miRNA display CGI


Results 1 - 20 of 34 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
7304 3' -53.3 NC_001900.1 + 23382 0.66 0.767453
Target:  5'- cCCAGCCGGGG-CCGAcc--GCCGu- -3'
miRNA:   3'- cGGUUGGCCCUaGGCUucuuCGGUuu -5'
7304 3' -53.3 NC_001900.1 + 22078 0.66 0.767453
Target:  5'- uCCAGCCGGccuUCCGA---GGCCAGc -3'
miRNA:   3'- cGGUUGGCCcu-AGGCUucuUCGGUUu -5'
7304 3' -53.3 NC_001900.1 + 29481 0.66 0.766406
Target:  5'- gGCCAACUGGGGcgcUCgCG-AGAucgcucgacugauGGCCGAGg -3'
miRNA:   3'- -CGGUUGGCCCU---AG-GCuUCU-------------UCGGUUU- -5'
7304 3' -53.3 NC_001900.1 + 18181 0.66 0.761144
Target:  5'- aCCAGCCGGGAgaugccaCCGAucaGGAAcgacgcgauggacgcGCCAGc -3'
miRNA:   3'- cGGUUGGCCCUa------GGCU---UCUU---------------CGGUUu -5'
7304 3' -53.3 NC_001900.1 + 33168 0.66 0.756909
Target:  5'- cGCCAACCuGGGuggCgGcAGcAAGCCGAAc -3'
miRNA:   3'- -CGGUUGG-CCCua-GgCuUC-UUCGGUUU- -5'
7304 3' -53.3 NC_001900.1 + 3912 0.66 0.746228
Target:  5'- cGCCGAUCaGc--CCGGAGAAGCCGu- -3'
miRNA:   3'- -CGGUUGGcCcuaGGCUUCUUCGGUuu -5'
7304 3' -53.3 NC_001900.1 + 28957 0.66 0.745153
Target:  5'- cGCCGACCcagguacGGGAUgauguuggcCCGGaacucgaaguAGAAGCCGGGa -3'
miRNA:   3'- -CGGUUGG-------CCCUA---------GGCU----------UCUUCGGUUU- -5'
7304 3' -53.3 NC_001900.1 + 7165 0.66 0.73976
Target:  5'- gGCCAgcggcuucaucggugGCCGGGAcUCCGuGGuAGCCc-- -3'
miRNA:   3'- -CGGU---------------UGGCCCU-AGGCuUCuUCGGuuu -5'
7304 3' -53.3 NC_001900.1 + 10472 0.66 0.735425
Target:  5'- cGCC-GCUGGGAcgagGAAGAGGCCGc- -3'
miRNA:   3'- -CGGuUGGCCCUagg-CUUCUUCGGUuu -5'
7304 3' -53.3 NC_001900.1 + 23394 0.66 0.735425
Target:  5'- gGCCAucagGCCGaguGGA-CCGAccaGGGAGCCAc- -3'
miRNA:   3'- -CGGU----UGGC---CCUaGGCU---UCUUCGGUuu -5'
7304 3' -53.3 NC_001900.1 + 21706 0.67 0.724511
Target:  5'- uGCuCGACCGGGuagCCGAGcaccGAuguGCCGAc -3'
miRNA:   3'- -CG-GUUGGCCCua-GGCUU----CUu--CGGUUu -5'
7304 3' -53.3 NC_001900.1 + 36870 0.67 0.724511
Target:  5'- aGCCcgAGCUGGu-UCCGAucgucGGAGGCCGAu -3'
miRNA:   3'- -CGG--UUGGCCcuAGGCU-----UCUUCGGUUu -5'
7304 3' -53.3 NC_001900.1 + 4066 0.67 0.713498
Target:  5'- cGCCucGAUCaaGGucgaGUCCGAAGAGGCCGAc -3'
miRNA:   3'- -CGG--UUGGc-CC----UAGGCUUCUUCGGUUu -5'
7304 3' -53.3 NC_001900.1 + 26672 0.67 0.702401
Target:  5'- aGCCcgagGACC-GGAUCCccgaGAGGggGCCGc- -3'
miRNA:   3'- -CGG----UUGGcCCUAGG----CUUCuuCGGUuu -5'
7304 3' -53.3 NC_001900.1 + 43029 0.67 0.691231
Target:  5'- -aCAGCCGGGAcagCCGggGAGcGUCc-- -3'
miRNA:   3'- cgGUUGGCCCUa--GGCuuCUU-CGGuuu -5'
7304 3' -53.3 NC_001900.1 + 9692 0.67 0.691231
Target:  5'- gGCCGGCCGaccGAUCCGAGGAucgaucucGGCg--- -3'
miRNA:   3'- -CGGUUGGCc--CUAGGCUUCU--------UCGguuu -5'
7304 3' -53.3 NC_001900.1 + 18296 0.68 0.66872
Target:  5'- aCCAgcucuugaucuuGCCGGGGagcugUCCGAcGAAGUCGGAg -3'
miRNA:   3'- cGGU------------UGGCCCU-----AGGCUuCUUCGGUUU- -5'
7304 3' -53.3 NC_001900.1 + 7538 0.68 0.657404
Target:  5'- gGUCAucUUGGGAUCCGGcAGAuGCCAAu -3'
miRNA:   3'- -CGGUu-GGCCCUAGGCU-UCUuCGGUUu -5'
7304 3' -53.3 NC_001900.1 + 11180 0.68 0.646063
Target:  5'- gGCUGGCCGcGAUCUGGAGAAGUuccgCGAAg -3'
miRNA:   3'- -CGGUUGGCcCUAGGCUUCUUCG----GUUU- -5'
7304 3' -53.3 NC_001900.1 + 24057 0.68 0.646063
Target:  5'- cGCCGuUgGGGAUCUGcAGGAuGCCGAc -3'
miRNA:   3'- -CGGUuGgCCCUAGGC-UUCUuCGGUUu -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.