miRNA display CGI


Results 1 - 17 of 17 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
19567 5' -53.8 NC_004686.1 + 36865 0.65 0.835824
Target:  5'- aCUCgCugaguUCGgCGAGGGCUGCUCAuaaggugauggcgUCGGa -3'
miRNA:   3'- -GAG-Gu----GGUgGCUCUUGACGAGU-------------AGCC- -5'
19567 5' -53.8 NC_004686.1 + 49306 0.66 0.827744
Target:  5'- uUCCugCGCCcGGAGa-GCUCAacuUCGGc -3'
miRNA:   3'- gAGGugGUGGcUCUUgaCGAGU---AGCC- -5'
19567 5' -53.8 NC_004686.1 + 22204 0.66 0.81857
Target:  5'- ---uGCCGCCGAGGccgcgcgcgccACUGCUCGaCGa -3'
miRNA:   3'- gaggUGGUGGCUCU-----------UGACGAGUaGCc -5'
19567 5' -53.8 NC_004686.1 + 5259 0.66 0.81857
Target:  5'- -cCCGCuCACCGGu-GCgGCUCuGUCGGg -3'
miRNA:   3'- gaGGUG-GUGGCUcuUGaCGAG-UAGCC- -5'
19567 5' -53.8 NC_004686.1 + 23585 0.66 0.8092
Target:  5'- gUCCACCACCu-GGGCUGgugUCAcCGGu -3'
miRNA:   3'- gAGGUGGUGGcuCUUGACg--AGUaGCC- -5'
19567 5' -53.8 NC_004686.1 + 47995 0.66 0.799643
Target:  5'- uUCCACuUGCCGGucACUGUUCGUCu- -3'
miRNA:   3'- gAGGUG-GUGGCUcuUGACGAGUAGcc -5'
19567 5' -53.8 NC_004686.1 + 40171 0.66 0.798678
Target:  5'- ---gGCCGCCGAagaugccGAACUGUUCGUUGu -3'
miRNA:   3'- gaggUGGUGGCU-------CUUGACGAGUAGCc -5'
19567 5' -53.8 NC_004686.1 + 35188 0.67 0.780015
Target:  5'- aUCCACCGCUu-GAACgGCUuCAcccUCGGa -3'
miRNA:   3'- gAGGUGGUGGcuCUUGaCGA-GU---AGCC- -5'
19567 5' -53.8 NC_004686.1 + 14256 0.67 0.780015
Target:  5'- cCUCCAgCugauCCGGGAACacaacccGCUCAUCa- -3'
miRNA:   3'- -GAGGUgGu---GGCUCUUGa------CGAGUAGcc -5'
19567 5' -53.8 NC_004686.1 + 27071 0.67 0.779017
Target:  5'- uCUUCACCGuuGAGGGCcacaugucgaacaUGUUCuUCGGu -3'
miRNA:   3'- -GAGGUGGUggCUCUUG-------------ACGAGuAGCC- -5'
19567 5' -53.8 NC_004686.1 + 3428 0.67 0.74945
Target:  5'- uUCCACuCAUCGGGGAU--CUCGUCGa -3'
miRNA:   3'- gAGGUG-GUGGCUCUUGacGAGUAGCc -5'
19567 5' -53.8 NC_004686.1 + 26994 0.67 0.74945
Target:  5'- cCUCCGCCgucaacGCCGAGGugaacaggucACUG-UCGUCGa -3'
miRNA:   3'- -GAGGUGG------UGGCUCU----------UGACgAGUAGCc -5'
19567 5' -53.8 NC_004686.1 + 49025 0.68 0.727396
Target:  5'- --gCACCACUGAGGggccgugGCUGUUCAUuccCGGc -3'
miRNA:   3'- gagGUGGUGGCUCU-------UGACGAGUA---GCC- -5'
19567 5' -53.8 NC_004686.1 + 49730 0.69 0.641532
Target:  5'- -cUCACCGCUGAGAGCcgGC-CAcgCGGg -3'
miRNA:   3'- gaGGUGGUGGCUCUUGa-CGaGUa-GCC- -5'
19567 5' -53.8 NC_004686.1 + 19860 0.69 0.630516
Target:  5'- cCUCCACCACCGcAGAAg-GUUCGgacUCGu -3'
miRNA:   3'- -GAGGUGGUGGC-UCUUgaCGAGU---AGCc -5'
19567 5' -53.8 NC_004686.1 + 1152 0.71 0.542143
Target:  5'- -gCCACCACCGGGuGCUGggCAcgcaucuUCGGc -3'
miRNA:   3'- gaGGUGGUGGCUCuUGACgaGU-------AGCC- -5'
19567 5' -53.8 NC_004686.1 + 8840 1.1 0.00137
Target:  5'- uCUCCACCACCGAGAACUGCUCAUCGGu -3'
miRNA:   3'- -GAGGUGGUGGCUCUUGACGAGUAGCC- -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.