miRNA display CGI


Results 1 - 20 of 44 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
23372 5' -55.3 NC_005259.1 + 28637 0.66 0.817976
Target:  5'- gCCACCG-GUGccgacaccgccGAGGC-CGCCGUCa-- -3'
miRNA:   3'- -GGUGGCuCAC-----------CUUCGaGUGGCAGcug -5'
23372 5' -55.3 NC_005259.1 + 20062 0.66 0.817976
Target:  5'- uCCGCUGcGGUGGcGGUcgUCACCacGUCGAa -3'
miRNA:   3'- -GGUGGC-UCACCuUCG--AGUGG--CAGCUg -5'
23372 5' -55.3 NC_005259.1 + 65804 0.66 0.817976
Target:  5'- gCGCUG-GUcGAAacGCUgGCCGUCGACc -3'
miRNA:   3'- gGUGGCuCAcCUU--CGAgUGGCAGCUG- -5'
23372 5' -55.3 NC_005259.1 + 17326 0.66 0.808839
Target:  5'- aCC-CCGAG-GGuguGCcggucaacgUCGCCGUCGAg -3'
miRNA:   3'- -GGuGGCUCaCCuu-CG---------AGUGGCAGCUg -5'
23372 5' -55.3 NC_005259.1 + 29350 0.66 0.808839
Target:  5'- aCCACCGAGaccgccgucGAGGCaC-CCGUCGAg -3'
miRNA:   3'- -GGUGGCUCac-------CUUCGaGuGGCAGCUg -5'
23372 5' -55.3 NC_005259.1 + 9533 0.66 0.808839
Target:  5'- gCCGCCGGGUcaccGGAgagcugcccGGcCUCGaccgCGUCGGCg -3'
miRNA:   3'- -GGUGGCUCA----CCU---------UC-GAGUg---GCAGCUG- -5'
23372 5' -55.3 NC_005259.1 + 51490 0.66 0.799527
Target:  5'- aCCGCCGGGgauaGGucgacGC-CGCCGaucUCGACg -3'
miRNA:   3'- -GGUGGCUCa---CCuu---CGaGUGGC---AGCUG- -5'
23372 5' -55.3 NC_005259.1 + 47168 0.66 0.799527
Target:  5'- aUCACCGuAGcgGcGAAGgUCggcgguGCCGUCGGCg -3'
miRNA:   3'- -GGUGGC-UCa-C-CUUCgAG------UGGCAGCUG- -5'
23372 5' -55.3 NC_005259.1 + 36703 0.66 0.790048
Target:  5'- cCCGCCGAu---GAGCUCguGCCGcUCGACc -3'
miRNA:   3'- -GGUGGCUcaccUUCGAG--UGGC-AGCUG- -5'
23372 5' -55.3 NC_005259.1 + 18324 0.66 0.780412
Target:  5'- aCACCGAGgccGGugcGUUCGUgGUCGACg -3'
miRNA:   3'- gGUGGCUCa--CCuu-CGAGUGgCAGCUG- -5'
23372 5' -55.3 NC_005259.1 + 21618 0.66 0.778467
Target:  5'- aCCACCGAGgcugugucgcgcGGAGuGUUCGCCGa-GGCu -3'
miRNA:   3'- -GGUGGCUCa-----------CCUU-CGAGUGGCagCUG- -5'
23372 5' -55.3 NC_005259.1 + 11021 0.67 0.760714
Target:  5'- gCGCCGAGgcaGGAGUUCGCCGggUGGu -3'
miRNA:   3'- gGUGGCUCac-CUUCGAGUGGCa-GCUg -5'
23372 5' -55.3 NC_005259.1 + 14296 0.67 0.760714
Target:  5'- aCCACCGAuGUcGGugcguauGGC-CGCCcUCGACg -3'
miRNA:   3'- -GGUGGCU-CA-CCu------UCGaGUGGcAGCUG- -5'
23372 5' -55.3 NC_005259.1 + 58469 0.67 0.750672
Target:  5'- gCCACC-AGUGcGuGGCugUCGCCGaCGACa -3'
miRNA:   3'- -GGUGGcUCAC-CuUCG--AGUGGCaGCUG- -5'
23372 5' -55.3 NC_005259.1 + 38684 0.67 0.747636
Target:  5'- gCCGCCGGGUcGAGGUUgGCCaccugagacuguagGUUGACc -3'
miRNA:   3'- -GGUGGCUCAcCUUCGAgUGG--------------CAGCUG- -5'
23372 5' -55.3 NC_005259.1 + 26049 0.67 0.740514
Target:  5'- gCCGCCGGGuUGGccauGC-CGCCGcCGAg -3'
miRNA:   3'- -GGUGGCUC-ACCuu--CGaGUGGCaGCUg -5'
23372 5' -55.3 NC_005259.1 + 27916 0.67 0.73437
Target:  5'- aCCGCgCGGGUGGuAgcgguucggcgacccAGCUCGCCGgUGAa -3'
miRNA:   3'- -GGUG-GCUCACC-U---------------UCGAGUGGCaGCUg -5'
23372 5' -55.3 NC_005259.1 + 47472 0.67 0.730254
Target:  5'- gCCACCGAG-GuGAucGCgUCACCGaggcgCGGCa -3'
miRNA:   3'- -GGUGGCUCaC-CUu-CG-AGUGGCa----GCUG- -5'
23372 5' -55.3 NC_005259.1 + 15998 0.67 0.730254
Target:  5'- aCCGCCG-GUGGccGCaUCcuGCCgGUUGACg -3'
miRNA:   3'- -GGUGGCuCACCuuCG-AG--UGG-CAGCUG- -5'
23372 5' -55.3 NC_005259.1 + 20776 0.67 0.727157
Target:  5'- cCCACCGGGUGGcgcgucgacagcaaGAGCcaccugcucgUC-CCGUCGcgGCg -3'
miRNA:   3'- -GGUGGCUCACC--------------UUCG----------AGuGGCAGC--UG- -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.