miRNA display CGI


Results 1 - 17 of 17 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
21736 3' -57.3 NC_004813.1 + 20736 0.66 0.584572
Target:  5'- ---gGGUUUGGUGgCACCAGGCCg-- -3'
miRNA:   3'- caagCCGGACCACgGUGGUUUGGgcg -5'
21736 3' -57.3 NC_004813.1 + 38869 0.66 0.584572
Target:  5'- --aCGGCCUgcugagcacGGUacacgGCUGCCcuuGCCCGCg -3'
miRNA:   3'- caaGCCGGA---------CCA-----CGGUGGuu-UGGGCG- -5'
21736 3' -57.3 NC_004813.1 + 48740 0.67 0.573817
Target:  5'- uUUCGGCCccugcGGacCUGCCGGACCUGUa -3'
miRNA:   3'- cAAGCCGGa----CCacGGUGGUUUGGGCG- -5'
21736 3' -57.3 NC_004813.1 + 30151 0.67 0.552455
Target:  5'- ---aGGCCUGGgcgGCCAUUAAGaCCGg -3'
miRNA:   3'- caagCCGGACCa--CGGUGGUUUgGGCg -5'
21736 3' -57.3 NC_004813.1 + 35916 0.67 0.549271
Target:  5'- --aUGGCCcGGUucauccgagcaaucGCCACCuGugCCGCc -3'
miRNA:   3'- caaGCCGGaCCA--------------CGGUGGuUugGGCG- -5'
21736 3' -57.3 NC_004813.1 + 50770 0.67 0.541863
Target:  5'- -aUCGGCCaGGUGCU----GACUCGCc -3'
miRNA:   3'- caAGCCGGaCCACGGugguUUGGGCG- -5'
21736 3' -57.3 NC_004813.1 + 57017 0.67 0.531339
Target:  5'- -aUCGGCCaGGUGCUgacucGCCGAuaaCUGUg -3'
miRNA:   3'- caAGCCGGaCCACGG-----UGGUUug-GGCG- -5'
21736 3' -57.3 NC_004813.1 + 29626 0.67 0.52089
Target:  5'- --aUGGCCUGGUGCguugGCaauGCCCGg -3'
miRNA:   3'- caaGCCGGACCACGg---UGguuUGGGCg -5'
21736 3' -57.3 NC_004813.1 + 12884 0.67 0.52089
Target:  5'- aGUUCGuuCUGGUcCCgguuaGCCAGACUCGCc -3'
miRNA:   3'- -CAAGCcgGACCAcGG-----UGGUUUGGGCG- -5'
21736 3' -57.3 NC_004813.1 + 30857 0.68 0.479962
Target:  5'- -aUCGGCagUGGgcgcgggGaCCACCAcgGAUCCGCa -3'
miRNA:   3'- caAGCCGg-ACCa------C-GGUGGU--UUGGGCG- -5'
21736 3' -57.3 NC_004813.1 + 38332 0.69 0.440669
Target:  5'- ---aGcGCCUgacugaacugGGUGaUCACCGAGCCCGCc -3'
miRNA:   3'- caagC-CGGA----------CCAC-GGUGGUUUGGGCG- -5'
21736 3' -57.3 NC_004813.1 + 49720 0.69 0.440669
Target:  5'- cGUUCaGCgCUGGUGagcCCACCAucaCCGCc -3'
miRNA:   3'- -CAAGcCG-GACCAC---GGUGGUuugGGCG- -5'
21736 3' -57.3 NC_004813.1 + 16252 0.69 0.431133
Target:  5'- gGUUUGGCCUGGUGauaGC---GCCUGCc -3'
miRNA:   3'- -CAAGCCGGACCACgg-UGguuUGGGCG- -5'
21736 3' -57.3 NC_004813.1 + 21248 0.71 0.334799
Target:  5'- --gUGGCUgucaGUGCCACCAgcGACCCGg -3'
miRNA:   3'- caaGCCGGac--CACGGUGGU--UUGGGCg -5'
21736 3' -57.3 NC_004813.1 + 48848 0.71 0.326862
Target:  5'- uUUCGGUCccugUGG-GCCuGCCGGGCCUGCc -3'
miRNA:   3'- cAAGCCGG----ACCaCGG-UGGUUUGGGCG- -5'
21736 3' -57.3 NC_004813.1 + 44391 0.82 0.06308
Target:  5'- --cCGGCCUGGUGCCugUGGgacaugcugacccACCCGCg -3'
miRNA:   3'- caaGCCGGACCACGGugGUU-------------UGGGCG- -5'
21736 3' -57.3 NC_004813.1 + 20817 1.12 0.000395
Target:  5'- aGUUCGGCCUGGUGCCACCAAACCCGCg -3'
miRNA:   3'- -CAAGCCGGACCACGGUGGUUUGGGCG- -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.