miRNA display CGI


Results 1 - 20 of 23 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
116 5' -55.2 AC_000006.1 + 16247 0.66 0.57145
Target:  5'- gGUCaAGGU---GCGCCCCaucaaGCAGGUGg -3'
miRNA:   3'- -CAG-UCCGcuuUGCGGGGa----CGUUCACg -5'
116 5' -55.2 AC_000006.1 + 18058 0.66 0.57145
Target:  5'- -cCAGaGUGAAGCGCgCCUUGUAcgaguacuGGUGUc -3'
miRNA:   3'- caGUC-CGCUUUGCG-GGGACGU--------UCACG- -5'
116 5' -55.2 AC_000006.1 + 16916 0.66 0.537745
Target:  5'- -gCAGGCGucgcAGCGCCgUUGau-GUGCg -3'
miRNA:   3'- caGUCCGCu---UUGCGGgGACguuCACG- -5'
116 5' -55.2 AC_000006.1 + 21756 0.67 0.531082
Target:  5'- -gCAGcGCGGcgcggggaugaugcuGAUGCCCgugcaCUGCGAGUGUa -3'
miRNA:   3'- caGUC-CGCU---------------UUGCGGG-----GACGUUCACG- -5'
116 5' -55.2 AC_000006.1 + 9791 0.67 0.526657
Target:  5'- ---cGGUGguAgGCCCCUGUguugaugguguAAGUGCa -3'
miRNA:   3'- caguCCGCuuUgCGGGGACG-----------UUCACG- -5'
116 5' -55.2 AC_000006.1 + 5124 0.67 0.493944
Target:  5'- cGUCAcGGUGAAgggguGgGCCCCuggcugggcgcuUGCAagGGUGCg -3'
miRNA:   3'- -CAGU-CCGCUU-----UgCGGGG------------ACGU--UCACG- -5'
116 5' -55.2 AC_000006.1 + 16321 0.67 0.493944
Target:  5'- -cCAGGCccGGCGCCaCCUGCuugauGGgGCg -3'
miRNA:   3'- caGUCCGcuUUGCGG-GGACGu----UCaCG- -5'
116 5' -55.2 AC_000006.1 + 29717 0.67 0.493944
Target:  5'- aGUCGGGCGAGGCGUgCgaaaCUGCcgcaAAG-GCa -3'
miRNA:   3'- -CAGUCCGCUUUGCGgG----GACG----UUCaCG- -5'
116 5' -55.2 AC_000006.1 + 4713 0.67 0.483245
Target:  5'- gGUCGGGcCGuAGAUGaCCCCgaugacggguUGCAGGUGg -3'
miRNA:   3'- -CAGUCC-GC-UUUGC-GGGG----------ACGUUCACg -5'
116 5' -55.2 AC_000006.1 + 23287 0.67 0.472658
Target:  5'- -cCAGaGCGAggAGCGCgUCggcGCGGGUGCg -3'
miRNA:   3'- caGUC-CGCU--UUGCGgGGa--CGUUCACG- -5'
116 5' -55.2 AC_000006.1 + 21002 0.68 0.430543
Target:  5'- -gCAGGCGGcggagucGgGCCCCUGCAcggucugGGUGg -3'
miRNA:   3'- caGUCCGCUu------UgCGGGGACGU-------UCACg -5'
116 5' -55.2 AC_000006.1 + 30564 0.68 0.420608
Target:  5'- --uGGGUGAugacuaugggguuGACGCCCaccaUGCAGGUGa -3'
miRNA:   3'- cagUCCGCU-------------UUGCGGGg---ACGUUCACg -5'
116 5' -55.2 AC_000006.1 + 30533 0.69 0.40116
Target:  5'- aGUCGGGCGAgaccAACggcugcauccacuGCUCCUGCGaaagccccgAGUGUa -3'
miRNA:   3'- -CAGUCCGCU----UUG-------------CGGGGACGU---------UCACG- -5'
116 5' -55.2 AC_000006.1 + 25082 0.69 0.392598
Target:  5'- -gCGGGCGAAACGauguuCCCCccgcagucuUGCAAGcagGCg -3'
miRNA:   3'- caGUCCGCUUUGC-----GGGG---------ACGUUCa--CG- -5'
116 5' -55.2 AC_000006.1 + 3208 0.7 0.347245
Target:  5'- aGUCcaGGGU---GCGCgCUUGCGAGUGCg -3'
miRNA:   3'- -CAG--UCCGcuuUGCGgGGACGUUCACG- -5'
116 5' -55.2 AC_000006.1 + 17874 0.7 0.338636
Target:  5'- cUCAGGUacuccGAGGCGUCCUgcccgGCGAuGUGCa -3'
miRNA:   3'- cAGUCCG-----CUUUGCGGGGa----CGUU-CACG- -5'
116 5' -55.2 AC_000006.1 + 14230 0.72 0.261136
Target:  5'- -cCGGGUGAAAgGCCUC-GUAGGUGUa -3'
miRNA:   3'- caGUCCGCUUUgCGGGGaCGUUCACG- -5'
116 5' -55.2 AC_000006.1 + 9670 0.72 0.240884
Target:  5'- -gCGGGUGAccccGACGCCCCUGagcGGcUGCa -3'
miRNA:   3'- caGUCCGCU----UUGCGGGGACgu-UC-ACG- -5'
116 5' -55.2 AC_000006.1 + 8951 0.73 0.215937
Target:  5'- aUCA-GCGAGAUGCCCCUGCGcc-GCu -3'
miRNA:   3'- cAGUcCGCUUUGCGGGGACGUucaCG- -5'
116 5' -55.2 AC_000006.1 + 15461 0.74 0.18269
Target:  5'- cUCGGGCG--GCGCCCCaugGCGGgcGUGCu -3'
miRNA:   3'- cAGUCCGCuuUGCGGGGa--CGUU--CACG- -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.