miRNA display CGI


Results 1 - 12 of 12 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
12603 3' -52.6 NC_003345.1 + 5025 0.66 0.921593
Target:  5'- cGCGUugcuuucgUCGCCgcuuccacucucGGUAUCGCUcUCGUCGg -3'
miRNA:   3'- cUGCA--------AGCGG------------CCAUAGUGAuAGCGGU- -5'
12603 3' -52.6 NC_003345.1 + 73594 0.66 0.915518
Target:  5'- cGCGUcgguaUCuCCGGUAUCACgagGUCGUgAa -3'
miRNA:   3'- cUGCA-----AGcGGCCAUAGUGa--UAGCGgU- -5'
12603 3' -52.6 NC_003345.1 + 21916 0.67 0.888528
Target:  5'- cGACGUUCuCCGGguucgucUCACccguguUCGCCAu -3'
miRNA:   3'- -CUGCAAGcGGCCau-----AGUGau----AGCGGU- -5'
12603 3' -52.6 NC_003345.1 + 54563 0.67 0.881124
Target:  5'- gGACGUauUUGUgGGgGUCGCUGUCGUg- -3'
miRNA:   3'- -CUGCA--AGCGgCCaUAGUGAUAGCGgu -5'
12603 3' -52.6 NC_003345.1 + 62929 0.67 0.873467
Target:  5'- gGGCGaa-GCuCGGUAUCACgaccaCGCCAa -3'
miRNA:   3'- -CUGCaagCG-GCCAUAGUGaua--GCGGU- -5'
12603 3' -52.6 NC_003345.1 + 60328 0.67 0.857419
Target:  5'- uGCGUUCGCuguucaggcgucCGGUGUUGCUAccucgaugcUCGCUAu -3'
miRNA:   3'- cUGCAAGCG------------GCCAUAGUGAU---------AGCGGU- -5'
12603 3' -52.6 NC_003345.1 + 2727 0.68 0.831622
Target:  5'- aGACcgUCuUCGGUGUCACUAcCGCCGu -3'
miRNA:   3'- -CUGcaAGcGGCCAUAGUGAUaGCGGU- -5'
12603 3' -52.6 NC_003345.1 + 10371 0.69 0.80396
Target:  5'- gGGCGuUUCGCCGu--UUACUcUCGCCAc -3'
miRNA:   3'- -CUGC-AAGCGGCcauAGUGAuAGCGGU- -5'
12603 3' -52.6 NC_003345.1 + 15312 0.69 0.764639
Target:  5'- cGACGUggUUGCCGGUcuuAUCGgUGUugacCGCCAu -3'
miRNA:   3'- -CUGCA--AGCGGCCA---UAGUgAUA----GCGGU- -5'
12603 3' -52.6 NC_003345.1 + 73556 0.72 0.613657
Target:  5'- cGCGUUCucgaacagGCCGGUAUCACUccaucgaGUCGgCAg -3'
miRNA:   3'- cUGCAAG--------CGGCCAUAGUGA-------UAGCgGU- -5'
12603 3' -52.6 NC_003345.1 + 11068 0.78 0.315658
Target:  5'- -cUGUUCGCCGGguUCACUAucUCGCCGu -3'
miRNA:   3'- cuGCAAGCGGCCauAGUGAU--AGCGGU- -5'
12603 3' -52.6 NC_003345.1 + 21631 1.09 0.002797
Target:  5'- aGACGUUCGCCGGUAUCACUAUCGCCAa -3'
miRNA:   3'- -CUGCAAGCGGCCAUAGUGAUAGCGGU- -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.