miRNA display CGI


Results 1 - 17 of 17 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
13273 3' -55.6 NC_003409.1 + 40120 0.66 0.912445
Target:  5'- uAAAGGUGUUugACCCa--GAGU-CGCCu -3'
miRNA:   3'- cUUUCCACAG--UGGGgagCUCAcGCGG- -5'
13273 3' -55.6 NC_003409.1 + 24831 0.66 0.900011
Target:  5'- gGGAGGGUGgcgcgccgggaUC-CCCCUCcGGGgaggguggcGCGCCg -3'
miRNA:   3'- -CUUUCCAC-----------AGuGGGGAG-CUCa--------CGCGG- -5'
13273 3' -55.6 NC_003409.1 + 24891 0.66 0.900011
Target:  5'- gGGAGGGUGgcgcgccgggaUC-CCCCUCcGGGgaggguggcGCGCCg -3'
miRNA:   3'- -CUUUCCAC-----------AGuGGGGAG-CUCa--------CGCGG- -5'
13273 3' -55.6 NC_003409.1 + 24951 0.66 0.900011
Target:  5'- gGGAGGGUGgcgcgccgggaUC-CCCCUCcGGGgaggguggcGCGCCg -3'
miRNA:   3'- -CUUUCCAC-----------AGuGGGGAG-CUCa--------CGCGG- -5'
13273 3' -55.6 NC_003409.1 + 25011 0.66 0.900011
Target:  5'- gGGAGGGUGgcgcgccgggaUC-CCCCUCcGGGgaggguggcGCGCCg -3'
miRNA:   3'- -CUUUCCAC-----------AGuGGGGAG-CUCa--------CGCGG- -5'
13273 3' -55.6 NC_003409.1 + 91128 0.67 0.872347
Target:  5'- aGAAGGUGgCGCCUCcu--GUGUGCCg -3'
miRNA:   3'- cUUUCCACaGUGGGGagcuCACGCGG- -5'
13273 3' -55.6 NC_003409.1 + 24771 0.67 0.872347
Target:  5'- gGGAGGGUGgcgcgccgggaUC-CCCCUCcgggGAGggggcGCGCCg -3'
miRNA:   3'- -CUUUCCAC-----------AGuGGGGAG----CUCa----CGCGG- -5'
13273 3' -55.6 NC_003409.1 + 114577 0.67 0.857185
Target:  5'- --cGGGUGUCGCgCUUUGGGgGCcuGCCa -3'
miRNA:   3'- cuuUCCACAGUGgGGAGCUCaCG--CGG- -5'
13273 3' -55.6 NC_003409.1 + 115969 0.67 0.856405
Target:  5'- uGAAGGGUcugcagCGCCuugggugCCUCuGGGUGUGCCg -3'
miRNA:   3'- -CUUUCCAca----GUGG-------GGAG-CUCACGCGG- -5'
13273 3' -55.6 NC_003409.1 + 132575 0.69 0.760637
Target:  5'- aGAGGGUGgCGCCCa--GAGUGC-CCg -3'
miRNA:   3'- cUUUCCACaGUGGGgagCUCACGcGG- -5'
13273 3' -55.6 NC_003409.1 + 127312 0.71 0.680992
Target:  5'- -cGAGGaUGgCGCCCC-CGGGaaUGCGCCu -3'
miRNA:   3'- cuUUCC-ACaGUGGGGaGCUC--ACGCGG- -5'
13273 3' -55.6 NC_003409.1 + 34819 0.71 0.629578
Target:  5'- aGAAGG-GUCGCCCUUgGAcUGCGCa -3'
miRNA:   3'- cUUUCCaCAGUGGGGAgCUcACGCGg -5'
13273 3' -55.6 NC_003409.1 + 134479 0.72 0.608967
Target:  5'- aGAGGGUGUC-CCCgggggCG-GUGCGCCc -3'
miRNA:   3'- cUUUCCACAGuGGGga---GCuCACGCGG- -5'
13273 3' -55.6 NC_003409.1 + 118314 0.73 0.537755
Target:  5'- -uGGGGUG-CGCCgcgccggguuCCUgGGGUGCGCCg -3'
miRNA:   3'- cuUUCCACaGUGG----------GGAgCUCACGCGG- -5'
13273 3' -55.6 NC_003409.1 + 118360 0.73 0.537755
Target:  5'- -uGGGGUG-CGCCgcgccggguuCCUgGGGUGCGCCg -3'
miRNA:   3'- cuUUCCACaGUGG----------GGAgCUCACGCGG- -5'
13273 3' -55.6 NC_003409.1 + 118406 0.73 0.537755
Target:  5'- -uGGGGUG-CGCCgcgccggguuCCUgGGGUGCGCCg -3'
miRNA:   3'- cuUUCCACaGUGG----------GGAgCUCACGCGG- -5'
13273 3' -55.6 NC_003409.1 + 8921 1.12 0.001759
Target:  5'- uGAAAGGUGUCACCCCUCGAGUGCGCCg -3'
miRNA:   3'- -CUUUCCACAGUGGGGAGCUCACGCGG- -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.