miRNA display CGI


Results 1 - 20 of 52 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
23603 3' -59.3 NC_005261.1 + 90263 1.11 0.00107
Target:  5'- cGCCAAGGUCCUGGAGCCCGAGUCGGGc -3'
miRNA:   3'- -CGGUUCCAGGACCUCGGGCUCAGCCC- -5'
23603 3' -59.3 NC_005261.1 + 121736 0.77 0.213353
Target:  5'- aGCCGAGGUCCggcucugagUGGAGUCCGAGcccgagcgcggUGGGg -3'
miRNA:   3'- -CGGUUCCAGG---------ACCUCGGGCUCa----------GCCC- -5'
23603 3' -59.3 NC_005261.1 + 96846 0.76 0.276156
Target:  5'- gGCCGGGGUCgacggGGGGCUCGGGgggcgCGGGu -3'
miRNA:   3'- -CGGUUCCAGga---CCUCGGGCUCa----GCCC- -5'
23603 3' -59.3 NC_005261.1 + 15929 0.75 0.309268
Target:  5'- gGCCGGGG-CC-GGGGCCCGGGcaggagcCGGGg -3'
miRNA:   3'- -CGGUUCCaGGaCCUCGGGCUCa------GCCC- -5'
23603 3' -59.3 NC_005261.1 + 57856 0.74 0.330547
Target:  5'- cGgCAAGG-CCUcGGcGCUCGGGUCGGGa -3'
miRNA:   3'- -CgGUUCCaGGA-CCuCGGGCUCAGCCC- -5'
23603 3' -59.3 NC_005261.1 + 30794 0.73 0.36836
Target:  5'- gGUgGAGGUgCUGGGGCCgGAGgagcUGGGg -3'
miRNA:   3'- -CGgUUCCAgGACCUCGGgCUCa---GCCC- -5'
23603 3' -59.3 NC_005261.1 + 121191 0.72 0.417502
Target:  5'- gGCCGGGG-CC-GG-GCCCGGGgccgCGGGc -3'
miRNA:   3'- -CGGUUCCaGGaCCuCGGGCUCa---GCCC- -5'
23603 3' -59.3 NC_005261.1 + 125784 0.72 0.443525
Target:  5'- gGCCAAGG-CCgcugcgaacGGGGCuuGGGcCGGGg -3'
miRNA:   3'- -CGGUUCCaGGa--------CCUCGggCUCaGCCC- -5'
23603 3' -59.3 NC_005261.1 + 118966 0.72 0.450618
Target:  5'- gGCCAAGGUCCUGcacGCCgCGcugugcuucugcGUCGGGg -3'
miRNA:   3'- -CGGUUCCAGGACcu-CGG-GCu-----------CAGCCC- -5'
23603 3' -59.3 NC_005261.1 + 2984 0.72 0.452401
Target:  5'- gGCUggGGcucggCCUGGcGGCCCGGcGcCGGGg -3'
miRNA:   3'- -CGGuuCCa----GGACC-UCGGGCU-CaGCCC- -5'
23603 3' -59.3 NC_005261.1 + 30878 0.71 0.488831
Target:  5'- gGCCGccGGcCCUGccGCCCGAGcUCGGGc -3'
miRNA:   3'- -CGGUu-CCaGGACcuCGGGCUC-AGCCC- -5'
23603 3' -59.3 NC_005261.1 + 31003 0.71 0.488831
Target:  5'- gGCCGGGG-CCaGGGGCCCGGcGcCGGc -3'
miRNA:   3'- -CGGUUCCaGGaCCUCGGGCU-CaGCCc -5'
23603 3' -59.3 NC_005261.1 + 127904 0.71 0.507556
Target:  5'- gGCCcGGG-CCUGG-GCuuGGGcUCGGGc -3'
miRNA:   3'- -CGGuUCCaGGACCuCGggCUC-AGCCC- -5'
23603 3' -59.3 NC_005261.1 + 136645 0.7 0.526579
Target:  5'- gGCCu-GGUCCgccUGGAGCUCGAugaggaucUCGGGg -3'
miRNA:   3'- -CGGuuCCAGG---ACCUCGGGCUc-------AGCCC- -5'
23603 3' -59.3 NC_005261.1 + 123789 0.7 0.545863
Target:  5'- aGCCAGGGccUCCUGGAagguGgCCGAGUCc-- -3'
miRNA:   3'- -CGGUUCC--AGGACCU----CgGGCUCAGccc -5'
23603 3' -59.3 NC_005261.1 + 97668 0.7 0.55559
Target:  5'- gGCCGGcGUCCgcGGGGCuuGGG-CGGGg -3'
miRNA:   3'- -CGGUUcCAGGa-CCUCGggCUCaGCCC- -5'
23603 3' -59.3 NC_005261.1 + 28765 0.7 0.55559
Target:  5'- gGCCGGGGgcgCCUGG-GCCgCGGcgCGGGc -3'
miRNA:   3'- -CGGUUCCa--GGACCuCGG-GCUcaGCCC- -5'
23603 3' -59.3 NC_005261.1 + 2805 0.7 0.564388
Target:  5'- gGCCGggAGGggCCgGGcggccccAGCCCGAGcUCGGGc -3'
miRNA:   3'- -CGGU--UCCa-GGaCC-------UCGGGCUC-AGCCC- -5'
23603 3' -59.3 NC_005261.1 + 23738 0.7 0.565367
Target:  5'- cGCCGAGGcgcgUCCgGGAGgggcgggcuugcCCCGGG-CGGGc -3'
miRNA:   3'- -CGGUUCC----AGGaCCUC------------GGGCUCaGCCC- -5'
23603 3' -59.3 NC_005261.1 + 92763 0.69 0.604858
Target:  5'- cGCCGcucGGaCCgggccGAGCCCGGGcUCGGGg -3'
miRNA:   3'- -CGGUu--CCaGGac---CUCGGGCUC-AGCCC- -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.