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 + 67951 0.82 0.101963
Target:  5'- uGCGGUGCGGguugugcuguAGCGCGCGcAGCGGcgugGCCa -3'
miRNA:   3'- -CGUCACGCU----------UCGUGCGC-UCGUCa---CGG- -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 + 3978 0.77 0.212203
Target:  5'- aGCGGUcccGCG-AGCACGCGAugGCGG-GCCg -3'
miRNA:   3'- -CGUCA---CGCuUCGUGCGCU--CGUCaCGG- -5'
23516 5' -55.6 NC_005259.1 + 37976 0.73 0.366465
Target:  5'- gGCAGUGCGucGUACuGCGccuGC-GUGCCc -3'
miRNA:   3'- -CGUCACGCuuCGUG-CGCu--CGuCACGG- -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 + 51277 0.71 0.438946
Target:  5'- aCGGUGCGcGGCAaGCG-GCAGcGCCc -3'
miRNA:   3'- cGUCACGCuUCGUgCGCuCGUCaCGG- -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 + 43955 0.71 0.448571
Target:  5'- gGCGauggGCGggGC-CGCcgccugaccgaGGGCGGUGCCg -3'
miRNA:   3'- -CGUca--CGCuuCGuGCG-----------CUCGUCACGG- -5'
23516 5' -55.6 NC_005259.1 + 53414 0.71 0.448571
Target:  5'- gGCGGUucuGCGuAGCGCGacuuacgcagacUGAGCAgGUGCCa -3'
miRNA:   3'- -CGUCA---CGCuUCGUGC------------GCUCGU-CACGG- -5'
23516 5' -55.6 NC_005259.1 + 46068 0.71 0.467174
Target:  5'- -gAGcUGCucAAGCACcgccgggGCGAGCGGUGCCu -3'
miRNA:   3'- cgUC-ACGc-UUCGUG-------CGCUCGUCACGG- -5'
23516 5' -55.6 NC_005259.1 + 35672 0.71 0.468164
Target:  5'- cGCGGUGgUGguGCACaGCGAcGCcGUGCCc -3'
miRNA:   3'- -CGUCAC-GCuuCGUG-CGCU-CGuCACGG- -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 + 52646 0.7 0.498349
Target:  5'- uGUGGgGCGAGGUgaGCGaCGAGCAuUGCCc -3'
miRNA:   3'- -CGUCaCGCUUCG--UGC-GCUCGUcACGG- -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 + 14513 0.7 0.508604
Target:  5'- uGCAcaccgGCG-AGCACGCGGuGCguuucGGUGCCg -3'
miRNA:   3'- -CGUca---CGCuUCGUGCGCU-CG-----UCACGG- -5'
23516 5' -55.6 NC_005259.1 + 36533 0.7 0.508604
Target:  5'- cGCGGUGUGA--CACGCGGGguGaucUGCg -3'
miRNA:   3'- -CGUCACGCUucGUGCGCUCguC---ACGg -5'
23516 5' -55.6 NC_005259.1 + 66107 0.69 0.550445
Target:  5'- cGCAcGcGCGAcuucuacGCGCGuCGAGCAG-GCCa -3'
miRNA:   3'- -CGU-CaCGCUu------CGUGC-GCUCGUCaCGG- -5'
23516 5' -55.6 NC_005259.1 + 59131 0.69 0.550445
Target:  5'- aGCAGaGCGucGAGCucgGC-AGCGGUGCCg -3'
miRNA:   3'- -CGUCaCGC--UUCGug-CGcUCGUCACGG- -5'
23516 5' -55.6 NC_005259.1 + 53605 0.69 0.561078
Target:  5'- uGCucGU-CGggGUcagcagGCGuCGAGCGGUGCCg -3'
miRNA:   3'- -CGu-CAcGCuuCG------UGC-GCUCGUCACGG- -5'
23516 5' -55.6 NC_005259.1 + 59385 0.69 0.571767
Target:  5'- cGCAccGUGCcuccGCGCGCGAGC-GUGaCCu -3'
miRNA:   3'- -CGU--CACGcuu-CGUGCGCUCGuCAC-GG- -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.