miRNA display CGI


Results 1 - 20 of 28 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
1547 3' -57.4 NC_001347.2 + 920 0.73 0.61271
Target:  5'- gUCGCGGCCGcGgGGCCgGAgggcCUUCGGGg -3'
miRNA:   3'- -GGCGCCGGU-CgUUGGgCUa---GAAGCCU- -5'
1547 3' -57.4 NC_001347.2 + 19651 0.68 0.840829
Target:  5'- uCCGCGGUCAGguccagaUAGCCCGGUCggUCu-- -3'
miRNA:   3'- -GGCGCCGGUC-------GUUGGGCUAGa-AGccu -5'
1547 3' -57.4 NC_001347.2 + 25314 0.72 0.661523
Target:  5'- aCC-CGGCUGGCGACCCGcaGUCUggcUUGGGu -3'
miRNA:   3'- -GGcGCCGGUCGUUGGGC--UAGA---AGCCU- -5'
1547 3' -57.4 NC_001347.2 + 37077 0.66 0.939851
Target:  5'- gCCGUGGCCuGUGGCCCGAagauguacacauaUCga-GGu -3'
miRNA:   3'- -GGCGCCGGuCGUUGGGCU-------------AGaagCCu -5'
1547 3' -57.4 NC_001347.2 + 38095 0.67 0.909574
Target:  5'- uCCGCcGCCAGCGgguacacguGCCCG-UCcagCGGGc -3'
miRNA:   3'- -GGCGcCGGUCGU---------UGGGCuAGaa-GCCU- -5'
1547 3' -57.4 NC_001347.2 + 39497 0.68 0.87671
Target:  5'- cCCGCGGCC-GCGACCaagggg-CGGGg -3'
miRNA:   3'- -GGCGCCGGuCGUUGGgcuagaaGCCU- -5'
1547 3' -57.4 NC_001347.2 + 44382 0.66 0.932872
Target:  5'- gCCGgGGCUucuggagaacgccggGGCAGCagCGAUCUggGGAa -3'
miRNA:   3'- -GGCgCCGG---------------UCGUUGg-GCUAGAagCCU- -5'
1547 3' -57.4 NC_001347.2 + 71661 0.77 0.386342
Target:  5'- gCCGCGGCCGGCGGCCUcuuGUUUUCGu- -3'
miRNA:   3'- -GGCGCCGGUCGUUGGGc--UAGAAGCcu -5'
1547 3' -57.4 NC_001347.2 + 78431 0.66 0.935722
Target:  5'- aCC-CGGcCCGGCGgcGCCCGAg---CGGGa -3'
miRNA:   3'- -GGcGCC-GGUCGU--UGGGCUagaaGCCU- -5'
1547 3' -57.4 NC_001347.2 + 80759 0.67 0.88479
Target:  5'- gCCGCGGgCGGCGuggagggagaaACCCGAUCa----- -3'
miRNA:   3'- -GGCGCCgGUCGU-----------UGGGCUAGaagccu -5'
1547 3' -57.4 NC_001347.2 + 82221 0.66 0.935722
Target:  5'- uCCGCGGUaugcgugaccaCAcGCGGCUCGugcaCUUCGGGa -3'
miRNA:   3'- -GGCGCCG-----------GU-CGUUGGGCua--GAAGCCU- -5'
1547 3' -57.4 NC_001347.2 + 85021 0.67 0.882129
Target:  5'- aCCGcCGGCCAGCAACUCGcagcccaguucgCUUuccucgcgcucgCGGAa -3'
miRNA:   3'- -GGC-GCCGGUCGUUGGGCua----------GAA------------GCCU- -5'
1547 3' -57.4 NC_001347.2 + 88637 0.69 0.809278
Target:  5'- aCCGCGGCUugagcGGCGGCCUGcgcagCUUCGc- -3'
miRNA:   3'- -GGCGCCGG-----UCGUUGGGCua---GAAGCcu -5'
1547 3' -57.4 NC_001347.2 + 98051 0.68 0.849269
Target:  5'- gCCGCGGCggCAGCGGCCgCGG-CUUCc-- -3'
miRNA:   3'- -GGCGCCG--GUCGUUGG-GCUaGAAGccu -5'
1547 3' -57.4 NC_001347.2 + 99551 0.67 0.88479
Target:  5'- gCGCGGCagugaCAGCuuguGACCCGcgCUcgucgUCGGGa -3'
miRNA:   3'- gGCGCCG-----GUCG----UUGGGCuaGA-----AGCCU- -5'
1547 3' -57.4 NC_001347.2 + 100196 0.66 0.920151
Target:  5'- gCCGCGGCCucgcccaGGUAGCCgGAgacggCGGu -3'
miRNA:   3'- -GGCGCCGG-------UCGUUGGgCUagaa-GCCu -5'
1547 3' -57.4 NC_001347.2 + 101256 0.68 0.864054
Target:  5'- gUGUGGCCAGCGGCgCCGGUUUg---- -3'
miRNA:   3'- gGCGCCGGUCGUUG-GGCUAGAagccu -5'
1547 3' -57.4 NC_001347.2 + 105989 0.66 0.940299
Target:  5'- gCGCGGCCgcAGCAcgugucGCCCGAcgacgagaUCgcgCGGc -3'
miRNA:   3'- gGCGCCGG--UCGU------UGGGCU--------AGaa-GCCu -5'
1547 3' -57.4 NC_001347.2 + 113210 0.67 0.88479
Target:  5'- aCUGCGGCU-GUcGCCCGAacgcUCggCGGAc -3'
miRNA:   3'- -GGCGCCGGuCGuUGGGCU----AGaaGCCU- -5'
1547 3' -57.4 NC_001347.2 + 113937 0.71 0.709791
Target:  5'- cCCGCGGCaaCAGCAAUUCGGccUCgucCGGAg -3'
miRNA:   3'- -GGCGCCG--GUCGUUGGGCU--AGaa-GCCU- -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.