miRNA display CGI


Results 1 - 20 of 93 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
12804 5' -55.6 NC_003387.1 + 35665 1.1 0.00104
Target:  5'- aCCCACUCGAUCGCGUCCUCGACGACGc -3'
miRNA:   3'- -GGGUGAGCUAGCGCAGGAGCUGCUGC- -5'
12804 5' -55.6 NC_003387.1 + 11653 0.81 0.108008
Target:  5'- gCCC-CUCGAUCGCGUcgacagcggCCUCGGCGAUc -3'
miRNA:   3'- -GGGuGAGCUAGCGCA---------GGAGCUGCUGc -5'
12804 5' -55.6 NC_003387.1 + 6662 0.8 0.134423
Target:  5'- aCCCGCUCaagCGCGgugcgcugcagaUCCUCGACGACGc -3'
miRNA:   3'- -GGGUGAGcuaGCGC------------AGGAGCUGCUGC- -5'
12804 5' -55.6 NC_003387.1 + 3343 0.79 0.15801
Target:  5'- gCCCGCUCGuuuggCGCgGUCgUCGACGGCa -3'
miRNA:   3'- -GGGUGAGCua---GCG-CAGgAGCUGCUGc -5'
12804 5' -55.6 NC_003387.1 + 46443 0.77 0.200408
Target:  5'- gCCA--CGGUCGCGUCgUCGAUGACGu -3'
miRNA:   3'- gGGUgaGCUAGCGCAGgAGCUGCUGC- -5'
12804 5' -55.6 NC_003387.1 + 18180 0.77 0.211085
Target:  5'- aCCCGCUgaCGAUCggcugcgagguGCG-CCUCGGCGACGc -3'
miRNA:   3'- -GGGUGA--GCUAG-----------CGCaGGAGCUGCUGC- -5'
12804 5' -55.6 NC_003387.1 + 51739 0.76 0.222249
Target:  5'- cCCCGgUCGA--GCG-CCUCGGCGGCGg -3'
miRNA:   3'- -GGGUgAGCUagCGCaGGAGCUGCUGC- -5'
12804 5' -55.6 NC_003387.1 + 43371 0.76 0.252365
Target:  5'- aCCgGCUCG-UCGaCGUCCuggugcUCGACGACGu -3'
miRNA:   3'- -GGgUGAGCuAGC-GCAGG------AGCUGCUGC- -5'
12804 5' -55.6 NC_003387.1 + 52713 0.75 0.258777
Target:  5'- cCCCGCgaaCGAUCGCGgcgccCCUCG-CGGCa -3'
miRNA:   3'- -GGGUGa--GCUAGCGCa----GGAGCuGCUGc -5'
12804 5' -55.6 NC_003387.1 + 9046 0.75 0.258777
Target:  5'- aUCCACgccagGAUCGCGucgcccUCCUCGGCGACu -3'
miRNA:   3'- -GGGUGag---CUAGCGC------AGGAGCUGCUGc -5'
12804 5' -55.6 NC_003387.1 + 19235 0.75 0.258777
Target:  5'- aUCACgCGAUCGCGggcgccgaccgCCUCGGCGACu -3'
miRNA:   3'- gGGUGaGCUAGCGCa----------GGAGCUGCUGc -5'
12804 5' -55.6 NC_003387.1 + 31413 0.75 0.295714
Target:  5'- cCCCGCUCa--CGCGccacugcucgacggCCUCGACGACGa -3'
miRNA:   3'- -GGGUGAGcuaGCGCa-------------GGAGCUGCUGC- -5'
12804 5' -55.6 NC_003387.1 + 42100 0.74 0.307419
Target:  5'- aCCGCcgCGGUCGCGUCCUgcaugaccgaGGCGACc -3'
miRNA:   3'- gGGUGa-GCUAGCGCAGGAg---------CUGCUGc -5'
12804 5' -55.6 NC_003387.1 + 51357 0.74 0.314157
Target:  5'- gCCACUgCGAgcggucgucggggUCgGCGUCCUCGuCGGCGg -3'
miRNA:   3'- gGGUGA-GCU-------------AG-CGCAGGAGCuGCUGC- -5'
12804 5' -55.6 NC_003387.1 + 24149 0.74 0.314913
Target:  5'- --aGCUUGAggGCGUCgUCGACGGCGa -3'
miRNA:   3'- gggUGAGCUagCGCAGgAGCUGCUGC- -5'
12804 5' -55.6 NC_003387.1 + 11764 0.74 0.314913
Target:  5'- gCUCGgcCUCGAUCGCGUcgcgcaCCUUGGCGACc -3'
miRNA:   3'- -GGGU--GAGCUAGCGCA------GGAGCUGCUGc -5'
12804 5' -55.6 NC_003387.1 + 42965 0.74 0.322544
Target:  5'- cCCgGCg-GAUCGCGUCCUCGACu--- -3'
miRNA:   3'- -GGgUGagCUAGCGCAGGAGCUGcugc -5'
12804 5' -55.6 NC_003387.1 + 20815 0.73 0.345449
Target:  5'- aCCGCUCGGagcaggggauacgUCGCGcgaCgUCGGCGACGg -3'
miRNA:   3'- gGGUGAGCU-------------AGCGCa--GgAGCUGCUGC- -5'
12804 5' -55.6 NC_003387.1 + 47296 0.73 0.346259
Target:  5'- gCC-CUCGGUCGaguuGUCCUCGGCGGg- -3'
miRNA:   3'- gGGuGAGCUAGCg---CAGGAGCUGCUgc -5'
12804 5' -55.6 NC_003387.1 + 25779 0.73 0.351969
Target:  5'- aCCCGCUCGAcauucucggccugcUCgGCGgCCUCGGUGGCGg -3'
miRNA:   3'- -GGGUGAGCU--------------AG-CGCaGGAGCUGCUGC- -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.