miRNA display CGI


Results 1 - 20 of 65 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
5548 3' -56.2 NC_001806.1 + 57138 0.66 0.908352
Target:  5'- aUCCgcgcggugGGCCgCGCGAGGggAGGGggugCGCg -3'
miRNA:   3'- cAGG--------UCGGgGUGCUCCgaUCUUa---GCG- -5'
5548 3' -56.2 NC_001806.1 + 81266 0.66 0.908352
Target:  5'- cUCCccgGGCCUCACGGGGUcccgGGcGUCGa -3'
miRNA:   3'- cAGG---UCGGGGUGCUCCGa---UCuUAGCg -5'
5548 3' -56.2 NC_001806.1 + 90986 0.66 0.90774
Target:  5'- -gCCAGgguaagaCCCCGCGGGGCggg---CGCg -3'
miRNA:   3'- caGGUC-------GGGGUGCUCCGaucuuaGCG- -5'
5548 3' -56.2 NC_001806.1 + 77287 0.66 0.902764
Target:  5'- -cCUGGCCCCAUG-GGCgguggaggaguuccgGGGcgCGCg -3'
miRNA:   3'- caGGUCGGGGUGCuCCGa--------------UCUuaGCG- -5'
5548 3' -56.2 NC_001806.1 + 31096 0.66 0.902131
Target:  5'- -cCCGGCUgcgggCCGCGGuccccGGCUGGAGcCGCc -3'
miRNA:   3'- caGGUCGG-----GGUGCU-----CCGAUCUUaGCG- -5'
5548 3' -56.2 NC_001806.1 + 67618 0.66 0.902131
Target:  5'- cUCCcGCCCCACacGGaaGGggUUGCg -3'
miRNA:   3'- cAGGuCGGGGUGcuCCgaUCuuAGCG- -5'
5548 3' -56.2 NC_001806.1 + 147170 0.66 0.902131
Target:  5'- --aCGGCCCCGCccgagGAGGCggaagcggAGGAggaCGCg -3'
miRNA:   3'- cagGUCGGGGUG-----CUCCGa-------UCUUa--GCG- -5'
5548 3' -56.2 NC_001806.1 + 86956 0.66 0.901496
Target:  5'- uGUCCaggagcacGGCCuCCuCGGGGCUgcucuggGGAAUcCGCg -3'
miRNA:   3'- -CAGG--------UCGG-GGuGCUCCGA-------UCUUA-GCG- -5'
5548 3' -56.2 NC_001806.1 + 3340 0.66 0.895676
Target:  5'- cUCCGGCCgCGgGGGGCUGGcGg-GCc -3'
miRNA:   3'- cAGGUCGGgGUgCUCCGAUCuUagCG- -5'
5548 3' -56.2 NC_001806.1 + 44732 0.66 0.895676
Target:  5'- -cCCGGCCCCGguugGAGGggGGGG-CGCc -3'
miRNA:   3'- caGGUCGGGGUg---CUCCgaUCUUaGCG- -5'
5548 3' -56.2 NC_001806.1 + 87025 0.66 0.893695
Target:  5'- -gCCAGUCCCGCaggaggaugcugagGAGGCUcuc-UCGCa -3'
miRNA:   3'- caGGUCGGGGUG--------------CUCCGAucuuAGCG- -5'
5548 3' -56.2 NC_001806.1 + 101096 0.66 0.888991
Target:  5'- -aUCAGCCCCACaaaaaacGGCccgcgGGggUCGUc -3'
miRNA:   3'- caGGUCGGGGUGcu-----CCGa----UCuuAGCG- -5'
5548 3' -56.2 NC_001806.1 + 133695 0.66 0.888991
Target:  5'- uGUCU-GUCCCG-GAGGCggGGAGUCGg -3'
miRNA:   3'- -CAGGuCGGGGUgCUCCGa-UCUUAGCg -5'
5548 3' -56.2 NC_001806.1 + 42241 0.66 0.88831
Target:  5'- --gCGGCCCCGCGGgcguacuGGCUcgugcaacAGAAcCGCg -3'
miRNA:   3'- cagGUCGGGGUGCU-------CCGA--------UCUUaGCG- -5'
5548 3' -56.2 NC_001806.1 + 92677 0.66 0.882079
Target:  5'- -cCCGGCUCCugucgcGCGAGGacaucgAGAccAUCGCg -3'
miRNA:   3'- caGGUCGGGG------UGCUCCga----UCU--UAGCG- -5'
5548 3' -56.2 NC_001806.1 + 73360 0.66 0.882079
Target:  5'- aUCCGGCCUCucCGGGGCUgcuGGAGcUCuGUg -3'
miRNA:   3'- cAGGUCGGGGu-GCUCCGA---UCUU-AG-CG- -5'
5548 3' -56.2 NC_001806.1 + 2463 0.66 0.881375
Target:  5'- --gCGGCCCCGUGGGGgUGGGgguuaucgucgucGUCGCc -3'
miRNA:   3'- cagGUCGGGGUGCUCCgAUCU-------------UAGCG- -5'
5548 3' -56.2 NC_001806.1 + 128858 0.66 0.877825
Target:  5'- cGUCCGcGCCCCggucaugccuuucguGgGGGGCgcGGAGUCGg -3'
miRNA:   3'- -CAGGU-CGGGG---------------UgCUCCGa-UCUUAGCg -5'
5548 3' -56.2 NC_001806.1 + 108533 0.67 0.867592
Target:  5'- -cCCGGCggCCCGCGugcGGCUGGccgCGCc -3'
miRNA:   3'- caGGUCG--GGGUGCu--CCGAUCuuaGCG- -5'
5548 3' -56.2 NC_001806.1 + 42577 0.67 0.867592
Target:  5'- uGUCCcagggacgugcGCCCCACGAGcgaGCguagGGAcgCGCc -3'
miRNA:   3'- -CAGGu----------CGGGGUGCUC---CGa---UCUuaGCG- -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.