miRNA display CGI


Results 1 - 20 of 53 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
23516 5' -55.6 NC_005259.1 + 199 0.68 0.635537
Target:  5'- -uGGcGCGuGGCGCGacggcaagcaguuCGGGCAGUGCUa -3'
miRNA:   3'- cgUCaCGCuUCGUGC-------------GCUCGUCACGG- -5'
23516 5' -55.6 NC_005259.1 + 1885 0.66 0.722456
Target:  5'- aGCAGgccGCcGAGauCGCGCGAGC--UGCCg -3'
miRNA:   3'- -CGUCa--CGcUUC--GUGCGCUCGucACGG- -5'
23516 5' -55.6 NC_005259.1 + 2928 0.66 0.76362
Target:  5'- cGgAGUaGCGAaagcguccaaGGCGCGCGAGacccugGCCa -3'
miRNA:   3'- -CgUCA-CGCU----------UCGUGCGCUCguca--CGG- -5'
23516 5' -55.6 NC_005259.1 + 3978 0.77 0.212203
Target:  5'- aGCGGUcccGCG-AGCACGCGAugGCGG-GCCg -3'
miRNA:   3'- -CGUCA---CGCuUCGUGCGCU--CGUCaCGG- -5'
23516 5' -55.6 NC_005259.1 + 11128 0.66 0.772618
Target:  5'- aCGGUGCGAgccgucgccugcgGGUAacacuucggUGCG-GCAGUGCUu -3'
miRNA:   3'- cGUCACGCU-------------UCGU---------GCGCuCGUCACGG- -5'
23516 5' -55.6 NC_005259.1 + 14513 0.7 0.508604
Target:  5'- uGCAcaccgGCG-AGCACGCGGuGCguuucGGUGCCg -3'
miRNA:   3'- -CGUca---CGCuUCGUGCGCU-CG-----UCACGG- -5'
23516 5' -55.6 NC_005259.1 + 16513 0.71 0.478124
Target:  5'- -gAGaGCGAGGCGCuGCGAGCgucgcucaagGGUGCg -3'
miRNA:   3'- cgUCaCGCUUCGUG-CGCUCG----------UCACGg -5'
23516 5' -55.6 NC_005259.1 + 17273 0.66 0.745314
Target:  5'- gGCAGUGCucgaccgcuauuuGAAGCgguacuugacccuguACGcCGAGCGGUaccccgaggguguGCCg -3'
miRNA:   3'- -CGUCACG-------------CUUCG---------------UGC-GCUCGUCA-------------CGG- -5'
23516 5' -55.6 NC_005259.1 + 21176 0.67 0.701306
Target:  5'- gGCAGU-CG-GGUcaucgGCGCGAGCaccaagcugcaaGGUGCCg -3'
miRNA:   3'- -CGUCAcGCuUCG-----UGCGCUCG------------UCACGG- -5'
23516 5' -55.6 NC_005259.1 + 23290 0.67 0.690627
Target:  5'- cGCGGUGguuggguauCGggGUccgGCGCGGuCGGUGUCg -3'
miRNA:   3'- -CGUCAC---------GCuuCG---UGCGCUcGUCACGG- -5'
23516 5' -55.6 NC_005259.1 + 24233 0.78 0.176352
Target:  5'- gGCGGgGcCGAGGCACGCGAGUucggcgAGUGCg -3'
miRNA:   3'- -CGUCaC-GCUUCGUGCGCUCG------UCACGg -5'
23516 5' -55.6 NC_005259.1 + 26417 0.7 0.507575
Target:  5'- gGCGGUGCcgccguaGAAcGCAcCGcCGAGCGGgcggGCCg -3'
miRNA:   3'- -CGUCACG-------CUU-CGU-GC-GCUCGUCa---CGG- -5'
23516 5' -55.6 NC_005259.1 + 26512 0.68 0.614922
Target:  5'- cGCccgGCGAgaagAGCGCgGUGAGCAGcuugGCCa -3'
miRNA:   3'- -CGucaCGCU----UCGUG-CGCUCGUCa---CGG- -5'
23516 5' -55.6 NC_005259.1 + 26829 0.68 0.64747
Target:  5'- gGUGGUGcCGggGCggucuGCuCGGGCAGgaUGCCg -3'
miRNA:   3'- -CGUCAC-GCuuCG-----UGcGCUCGUC--ACGG- -5'
23516 5' -55.6 NC_005259.1 + 27151 0.66 0.770628
Target:  5'- uGCGGUGuUGggGCcaacgaugccgucgGCGaUGAGCAG-GCUg -3'
miRNA:   3'- -CGUCAC-GCuuCG--------------UGC-GCUCGUCaCGG- -5'
23516 5' -55.6 NC_005259.1 + 27395 0.66 0.743257
Target:  5'- gGCGGUGuCGGcAGCG-GCGgcAGCucGGUGCCc -3'
miRNA:   3'- -CGUCAC-GCU-UCGUgCGC--UCG--UCACGG- -5'
23516 5' -55.6 NC_005259.1 + 27994 0.66 0.76362
Target:  5'- gGUGGUGCGGGuGC-CG-GGGCGGggucGCCg -3'
miRNA:   3'- -CGUCACGCUU-CGuGCgCUCGUCa---CGG- -5'
23516 5' -55.6 NC_005259.1 + 28973 0.71 0.438946
Target:  5'- uCGGUGcCGAGGC-CGCGAGCGcccgcuacgGCCa -3'
miRNA:   3'- cGUCAC-GCUUCGuGCGCUCGUca-------CGG- -5'
23516 5' -55.6 NC_005259.1 + 30896 0.72 0.410798
Target:  5'- cGCAaacGCGAGGUgugccgguugaGCGUGAGCAG-GCCa -3'
miRNA:   3'- -CGUca-CGCUUCG-----------UGCGCUCGUCaCGG- -5'
23516 5' -55.6 NC_005259.1 + 31226 0.66 0.76362
Target:  5'- uCAGUcCGAugagaccauuGgGCGCG-GCGGUGCCg -3'
miRNA:   3'- cGUCAcGCUu---------CgUGCGCuCGUCACGG- -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.