miRNA display CGI


Results 1 - 20 of 22 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
30828 5' -62.6 NC_006552.1 + 29037 0.66 0.374933
Target:  5'- aUGCCGAggaaucccagcCUGGCGGCuccaaGAAGCgCGUGc -3'
miRNA:   3'- aACGGCU-----------GGCCGCCGcg---CUUCG-GCAU- -5'
30828 5' -62.6 NC_006552.1 + 45363 0.66 0.374933
Target:  5'- aUGUCGGCCGGUaucuGGCaGCGcGGCCc-- -3'
miRNA:   3'- aACGGCUGGCCG----CCG-CGCuUCGGcau -5'
30828 5' -62.6 NC_006552.1 + 58444 0.66 0.369913
Target:  5'- -aGCCGcuuggcaccgucgucGCaGGCGGCGUGAAGCaCGc- -3'
miRNA:   3'- aaCGGC---------------UGgCCGCCGCGCUUCG-GCau -5'
30828 5' -62.6 NC_006552.1 + 12951 0.66 0.365764
Target:  5'- -cGCUGGCCuuggccuGGCGGUGCguucGAGGCCa-- -3'
miRNA:   3'- aaCGGCUGG-------CCGCCGCG----CUUCGGcau -5'
30828 5' -62.6 NC_006552.1 + 15747 0.66 0.350295
Target:  5'- -aGCCGGCauccggCGGUGGCGCG-AGCUu-- -3'
miRNA:   3'- aaCGGCUG------GCCGCCGCGCuUCGGcau -5'
30828 5' -62.6 NC_006552.1 + 36150 0.66 0.334521
Target:  5'- cUGCCuGAUCGGCGGCauCGgcGCUGg- -3'
miRNA:   3'- aACGG-CUGGCCGCCGc-GCuuCGGCau -5'
30828 5' -62.6 NC_006552.1 + 44763 0.66 0.334521
Target:  5'- -gGCCGACCGuCGGCGgacuCGAcauGCCGg- -3'
miRNA:   3'- aaCGGCUGGCcGCCGC----GCUu--CGGCau -5'
30828 5' -62.6 NC_006552.1 + 21395 0.67 0.311846
Target:  5'- gUGCCGGCCGGUcagGCGAAG-CGUGa -3'
miRNA:   3'- aACGGCUGGCCGccgCGCUUCgGCAU- -5'
30828 5' -62.6 NC_006552.1 + 32188 0.67 0.31111
Target:  5'- -gGCCGAcuucagcaCCGGCauggucgGGCGCGAcauaucGGCCGg- -3'
miRNA:   3'- aaCGGCU--------GGCCG-------CCGCGCU------UCGGCau -5'
30828 5' -62.6 NC_006552.1 + 61393 0.67 0.307453
Target:  5'- -cGCCGG-CGGCGGCuacaccacgaaccucGaCGAAGCCGa- -3'
miRNA:   3'- aaCGGCUgGCCGCCG---------------C-GCUUCGGCau -5'
30828 5' -62.6 NC_006552.1 + 44418 0.67 0.297389
Target:  5'- cUGCCGGCCGGCgaaaccGGCuCGAGuaCGUGc -3'
miRNA:   3'- aACGGCUGGCCG------CCGcGCUUcgGCAU- -5'
30828 5' -62.6 NC_006552.1 + 47705 0.67 0.297389
Target:  5'- -aGCCGGa-GGUGGCGCGuaacGCCGg- -3'
miRNA:   3'- aaCGGCUggCCGCCGCGCuu--CGGCau -5'
30828 5' -62.6 NC_006552.1 + 54674 0.68 0.276687
Target:  5'- -cGCCGAcggcaaccaugaCCGaGUGGCuGCGAAGCCa-- -3'
miRNA:   3'- aaCGGCU------------GGC-CGCCG-CGCUUCGGcau -5'
30828 5' -62.6 NC_006552.1 + 22239 0.68 0.26808
Target:  5'- cUGCCGuggccguaucgaccACCaGCacccuGGCGCGGAGCCGg- -3'
miRNA:   3'- aACGGC--------------UGGcCG-----CCGCGCUUCGGCau -5'
30828 5' -62.6 NC_006552.1 + 20814 0.68 0.257152
Target:  5'- -cGCuCGcguCCGGCGGCGUGgcGUCGa- -3'
miRNA:   3'- aaCG-GCu--GGCCGCCGCGCuuCGGCau -5'
30828 5' -62.6 NC_006552.1 + 7616 0.69 0.232879
Target:  5'- gUGCaGACCGGCGGCG-GuuuGCCGc- -3'
miRNA:   3'- aACGgCUGGCCGCCGCgCuu-CGGCau -5'
30828 5' -62.6 NC_006552.1 + 34826 0.69 0.215963
Target:  5'- -gGCCGA--GGCGGCGC-AGGUCGUAg -3'
miRNA:   3'- aaCGGCUggCCGCCGCGcUUCGGCAU- -5'
30828 5' -62.6 NC_006552.1 + 63484 0.71 0.162716
Target:  5'- cUGCCGGCCGcCGGCGCcGGAGCa--- -3'
miRNA:   3'- aACGGCUGGCcGCCGCG-CUUCGgcau -5'
30828 5' -62.6 NC_006552.1 + 26907 0.74 0.095339
Target:  5'- aUGCCGGCCaGCGGCaccaGgGAAGUCGUGg -3'
miRNA:   3'- aACGGCUGGcCGCCG----CgCUUCGGCAU- -5'
30828 5' -62.6 NC_006552.1 + 28741 0.76 0.070526
Target:  5'- -aGCCGGCCGGCGGCGaaggcauGCCGa- -3'
miRNA:   3'- aaCGGCUGGCCGCCGCgcuu---CGGCau -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.