miRNA display CGI


Results 1 - 20 of 39 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
29581 3' -57.3 NC_006151.1 + 19760 0.73 0.463473
Target:  5'- -----aGGUCGCCGUCGAGGUcaucgucgccggCCUCGg -3'
miRNA:   3'- gaagagCUAGCGGCAGCUCCG------------GGAGC- -5'
29581 3' -57.3 NC_006151.1 + 111466 0.73 0.472657
Target:  5'- -gUCUgCGAggCGUCGUCGGGGCCCa-- -3'
miRNA:   3'- gaAGA-GCUa-GCGGCAGCUCCGGGagc -5'
29581 3' -57.3 NC_006151.1 + 37886 0.73 0.491294
Target:  5'- ----cCGGggaggCGaCCGUCGAGGCCCUCu -3'
miRNA:   3'- gaagaGCUa----GC-GGCAGCUCCGGGAGc -5'
29581 3' -57.3 NC_006151.1 + 31018 0.72 0.549064
Target:  5'- -----gGGUCGCCGcCGcGGCCCUCGc -3'
miRNA:   3'- gaagagCUAGCGGCaGCuCCGGGAGC- -5'
29581 3' -57.3 NC_006151.1 + 13176 0.71 0.588734
Target:  5'- ----aCGGUCGCCGcggccgucUCGGGGCCCgCGg -3'
miRNA:   3'- gaagaGCUAGCGGC--------AGCUCCGGGaGC- -5'
29581 3' -57.3 NC_006151.1 + 105448 0.7 0.649005
Target:  5'- --aCUCGG-CGCgCGcCGGGGCCCUgGg -3'
miRNA:   3'- gaaGAGCUaGCG-GCaGCUCCGGGAgC- -5'
29581 3' -57.3 NC_006151.1 + 23230 0.7 0.659049
Target:  5'- --cCUCGGucaccuccUCGCCcUCGGGGgCCUCGg -3'
miRNA:   3'- gaaGAGCU--------AGCGGcAGCUCCgGGAGC- -5'
29581 3' -57.3 NC_006151.1 + 76220 0.7 0.659049
Target:  5'- ----gUGcgUGCCGUCGAGGUUCUCGc -3'
miRNA:   3'- gaagaGCuaGCGGCAGCUCCGGGAGC- -5'
29581 3' -57.3 NC_006151.1 + 114825 0.69 0.741782
Target:  5'- --aCUCGGUguugaggggcaCGCCGUgcgcgaccacguaggCGGGGUCCUCGg -3'
miRNA:   3'- gaaGAGCUA-----------GCGGCA---------------GCUCCGGGAGC- -5'
29581 3' -57.3 NC_006151.1 + 37523 0.68 0.747503
Target:  5'- --aCUCGAggaaGCagcaCGAGGCCCUCGu -3'
miRNA:   3'- gaaGAGCUag--CGgca-GCUCCGGGAGC- -5'
29581 3' -57.3 NC_006151.1 + 23076 0.68 0.751297
Target:  5'- -aUCUCGAU-GuuGUCGAGGUcgcuggaggucagcuCCUCGu -3'
miRNA:   3'- gaAGAGCUAgCggCAGCUCCG---------------GGAGC- -5'
29581 3' -57.3 NC_006151.1 + 114236 0.68 0.754133
Target:  5'- --cCUCGGUgGCCGcgCGGGaccccucggagcgcGCCCUCGa -3'
miRNA:   3'- gaaGAGCUAgCGGCa-GCUC--------------CGGGAGC- -5'
29581 3' -57.3 NC_006151.1 + 105050 0.68 0.766307
Target:  5'- --gCUCGG-CGCCGUCGAGgaggcGCCCg-- -3'
miRNA:   3'- gaaGAGCUaGCGGCAGCUC-----CGGGagc -5'
29581 3' -57.3 NC_006151.1 + 23119 0.68 0.775541
Target:  5'- --cCUCGGccccgCGCCccuccuccGUCGccGGGCCCUCGg -3'
miRNA:   3'- gaaGAGCUa----GCGG--------CAGC--UCCGGGAGC- -5'
29581 3' -57.3 NC_006151.1 + 23187 0.68 0.775541
Target:  5'- -aUCUCGAU-GuuGUCGAGGUCgCUgGa -3'
miRNA:   3'- gaAGAGCUAgCggCAGCUCCGG-GAgC- -5'
29581 3' -57.3 NC_006151.1 + 57251 0.68 0.78465
Target:  5'- --cCUCGG-CGuCCG-CGcGGCCCUCGa -3'
miRNA:   3'- gaaGAGCUaGC-GGCaGCuCCGGGAGC- -5'
29581 3' -57.3 NC_006151.1 + 36087 0.68 0.793627
Target:  5'- uCUUCUcCGAcgaCGCCGcCGAGGCCgaggccgccgucCUCGc -3'
miRNA:   3'- -GAAGA-GCUa--GCGGCaGCUCCGG------------GAGC- -5'
29581 3' -57.3 NC_006151.1 + 18457 0.68 0.793627
Target:  5'- --cCUCG-UCGUCGUCGucGCCgUCGu -3'
miRNA:   3'- gaaGAGCuAGCGGCAGCucCGGgAGC- -5'
29581 3' -57.3 NC_006151.1 + 136870 0.68 0.793627
Target:  5'- ----gUGAcCGCCGUCGAGGagcgCCUCGc -3'
miRNA:   3'- gaagaGCUaGCGGCAGCUCCg---GGAGC- -5'
29581 3' -57.3 NC_006151.1 + 66582 0.67 0.802463
Target:  5'- --gCUCGcgCGCgCGgcCGAGGCgCUCGa -3'
miRNA:   3'- gaaGAGCuaGCG-GCa-GCUCCGgGAGC- -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.