002531.1 + 113309 0.66 0.961857
Target:  5'- gCUGGuGCGGCUGCCAcucaaacAGCACCcaAUCg -3'
miRNA:   3'- gGGUUuCGCCGGCGGUu------UUGUGG--UAG- -5'
9451 5' -52.7 NC_002531.1 + 129565 0.66 0.958147
Target:  5'- aCCUAAAGacgGGCCugcaGCCAAGAaccCACCAa- -3'
miRNA:   3'- -GGGUUUCg--CCGG----CGGUUUU---GUGGUag -5'
9451 5' -52.7 NC_002531.1 + 123331 0.66 0.958147
Target:  5'- gCCCGGGGUgGGUCGCUuuGACuuuCCAcUCg -3'
miRNA:   3'- -GGGUUUCG-CCGGCGGuuUUGu--GGU-AG- -5'
9451 5' -52.7 NC_002531.1 + 36162 0.66 0.954198
Target:  5'- gCCCcc-GUGGCCGgCAAcg-GCCAUCa -3'
miRNA:   3'- -GGGuuuCGCCGGCgGUUuugUGGUAG- -5'
9451 5' -52.7 NC_002531.1 + 48893 0.67 0.945562
Target:  5'- cCCCGGcucAGUGGCCuCCAu--CACCAc- -3'
miRNA:   3'- -GGGUU---UCGCCGGcGGUuuuGUGGUag -5'
9451 5' -52.7 NC_002531.1 + 122182 0.67 0.945562
Target:  5'- gCUAGacAGgGGCUGCUGAAAgACUAUCu -3'
miRNA:   3'- gGGUU--UCgCCGGCGGUUUUgUGGUAG- -5'
9451 5' -52.7 NC_002531.1 + 68713 0.67 0.945562
Target:  5'- gCCCAucAGCgGGCUGCUGGAcuACGCC-UCc -3'
miRNA:   3'- -GGGUu-UCG-CCGGCGGUUU--UGUGGuAG- -5'
9451 5' -52.7 NC_002531.1 + 82986 0.67 0.935921
Target:  5'- aCCGGAGCGaGCUGUCucacAGGCACUAc- -3'
miRNA:   3'- gGGUUUCGC-CGGCGGu---UUUGUGGUag -5'
9451 5' -52.7 NC_002531.1 + 71244 0.67 0.935921
Target:  5'- --aAAGGCGGCUGuCCAAggUACCu-- -3'
miRNA:   3'- gggUUUCGCCGGC-GGUUuuGUGGuag -5'
9451 5' -52.7 NC_002531.1 + 83074 0.67 0.935921
Target:  5'- aCCCgAGAGCuucugccuGGgUGcCCAAGACACCAUg -3'
miRNA:   3'- -GGG-UUUCG--------CCgGC-GGUUUUGUGGUAg -5'
9451 5' -52.7 NC_002531.1 + 34248 0.67 0.935921
Target:  5'- cUCCA---CGGCCauacccccgGCCAGAGCACCAc- -3'
miRNA:   3'- -GGGUuucGCCGG---------CGGUUUUGUGGUag -5'
9451 5' -52.7 NC_002531.1 + 36226 0.67 0.935921
Target:  5'- uUCAGuGUGGCCGCCAGu---CCAUUc -3'
miRNA:   3'- gGGUUuCGCCGGCGGUUuuguGGUAG- -5'
9451 5' -52.7 NC_002531.1 + 104006 0.68 0.907343
Target:  5'- cCCCGGGGCaGGCCcUCAAAauGCACCu-- -3'
miRNA:   3'- -GGGUUUCG-CCGGcGGUUU--UGUGGuag -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.