miRNA display CGI


Results 1 - 20 of 44 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
19114 3' -58.1 NC_004684.1 + 158 0.66 0.58179
Target:  5'- cGCcGGUCGAacCGgugACCGGGuuGGUc- -3'
miRNA:   3'- uUGaCCAGCU--GCa--UGGCCCggCCAug -5'
19114 3' -58.1 NC_004684.1 + 1130 0.66 0.613683
Target:  5'- --aUGGUCGACGgccacggcaUGCCGGGC--GUGCc -3'
miRNA:   3'- uugACCAGCUGC---------AUGGCCCGgcCAUG- -5'
19114 3' -58.1 NC_004684.1 + 1460 0.76 0.153496
Target:  5'- -cCUGGUCGAg--ACCGGGCCGG-ACg -3'
miRNA:   3'- uuGACCAGCUgcaUGGCCCGGCCaUG- -5'
19114 3' -58.1 NC_004684.1 + 1916 0.68 0.498977
Target:  5'- uGCcGGaccCGGCcUGCCGGGCCuGGUACc -3'
miRNA:   3'- uUGaCCa--GCUGcAUGGCCCGG-CCAUG- -5'
19114 3' -58.1 NC_004684.1 + 2806 1.07 0.00087
Target:  5'- cAACUGGUCGACGUACCGGGCCGGUACa -3'
miRNA:   3'- -UUGACCAGCUGCAUGGCCCGGCCAUG- -5'
19114 3' -58.1 NC_004684.1 + 4990 0.69 0.449942
Target:  5'- cACUccgCGACGUACCGGGCgaaGGUGg -3'
miRNA:   3'- uUGAccaGCUGCAUGGCCCGg--CCAUg -5'
19114 3' -58.1 NC_004684.1 + 6833 0.67 0.575447
Target:  5'- cAGCUGGucgaguucgagggugUCGACGgcACCGGGCgCGGc-- -3'
miRNA:   3'- -UUGACC---------------AGCUGCa-UGGCCCG-GCCaug -5'
19114 3' -58.1 NC_004684.1 + 7646 0.67 0.539848
Target:  5'- uGGCgGG-CGugGUgACCGGGUCGGcgGCc -3'
miRNA:   3'- -UUGaCCaGCugCA-UGGCCCGGCCa-UG- -5'
19114 3' -58.1 NC_004684.1 + 8516 0.72 0.270652
Target:  5'- uGCUGGgauugUGGCGUGCugugCGGGCCGG-ACg -3'
miRNA:   3'- uUGACCa----GCUGCAUG----GCCCGGCCaUG- -5'
19114 3' -58.1 NC_004684.1 + 9523 0.67 0.575447
Target:  5'- cACcGGUCcuGGCGUGCCgggacgcuggcaaucGGGCgGGUACc -3'
miRNA:   3'- uUGaCCAG--CUGCAUGG---------------CCCGgCCAUG- -5'
19114 3' -58.1 NC_004684.1 + 9540 0.68 0.469249
Target:  5'- gAGCUGGUgCGcCG-GuuGGaGCCGGUGCg -3'
miRNA:   3'- -UUGACCA-GCuGCaUggCC-CGGCCAUG- -5'
19114 3' -58.1 NC_004684.1 + 13030 0.69 0.440454
Target:  5'- ---cGGUU-ACGUcGCCGGGCCGGUcgGCu -3'
miRNA:   3'- uugaCCAGcUGCA-UGGCCCGGCCA--UG- -5'
19114 3' -58.1 NC_004684.1 + 14025 0.68 0.47906
Target:  5'- cAACUcGGUCaACGUccugcuguACCcGGCCGGUACc -3'
miRNA:   3'- -UUGA-CCAGcUGCA--------UGGcCCGGCCAUG- -5'
19114 3' -58.1 NC_004684.1 + 15302 0.7 0.386033
Target:  5'- -cCUGGUCGACGU----GGCCGGUGg -3'
miRNA:   3'- uuGACCAGCUGCAuggcCCGGCCAUg -5'
19114 3' -58.1 NC_004684.1 + 15892 0.67 0.560711
Target:  5'- ---aGG-CGGCGgugACCGGGC-GGUGCc -3'
miRNA:   3'- uugaCCaGCUGCa--UGGCCCGgCCAUG- -5'
19114 3' -58.1 NC_004684.1 + 16355 0.66 0.624355
Target:  5'- cGCUGGcCGACaaGCUGGcgGCCGaGUACa -3'
miRNA:   3'- uUGACCaGCUGcaUGGCC--CGGC-CAUG- -5'
19114 3' -58.1 NC_004684.1 + 21378 0.78 0.110969
Target:  5'- aAGCUGGaCGACGUgcgcACCGuGGCCGGUGa -3'
miRNA:   3'- -UUGACCaGCUGCA----UGGC-CCGGCCAUg -5'
19114 3' -58.1 NC_004684.1 + 22813 0.7 0.363869
Target:  5'- cGCUGGUCGACcggcaguucccggcgGUgcagGCCGGGCUGGc-- -3'
miRNA:   3'- uUGACCAGCUG---------------CA----UGGCCCGGCCaug -5'
19114 3' -58.1 NC_004684.1 + 22953 0.82 0.065512
Target:  5'- cAGCUGGUCGACuacgccACCGGGCCGG-ACg -3'
miRNA:   3'- -UUGACCAGCUGca----UGGCCCGGCCaUG- -5'
19114 3' -58.1 NC_004684.1 + 25518 0.7 0.403678
Target:  5'- cGGCUGuucUCGACcgccgacGCCGGGUCGGUGCu -3'
miRNA:   3'- -UUGACc--AGCUGca-----UGGCCCGGCCAUG- -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.