miRNA display CGI


Results 1 - 20 of 50 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
17194 3' -54.1 NC_004333.2 + 45494 0.65 0.784797
Target:  5'- uGCGcCGUCGCcgccgccGAaacCGAGUGCCAGGucUGCg -3'
miRNA:   3'- -CGC-GCAGCG-------CUa--GCUCAUGGUCU--GUG- -5'
17194 3' -54.1 NC_004333.2 + 27876 0.66 0.775745
Target:  5'- -gGCuUCGUGGUCGAcUACUcggcGGACACg -3'
miRNA:   3'- cgCGcAGCGCUAGCUcAUGG----UCUGUG- -5'
17194 3' -54.1 NC_004333.2 + 13872 0.66 0.775745
Target:  5'- aGCGCGcCGCGccgcgCGAaGUcgGCCGG-CACg -3'
miRNA:   3'- -CGCGCaGCGCua---GCU-CA--UGGUCuGUG- -5'
17194 3' -54.1 NC_004333.2 + 30939 0.66 0.765543
Target:  5'- uGCGCGagaCGuCGGagGAGaaccGCCAGGCGCu -3'
miRNA:   3'- -CGCGCa--GC-GCUagCUCa---UGGUCUGUG- -5'
17194 3' -54.1 NC_004333.2 + 9228 0.66 0.765543
Target:  5'- aGCGCGcagcUGCGGUCGAG---CAGGCAa -3'
miRNA:   3'- -CGCGCa---GCGCUAGCUCaugGUCUGUg -5'
17194 3' -54.1 NC_004333.2 + 11944 0.66 0.755201
Target:  5'- cGCGCGcUCcagGCGGUCGAGcGCCuuGCAn -3'
miRNA:   3'- -CGCGC-AG---CGCUAGCUCaUGGucUGUg -5'
17194 3' -54.1 NC_004333.2 + 32956 0.66 0.755201
Target:  5'- uGCGCGUCgggcagcuuuGCGAcuUCGgcauAGUGCUGGAaCGCg -3'
miRNA:   3'- -CGCGCAG----------CGCU--AGC----UCAUGGUCU-GUG- -5'
17194 3' -54.1 NC_004333.2 + 17717 0.66 0.755201
Target:  5'- uCGCGuauuUCGCGAaCGuGUcggccacggcACCGGGCGCg -3'
miRNA:   3'- cGCGC----AGCGCUaGCuCA----------UGGUCUGUG- -5'
17194 3' -54.1 NC_004333.2 + 23890 0.66 0.744731
Target:  5'- cGCGUGagGCGAUCGAcaugACC--GCACa -3'
miRNA:   3'- -CGCGCagCGCUAGCUca--UGGucUGUG- -5'
17194 3' -54.1 NC_004333.2 + 45322 0.66 0.744731
Target:  5'- gGCGCcaCGCGcgcuUCGA-UGCCGGACAg -3'
miRNA:   3'- -CGCGcaGCGCu---AGCUcAUGGUCUGUg -5'
17194 3' -54.1 NC_004333.2 + 20573 0.66 0.744731
Target:  5'- gGCGCGUCG-GGUCGcgccguGGUGuuucugCAGGCGCg -3'
miRNA:   3'- -CGCGCAGCgCUAGC------UCAUg-----GUCUGUG- -5'
17194 3' -54.1 NC_004333.2 + 11829 0.66 0.743678
Target:  5'- cGCGCacucaaggugaacGUCGgugcCGGUCGGcUGCCGGACAUc -3'
miRNA:   3'- -CGCG-------------CAGC----GCUAGCUcAUGGUCUGUG- -5'
17194 3' -54.1 NC_004333.2 + 38591 0.67 0.712672
Target:  5'- aCGCGUCGCacaGAUCGAcaaagaacGUGuCgAGGCGCu -3'
miRNA:   3'- cGCGCAGCG---CUAGCU--------CAU-GgUCUGUG- -5'
17194 3' -54.1 NC_004333.2 + 29892 0.67 0.712672
Target:  5'- aGCGCuG-CGCGAUCGG--GCCGcGCGCg -3'
miRNA:   3'- -CGCG-CaGCGCUAGCUcaUGGUcUGUG- -5'
17194 3' -54.1 NC_004333.2 + 16850 0.67 0.701809
Target:  5'- aGCGCGUCGCGGccaaggcgaUCGAcGggcgACUguucGGCACg -3'
miRNA:   3'- -CGCGCAGCGCU---------AGCU-Ca---UGGu---CUGUG- -5'
17194 3' -54.1 NC_004333.2 + 37083 0.67 0.701809
Target:  5'- uGCGCGgauUCGCGcuAUCGAGgacgUCGGGCAg -3'
miRNA:   3'- -CGCGC---AGCGC--UAGCUCau--GGUCUGUg -5'
17194 3' -54.1 NC_004333.2 + 28041 0.67 0.690876
Target:  5'- uCGUGUCGCucguGAUCGGcGUaagcacguccuGCCAGAUGCg -3'
miRNA:   3'- cGCGCAGCG----CUAGCU-CA-----------UGGUCUGUG- -5'
17194 3' -54.1 NC_004333.2 + 25272 0.67 0.690876
Target:  5'- gGCGUcgacgucgaGUCGCGcagCGAGUuCgAGACGCg -3'
miRNA:   3'- -CGCG---------CAGCGCua-GCUCAuGgUCUGUG- -5'
17194 3' -54.1 NC_004333.2 + 6656 0.67 0.679885
Target:  5'- aGCGCGcucggCGCGcUCGAG---CAGGCGCg -3'
miRNA:   3'- -CGCGCa----GCGCuAGCUCaugGUCUGUG- -5'
17194 3' -54.1 NC_004333.2 + 39172 0.68 0.668848
Target:  5'- -aGCGUCGUuGUauuccuucaCGAGUGCC-GACGCa -3'
miRNA:   3'- cgCGCAGCGcUA---------GCUCAUGGuCUGUG- -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.