miRNA display CGI


Results 1 - 20 of 26 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
13384 3' -56.3 NC_003409.1 + 97090 0.66 0.867124
Target:  5'- --aCAUacuGGCGGCCUUGGuguGCAGCa -3'
miRNA:   3'- acgGUAccuCCGCUGGAACCu--CGUUG- -5'
13384 3' -56.3 NC_003409.1 + 97129 0.66 0.85941
Target:  5'- gGCCA---AGGCGGCC--GGGGUGACg -3'
miRNA:   3'- aCGGUaccUCCGCUGGaaCCUCGUUG- -5'
13384 3' -56.3 NC_003409.1 + 113177 0.66 0.85941
Target:  5'- gGCCuccgGGAGGC---CUUGGAGCGc- -3'
miRNA:   3'- aCGGua--CCUCCGcugGAACCUCGUug -5'
13384 3' -56.3 NC_003409.1 + 85252 0.66 0.838375
Target:  5'- gGCCAaagaccgaacccuuuUGG-GGCG-CC-UGGGGCGAUa -3'
miRNA:   3'- aCGGU---------------ACCuCCGCuGGaACCUCGUUG- -5'
13384 3' -56.3 NC_003409.1 + 42181 0.66 0.835018
Target:  5'- gGCCAcgUGGGGGUGGCac-GGAG-AGCu -3'
miRNA:   3'- aCGGU--ACCUCCGCUGgaaCCUCgUUG- -5'
13384 3' -56.3 NC_003409.1 + 68503 0.66 0.835018
Target:  5'- cGCCAUGGccuuguacgGGGuUGACCgcuaGGGGCGGa -3'
miRNA:   3'- aCGGUACC---------UCC-GCUGGaa--CCUCGUUg -5'
13384 3' -56.3 NC_003409.1 + 111495 0.66 0.826494
Target:  5'- gGCUAcGGu-GCG-CCUUGGGGUAACg -3'
miRNA:   3'- aCGGUaCCucCGCuGGAACCUCGUUG- -5'
13384 3' -56.3 NC_003409.1 + 72951 0.67 0.817786
Target:  5'- gGCC-UGGAGGCGACUcgucuGCAAUc -3'
miRNA:   3'- aCGGuACCUCCGCUGGaaccuCGUUG- -5'
13384 3' -56.3 NC_003409.1 + 10118 0.67 0.808904
Target:  5'- gGUCAUGGGGGauGCggaggGGGGCGGCg -3'
miRNA:   3'- aCGGUACCUCCgcUGgaa--CCUCGUUG- -5'
13384 3' -56.3 NC_003409.1 + 126864 0.67 0.808904
Target:  5'- gUGCCgGUGGAGGUaaagGugUUgcgGGAGCGGg -3'
miRNA:   3'- -ACGG-UACCUCCG----CugGAa--CCUCGUUg -5'
13384 3' -56.3 NC_003409.1 + 90485 0.67 0.799855
Target:  5'- aGCCc-GGAGGCGACac-GGAuGCAAg -3'
miRNA:   3'- aCGGuaCCUCCGCUGgaaCCU-CGUUg -5'
13384 3' -56.3 NC_003409.1 + 100074 0.67 0.793426
Target:  5'- aUGCCAUGGcgGGGCGGCUguggcaccaaauuaUGGAggcuaggugcccaGCGACu -3'
miRNA:   3'- -ACGGUACC--UCCGCUGGa-------------ACCU-------------CGUUG- -5'
13384 3' -56.3 NC_003409.1 + 34455 0.67 0.781292
Target:  5'- aUGUCAcuaagGGAGGCucaugggaacGGCUUUGGGGCAu- -3'
miRNA:   3'- -ACGGUa----CCUCCG----------CUGGAACCUCGUug -5'
13384 3' -56.3 NC_003409.1 + 133088 0.67 0.781292
Target:  5'- aUGCCGUGaAGGCGGCggUGGcagAGCAc- -3'
miRNA:   3'- -ACGGUACcUCCGCUGgaACC---UCGUug -5'
13384 3' -56.3 NC_003409.1 + 107523 0.68 0.769883
Target:  5'- cGCCGUGGuucgccccuuccGGCGGCCgugGGucCAGCg -3'
miRNA:   3'- aCGGUACCu-----------CCGCUGGaa-CCucGUUG- -5'
13384 3' -56.3 NC_003409.1 + 49282 0.68 0.762174
Target:  5'- cGCCAcGGuGGCccuGCCUagUGGGGUGGCg -3'
miRNA:   3'- aCGGUaCCuCCGc--UGGA--ACCUCGUUG- -5'
13384 3' -56.3 NC_003409.1 + 111829 0.68 0.762174
Target:  5'- uUGCCAgagGGGGGUuuccucgcgucGGCCaccgcgGGGGCGGCc -3'
miRNA:   3'- -ACGGUa--CCUCCG-----------CUGGaa----CCUCGUUG- -5'
13384 3' -56.3 NC_003409.1 + 132460 0.68 0.742577
Target:  5'- gUGCCAgcgUGGAGGggucaggcaaUGGCCaUGGGGgAGCa -3'
miRNA:   3'- -ACGGU---ACCUCC----------GCUGGaACCUCgUUG- -5'
13384 3' -56.3 NC_003409.1 + 30125 0.68 0.742577
Target:  5'- aGCUGguuccgGGcAGGCGACggUGGGGCAAa -3'
miRNA:   3'- aCGGUa-----CC-UCCGCUGgaACCUCGUUg -5'
13384 3' -56.3 NC_003409.1 + 49995 0.68 0.731623
Target:  5'- gGgCAUGGAGcauuucuuccugcGCGACCUcacUGGcGCAGCu -3'
miRNA:   3'- aCgGUACCUC-------------CGCUGGA---ACCuCGUUG- -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.