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
21258 5' -62.7 NC_004778.3 + 122895 0.66 0.585938
Target:  5'- uGGaaaGCGGGGUCGGC-GCcaccaacaCGUGACu -3'
miRNA:   3'- uCCg--CGCCCUAGCCGgCGac------GCACUG- -5'
21258 5' -62.7 NC_004778.3 + 25656 0.66 0.566298
Target:  5'- -uGCGCGGGGgcCGGCgGC-GUGUGGg -3'
miRNA:   3'- ucCGCGCCCUa-GCCGgCGaCGCACUg -5'
21258 5' -62.7 NC_004778.3 + 38317 0.66 0.546832
Target:  5'- uAGGCGCGGGuagcguggagguGUCGaGCgGCgcaGCG-GGCc -3'
miRNA:   3'- -UCCGCGCCC------------UAGC-CGgCGa--CGCaCUG- -5'
21258 5' -62.7 NC_004778.3 + 68595 0.66 0.537178
Target:  5'- cGGCgGCGGcGG-CGGCgGCgGCgGUGGCg -3'
miRNA:   3'- uCCG-CGCC-CUaGCCGgCGaCG-CACUG- -5'
21258 5' -62.7 NC_004778.3 + 98948 0.66 0.527583
Target:  5'- --aCGCGGGGUCGGaCCGCguguugucGCGUcGCu -3'
miRNA:   3'- uccGCGCCCUAGCC-GGCGa-------CGCAcUG- -5'
21258 5' -62.7 NC_004778.3 + 108550 0.67 0.521857
Target:  5'- cGGCaaaaGCGuGGUCGGCgGCguuuugugcaaacgaUGCGUGGCg -3'
miRNA:   3'- uCCG----CGCcCUAGCCGgCG---------------ACGCACUG- -5'
21258 5' -62.7 NC_004778.3 + 121600 0.67 0.518053
Target:  5'- aAGGCGCGGGuUCuGCUGCaGCGc-GCg -3'
miRNA:   3'- -UCCGCGCCCuAGcCGGCGaCGCacUG- -5'
21258 5' -62.7 NC_004778.3 + 1569 0.67 0.480669
Target:  5'- cGGCGUGuuuGAUCGGCgCGCUGC-UGcACu -3'
miRNA:   3'- uCCGCGCc--CUAGCCG-GCGACGcAC-UG- -5'
21258 5' -62.7 NC_004778.3 + 71473 0.68 0.453513
Target:  5'- uAGGCGaGGGuGUCGGCgGggGCGUuGGCg -3'
miRNA:   3'- -UCCGCgCCC-UAGCCGgCgaCGCA-CUG- -5'
21258 5' -62.7 NC_004778.3 + 71425 0.68 0.453513
Target:  5'- uAGGCGaGGGuGUCGGCgGggGCGUaGGCg -3'
miRNA:   3'- -UCCGCgCCC-UAGCCGgCgaCGCA-CUG- -5'
21258 5' -62.7 NC_004778.3 + 71377 0.68 0.453513
Target:  5'- uAGGCGaGGGuGUCGGCgGggGCGUaGGCg -3'
miRNA:   3'- -UCCGCgCCC-UAGCCGgCgaCGCA-CUG- -5'
21258 5' -62.7 NC_004778.3 + 119121 0.68 0.43588
Target:  5'- cGGGCGCGGGAaCGGCgcccaauaagaCGCUGU-UGGu -3'
miRNA:   3'- -UCCGCGCCCUaGCCG-----------GCGACGcACUg -5'
21258 5' -62.7 NC_004778.3 + 63489 0.7 0.354062
Target:  5'- cGGCGCGGGcggauUCGGgcucaUGCUGCGgcGGCg -3'
miRNA:   3'- uCCGCGCCCu----AGCCg----GCGACGCa-CUG- -5'
21258 5' -62.7 NC_004778.3 + 71329 0.7 0.317416
Target:  5'- uAGGCGaGGGuGUCGGCgGgaGCGUaGGCg -3'
miRNA:   3'- -UCCGCgCCC-UAGCCGgCgaCGCA-CUG- -5'
21258 5' -62.7 NC_004778.3 + 2549 0.71 0.296835
Target:  5'- cGGGCGCGGGcacGUCGGCCaCcGCGcgGAa -3'
miRNA:   3'- -UCCGCGCCC---UAGCCGGcGaCGCa-CUg -5'
21258 5' -62.7 NC_004778.3 + 120965 0.72 0.271028
Target:  5'- gGGGCGCGGGccgCGcCCGCUGCcccGGCg -3'
miRNA:   3'- -UCCGCGCCCua-GCcGGCGACGca-CUG- -5'
21258 5' -62.7 NC_004778.3 + 105611 1.08 0.000708
Target:  5'- gAGGCGCGGGAUCGGCCGCUGCGUGACc -3'
miRNA:   3'- -UCCGCGCCCUAGCCGGCGACGCACUG- -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.