miRNA display CGI


Results 1 - 20 of 20 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
23521 3' -39 NC_005260.1 + 205609 0.71 1
Target:  5'- uGUCcaa--CAAGUUCuUGGGAGACGa -3'
miRNA:   3'- gUAGuuuaaGUUUAAGuACCCUUUGC- -5'
23521 3' -39 NC_005260.1 + 54967 0.66 1
Target:  5'- aCAUCGAAaauuaUCAAGaugUUAUGGGAGAa- -3'
miRNA:   3'- -GUAGUUUa----AGUUUa--AGUACCCUUUgc -5'
23521 3' -39 NC_005260.1 + 6889 0.66 1
Target:  5'- aAUCGAGUgguggaagaaUCAAGUUCc--GGAAGCGa -3'
miRNA:   3'- gUAGUUUA----------AGUUUAAGuacCCUUUGC- -5'
23521 3' -39 NC_005260.1 + 197219 0.66 1
Target:  5'- cCGUCAAGUUCGuucauGUUC-UGGGuc-CGg -3'
miRNA:   3'- -GUAGUUUAAGUu----UAAGuACCCuuuGC- -5'
23521 3' -39 NC_005260.1 + 85358 0.67 1
Target:  5'- -uUCAA--UCGAuaUCAUGGGAAucguuGCGg -3'
miRNA:   3'- guAGUUuaAGUUuaAGUACCCUU-----UGC- -5'
23521 3' -39 NC_005260.1 + 96010 0.67 1
Target:  5'- aAUCcGAUUgCGAAUUCuuucUGGGAuACGg -3'
miRNA:   3'- gUAGuUUAA-GUUUAAGu---ACCCUuUGC- -5'
23521 3' -39 NC_005260.1 + 14058 0.67 1
Target:  5'- uCGUCGAuuacugCcGAUUCAUGGaGAAACu -3'
miRNA:   3'- -GUAGUUuaa---GuUUAAGUACC-CUUUGc -5'
23521 3' -39 NC_005260.1 + 52585 0.68 1
Target:  5'- aAUCAAAgUCGAGUuuuUCAUuGGAAACa -3'
miRNA:   3'- gUAGUUUaAGUUUA---AGUAcCCUUUGc -5'
23521 3' -39 NC_005260.1 + 2999 0.68 1
Target:  5'- uUAUCGAugUCAAGUUCGgcgaaUGGGAAuuguauuGCGa -3'
miRNA:   3'- -GUAGUUuaAGUUUAAGU-----ACCCUU-------UGC- -5'
23521 3' -39 NC_005260.1 + 38763 0.7 1
Target:  5'- uGUUAGAUcgCGGGUUCcguAUGGGAAAUGc -3'
miRNA:   3'- gUAGUUUAa-GUUUAAG---UACCCUUUGC- -5'
23521 3' -39 NC_005260.1 + 70029 0.72 1
Target:  5'- gAUCAGAUgggCGAAUcgUCAUGGGAu--- -3'
miRNA:   3'- gUAGUUUAa--GUUUA--AGUACCCUuugc -5'
23521 3' -39 NC_005260.1 + 124098 0.66 1
Target:  5'- gUAUCAcGUU--GAUUCGgaaGGGAAGCGu -3'
miRNA:   3'- -GUAGUuUAAguUUAAGUa--CCCUUUGC- -5'
23521 3' -39 NC_005260.1 + 145891 0.66 1
Target:  5'- aCAUCAAAUacuaaUCAAAcggCG-GGGAAACu -3'
miRNA:   3'- -GUAGUUUA-----AGUUUaa-GUaCCCUUUGc -5'
23521 3' -39 NC_005260.1 + 17047 0.66 1
Target:  5'- aGUCGGGUUacCGAAUUCAaucUGacGGAAGCGa -3'
miRNA:   3'- gUAGUUUAA--GUUUAAGU---AC--CCUUUGC- -5'
23521 3' -39 NC_005260.1 + 178037 0.67 1
Target:  5'- uGUCGAGUUCGAuau--UGGGAAucuCGa -3'
miRNA:   3'- gUAGUUUAAGUUuaaguACCCUUu--GC- -5'
23521 3' -39 NC_005260.1 + 2616 0.69 1
Target:  5'- gAUCAAAUUCAGAUuagcaguuUUAUGGGuAAUc -3'
miRNA:   3'- gUAGUUUAAGUUUA--------AGUACCCuUUGc -5'
23521 3' -39 NC_005260.1 + 133588 0.7 1
Target:  5'- aGUCGGAUUCGGAUUUAUcGGuauuGCGa -3'
miRNA:   3'- gUAGUUUAAGUUUAAGUAcCCuu--UGC- -5'
23521 3' -39 NC_005260.1 + 40023 0.71 1
Target:  5'- uGUCAGuUUCGAAUUCAgauacauccaacucUGGGAAAa- -3'
miRNA:   3'- gUAGUUuAAGUUUAAGU--------------ACCCUUUgc -5'
23521 3' -39 NC_005260.1 + 131925 0.82 0.997665
Target:  5'- gGUCAGAUUaCAAcgUCAUGGGAAAa- -3'
miRNA:   3'- gUAGUUUAA-GUUuaAGUACCCUUUgc -5'
23521 3' -39 NC_005260.1 + 127733 1.14 0.125947
Target:  5'- aCAUCAAAUUCAAAUUCAUGGGAAACGg -3'
miRNA:   3'- -GUAGUUUAAGUUUAAGUACCCUUUGC- -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.