miRNA display CGI


Results 1 - 20 of 83 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
13964 3' -57.9 NC_003521.1 + 92080 0.67 0.895876
Target:  5'- aCCG-GGGGUCGGGGGgUGCGCagGGCGg -3'
miRNA:   3'- gGGUgCUCCAGCCUCCaGUGCG--CUGU- -5'
13964 3' -57.9 NC_003521.1 + 32699 0.68 0.850856
Target:  5'- gCCACGgggcuaauauagcuaGGGUgGGGGG-UugGCGACGc -3'
miRNA:   3'- gGGUGC---------------UCCAgCCUCCaGugCGCUGU- -5'
13964 3' -57.9 NC_003521.1 + 210774 0.68 0.855287
Target:  5'- cCCCGCGuGGGUUGGGGGaCAUcucuaGgGACAc -3'
miRNA:   3'- -GGGUGC-UCCAGCCUCCaGUG-----CgCUGU- -5'
13964 3' -57.9 NC_003521.1 + 78763 0.68 0.869584
Target:  5'- gCCACGAGGUCcGAGacGUCGCaGuCGACc -3'
miRNA:   3'- gGGUGCUCCAGcCUC--CAGUG-C-GCUGu -5'
13964 3' -57.9 NC_003521.1 + 71262 0.68 0.876451
Target:  5'- uCCCGCcaacaucggcgGAGG-CGGGGG-C-CGCGGCAc -3'
miRNA:   3'- -GGGUG-----------CUCCaGCCUCCaGuGCGCUGU- -5'
13964 3' -57.9 NC_003521.1 + 206619 0.68 0.876451
Target:  5'- aCCCACGgucGGGU-GGAcGUguCGCGACAu -3'
miRNA:   3'- -GGGUGC---UCCAgCCUcCAguGCGCUGU- -5'
13964 3' -57.9 NC_003521.1 + 29385 0.68 0.883125
Target:  5'- aCCGCGAGGccgaGGAGG--ACGaCGACGa -3'
miRNA:   3'- gGGUGCUCCag--CCUCCagUGC-GCUGU- -5'
13964 3' -57.9 NC_003521.1 + 122578 0.67 0.889601
Target:  5'- gUCACGGGGcUCGGuuucucGGUCGC-CGGCGu -3'
miRNA:   3'- gGGUGCUCC-AGCCu-----CCAGUGcGCUGU- -5'
13964 3' -57.9 NC_003521.1 + 198313 0.67 0.889601
Target:  5'- uCCCugGGGGU-GGGGGaUggGCGGCu -3'
miRNA:   3'- -GGGugCUCCAgCCUCCaGugCGCUGu -5'
13964 3' -57.9 NC_003521.1 + 107373 0.69 0.840273
Target:  5'- gUCACGAGGUCcuGGA-GUUGCGUGGCu -3'
miRNA:   3'- gGGUGCUCCAG--CCUcCAGUGCGCUGu -5'
13964 3' -57.9 NC_003521.1 + 209702 0.69 0.832511
Target:  5'- cUCCACGAacaggcgcuccaGGUCcgaGGAGGUCGugcgcaGCGGCAg -3'
miRNA:   3'- -GGGUGCU------------CCAG---CCUCCAGUg-----CGCUGU- -5'
13964 3' -57.9 NC_003521.1 + 150635 0.69 0.824587
Target:  5'- gCUGCGcAGG-CGGGGGcgUGCGCGACGa -3'
miRNA:   3'- gGGUGC-UCCaGCCUCCa-GUGCGCUGU- -5'
13964 3' -57.9 NC_003521.1 + 100507 0.74 0.5759
Target:  5'- aCCGCGGGcGUCGGAcggugcacGGUgGCGgGACAg -3'
miRNA:   3'- gGGUGCUC-CAGCCU--------CCAgUGCgCUGU- -5'
13964 3' -57.9 NC_003521.1 + 35386 0.73 0.595033
Target:  5'- cCCCucgGCGAGGaCGcGGGcCGCGCGACAg -3'
miRNA:   3'- -GGG---UGCUCCaGCcUCCaGUGCGCUGU- -5'
13964 3' -57.9 NC_003521.1 + 101117 0.72 0.643178
Target:  5'- cCCCGCGAggggggcgGGUCGGcGGG-CACGCGGa- -3'
miRNA:   3'- -GGGUGCU--------CCAGCC-UCCaGUGCGCUgu -5'
13964 3' -57.9 NC_003521.1 + 89742 0.72 0.691122
Target:  5'- aCCCGaGGGGUCGGcGGUCcagaaacccGCGCGcACAg -3'
miRNA:   3'- -GGGUgCUCCAGCCuCCAG---------UGCGC-UGU- -5'
13964 3' -57.9 NC_003521.1 + 168061 0.71 0.700609
Target:  5'- gCCCGucuCGuGGUaGGAGGUagaGCGCGGCAc -3'
miRNA:   3'- -GGGU---GCuCCAgCCUCCAg--UGCGCUGU- -5'
13964 3' -57.9 NC_003521.1 + 87387 0.71 0.710046
Target:  5'- --gACGAGGcggCGGAGGUgACGcCGACGc -3'
miRNA:   3'- gggUGCUCCa--GCCUCCAgUGC-GCUGU- -5'
13964 3' -57.9 NC_003521.1 + 94523 0.7 0.791408
Target:  5'- --aACGAGGUUGGAGGagACG-GACGu -3'
miRNA:   3'- gggUGCUCCAGCCUCCagUGCgCUGU- -5'
13964 3' -57.9 NC_003521.1 + 80562 0.69 0.799912
Target:  5'- gCUCAUGAGGUCGucgagucccuuGAGGUaGgGCGGCAg -3'
miRNA:   3'- -GGGUGCUCCAGC-----------CUCCAgUgCGCUGU- -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.