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
27020 3' -54.9 NC_005832.1 + 79865 0.66 0.898147
Target:  5'- uCCugAggAAGaUGAGgGCUCCCUcuggcaggggUUCUGCc -3'
miRNA:   3'- -GGugU--UUC-ACUCgCGGGGGG----------AAGACG- -5'
27020 3' -54.9 NC_005832.1 + 41421 0.66 0.898147
Target:  5'- aCUACcGAG--GGCGCCUCCCUgacgGCg -3'
miRNA:   3'- -GGUGuUUCacUCGCGGGGGGAaga-CG- -5'
27020 3' -54.9 NC_005832.1 + 617 0.66 0.877071
Target:  5'- cCCACAGGGgccccgaccagGAcGcCGCCCUgggcuCCUUCUGUa -3'
miRNA:   3'- -GGUGUUUCa----------CU-C-GCGGGG-----GGAAGACG- -5'
27020 3' -54.9 NC_005832.1 + 42785 0.67 0.844105
Target:  5'- uCCGCGGGGUGucagaagaaccuGUGCCCCUacacagUUUUGCa -3'
miRNA:   3'- -GGUGUUUCACu-----------CGCGGGGGg-----AAGACG- -5'
27020 3' -54.9 NC_005832.1 + 32079 0.67 0.837402
Target:  5'- gCCuCGcGGUGGGCGCCCCaucccCUGUc -3'
miRNA:   3'- -GGuGUuUCACUCGCGGGGggaa-GACG- -5'
27020 3' -54.9 NC_005832.1 + 87088 0.67 0.828845
Target:  5'- uCCGCcaaGAAGUGAGCGUCUUCU---UGCa -3'
miRNA:   3'- -GGUG---UUUCACUCGCGGGGGGaagACG- -5'
27020 3' -54.9 NC_005832.1 + 52708 0.68 0.773832
Target:  5'- cCCACAGAGUGAGCGgcggcggCCgCCgcaaaggUCUGa -3'
miRNA:   3'- -GGUGUUUCACUCGCg------GGgGGa------AGACg -5'
27020 3' -54.9 NC_005832.1 + 89806 0.68 0.773832
Target:  5'- -aACAGGGUGAGgGUcgUCCCCUUCg-- -3'
miRNA:   3'- ggUGUUUCACUCgCG--GGGGGAAGacg -5'
27020 3' -54.9 NC_005832.1 + 54195 0.69 0.754319
Target:  5'- gCCGCAGAGUcccuccacuGAGuCGCCagcaCCCUcCUGUu -3'
miRNA:   3'- -GGUGUUUCA---------CUC-GCGGg---GGGAaGACG- -5'
27020 3' -54.9 NC_005832.1 + 20670 0.69 0.724219
Target:  5'- aCCGCccuGGUGAGgGCCCUgCCUUCcGg -3'
miRNA:   3'- -GGUGuu-UCACUCgCGGGG-GGAAGaCg -5'
27020 3' -54.9 NC_005832.1 + 47075 0.69 0.724219
Target:  5'- uCCACGAcGUGGGCGCCUauguagUCUUCgucggGCu -3'
miRNA:   3'- -GGUGUUuCACUCGCGGGg-----GGAAGa----CG- -5'
27020 3' -54.9 NC_005832.1 + 91920 0.69 0.724219
Target:  5'- aCCACGucaaaguccaGGGUGAGCGgagUCUCUUUCUGCc -3'
miRNA:   3'- -GGUGU----------UUCACUCGCg--GGGGGAAGACG- -5'
27020 3' -54.9 NC_005832.1 + 43971 0.69 0.714004
Target:  5'- -aGCGAGGUGGuGUGCCuCCCCgaCUGg -3'
miRNA:   3'- ggUGUUUCACU-CGCGG-GGGGaaGACg -5'
27020 3' -54.9 NC_005832.1 + 23443 0.7 0.682955
Target:  5'- cCCGCccccucUGGGUGCCCCUUgUCUGCu -3'
miRNA:   3'- -GGUGuuuc--ACUCGCGGGGGGaAGACG- -5'
27020 3' -54.9 NC_005832.1 + 22897 0.71 0.598877
Target:  5'- aCCACAGAGUGuGUGCUggaUUUCUGCg -3'
miRNA:   3'- -GGUGUUUCACuCGCGGgggGAAGACG- -5'
27020 3' -54.9 NC_005832.1 + 55958 0.72 0.577949
Target:  5'- gCCGuCGAGGUaAGCGUCUCCCUUCUuuggGCc -3'
miRNA:   3'- -GGU-GUUUCAcUCGCGGGGGGAAGA----CG- -5'
27020 3' -54.9 NC_005832.1 + 65606 0.73 0.506345
Target:  5'- aCCACGGGgacGUGAGgGCCCCCUcUC-GCc -3'
miRNA:   3'- -GGUGUUU---CACUCgCGGGGGGaAGaCG- -5'
27020 3' -54.9 NC_005832.1 + 2626 1.14 0.001059
Target:  5'- cCCACAAAGUGAGCGCCCCCCUUCUGCa -3'
miRNA:   3'- -GGUGUUUCACUCGCGGGGGGAAGACG- -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.