miRNA display CGI


Results 21 - 36 of 36 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
1377 5' -52.6 NC_001335.1 + 29061 0.73 0.454072
Target:  5'- --aGAAGcUGGCGAUGgaAGCUgGCCGCa -3'
miRNA:   3'- cagCUUCuACCGUUGC--UCGAaCGGCG- -5'
1377 5' -52.6 NC_001335.1 + 29581 1.11 0.001211
Target:  5'- gGUCGAAGAUGGCAACGAGCUUGCCGCc -3'
miRNA:   3'- -CAGCUUCUACCGUUGCUCGAACGGCG- -5'
1377 5' -52.6 NC_001335.1 + 31884 0.69 0.68486
Target:  5'- aUCGucaaccGGcUGGCuGACcgGGGCUUGCCGCg -3'
miRNA:   3'- cAGCu-----UCuACCG-UUG--CUCGAACGGCG- -5'
1377 5' -52.6 NC_001335.1 + 32267 0.66 0.821374
Target:  5'- -aCGAAGAUcccuacuucGGCGacuucgaugccgACGAGCUgGCCGa -3'
miRNA:   3'- caGCUUCUA---------CCGU------------UGCUCGAaCGGCg -5'
1377 5' -52.6 NC_001335.1 + 32271 0.66 0.820426
Target:  5'- aUCGAucucGGUGGCAGCGAucaGUUUGgcuuucauacucuCCGCu -3'
miRNA:   3'- cAGCUu---CUACCGUUGCU---CGAAC-------------GGCG- -5'
1377 5' -52.6 NC_001335.1 + 32566 0.66 0.830731
Target:  5'- cUCGAAGAa---GACGGGCaaGCCGUa -3'
miRNA:   3'- cAGCUUCUaccgUUGCUCGaaCGGCG- -5'
1377 5' -52.6 NC_001335.1 + 38657 0.66 0.830731
Target:  5'- uUCGAAGAUcccguucaggacGGCGGCGaAGCccucGCCGg -3'
miRNA:   3'- cAGCUUCUA------------CCGUUGC-UCGaa--CGGCg -5'
1377 5' -52.6 NC_001335.1 + 38755 0.71 0.517101
Target:  5'- -gCGGAGAccGGCGA-GGGCUUcGCCGCc -3'
miRNA:   3'- caGCUUCUa-CCGUUgCUCGAA-CGGCG- -5'
1377 5' -52.6 NC_001335.1 + 39617 0.69 0.639785
Target:  5'- --gGAGGAUGcCAGCccGCUUGCCGUa -3'
miRNA:   3'- cagCUUCUACcGUUGcuCGAACGGCG- -5'
1377 5' -52.6 NC_001335.1 + 41370 0.66 0.799072
Target:  5'- uUCGGuguccauccucagcGGAUGGUcgcucgAACGAGCUacgcgggcUGUCGCg -3'
miRNA:   3'- cAGCU--------------UCUACCG------UUGCUCGA--------ACGGCG- -5'
1377 5' -52.6 NC_001335.1 + 42260 0.7 0.594585
Target:  5'- gGUCGAGGAUuGCGACGAuCUgGUCGUa -3'
miRNA:   3'- -CAGCUUCUAcCGUUGCUcGAaCGGCG- -5'
1377 5' -52.6 NC_001335.1 + 42722 0.7 0.594585
Target:  5'- gGUCGGAGAUGG-AACGGGCaggaguucgUGaCGCg -3'
miRNA:   3'- -CAGCUUCUACCgUUGCUCGa--------ACgGCG- -5'
1377 5' -52.6 NC_001335.1 + 45329 0.67 0.750624
Target:  5'- cUCGAGGAguacaucaaGGCuACGGGUUcgucggGCCGCu -3'
miRNA:   3'- cAGCUUCUa--------CCGuUGCUCGAa-----CGGCG- -5'
1377 5' -52.6 NC_001335.1 + 45506 0.72 0.485099
Target:  5'- aGUgGAAGAcgUGGCAugACGAGCccgcGCCGUu -3'
miRNA:   3'- -CAgCUUCU--ACCGU--UGCUCGaa--CGGCG- -5'
1377 5' -52.6 NC_001335.1 + 47799 0.68 0.706018
Target:  5'- gGUCGAAGAgUGGUGACGAcaGCUUGacaucuaCCGa -3'
miRNA:   3'- -CAGCUUCU-ACCGUUGCU--CGAAC-------GGCg -5'
1377 5' -52.6 NC_001335.1 + 49393 0.68 0.718147
Target:  5'- --------cGGCGGCGAgGUUUGCCGCu -3'
miRNA:   3'- cagcuucuaCCGUUGCU-CGAACGGCG- -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.