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
31642 3' -56.2 NC_006879.1 + 11388 0.66 0.519844
Target:  5'- cGGUGGCccc-GUCCGCCggCCGCUGCa -3'
miRNA:   3'- -CCAUCGacuuCGGGUGGa-GGUGGUGc -5'
31642 3' -56.2 NC_006879.1 + 20446 0.67 0.487771
Target:  5'- cGGgggGGUccacuGGCUCGCCUUCGCCugGa -3'
miRNA:   3'- -CCa--UCGacu--UCGGGUGGAGGUGGugC- -5'
31642 3' -56.2 NC_006879.1 + 19456 0.67 0.466915
Target:  5'- aGG-GGCUGGAGuuucaCCCGCCUCaaaACCAa- -3'
miRNA:   3'- -CCaUCGACUUC-----GGGUGGAGg--UGGUgc -5'
31642 3' -56.2 NC_006879.1 + 22258 0.67 0.446529
Target:  5'- aGGgAGCUGAGGC--GCCUCCugCucGCGc -3'
miRNA:   3'- -CCaUCGACUUCGggUGGAGGugG--UGC- -5'
31642 3' -56.2 NC_006879.1 + 26068 0.69 0.379338
Target:  5'- aGUAGCUGAAGacgaUCGCCUCCcgaGCGu -3'
miRNA:   3'- cCAUCGACUUCg---GGUGGAGGuggUGC- -5'
31642 3' -56.2 NC_006879.1 + 12041 0.69 0.350961
Target:  5'- uGGUGGCUcGAucGCCCACCggggccuuaacgCC-CCACa -3'
miRNA:   3'- -CCAUCGA-CUu-CGGGUGGa-----------GGuGGUGc -5'
31642 3' -56.2 NC_006879.1 + 7781 0.7 0.311291
Target:  5'- gGGU-GCcGcAAGUCCAgaUCUCCGCCACGg -3'
miRNA:   3'- -CCAuCGaC-UUCGGGU--GGAGGUGGUGC- -5'
31642 3' -56.2 NC_006879.1 + 14849 0.73 0.209521
Target:  5'- cGGUcGCU--AGCgCCGCCUCCACCGUGg -3'
miRNA:   3'- -CCAuCGAcuUCG-GGUGGAGGUGGUGC- -5'
31642 3' -56.2 NC_006879.1 + 14894 0.73 0.209521
Target:  5'- uGGUAGCUGgcGCUCggGCCUaugcUCGCCGCa -3'
miRNA:   3'- -CCAUCGACuuCGGG--UGGA----GGUGGUGc -5'
31642 3' -56.2 NC_006879.1 + 5943 0.73 0.203872
Target:  5'- aGGUccacGCUGguGgCCACCUCC-CCGCGg -3'
miRNA:   3'- -CCAu---CGACuuCgGGUGGAGGuGGUGC- -5'
31642 3' -56.2 NC_006879.1 + 24901 0.74 0.172691
Target:  5'- --aAGCUaAGGCCU-CCUCCGCCGCGa -3'
miRNA:   3'- ccaUCGAcUUCGGGuGGAGGUGGUGC- -5'
31642 3' -56.2 NC_006879.1 + 10922 0.81 0.057213
Target:  5'- --aAGCUGAGGCCCcucuCCUgCACCACGa -3'
miRNA:   3'- ccaUCGACUUCGGGu---GGAgGUGGUGC- -5'
31642 3' -56.2 NC_006879.1 + 22151 1.11 0.000288
Target:  5'- gGGUAGCUGAAGCCCACCUCCACCACGg -3'
miRNA:   3'- -CCAUCGACUUCGGGUGGAGGUGGUGC- -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.