miRNA display CGI


Results 1 - 15 of 15 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
21769 3' -56.9 NC_004813.1 + 28736 0.66 0.655287
Target:  5'- -gACaUGUuaCGUGAAGCCAUCGGCgggcuuGCCu -3'
miRNA:   3'- caUG-GCAc-GCACUUCGGUGGCCG------UGG- -5'
21769 3' -56.9 NC_004813.1 + 49624 0.66 0.655287
Target:  5'- aUACCGgggGCgGUGAuggugGGCuCACCaGCGCUg -3'
miRNA:   3'- cAUGGCa--CG-CACU-----UCG-GUGGcCGUGG- -5'
21769 3' -56.9 NC_004813.1 + 41228 0.66 0.64446
Target:  5'- uGUGCCGUGaGUGGAGUguCAcggauaaugcCCGGUACa -3'
miRNA:   3'- -CAUGGCACgCACUUCG--GU----------GGCCGUGg -5'
21769 3' -56.9 NC_004813.1 + 37966 0.66 0.64446
Target:  5'- -gGCUGUGCagcucAGCCAgagcCCGGCGCUg -3'
miRNA:   3'- caUGGCACGcacu-UCGGU----GGCCGUGG- -5'
21769 3' -56.9 NC_004813.1 + 35535 0.66 0.643377
Target:  5'- --cCCGUGCGggugcgaaugugcUGAAagaagaagugguGUCACgGGCACCg -3'
miRNA:   3'- cauGGCACGC-------------ACUU------------CGGUGgCCGUGG- -5'
21769 3' -56.9 NC_004813.1 + 42340 0.66 0.633623
Target:  5'- -gGCaGUGCGcuuuuuaucUGcAGCCGCCGGUcaGCCu -3'
miRNA:   3'- caUGgCACGC---------ACuUCGGUGGCCG--UGG- -5'
21769 3' -56.9 NC_004813.1 + 31726 0.67 0.590353
Target:  5'- -cACCGgcgacgGCGUGGuacuGUCGCCGGUcgGCUc -3'
miRNA:   3'- caUGGCa-----CGCACUu---CGGUGGCCG--UGG- -5'
21769 3' -56.9 NC_004813.1 + 42649 0.68 0.547622
Target:  5'- uUGCCGcaguauaugGCGgcaUGAuuGGCCACCGauGCGCCa -3'
miRNA:   3'- cAUGGCa--------CGC---ACU--UCGGUGGC--CGUGG- -5'
21769 3' -56.9 NC_004813.1 + 34310 0.68 0.54129
Target:  5'- cUGCCGgcuccgcaggacggGCGUGAuGCCACU-GCACUg -3'
miRNA:   3'- cAUGGCa-------------CGCACUuCGGUGGcCGUGG- -5'
21769 3' -56.9 NC_004813.1 + 30615 0.7 0.430839
Target:  5'- -cGCC-UGCGUGAacuggaagccgguaaGGCCGCCacGGCGCa -3'
miRNA:   3'- caUGGcACGCACU---------------UCGGUGG--CCGUGg -5'
21769 3' -56.9 NC_004813.1 + 37954 0.7 0.399424
Target:  5'- uUGCCgGUGCcuuu-GCCACCGGaCACCu -3'
miRNA:   3'- cAUGG-CACGcacuuCGGUGGCC-GUGG- -5'
21769 3' -56.9 NC_004813.1 + 15191 0.7 0.399424
Target:  5'- -gGCCGUGgGUGGaaaaAGCCGCUGaGCAgUg -3'
miRNA:   3'- caUGGCACgCACU----UCGGUGGC-CGUgG- -5'
21769 3' -56.9 NC_004813.1 + 45098 0.71 0.372952
Target:  5'- -gACCGUGagGUGAcacuGCCggagACCGGUGCCg -3'
miRNA:   3'- caUGGCACg-CACUu---CGG----UGGCCGUGG- -5'
21769 3' -56.9 NC_004813.1 + 48521 0.76 0.175378
Target:  5'- -cACCGUG-GUGggGCCAcCCGG-ACCa -3'
miRNA:   3'- caUGGCACgCACuuCGGU-GGCCgUGG- -5'
21769 3' -56.9 NC_004813.1 + 26129 1.11 0.000548
Target:  5'- gGUACCGUGCGUGAAGCCACCGGCACCu -3'
miRNA:   3'- -CAUGGCACGCACUUCGGUGGCCGUGG- -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.