miRNA display CGI


Results 1 - 20 of 87 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
16215 3' -63.8 NC_004065.1 + 447 0.85 0.046074
Target:  5'- -aGCCGCCCUCGCGGCguaacguCCGGGGACCc -3'
miRNA:   3'- uaCGGCGGGAGCGCUG-------GGCUCCUGGc -5'
16215 3' -63.8 NC_004065.1 + 4866 0.69 0.50479
Target:  5'- -cGCCGCCCUCGgcuCGgucACCCagGAGGAgCGu -3'
miRNA:   3'- uaCGGCGGGAGC---GC---UGGG--CUCCUgGC- -5'
16215 3' -63.8 NC_004065.1 + 18555 0.66 0.6912
Target:  5'- -cGCCGacgaCCUCuccgGCGACuccuCCGAGGAgCGg -3'
miRNA:   3'- uaCGGCg---GGAG----CGCUG----GGCUCCUgGC- -5'
16215 3' -63.8 NC_004065.1 + 26672 0.67 0.61583
Target:  5'- cGUGUCGCCC--GUGACCCuuuuugauGAGGACgGa -3'
miRNA:   3'- -UACGGCGGGagCGCUGGG--------CUCCUGgC- -5'
16215 3' -63.8 NC_004065.1 + 29012 0.7 0.435694
Target:  5'- -cGCCGCgCgcaCGCGGCCuCGAGucaGACCGg -3'
miRNA:   3'- uaCGGCGgGa--GCGCUGG-GCUC---CUGGC- -5'
16215 3' -63.8 NC_004065.1 + 29691 0.67 0.61583
Target:  5'- uUGCUGagCCUCgGCGcCCCGAcGGGCUGg -3'
miRNA:   3'- uACGGCg-GGAG-CGCuGGGCU-CCUGGC- -5'
16215 3' -63.8 NC_004065.1 + 30755 0.68 0.526445
Target:  5'- -gGCUGCCCUCG-GaAUCCGAGGucggcggacgcggacGCCGa -3'
miRNA:   3'- uaCGGCGGGAGCgC-UGGGCUCC---------------UGGC- -5'
16215 3' -63.8 NC_004065.1 + 30826 0.72 0.334022
Target:  5'- gGUGCgCGUCCUCGCGACCCucgacgaagccgacGAcGACCa -3'
miRNA:   3'- -UACG-GCGGGAGCGCUGGG--------------CUcCUGGc -5'
16215 3' -63.8 NC_004065.1 + 32191 0.67 0.596967
Target:  5'- cUGCCGCCCcUGgGACCUGGacGACCc -3'
miRNA:   3'- uACGGCGGGaGCgCUGGGCUc-CUGGc -5'
16215 3' -63.8 NC_004065.1 + 35245 0.71 0.411218
Target:  5'- --aUCGCCCUgCGCGACCCGgucucGGGACgGc -3'
miRNA:   3'- uacGGCGGGA-GCGCUGGGC-----UCCUGgC- -5'
16215 3' -63.8 NC_004065.1 + 37678 0.67 0.62528
Target:  5'- ---aCGCCCUCGUGACa-GAGGAgcCCGu -3'
miRNA:   3'- uacgGCGGGAGCGCUGggCUCCU--GGC- -5'
16215 3' -63.8 NC_004065.1 + 38489 0.73 0.289789
Target:  5'- -aGCCGCCCUUGCuggacgugGACCUcGGGAUCGa -3'
miRNA:   3'- uaCGGCGGGAGCG--------CUGGGcUCCUGGC- -5'
16215 3' -63.8 NC_004065.1 + 38568 0.69 0.513768
Target:  5'- gGUGCCGCaCCUCgGCG--UCGAGGACUc -3'
miRNA:   3'- -UACGGCG-GGAG-CGCugGGCUCCUGGc -5'
16215 3' -63.8 NC_004065.1 + 57778 0.68 0.549364
Target:  5'- -gGCCGCCUuacgaggggccguUCGUGACggGAGGACCc -3'
miRNA:   3'- uaCGGCGGG-------------AGCGCUGggCUCCUGGc -5'
16215 3' -63.8 NC_004065.1 + 58141 0.67 0.634736
Target:  5'- cUGCCGCCCUgucgUGCGACUCugaugauacuauGAcGGCCGa -3'
miRNA:   3'- uACGGCGGGA----GCGCUGGG------------CUcCUGGC- -5'
16215 3' -63.8 NC_004065.1 + 61855 0.73 0.302493
Target:  5'- -cGCCGCUgUCGCGcCCCGcgcgaAGGGCCu -3'
miRNA:   3'- uaCGGCGGgAGCGCuGGGC-----UCCUGGc -5'
16215 3' -63.8 NC_004065.1 + 63517 0.67 0.596967
Target:  5'- -gGCCucGCCCUCGCGGCCguaGAucGCCGc -3'
miRNA:   3'- uaCGG--CGGGAGCGCUGGg--CUccUGGC- -5'
16215 3' -63.8 NC_004065.1 + 64155 0.69 0.487041
Target:  5'- -gGCCucGCCUUCGgGACCgUGAGaGACCGu -3'
miRNA:   3'- uaCGG--CGGGAGCgCUGG-GCUC-CUGGC- -5'
16215 3' -63.8 NC_004065.1 + 66402 0.7 0.444038
Target:  5'- -cGCCGCCgCUCGauccggagcuACCCGAGGuCCGc -3'
miRNA:   3'- uaCGGCGG-GAGCgc--------UGGGCUCCuGGC- -5'
16215 3' -63.8 NC_004065.1 + 68395 0.67 0.603561
Target:  5'- -cGCCGCgUUCGUGGcgcagcaccccaucCCCGGGGAgCGc -3'
miRNA:   3'- uaCGGCGgGAGCGCU--------------GGGCUCCUgGC- -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.