miRNA display CGI


Results 1 - 20 of 43 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
19767 3' -52.2 NC_004687.1 + 48178 0.66 0.987497
Target:  5'- uCGGCGuCGGGGcGCu---CCAGACUGu -3'
miRNA:   3'- cGUUGC-GCCCCuCGcaauGGUUUGAC- -5'
19767 3' -52.2 NC_004687.1 + 125253 0.66 0.987497
Target:  5'- aGCAAUGCGGGGccuagaucGGgGUgaGCCAGcUUGg -3'
miRNA:   3'- -CGUUGCGCCCC--------UCgCAa-UGGUUuGAC- -5'
19767 3' -52.2 NC_004687.1 + 116496 0.66 0.987497
Target:  5'- gGCAGCGCccgGGGGcAGCaucgGUUgGCCGGGCa- -3'
miRNA:   3'- -CGUUGCG---CCCC-UCG----CAA-UGGUUUGac -5'
19767 3' -52.2 NC_004687.1 + 102584 0.66 0.985861
Target:  5'- aGCAGCGCGcGGGccccGGCGgcgGCacaaAAACUu -3'
miRNA:   3'- -CGUUGCGC-CCC----UCGCaa-UGg---UUUGAc -5'
19767 3' -52.2 NC_004687.1 + 133915 0.66 0.985861
Target:  5'- -gGACGCGGcG-GCGggACCGcGCUGu -3'
miRNA:   3'- cgUUGCGCCcCuCGCaaUGGUuUGAC- -5'
19767 3' -52.2 NC_004687.1 + 69418 0.66 0.985861
Target:  5'- -gAGCGcCGGGGccGCGUccggauggaUGCCGAACUu -3'
miRNA:   3'- cgUUGC-GCCCCu-CGCA---------AUGGUUUGAc -5'
19767 3' -52.2 NC_004687.1 + 47556 0.66 0.985689
Target:  5'- aGCAGUGUGGGuGGCGgcggUGCCGGagccagcGCUGg -3'
miRNA:   3'- -CGUUGCGCCCcUCGCa---AUGGUU-------UGAC- -5'
19767 3' -52.2 NC_004687.1 + 45034 0.66 0.982103
Target:  5'- cGCcGgGCGGcGGAGCGacgacACCGGACg- -3'
miRNA:   3'- -CGuUgCGCC-CCUCGCaa---UGGUUUGac -5'
19767 3' -52.2 NC_004687.1 + 73972 0.66 0.982103
Target:  5'- gGCGGCGCGGuggccGGAGUGaccgGCCAGGg-- -3'
miRNA:   3'- -CGUUGCGCC-----CCUCGCaa--UGGUUUgac -5'
19767 3' -52.2 NC_004687.1 + 41555 0.66 0.982103
Target:  5'- uGCAG-GCuGGGGGCGcagACgAAGCUGg -3'
miRNA:   3'- -CGUUgCGcCCCUCGCaa-UGgUUUGAC- -5'
19767 3' -52.2 NC_004687.1 + 46565 0.66 0.979964
Target:  5'- -uGACGCGGGGcaauuuucuuGGCc-UGCCGGGCUa -3'
miRNA:   3'- cgUUGCGCCCC----------UCGcaAUGGUUUGAc -5'
19767 3' -52.2 NC_004687.1 + 20592 0.67 0.97764
Target:  5'- cCAACgGCGGGucgcugcgcGAGCG-UGCCAcccGGCUGg -3'
miRNA:   3'- cGUUG-CGCCC---------CUCGCaAUGGU---UUGAC- -5'
19767 3' -52.2 NC_004687.1 + 8410 0.67 0.97764
Target:  5'- gGCGcGCGCGGauGGAGCGcgagGCCGcuCUGc -3'
miRNA:   3'- -CGU-UGCGCC--CCUCGCaa--UGGUuuGAC- -5'
19767 3' -52.2 NC_004687.1 + 142173 0.67 0.975124
Target:  5'- uCAACGUGGGcagccuGAGCGUgcgcACCGGGCc- -3'
miRNA:   3'- cGUUGCGCCC------CUCGCAa---UGGUUUGac -5'
19767 3' -52.2 NC_004687.1 + 129975 0.67 0.975124
Target:  5'- -gAACGCgGGGGAGaCGgagGCCGAagGCUc -3'
miRNA:   3'- cgUUGCG-CCCCUC-GCaa-UGGUU--UGAc -5'
19767 3' -52.2 NC_004687.1 + 93610 0.67 0.975124
Target:  5'- cGCAAuCGUGucGAGCGUccgGCCAAACg- -3'
miRNA:   3'- -CGUU-GCGCccCUCGCAa--UGGUUUGac -5'
19767 3' -52.2 NC_004687.1 + 27837 0.67 0.975124
Target:  5'- -gGAgGCGGGGucGGCGcgACCGggUUGc -3'
miRNA:   3'- cgUUgCGCCCC--UCGCaaUGGUuuGAC- -5'
19767 3' -52.2 NC_004687.1 + 83182 0.67 0.972406
Target:  5'- -gAGCGCGucGAGCGUgACCAAcCUGc -3'
miRNA:   3'- cgUUGCGCccCUCGCAaUGGUUuGAC- -5'
19767 3' -52.2 NC_004687.1 + 63691 0.67 0.966341
Target:  5'- -gGGCgGCGGGGAGCGUcGCU--GCa- -3'
miRNA:   3'- cgUUG-CGCCCCUCGCAaUGGuuUGac -5'
19767 3' -52.2 NC_004687.1 + 82305 0.67 0.965356
Target:  5'- uGCAACGCGGuucccagcuGGCGgucguccagggucggGCCAAGCUGg -3'
miRNA:   3'- -CGUUGCGCCcc-------UCGCaa-------------UGGUUUGAC- -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.