miRNA display CGI


Results 1 - 20 of 63 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
1592 3' -56.7 NC_001347.2 + 1210 0.68 0.916261
Target:  5'- gCgCGGCGUUUUUGGCcaacaGCaCGGgccGCGCc -3'
miRNA:   3'- -GgGCCGCAAGAGCCG-----UG-GCCaa-UGCG- -5'
1592 3' -56.7 NC_001347.2 + 1495 0.74 0.596815
Target:  5'- aCCUGGCG--CUgGGCGCCGGguucCGCg -3'
miRNA:   3'- -GGGCCGCaaGAgCCGUGGCCaau-GCG- -5'
1592 3' -56.7 NC_001347.2 + 1732 0.72 0.71275
Target:  5'- gCCGGCGgugggC-CGGCACgaCGGUgGCGCu -3'
miRNA:   3'- gGGCCGCaa---GaGCCGUG--GCCAaUGCG- -5'
1592 3' -56.7 NC_001347.2 + 2362 0.67 0.941013
Target:  5'- gCUgGGCGcgCU-GGCGCUGGg-ACGCg -3'
miRNA:   3'- -GGgCCGCaaGAgCCGUGGCCaaUGCG- -5'
1592 3' -56.7 NC_001347.2 + 7116 0.69 0.871996
Target:  5'- uUCGGCGUUCUuucccaaCGGCGuggacggucuCCGGUgACGUu -3'
miRNA:   3'- gGGCCGCAAGA-------GCCGU----------GGCCAaUGCG- -5'
1592 3' -56.7 NC_001347.2 + 8622 0.7 0.835686
Target:  5'- gCUGGCGUUCcCGuaGCgGGU-GCGCa -3'
miRNA:   3'- gGGCCGCAAGaGCcgUGgCCAaUGCG- -5'
1592 3' -56.7 NC_001347.2 + 12800 0.66 0.949415
Target:  5'- gCCGGCGUUUUCacuaCGCCGuGgacgACGCc -3'
miRNA:   3'- gGGCCGCAAGAGcc--GUGGC-Caa--UGCG- -5'
1592 3' -56.7 NC_001347.2 + 14053 0.7 0.811433
Target:  5'- gCCGGCuGUUUcUGcGCACCGGUccgaACGCu -3'
miRNA:   3'- gGGCCG-CAAGaGC-CGUGGCCAa---UGCG- -5'
1592 3' -56.7 NC_001347.2 + 14256 0.67 0.936493
Target:  5'- aUCCGGCugcggGUUCUggcccugaCGGCGCUGcaGUUAUGCc -3'
miRNA:   3'- -GGGCCG-----CAAGA--------GCCGUGGC--CAAUGCG- -5'
1592 3' -56.7 NC_001347.2 + 19754 0.66 0.963734
Target:  5'- gCUGGUGUUg-CcGCACCGGUUGgaGCa -3'
miRNA:   3'- gGGCCGCAAgaGcCGUGGCCAAUg-CG- -5'
1592 3' -56.7 NC_001347.2 + 24657 0.67 0.94532
Target:  5'- uCCUGGCGcacaUCcCGGCGCUaGGUgucACGUg -3'
miRNA:   3'- -GGGCCGCa---AGaGCCGUGG-CCAa--UGCG- -5'
1592 3' -56.7 NC_001347.2 + 31126 0.66 0.95698
Target:  5'- gCCGGCGUcca-GGCugccCUGGUUGcCGCu -3'
miRNA:   3'- gGGCCGCAagagCCGu---GGCCAAU-GCG- -5'
1592 3' -56.7 NC_001347.2 + 37911 0.71 0.768175
Target:  5'- gCCCGuGCGg-CUCGGCGCCcacaGCGCg -3'
miRNA:   3'- -GGGC-CGCaaGAGCCGUGGccaaUGCG- -5'
1592 3' -56.7 NC_001347.2 + 38012 0.71 0.78586
Target:  5'- gCCGcGCGgcCUCGGCGgCGG--GCGCc -3'
miRNA:   3'- gGGC-CGCaaGAGCCGUgGCCaaUGCG- -5'
1592 3' -56.7 NC_001347.2 + 38655 0.68 0.914604
Target:  5'- gCCCGGCGUcugcagcgccaccgUCgugcCGGCccACCGccgGCGCa -3'
miRNA:   3'- -GGGCCGCA--------------AGa---GCCG--UGGCcaaUGCG- -5'
1592 3' -56.7 NC_001347.2 + 39347 0.67 0.931759
Target:  5'- gCCCGGCGgcccgCggGGUucuacCCGGUggACGCc -3'
miRNA:   3'- -GGGCCGCaa---GagCCGu----GGCCAa-UGCG- -5'
1592 3' -56.7 NC_001347.2 + 39386 0.66 0.963734
Target:  5'- gCCCGGCGUcgUCGuaGCCGcagcacuCGCa -3'
miRNA:   3'- -GGGCCGCAagAGCcgUGGCcaau---GCG- -5'
1592 3' -56.7 NC_001347.2 + 40491 0.69 0.872691
Target:  5'- cCCaCGGUauuuGUUgUCGGCACCGGgcuucgggACGg -3'
miRNA:   3'- -GG-GCCG----CAAgAGCCGUGGCCaa------UGCg -5'
1592 3' -56.7 NC_001347.2 + 40601 0.67 0.931759
Target:  5'- uUCGaGCGUUCU-GGcCGCCGGcgAUGCc -3'
miRNA:   3'- gGGC-CGCAAGAgCC-GUGGCCaaUGCG- -5'
1592 3' -56.7 NC_001347.2 + 44030 0.67 0.94532
Target:  5'- aCgCGGUGgcgaCGGCAgCGGUggugGCGCu -3'
miRNA:   3'- -GgGCCGCaagaGCCGUgGCCAa---UGCG- -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.