miRNA display CGI


Results 1 - 18 of 18 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
1387 5' -52.8 NC_001335.1 + 43223 0.66 0.842047
Target:  5'- aGUCCCGGacucGAAGCucACCGUUGa -3'
miRNA:   3'- -CAGGGCCacuuCUUCGcuUGGUAGCg -5'
1387 5' -52.8 NC_001335.1 + 2582 0.66 0.833059
Target:  5'- -gCCCGG--AGGAAGCGAccacccgaacGCCAUCcuggGCg -3'
miRNA:   3'- caGGGCCacUUCUUCGCU----------UGGUAG----CG- -5'
1387 5' -52.8 NC_001335.1 + 20350 0.66 0.832147
Target:  5'- -cCCCGGUGAAcacauCGAcgcccucgaccugGCCGUCGCc -3'
miRNA:   3'- caGGGCCACUUcuuc-GCU-------------UGGUAGCG- -5'
1387 5' -52.8 NC_001335.1 + 977 0.66 0.823851
Target:  5'- cUCCUGGUcgacuuuuGAAG-AGCGAAugcCCAUCGa -3'
miRNA:   3'- cAGGGCCA--------CUUCuUCGCUU---GGUAGCg -5'
1387 5' -52.8 NC_001335.1 + 19009 0.66 0.823851
Target:  5'- uUCUCGGUGGAGccGgGAACgGUC-Ca -3'
miRNA:   3'- cAGGGCCACUUCuuCgCUUGgUAGcG- -5'
1387 5' -52.8 NC_001335.1 + 39100 0.66 0.814435
Target:  5'- cUCUCGGUGAuGAguAGCGcAUCGUgGCc -3'
miRNA:   3'- cAGGGCCACUuCU--UCGCuUGGUAgCG- -5'
1387 5' -52.8 NC_001335.1 + 17890 0.67 0.804821
Target:  5'- aUCCCGGaGggGucGGUGcccgacuCCAUCGCc -3'
miRNA:   3'- cAGGGCCaCuuCu-UCGCuu-----GGUAGCG- -5'
1387 5' -52.8 NC_001335.1 + 1570 0.67 0.795019
Target:  5'- cUCCuCGGaGAGGAucuuccgcauGGCGucauCCAUCGCc -3'
miRNA:   3'- cAGG-GCCaCUUCU----------UCGCuu--GGUAGCG- -5'
1387 5' -52.8 NC_001335.1 + 38577 0.67 0.795019
Target:  5'- aUCCgGGUGGu--AGCGAagaaucGCCcUCGCg -3'
miRNA:   3'- cAGGgCCACUucuUCGCU------UGGuAGCG- -5'
1387 5' -52.8 NC_001335.1 + 50378 0.67 0.771825
Target:  5'- -cCCCGagagGGAGucgaacccucacaccGCGAACCGUCGCg -3'
miRNA:   3'- caGGGCca--CUUCuu-------------CGCUUGGUAGCG- -5'
1387 5' -52.8 NC_001335.1 + 32623 0.67 0.754167
Target:  5'- -gCCUGGUGGcgAGAAGCGGuacuGCCAgcacgGCg -3'
miRNA:   3'- caGGGCCACU--UCUUCGCU----UGGUag---CG- -5'
1387 5' -52.8 NC_001335.1 + 48801 0.69 0.689265
Target:  5'- -gCCCGGUGA--GAGCGGAUaCAUCaaGCg -3'
miRNA:   3'- caGGGCCACUucUUCGCUUG-GUAG--CG- -5'
1387 5' -52.8 NC_001335.1 + 1246 0.69 0.655884
Target:  5'- cGUCaCCGGUGGcggcGGAAGUGgAGCCGgcgGCg -3'
miRNA:   3'- -CAG-GGCCACU----UCUUCGC-UUGGUag-CG- -5'
1387 5' -52.8 NC_001335.1 + 31247 0.69 0.643578
Target:  5'- uGUCCCagcggcucaacgaGGUGcuuGcAGCGAACCGUCGg -3'
miRNA:   3'- -CAGGG-------------CCACuu-CuUCGCUUGGUAGCg -5'
1387 5' -52.8 NC_001335.1 + 30657 0.71 0.577683
Target:  5'- gGUCCCGGU--AGggGCcuuGCCGUCagGCa -3'
miRNA:   3'- -CAGGGCCAcuUCuuCGcu-UGGUAG--CG- -5'
1387 5' -52.8 NC_001335.1 + 14238 0.75 0.3567
Target:  5'- aGUCCUGGUaGAGGGAGCuGAACUgaGUgGCg -3'
miRNA:   3'- -CAGGGCCA-CUUCUUCG-CUUGG--UAgCG- -5'
1387 5' -52.8 NC_001335.1 + 20745 0.77 0.256912
Target:  5'- -gCCCGGaGAucGGGAGCGAGaugcCCAUCGCa -3'
miRNA:   3'- caGGGCCaCU--UCUUCGCUU----GGUAGCG- -5'
1387 5' -52.8 NC_001335.1 + 33593 1.12 0.001163
Target:  5'- uGUCCCGGUGAAGAAGCGAACCAUCGCu -3'
miRNA:   3'- -CAGGGCCACUUCUUCGCUUGGUAGCG- -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.