miRNA display CGI


Results 1 - 15 of 15 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
23542 3' -38.5 NC_005260.1 + 62942 0.66 1
Target:  5'- ----cGGAGAucAUuacuAAAGUGGAGAa -3'
miRNA:   3'- aaaaaCCUUUuuUAu---UUUCGCCUCUc -5'
23542 3' -38.5 NC_005260.1 + 38430 0.66 1
Target:  5'- -cUUUGGucuGGGUGAAAGCuGGGAa -3'
miRNA:   3'- aaAAACCuuuUUUAUUUUCGcCUCUc -5'
23542 3' -38.5 NC_005260.1 + 194336 0.67 1
Target:  5'- --cUUGGGAGAuuguAUAGAGGUaacacGGAGAa -3'
miRNA:   3'- aaaAACCUUUUu---UAUUUUCG-----CCUCUc -5'
23542 3' -38.5 NC_005260.1 + 113474 0.69 1
Target:  5'- ---aUGGAAGAAAUucaGAAAGCGcccGAGAu -3'
miRNA:   3'- aaaaACCUUUUUUA---UUUUCGC---CUCUc -5'
23542 3' -38.5 NC_005260.1 + 168325 0.74 1
Target:  5'- ----aGGAAu--GUcAAAGCGGAGAGu -3'
miRNA:   3'- aaaaaCCUUuuuUAuUUUCGCCUCUC- -5'
23542 3' -38.5 NC_005260.1 + 34734 0.65 1
Target:  5'- ----cGGA--GAAUAAAAgcaaccagauguucGCGGAGAGc -3'
miRNA:   3'- aaaaaCCUuuUUUAUUUU--------------CGCCUCUC- -5'
23542 3' -38.5 NC_005260.1 + 196805 0.66 1
Target:  5'- -cUUUGGAGAAAc-----GCGGAGGc -3'
miRNA:   3'- aaAAACCUUUUUuauuuuCGCCUCUc -5'
23542 3' -38.5 NC_005260.1 + 226117 0.66 1
Target:  5'- --aUUGGAAGAAucGUAAAugacgggaagaucAGCGGGGcGGa -3'
miRNA:   3'- aaaAACCUUUUU--UAUUU-------------UCGCCUC-UC- -5'
23542 3' -38.5 NC_005260.1 + 53369 0.67 1
Target:  5'- uUUUUUGGAAAuaaAAAUccgcccGAAGGCGGAu-- -3'
miRNA:   3'- -AAAAACCUUU---UUUA------UUUUCGCCUcuc -5'
23542 3' -38.5 NC_005260.1 + 17378 0.67 1
Target:  5'- cUUUUGGAGAAuagcAGGAuGUGGGGAa -3'
miRNA:   3'- aAAAACCUUUUuua-UUUU-CGCCUCUc -5'
23542 3' -38.5 NC_005260.1 + 156417 0.67 1
Target:  5'- ----aGGAAu-AAUAAGAGCGG-GAa -3'
miRNA:   3'- aaaaaCCUUuuUUAUUUUCGCCuCUc -5'
23542 3' -38.5 NC_005260.1 + 35576 0.67 1
Target:  5'- ---gUGGA-----UAuuGGCGGGGAGa -3'
miRNA:   3'- aaaaACCUuuuuuAUuuUCGCCUCUC- -5'
23542 3' -38.5 NC_005260.1 + 147507 0.69 1
Target:  5'- -aUUUGGAGAGuuucGAUGAAuauAGCGGAcaaaGGGa -3'
miRNA:   3'- aaAAACCUUUU----UUAUUU---UCGCCU----CUC- -5'
23542 3' -38.5 NC_005260.1 + 28391 0.83 0.995392
Target:  5'- ---aUGGAAGAAAguUGGAAGCGGAGGu -3'
miRNA:   3'- aaaaACCUUUUUU--AUUUUCGCCUCUc -5'
23542 3' -38.5 NC_005260.1 + 168035 1.08 0.232868
Target:  5'- aUUUUUGGAAAAAAUAAAAGCGGAGAGc -3'
miRNA:   3'- -AAAAACCUUUUUUAUUUUCGCCUCUC- -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.