miRNA display CGI


Results 1 - 14 of 14 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
21777 3' -55.2 NC_004813.1 + 46635 0.66 0.74853
Target:  5'- -aGGCGaccuGGUGAAgacgGUGGGGaaaGCCu -3'
miRNA:   3'- gaCCGCgu--CCACUU----UACCCUgugCGG- -5'
21777 3' -55.2 NC_004813.1 + 8687 0.66 0.741245
Target:  5'- -cGGCGCugaggccGGGUGGggaauuucacuuAuuacuguucguuuccAUGGGAUugGCCa -3'
miRNA:   3'- gaCCGCG-------UCCACU------------U---------------UACCCUGugCGG- -5'
21777 3' -55.2 NC_004813.1 + 46563 0.66 0.727576
Target:  5'- -cGGCGuCAGG-GAAAacgucgGGGGguUGCCg -3'
miRNA:   3'- gaCCGC-GUCCaCUUUa-----CCCUguGCGG- -5'
21777 3' -55.2 NC_004813.1 + 44066 0.66 0.727576
Target:  5'- uCUGGCGUcGGUGAuucuGGAUAaucUGCCu -3'
miRNA:   3'- -GACCGCGuCCACUuuacCCUGU---GCGG- -5'
21777 3' -55.2 NC_004813.1 + 38979 0.66 0.724398
Target:  5'- gUGGCGUAcccggacuGGUGAugcUGGGggcugcagcaugguACACGCUg -3'
miRNA:   3'- gACCGCGU--------CCACUuu-ACCC--------------UGUGCGG- -5'
21777 3' -55.2 NC_004813.1 + 29915 0.67 0.673728
Target:  5'- -aGGaugaGCGGGUGAucaccGGGAUucgucaACGCCu -3'
miRNA:   3'- gaCCg---CGUCCACUuua--CCCUG------UGCGG- -5'
21777 3' -55.2 NC_004813.1 + 45256 0.67 0.673728
Target:  5'- -cGGCGCGGGgu--GUGcGGugAUGUCc -3'
miRNA:   3'- gaCCGCGUCCacuuUAC-CCugUGCGG- -5'
21777 3' -55.2 NC_004813.1 + 32242 0.67 0.673728
Target:  5'- --uGCGCAGG-GGAuacgcaGGGAaaCGCGCCg -3'
miRNA:   3'- gacCGCGUCCaCUUua----CCCU--GUGCGG- -5'
21777 3' -55.2 NC_004813.1 + 25193 0.67 0.662797
Target:  5'- -cGuuGCGGG---GAUGGGGCugGCCu -3'
miRNA:   3'- gaCcgCGUCCacuUUACCCUGugCGG- -5'
21777 3' -55.2 NC_004813.1 + 54292 0.68 0.629874
Target:  5'- aUGGUggGCAGGUacGAcucUGGGGCugGCa -3'
miRNA:   3'- gACCG--CGUCCAcuUU---ACCCUGugCGg -5'
21777 3' -55.2 NC_004813.1 + 4899 0.7 0.468079
Target:  5'- aUGGCcCAGGUGcaguacagcauGUGGGugACGCg -3'
miRNA:   3'- gACCGcGUCCACuu---------UACCCugUGCGg -5'
21777 3' -55.2 NC_004813.1 + 35253 0.71 0.460093
Target:  5'- aUGGCGCAGGcgGAAAuccgcaucUGGGuGCGCGgUCa -3'
miRNA:   3'- gACCGCGUCCa-CUUU--------ACCC-UGUGC-GG- -5'
21777 3' -55.2 NC_004813.1 + 44392 0.72 0.402646
Target:  5'- -cGGC-CuGGUGccuGUGGGACAUGCUg -3'
miRNA:   3'- gaCCGcGuCCACuu-UACCCUGUGCGG- -5'
21777 3' -55.2 NC_004813.1 + 45478 1.12 0.000622
Target:  5'- uCUGGCGCAGGUGAAAUGGGACACGCCg -3'
miRNA:   3'- -GACCGCGUCCACUUUACCCUGUGCGG- -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.