miRNA display CGI


Results 1 - 13 of 13 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
30555 5' -61.6 NC_006548.1 + 35213 0.66 0.315087
Target:  5'- uGGGCCgCUGGAcGUCa-UGUUCgGCGCCc -3'
miRNA:   3'- -CUCGG-GACCUuCGGgcACGAG-CGCGG- -5'
30555 5' -61.6 NC_006548.1 + 18171 0.66 0.315087
Target:  5'- -cGCCCaauggcugGGGAuGCCaGUGCUCagucaGCGCCu -3'
miRNA:   3'- cuCGGGa-------CCUU-CGGgCACGAG-----CGCGG- -5'
30555 5' -61.6 NC_006548.1 + 9087 0.66 0.315087
Target:  5'- -cGCCggaaCUGGAAGaCCUggGUGC-CGCGCUc -3'
miRNA:   3'- cuCGG----GACCUUC-GGG--CACGaGCGCGG- -5'
30555 5' -61.6 NC_006548.1 + 32782 0.66 0.307482
Target:  5'- aGGUCgaGG-AGCaCGcGCUCGCGCCc -3'
miRNA:   3'- cUCGGgaCCuUCGgGCaCGAGCGCGG- -5'
30555 5' -61.6 NC_006548.1 + 15760 0.66 0.298542
Target:  5'- uGGCCCUGGuuccAGCgCUGUGagcgcaucugcaUCGaCGCCa -3'
miRNA:   3'- cUCGGGACCu---UCG-GGCACg-----------AGC-GCGG- -5'
30555 5' -61.6 NC_006548.1 + 33944 0.67 0.25168
Target:  5'- cGAGCgaCCUGGAGGUugcgcagcuguaCCGUggcGCUCG-GCCg -3'
miRNA:   3'- -CUCG--GGACCUUCG------------GGCA---CGAGCgCGG- -5'
30555 5' -61.6 NC_006548.1 + 4953 0.68 0.232408
Target:  5'- -cGCCaCUGGAgcggccgaaaucgAGCCCGgagGCacgcuUCGCGCa -3'
miRNA:   3'- cuCGG-GACCU-------------UCGGGCa--CG-----AGCGCGg -5'
30555 5' -61.6 NC_006548.1 + 2230 0.68 0.22705
Target:  5'- cAGCaCCUGGuaggcguAGCCgGUcaGCUCcgGCGCCg -3'
miRNA:   3'- cUCG-GGACCu------UCGGgCA--CGAG--CGCGG- -5'
30555 5' -61.6 NC_006548.1 + 37227 0.68 0.22122
Target:  5'- -cGCCCaggUGGAAGCCCaG-GC-CGUGUCg -3'
miRNA:   3'- cuCGGG---ACCUUCGGG-CaCGaGCGCGG- -5'
30555 5' -61.6 NC_006548.1 + 16989 0.68 0.204492
Target:  5'- gGAGCUgCUGGAAGCCgGgcGCUCcgggacCGCCg -3'
miRNA:   3'- -CUCGG-GACCUUCGGgCa-CGAGc-----GCGG- -5'
30555 5' -61.6 NC_006548.1 + 33122 0.68 0.203953
Target:  5'- -uGCCCUcgacaacauaccgGGGcuGGCCgGUGCUCGgGCa -3'
miRNA:   3'- cuCGGGA-------------CCU--UCGGgCACGAGCgCGg -5'
30555 5' -61.6 NC_006548.1 + 7411 0.7 0.152256
Target:  5'- -cGCCCUGGAuGCCCa-GUUCGCGg- -3'
miRNA:   3'- cuCGGGACCUuCGGGcaCGAGCGCgg -5'
30555 5' -61.6 NC_006548.1 + 28762 1.11 9.8e-05
Target:  5'- gGAGCCCUGGAAGCCCGUGCUCGCGCCg -3'
miRNA:   3'- -CUCGGGACCUUCGGGCACGAGCGCGG- -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.