miRNA display CGI


Results 1 - 20 of 25 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
19765 3' -58.9 NC_004687.1 + 61524 0.66 0.819557
Target:  5'- -aGGGcuGGGGCGGGca-GaGCUCCGGCg -3'
miRNA:   3'- gaCCU--CCUCGUCCacaCcUGAGGCCG- -5'
19765 3' -58.9 NC_004687.1 + 115800 0.66 0.811067
Target:  5'- cCUGGcccgccAGGAGUGGG-GUGuGCUCCuGCa -3'
miRNA:   3'- -GACC------UCCUCGUCCaCACcUGAGGcCG- -5'
19765 3' -58.9 NC_004687.1 + 25988 0.66 0.811067
Target:  5'- gUGGGGaGGCAGacaugGUGGugUccaCCGGCg -3'
miRNA:   3'- gACCUCcUCGUCca---CACCugA---GGCCG- -5'
19765 3' -58.9 NC_004687.1 + 111553 0.66 0.793627
Target:  5'- -cGGGcuucGGGGCGgcGGUGcGGAagugcaCUCCGGCg -3'
miRNA:   3'- gaCCU----CCUCGU--CCACaCCU------GAGGCCG- -5'
19765 3' -58.9 NC_004687.1 + 9023 0.66 0.784694
Target:  5'- aCUGGGGGcAGCAc----GGGCUCCGGa -3'
miRNA:   3'- -GACCUCC-UCGUccacaCCUGAGGCCg -5'
19765 3' -58.9 NC_004687.1 + 40850 0.67 0.757141
Target:  5'- gCUGGuGGccGGUgccGGG-GUGGGCggUCCGGCc -3'
miRNA:   3'- -GACCuCC--UCG---UCCaCACCUG--AGGCCG- -5'
19765 3' -58.9 NC_004687.1 + 21522 0.67 0.734403
Target:  5'- gCUGGGcGAGCAGGccUGGACcuuccugucccgcCCGGCg -3'
miRNA:   3'- -GACCUcCUCGUCCacACCUGa------------GGCCG- -5'
19765 3' -58.9 NC_004687.1 + 138995 0.68 0.699414
Target:  5'- -cGGAGGccCGGGUGccGGAgCgUCCGGCa -3'
miRNA:   3'- gaCCUCCucGUCCACa-CCU-G-AGGCCG- -5'
19765 3' -58.9 NC_004687.1 + 134473 0.68 0.693503
Target:  5'- -cGGAgGGAugcgugugcaguucgGCAGGUG-GGGCUUCGaGCa -3'
miRNA:   3'- gaCCU-CCU---------------CGUCCACaCCUGAGGC-CG- -5'
19765 3' -58.9 NC_004687.1 + 20337 0.68 0.688565
Target:  5'- gCUGGucggaccGGGAGCGGGUGcaGGAC-CCGcauGCg -3'
miRNA:   3'- -GACC-------UCCUCGUCCACa-CCUGaGGC---CG- -5'
19765 3' -58.9 NC_004687.1 + 92665 0.68 0.669704
Target:  5'- cCUGGuGGGucCAGGUGccgucGGGCUgCGGCg -3'
miRNA:   3'- -GACC-UCCucGUCCACa----CCUGAgGCCG- -5'
19765 3' -58.9 NC_004687.1 + 18892 0.68 0.659731
Target:  5'- aUGGuGcAGCAGG-GUGGAC-CCGaGCa -3'
miRNA:   3'- gACCuCcUCGUCCaCACCUGaGGC-CG- -5'
19765 3' -58.9 NC_004687.1 + 556 0.69 0.629717
Target:  5'- -cGGcGGGGGCGGG-GUGGGCagucCCGGa -3'
miRNA:   3'- gaCC-UCCUCGUCCaCACCUGa---GGCCg -5'
19765 3' -58.9 NC_004687.1 + 81195 0.69 0.609703
Target:  5'- aUGGcuuccAGCAGGUcgGUGGAC-CCGGCa -3'
miRNA:   3'- gACCucc--UCGUCCA--CACCUGaGGCCG- -5'
19765 3' -58.9 NC_004687.1 + 17050 0.69 0.599717
Target:  5'- cCUGGuc--GUGGGUGUGGAcCUCCGGg -3'
miRNA:   3'- -GACCuccuCGUCCACACCU-GAGGCCg -5'
19765 3' -58.9 NC_004687.1 + 153121 0.7 0.589754
Target:  5'- -cGGAGGGGCAGGUGcUGccaUCgUGGCg -3'
miRNA:   3'- gaCCUCCUCGUCCAC-ACcugAG-GCCG- -5'
19765 3' -58.9 NC_004687.1 + 33622 0.7 0.57982
Target:  5'- aUGGuGGccCAcGGUGUGGGCgccuaUCCGGCg -3'
miRNA:   3'- gACCuCCucGU-CCACACCUG-----AGGCCG- -5'
19765 3' -58.9 NC_004687.1 + 140610 0.7 0.57982
Target:  5'- gUGGcGGuguGCAGGUGgu--CUCCGGCg -3'
miRNA:   3'- gACCuCCu--CGUCCACaccuGAGGCCG- -5'
19765 3' -58.9 NC_004687.1 + 33408 0.7 0.569922
Target:  5'- uCUGGcAGGAGCAGGgaugaGU-GACUuuGGUc -3'
miRNA:   3'- -GACC-UCCUCGUCCa----CAcCUGAggCCG- -5'
19765 3' -58.9 NC_004687.1 + 94161 0.7 0.540503
Target:  5'- aCUGGuguuuGGGAGCAGGcuguaacccUGUGGcCUUCGGg -3'
miRNA:   3'- -GACC-----UCCUCGUCC---------ACACCuGAGGCCg -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.