miRNA display CGI


Results 1 - 20 of 22 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
19707 5' -52.8 NC_004686.1 + 18845 0.66 0.873629
Target:  5'- cGCggCGAguucCUCCGCaGUCGCCGU-GUCc -3'
miRNA:   3'- -CGaaGUU----GAGGUGgCAGUGGCAgCAG- -5'
19707 5' -52.8 NC_004686.1 + 22752 0.66 0.873629
Target:  5'- cGCcgCGGCUaUCGCgGUCACCgGUgGUCa -3'
miRNA:   3'- -CGaaGUUGA-GGUGgCAGUGG-CAgCAG- -5'
19707 5' -52.8 NC_004686.1 + 34991 0.66 0.873629
Target:  5'- aGC-UCGACUCUGacgaaaggguguCgGUCGCCGUCGa- -3'
miRNA:   3'- -CGaAGUUGAGGU------------GgCAGUGGCAGCag -5'
19707 5' -52.8 NC_004686.1 + 44337 0.66 0.865619
Target:  5'- uGCUgCAugUCCcCCauGUCACCGgCGUUc -3'
miRNA:   3'- -CGAaGUugAGGuGG--CAGUGGCaGCAG- -5'
19707 5' -52.8 NC_004686.1 + 35762 0.66 0.862345
Target:  5'- gGCgggCAuUUUCGCCGUCGCCGgccacgacguuucCGUCa -3'
miRNA:   3'- -CGaa-GUuGAGGUGGCAGUGGCa------------GCAG- -5'
19707 5' -52.8 NC_004686.1 + 38462 0.66 0.857361
Target:  5'- gGCgUgAACUCCugCGcCACCG-CGaUCa -3'
miRNA:   3'- -CGaAgUUGAGGugGCaGUGGCaGC-AG- -5'
19707 5' -52.8 NC_004686.1 + 28608 0.66 0.848865
Target:  5'- aCUUCGGCga-ACaUGUCAUCGUCGUUg -3'
miRNA:   3'- cGAAGUUGaggUG-GCAGUGGCAGCAG- -5'
19707 5' -52.8 NC_004686.1 + 899 0.66 0.840137
Target:  5'- cGCU--AACUCCAUgG-CGUCGUCGUCa -3'
miRNA:   3'- -CGAagUUGAGGUGgCaGUGGCAGCAG- -5'
19707 5' -52.8 NC_004686.1 + 194 0.67 0.81266
Target:  5'- gGUgggCGACggugCCGuuGUCGCUGUgGUCg -3'
miRNA:   3'- -CGaa-GUUGa---GGUggCAGUGGCAgCAG- -5'
19707 5' -52.8 NC_004686.1 + 23526 0.67 0.803101
Target:  5'- --cUCGACUCCgacACCuggaaaGUCGCCcUCGUCa -3'
miRNA:   3'- cgaAGUUGAGG---UGG------CAGUGGcAGCAG- -5'
19707 5' -52.8 NC_004686.1 + 31676 0.69 0.721036
Target:  5'- -aUUCGACcgcagCACCGUCGCCGcCGUa -3'
miRNA:   3'- cgAAGUUGag---GUGGCAGUGGCaGCAg -5'
19707 5' -52.8 NC_004686.1 + 43150 0.69 0.721036
Target:  5'- -gUUCuGCUCCGCUGUaCGCCcauUCGUCu -3'
miRNA:   3'- cgAAGuUGAGGUGGCA-GUGGc--AGCAG- -5'
19707 5' -52.8 NC_004686.1 + 34004 0.69 0.68846
Target:  5'- gGCU---GCUgCCGCCGUUGCCGcCGUUg -3'
miRNA:   3'- -CGAaguUGA-GGUGGCAGUGGCaGCAG- -5'
19707 5' -52.8 NC_004686.1 + 50078 0.71 0.599965
Target:  5'- aGCUUCGcCUCCGCCa--ACUgGUCGUCa -3'
miRNA:   3'- -CGAAGUuGAGGUGGcagUGG-CAGCAG- -5'
19707 5' -52.8 NC_004686.1 + 53496 0.71 0.599965
Target:  5'- ---aCAACUCCAcccCCGUCACCG-CGg- -3'
miRNA:   3'- cgaaGUUGAGGU---GGCAGUGGCaGCag -5'
19707 5' -52.8 NC_004686.1 + 24684 0.72 0.513142
Target:  5'- gGCaggCAACUgCCGCUGaUCcCCGUCGUCa -3'
miRNA:   3'- -CGaa-GUUGA-GGUGGC-AGuGGCAGCAG- -5'
19707 5' -52.8 NC_004686.1 + 43830 0.72 0.502618
Target:  5'- uGCUUgCuGCUCCAuCUGcUCACCgGUCGUCg -3'
miRNA:   3'- -CGAA-GuUGAGGU-GGC-AGUGG-CAGCAG- -5'
19707 5' -52.8 NC_004686.1 + 34171 0.73 0.481862
Target:  5'- --gUCGACgcgCCGCCGUCGgCGcCGUCc -3'
miRNA:   3'- cgaAGUUGa--GGUGGCAGUgGCaGCAG- -5'
19707 5' -52.8 NC_004686.1 + 16414 0.78 0.233587
Target:  5'- cGgUUCGACUgcaccCCACCGUCGCCGcggCGUCc -3'
miRNA:   3'- -CgAAGUUGA-----GGUGGCAGUGGCa--GCAG- -5'
19707 5' -52.8 NC_004686.1 + 29276 0.78 0.233587
Target:  5'- cGCUUCAcCUCCGCCGUCaacGCCGagGUg -3'
miRNA:   3'- -CGAAGUuGAGGUGGCAG---UGGCagCAg -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.