miRNA display CGI


Results 1 - 20 of 56 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
19855 3' -55.6 NC_004687.1 + 547 0.75 0.46492
Target:  5'- gGUCGGCAGCGGCGgggGCGGgGUgggcagUCCc- -3'
miRNA:   3'- -CAGCCGUCGCUGCa--UGUCgCA------AGGac -5'
19855 3' -55.6 NC_004687.1 + 1897 0.66 0.901771
Target:  5'- aGUCGcuGCAguGCGACGUgauACGGCGUgaccaccuuggCCUGg -3'
miRNA:   3'- -CAGC--CGU--CGCUGCA---UGUCGCAa----------GGAC- -5'
19855 3' -55.6 NC_004687.1 + 4274 0.66 0.899853
Target:  5'- -cCGGCGGCG-UGUGCAGCauuuugagcgccuuGgccUCCUGg -3'
miRNA:   3'- caGCCGUCGCuGCAUGUCG--------------Ca--AGGAC- -5'
19855 3' -55.6 NC_004687.1 + 7160 0.7 0.715233
Target:  5'- -aUGGCAGCGGCG-ACuGCGUgUCCa- -3'
miRNA:   3'- caGCCGUCGCUGCaUGuCGCA-AGGac -5'
19855 3' -55.6 NC_004687.1 + 9519 0.74 0.503
Target:  5'- uGUCGGCAGCGGCcaGCGGCGccCCg- -3'
miRNA:   3'- -CAGCCGUCGCUGcaUGUCGCaaGGac -5'
19855 3' -55.6 NC_004687.1 + 12660 0.67 0.888589
Target:  5'- -cCGGC-GUGGCGUACuGGCugUCCUGg -3'
miRNA:   3'- caGCCGuCGCUGCAUG-UCGcaAGGAC- -5'
19855 3' -55.6 NC_004687.1 + 12819 0.73 0.552386
Target:  5'- aUCGGCGGCGAC-UACAGCaaggUCCg- -3'
miRNA:   3'- cAGCCGUCGCUGcAUGUCGca--AGGac -5'
19855 3' -55.6 NC_004687.1 + 13419 0.66 0.920347
Target:  5'- aUCGGCGGCGuccacCGccgccuuggaggcccGCAGCGcgUCCUGa -3'
miRNA:   3'- cAGCCGUCGCu----GCa--------------UGUCGCa-AGGAC- -5'
19855 3' -55.6 NC_004687.1 + 16868 0.68 0.83556
Target:  5'- cGUCGGUGGCGGUGUcCAGCGggCUg- -3'
miRNA:   3'- -CAGCCGUCGCUGCAuGUCGCaaGGac -5'
19855 3' -55.6 NC_004687.1 + 17500 0.75 0.46492
Target:  5'- cGUCGGCAGCGGacaGcaccACGGCGccgUCCUGa -3'
miRNA:   3'- -CAGCCGUCGCUg--Ca---UGUCGCa--AGGAC- -5'
19855 3' -55.6 NC_004687.1 + 19597 0.69 0.791991
Target:  5'- aGUCGGUGGCcgagGACaucGCGGCGggCCUGg -3'
miRNA:   3'- -CAGCCGUCG----CUGca-UGUCGCaaGGAC- -5'
19855 3' -55.6 NC_004687.1 + 19713 0.69 0.801029
Target:  5'- uGUCGGCAaccGCGACGaAC-GCGUugUCCUc -3'
miRNA:   3'- -CAGCCGU---CGCUGCaUGuCGCA--AGGAc -5'
19855 3' -55.6 NC_004687.1 + 22425 0.67 0.888589
Target:  5'- cGUCgGGCAGCaGCG-ACAGCcUUCCg- -3'
miRNA:   3'- -CAG-CCGUCGcUGCaUGUCGcAAGGac -5'
19855 3' -55.6 NC_004687.1 + 27137 0.69 0.773489
Target:  5'- aGUUGGCuAGCGAaaUGCuGCGgggUCCUGg -3'
miRNA:   3'- -CAGCCG-UCGCUgcAUGuCGCa--AGGAC- -5'
19855 3' -55.6 NC_004687.1 + 31282 0.69 0.799233
Target:  5'- aUCGGCGGUGAagauggGUGCGGCGaccucgucgcucUCCUGg -3'
miRNA:   3'- cAGCCGUCGCUg-----CAUGUCGCa-----------AGGAC- -5'
19855 3' -55.6 NC_004687.1 + 34270 0.66 0.919783
Target:  5'- uGUCGGCAGUGcACGa--AGCGcgCCa- -3'
miRNA:   3'- -CAGCCGUCGC-UGCaugUCGCaaGGac -5'
19855 3' -55.6 NC_004687.1 + 45071 0.74 0.522545
Target:  5'- cUCGGCAGCGACGccggGCGGCGgagcagaugCCa- -3'
miRNA:   3'- cAGCCGUCGCUGCa---UGUCGCaa-------GGac -5'
19855 3' -55.6 NC_004687.1 + 45817 0.71 0.674844
Target:  5'- cGUCGGCgGGCGGCGgcaucCAGCGcgCCg- -3'
miRNA:   3'- -CAGCCG-UCGCUGCau---GUCGCaaGGac -5'
19855 3' -55.6 NC_004687.1 + 45962 0.68 0.843748
Target:  5'- -aCGGCGGCGAgcuucgacgaccCGUACGaCGcUCCUGa -3'
miRNA:   3'- caGCCGUCGCU------------GCAUGUcGCaAGGAC- -5'
19855 3' -55.6 NC_004687.1 + 49677 0.67 0.895295
Target:  5'- cGUCGGaGGCG-CGguccaggGCAGCGaucUCCUGa -3'
miRNA:   3'- -CAGCCgUCGCuGCa------UGUCGCa--AGGAC- -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.