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 + 29957 0.73 0.362296
Target:  5'- gGCCAugacgugACCGGGGUCagCGAGGAAGCa--- -3'
miRNA:   3'- -CGGU-------UGGCCCUAG--GCUUCUUCGguuu -5'
7304 3' -53.3 NC_001900.1 + 16343 1.08 0.001359
Target:  5'- gGCCAACCGGGAUCCGAAGAAGCCAAAg -3'
miRNA:   3'- -CGGUUGGCCCUAGGCUUCUUCGGUUU- -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 + 4066 0.67 0.713498
Target:  5'- cGCCucGAUCaaGGucgaGUCCGAAGAGGCCGAc -3'
miRNA:   3'- -CGG--UUGGc-CC----UAGGCUUCUUCGGUUu -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 + 11180 0.68 0.646063
Target:  5'- gGCUGGCCGcGAUCUGGAGAAGUuccgCGAAg -3'
miRNA:   3'- -CGGUUGGCcCUAGGCUUCUUCG----GUUU- -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 + 26672 0.67 0.702401
Target:  5'- aGCCcgagGACC-GGAUCCccgaGAGGggGCCGc- -3'
miRNA:   3'- -CGG----UUGGcCCUAGG----CUUCuuCGGUuu -5'
7304 3' -53.3 NC_001900.1 + 15752 0.69 0.566893
Target:  5'- -aCGAUCGGGAucUCCGAAGAugugaccgucgAGCUGAAg -3'
miRNA:   3'- cgGUUGGCCCU--AGGCUUCU-----------UCGGUUU- -5'
7304 3' -53.3 NC_001900.1 + 839 0.72 0.419062
Target:  5'- uGCUucgaCGGGAUCCcgGAGGggGCCAc- -3'
miRNA:   3'- -CGGuug-GCCCUAGG--CUUCuuCGGUuu -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 + 41686 0.7 0.501062
Target:  5'- uCCGGCgCGGGAUCuCGAAGuuGUCAGc -3'
miRNA:   3'- cGGUUG-GCCCUAG-GCUUCuuCGGUUu -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 + 5099 0.75 0.274814
Target:  5'- cGUCGACUGGGAgucCCGAggAGAAGUCAAc -3'
miRNA:   3'- -CGGUUGGCCCUa--GGCU--UCUUCGGUUu -5'
7304 3' -53.3 NC_001900.1 + 34581 0.69 0.593888
Target:  5'- gGCacACCGGGugcugaaggcucucUCCGAGGGAGCCGu- -3'
miRNA:   3'- -CGguUGGCCCu-------------AGGCUUCUUCGGUuu -5'
7304 3' -53.3 NC_001900.1 + 30972 0.69 0.600673
Target:  5'- uGCCcAUCGaGGAUCUGGAGAuGCUggGg -3'
miRNA:   3'- -CGGuUGGC-CCUAGGCUUCUuCGGuuU- -5'
7304 3' -53.3 NC_001900.1 + 9885 0.68 0.622217
Target:  5'- uGCCGuacagguccgagaGCCGGG-UCCGGuucGGAAGCgGGAc -3'
miRNA:   3'- -CGGU-------------UGGCCCuAGGCU---UCUUCGgUUU- -5'
7304 3' -53.3 NC_001900.1 + 38532 0.68 0.633573
Target:  5'- aGCUGugCGGGAUCcCGAcggucggcguuccAGggGCuCAGAu -3'
miRNA:   3'- -CGGUugGCCCUAG-GCU-------------UCuuCG-GUUU- -5'
7304 3' -53.3 NC_001900.1 + 36870 0.67 0.724511
Target:  5'- aGCCcgAGCUGGu-UCCGAucgucGGAGGCCGAu -3'
miRNA:   3'- -CGG--UUGGCCcuAGGCU-----UCUUCGGUUu -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.