miRNA display CGI


Results 1 - 20 of 22 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
24593 3' -55.9 NC_005264.1 + 139422 0.66 0.920826
Target:  5'- -cGGGCACCGcuggcGUACGCGugcucGGcCGUCAc -3'
miRNA:   3'- guCCUGUGGC-----UAUGCGC-----CCaGCAGUc -5'
24593 3' -55.9 NC_005264.1 + 97686 0.66 0.920826
Target:  5'- gAGGGCGCCGc--CGCGGuGUUGgUCAu -3'
miRNA:   3'- gUCCUGUGGCuauGCGCC-CAGC-AGUc -5'
24593 3' -55.9 NC_005264.1 + 35502 0.66 0.915198
Target:  5'- aCGGcGACGCCGcgGCGCaGGUgccccCGUCGc -3'
miRNA:   3'- -GUC-CUGUGGCuaUGCGcCCA-----GCAGUc -5'
24593 3' -55.9 NC_005264.1 + 154529 0.66 0.915198
Target:  5'- aCGGcGACGCCGcgGCGCaGGUgccccCGUCGc -3'
miRNA:   3'- -GUC-CUGUGGCuaUGCGcCCA-----GCAGUc -5'
24593 3' -55.9 NC_005264.1 + 101331 0.67 0.911711
Target:  5'- -uGGAUauacgcgcggcgcuaGCCGAgacCGCGGGgcgCGUCGGc -3'
miRNA:   3'- guCCUG---------------UGGCUau-GCGCCCa--GCAGUC- -5'
24593 3' -55.9 NC_005264.1 + 99523 0.67 0.90934
Target:  5'- gCGGGGCugACCGGUAgGCGGGa-GUCc- -3'
miRNA:   3'- -GUCCUG--UGGCUAUgCGCCCagCAGuc -5'
24593 3' -55.9 NC_005264.1 + 5072 0.67 0.903252
Target:  5'- --aGACGCCGAUggaACGUGGGUUGgcgaGGa -3'
miRNA:   3'- gucCUGUGGCUA---UGCGCCCAGCag--UC- -5'
24593 3' -55.9 NC_005264.1 + 62218 0.67 0.896936
Target:  5'- gAGGGCGcgcuCCGcgGcCGCuucgGGGUCGUCGGu -3'
miRNA:   3'- gUCCUGU----GGCuaU-GCG----CCCAGCAGUC- -5'
24593 3' -55.9 NC_005264.1 + 96297 0.67 0.890396
Target:  5'- -uGGAaauCGCCGAcgcccgcaACGCGGucGUCGUCAGg -3'
miRNA:   3'- guCCU---GUGGCUa-------UGCGCC--CAGCAGUC- -5'
24593 3' -55.9 NC_005264.1 + 18528 0.67 0.886366
Target:  5'- gGGGGCGCCGucucccccugaggGCGCGccGG-CGUCAGu -3'
miRNA:   3'- gUCCUGUGGCua-----------UGCGC--CCaGCAGUC- -5'
24593 3' -55.9 NC_005264.1 + 120644 0.67 0.876657
Target:  5'- aCGGGACGCCGGUggGCGCGGcUCc---- -3'
miRNA:   3'- -GUCCUGUGGCUA--UGCGCCcAGcaguc -5'
24593 3' -55.9 NC_005264.1 + 1617 0.67 0.876657
Target:  5'- aCGGGACGCCGGUggGCGCGGcUCc---- -3'
miRNA:   3'- -GUCCUGUGGCUA--UGCGCCcAGcaguc -5'
24593 3' -55.9 NC_005264.1 + 116372 0.68 0.838688
Target:  5'- gUAGGGCcuGCCGu--CGCGGGagaccucuUCGUCGGc -3'
miRNA:   3'- -GUCCUG--UGGCuauGCGCCC--------AGCAGUC- -5'
24593 3' -55.9 NC_005264.1 + 64852 0.69 0.83052
Target:  5'- -uGGAUccCCGGUGCGCGGG-CG-CAGu -3'
miRNA:   3'- guCCUGu-GGCUAUGCGCCCaGCaGUC- -5'
24593 3' -55.9 NC_005264.1 + 3386 0.69 0.822176
Target:  5'- gAGGGCuucuCCGGaACGCgGGGUCGgugcgCGGg -3'
miRNA:   3'- gUCCUGu---GGCUaUGCG-CCCAGCa----GUC- -5'
24593 3' -55.9 NC_005264.1 + 122413 0.69 0.822176
Target:  5'- gAGGGCuucuCCGGaACGCgGGGUCGgugcgCGGg -3'
miRNA:   3'- gUCCUGu---GGCUaUGCG-CCCAGCa----GUC- -5'
24593 3' -55.9 NC_005264.1 + 118717 0.7 0.766069
Target:  5'- aAGGGCugcgagacgugacgACCGAUACGUGGGUgGcCAu -3'
miRNA:   3'- gUCCUG--------------UGGCUAUGCGCCCAgCaGUc -5'
24593 3' -55.9 NC_005264.1 + 57833 0.7 0.750051
Target:  5'- cCAGaGAUgGCCGGUGCGCugcaaacGGUCGUCAGc -3'
miRNA:   3'- -GUC-CUG-UGGCUAUGCGc------CCAGCAGUC- -5'
24593 3' -55.9 NC_005264.1 + 67997 0.71 0.701414
Target:  5'- aAGG-CACCGGcucguUGCGgGGGUCGggCAGa -3'
miRNA:   3'- gUCCuGUGGCU-----AUGCgCCCAGCa-GUC- -5'
24593 3' -55.9 NC_005264.1 + 149937 0.71 0.685498
Target:  5'- gAGGACugCGAggccggGCGgcucgacgguccgucCGGGUCGUCAu -3'
miRNA:   3'- gUCCUGugGCUa-----UGC---------------GCCCAGCAGUc -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.