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
16355 5' -56.9 NC_004084.1 + 37588 0.66 0.702232
Target:  5'- gCCGAGGcACucUCGGGGAgc-GCUCUCa -3'
miRNA:   3'- -GGCUUC-UGc-AGCCCCUaguCGAGGGc -5'
16355 5' -56.9 NC_004084.1 + 22584 0.66 0.681228
Target:  5'- gCCGAucGGCGUCuGGGGGggccuUCGuGCUcggCCCGg -3'
miRNA:   3'- -GGCUu-CUGCAG-CCCCU-----AGU-CGA---GGGC- -5'
16355 5' -56.9 NC_004084.1 + 21748 0.66 0.660047
Target:  5'- aCGAacccuGGACGguuccaCGGGGAUCGGCggcaUCGa -3'
miRNA:   3'- gGCU-----UCUGCa-----GCCCCUAGUCGag--GGC- -5'
16355 5' -56.9 NC_004084.1 + 44695 0.67 0.63877
Target:  5'- gUCGAuaccuucaacGGA-GUCGGGGAUCucuGGCaUCCCu -3'
miRNA:   3'- -GGCU----------UCUgCAGCCCCUAG---UCG-AGGGc -5'
16355 5' -56.9 NC_004084.1 + 35787 0.67 0.628118
Target:  5'- gCCGGAGGCGcCGGGaaggacgcgcucGGUCAugaGCUCaCCa -3'
miRNA:   3'- -GGCUUCUGCaGCCC------------CUAGU---CGAG-GGc -5'
16355 5' -56.9 NC_004084.1 + 54228 0.67 0.606833
Target:  5'- gUCGGAucucGACGUCGGaGcGAUCAGCg-CCGu -3'
miRNA:   3'- -GGCUU----CUGCAGCC-C-CUAGUCGagGGC- -5'
16355 5' -56.9 NC_004084.1 + 49483 0.68 0.585629
Target:  5'- cUCGGAGuCGUCGGcgucauccGGAucgucuUCGGCUUCCGc -3'
miRNA:   3'- -GGCUUCuGCAGCC--------CCU------AGUCGAGGGC- -5'
16355 5' -56.9 NC_004084.1 + 27647 0.68 0.585629
Target:  5'- aUCGAGGGgaugcCGcCGGGGAUCcGGUUCCuCGu -3'
miRNA:   3'- -GGCUUCU-----GCaGCCCCUAG-UCGAGG-GC- -5'
16355 5' -56.9 NC_004084.1 + 48927 0.68 0.575078
Target:  5'- uCCGGucGGCGcCGGGcuUCAGCUCCa- -3'
miRNA:   3'- -GGCUu-CUGCaGCCCcuAGUCGAGGgc -5'
16355 5' -56.9 NC_004084.1 + 8695 0.68 0.574025
Target:  5'- aCCGAGGAC-UCGGGGAguUCuGCaagaaccUCCuCGg -3'
miRNA:   3'- -GGCUUCUGcAGCCCCU--AGuCG-------AGG-GC- -5'
16355 5' -56.9 NC_004084.1 + 33255 0.68 0.554115
Target:  5'- aUGAGGACGUCGaGGAcgucgUCAGCUCg-- -3'
miRNA:   3'- gGCUUCUGCAGCcCCU-----AGUCGAGggc -5'
16355 5' -56.9 NC_004084.1 + 18112 0.68 0.554115
Target:  5'- -gGucGAgGUCGGGGAUgucCGGCUcggCCCGg -3'
miRNA:   3'- ggCuuCUgCAGCCCCUA---GUCGA---GGGC- -5'
16355 5' -56.9 NC_004084.1 + 35933 0.68 0.543717
Target:  5'- aCGAGcauguccccGGCGUCGccGGGGUCGGCggccgugaccagUCCCGa -3'
miRNA:   3'- gGCUU---------CUGCAGC--CCCUAGUCG------------AGGGC- -5'
16355 5' -56.9 NC_004084.1 + 22483 0.69 0.482894
Target:  5'- cCCGgcGACGcCGGGGA-CAuGCUCgUGa -3'
miRNA:   3'- -GGCuuCUGCaGCCCCUaGU-CGAGgGC- -5'
16355 5' -56.9 NC_004084.1 + 7156 0.7 0.463344
Target:  5'- gCCGggGugGuUCGGGGucggucgCAGCgaUCCGg -3'
miRNA:   3'- -GGCuuCugC-AGCCCCua-----GUCGa-GGGC- -5'
16355 5' -56.9 NC_004084.1 + 1303 0.7 0.432025
Target:  5'- aCCGAGGACGUCcucgacuggaucgaGGcGGUCuGCgUCCCGa -3'
miRNA:   3'- -GGCUUCUGCAG--------------CCcCUAGuCG-AGGGC- -5'
16355 5' -56.9 NC_004084.1 + 18654 0.71 0.425542
Target:  5'- gCCGucuucGGCGUC-GGGAUCAGcCUCCuCGg -3'
miRNA:   3'- -GGCuu---CUGCAGcCCCUAGUC-GAGG-GC- -5'
16355 5' -56.9 NC_004084.1 + 6888 0.75 0.220638
Target:  5'- gCCGAGGuACGUC-GGGAUCgcgaccgucucgacgAGCUCCCa -3'
miRNA:   3'- -GGCUUC-UGCAGcCCCUAG---------------UCGAGGGc -5'
16355 5' -56.9 NC_004084.1 + 39229 0.76 0.202208
Target:  5'- aCUGAGuaaucGGCGUCgauGGGGAUCAGCgUCCCa -3'
miRNA:   3'- -GGCUU-----CUGCAG---CCCCUAGUCG-AGGGc -5'
16355 5' -56.9 NC_004084.1 + 6787 1.1 0.000895
Target:  5'- gCCGAAGACGUCGGGGAUCAGCUCCCGc -3'
miRNA:   3'- -GGCUUCUGCAGCCCCUAGUCGAGGGC- -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.