miRNA display CGI


Results 1 - 20 of 35 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
12415 3' -50.9 NC_003324.1 + 22189 0.66 0.913197
Target:  5'- cGGAGAACGCUccACgGUGAUGuuGgUGGg -3'
miRNA:   3'- -CUUCUUGCGGu-UG-UACUACggCgACU- -5'
12415 3' -50.9 NC_003324.1 + 24721 0.66 0.913197
Target:  5'- cGAcaAGC-CCGACAUGAUGCuCGgUGAc -3'
miRNA:   3'- -CUucUUGcGGUUGUACUACG-GCgACU- -5'
12415 3' -50.9 NC_003324.1 + 25622 0.66 0.913197
Target:  5'- ----uGCGCCGGCAcg--GCUGCUGAu -3'
miRNA:   3'- cuucuUGCGGUUGUacuaCGGCGACU- -5'
12415 3' -50.9 NC_003324.1 + 19500 0.66 0.906446
Target:  5'- ---cGGCGUCGGCGUGcuucuUGCCGCgGAa -3'
miRNA:   3'- cuucUUGCGGUUGUACu----ACGGCGaCU- -5'
12415 3' -50.9 NC_003324.1 + 14519 0.66 0.906446
Target:  5'- --uGGACGCCGGCAUGG-GCC-CaGAg -3'
miRNA:   3'- cuuCUUGCGGUUGUACUaCGGcGaCU- -5'
12415 3' -50.9 NC_003324.1 + 43800 0.66 0.905754
Target:  5'- cGGGAACGCCGgcaaggcGCGUGAaaucacggaugGCCGCcgGAu -3'
miRNA:   3'- cUUCUUGCGGU-------UGUACUa----------CGGCGa-CU- -5'
12415 3' -50.9 NC_003324.1 + 53568 0.66 0.899401
Target:  5'- aGAAGAAgGCC-GCcUGAUGCCGg--- -3'
miRNA:   3'- -CUUCUUgCGGuUGuACUACGGCgacu -5'
12415 3' -50.9 NC_003324.1 + 28971 0.66 0.899401
Target:  5'- cGAAGGACgagGCCGGCcaGUGGUGggaCGUUGAg -3'
miRNA:   3'- -CUUCUUG---CGGUUG--UACUACg--GCGACU- -5'
12415 3' -50.9 NC_003324.1 + 50279 0.66 0.899401
Target:  5'- aAGGcuCGCCGACu---UGUCGCUGAu -3'
miRNA:   3'- cUUCuuGCGGUUGuacuACGGCGACU- -5'
12415 3' -50.9 NC_003324.1 + 10288 0.66 0.892065
Target:  5'- ----uGCGCCGGCAUGAUauuggcGCCGaUGAg -3'
miRNA:   3'- cuucuUGCGGUUGUACUA------CGGCgACU- -5'
12415 3' -50.9 NC_003324.1 + 49121 0.66 0.892065
Target:  5'- --cGAuCGCCAAgAUGGcggGCCGCUcGAu -3'
miRNA:   3'- cuuCUuGCGGUUgUACUa--CGGCGA-CU- -5'
12415 3' -50.9 NC_003324.1 + 15047 0.66 0.892065
Target:  5'- -----gUGCCGACGUGAUGcCCGCc-- -3'
miRNA:   3'- cuucuuGCGGUUGUACUAC-GGCGacu -5'
12415 3' -50.9 NC_003324.1 + 35727 0.66 0.891316
Target:  5'- aGAAGGAgGCCGaggccaaacagcaGCAgaUGAUGCUGCg-- -3'
miRNA:   3'- -CUUCUUgCGGU-------------UGU--ACUACGGCGacu -5'
12415 3' -50.9 NC_003324.1 + 31724 0.66 0.882103
Target:  5'- cAGGAGCGCCGAUGUucuucgacauccccGAUGCC-UUGAa -3'
miRNA:   3'- cUUCUUGCGGUUGUA--------------CUACGGcGACU- -5'
12415 3' -50.9 NC_003324.1 + 27757 0.67 0.86837
Target:  5'- aGGAGAagcucgGCGCCAcGCAUGAggugGUCGCg-- -3'
miRNA:   3'- -CUUCU------UGCGGU-UGUACUa---CGGCGacu -5'
12415 3' -50.9 NC_003324.1 + 37647 0.67 0.86837
Target:  5'- aGGAGGuCGCCGAgGUGGU-CCGCaaUGAa -3'
miRNA:   3'- -CUUCUuGCGGUUgUACUAcGGCG--ACU- -5'
12415 3' -50.9 NC_003324.1 + 50046 0.67 0.859931
Target:  5'- aGGGcAGCGCCGAucgcCAUGcugacgagcGUGCUGCUGAu -3'
miRNA:   3'- cUUC-UUGCGGUU----GUAC---------UACGGCGACU- -5'
12415 3' -50.9 NC_003324.1 + 43009 0.67 0.859073
Target:  5'- cGAGAcCGCCGGCGcagugaccgccaaUGGUcgccccGCCGCUGGg -3'
miRNA:   3'- cUUCUuGCGGUUGU-------------ACUA------CGGCGACU- -5'
12415 3' -50.9 NC_003324.1 + 49842 0.67 0.851234
Target:  5'- cGAAGAcugcagcguuccACGUgAugGUGGUGCgccCGCUGAa -3'
miRNA:   3'- -CUUCU------------UGCGgUugUACUACG---GCGACU- -5'
12415 3' -50.9 NC_003324.1 + 23233 0.67 0.842289
Target:  5'- --uGGGCGCCGGCAaGAcguuUGCCGCc-- -3'
miRNA:   3'- cuuCUUGCGGUUGUaCU----ACGGCGacu -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.