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
1436 3' -57.4 NC_001335.1 + 1541 0.83 0.047821
Target:  5'- cACUUCGGCGACCUACUCGACUccggUCGAc -3'
miRNA:   3'- cUGGAGCCGUUGGGUGAGCUGG----AGCU- -5'
1436 3' -57.4 NC_001335.1 + 1776 0.74 0.208768
Target:  5'- uGACCaUCGGCGACUCGCU-GAUgUCGAg -3'
miRNA:   3'- -CUGG-AGCCGUUGGGUGAgCUGgAGCU- -5'
1436 3' -57.4 NC_001335.1 + 2350 0.76 0.155704
Target:  5'- cGACCUCGcUGGCCCGCUgGGCUUCGGc -3'
miRNA:   3'- -CUGGAGCcGUUGGGUGAgCUGGAGCU- -5'
1436 3' -57.4 NC_001335.1 + 2403 0.68 0.482028
Target:  5'- cGGCCUagcCGGCccAGCUCACUccuugcCGACCUCGc -3'
miRNA:   3'- -CUGGA---GCCG--UUGGGUGA------GCUGGAGCu -5'
1436 3' -57.4 NC_001335.1 + 2868 0.67 0.53347
Target:  5'- cGACCgacUGGCAgaugGCCCgACUCGcCCUCu- -3'
miRNA:   3'- -CUGGa--GCCGU----UGGG-UGAGCuGGAGcu -5'
1436 3' -57.4 NC_001335.1 + 3116 0.66 0.597528
Target:  5'- cGCCUgucgggucagCGGguGCUCGUUCGACUUCGAg -3'
miRNA:   3'- cUGGA----------GCCguUGGGUGAGCUGGAGCU- -5'
1436 3' -57.4 NC_001335.1 + 3211 1.09 0.000621
Target:  5'- cGACCUCGGCAACCCACUCGACCUCGAg -3'
miRNA:   3'- -CUGGAGCCGUUGGGUGAGCUGGAGCU- -5'
1436 3' -57.4 NC_001335.1 + 4100 0.69 0.423672
Target:  5'- gGAUCUUGuCGGCCUcuucggACUCGACCUUGAu -3'
miRNA:   3'- -CUGGAGCcGUUGGG------UGAGCUGGAGCU- -5'
1436 3' -57.4 NC_001335.1 + 5469 0.7 0.344615
Target:  5'- uACUUCGGgGuuguCCCGCUCGAUgUCGGc -3'
miRNA:   3'- cUGGAGCCgUu---GGGUGAGCUGgAGCU- -5'
1436 3' -57.4 NC_001335.1 + 5780 0.69 0.430264
Target:  5'- aGCCUCGGCAcucuGCCUggccgcgagcaccuGCUCGAcgcCCUUGGu -3'
miRNA:   3'- cUGGAGCCGU----UGGG--------------UGAGCU---GGAGCU- -5'
1436 3' -57.4 NC_001335.1 + 8788 0.66 0.575975
Target:  5'- aGCgUCGGUguAGCCCAgUgGuGCCUCGAu -3'
miRNA:   3'- cUGgAGCCG--UUGGGUgAgC-UGGAGCU- -5'
1436 3' -57.4 NC_001335.1 + 9176 0.67 0.53347
Target:  5'- uGAUCuUCGGCAucaaGCCCGaagagaUCGGCgUCGAc -3'
miRNA:   3'- -CUGG-AGCCGU----UGGGUg-----AGCUGgAGCU- -5'
1436 3' -57.4 NC_001335.1 + 11519 0.74 0.192913
Target:  5'- cGCUUCGGCGaaguaguccuggGCCUGCUCGGgCUCGAg -3'
miRNA:   3'- cUGGAGCCGU------------UGGGUGAGCUgGAGCU- -5'
1436 3' -57.4 NC_001335.1 + 14364 0.67 0.502336
Target:  5'- cGACCUCaGCaAGCCCGa--GACCUgGAc -3'
miRNA:   3'- -CUGGAGcCG-UUGGGUgagCUGGAgCU- -5'
1436 3' -57.4 NC_001335.1 + 15995 0.66 0.608351
Target:  5'- cGGCCUUGGCcugGGCCgCAUcgagaugaccgUUGAUCUCGAc -3'
miRNA:   3'- -CUGGAGCCG---UUGG-GUG-----------AGCUGGAGCU- -5'
1436 3' -57.4 NC_001335.1 + 20498 0.67 0.544003
Target:  5'- cAUCggUGGCGACCUGCU-GACCUCGu -3'
miRNA:   3'- cUGGa-GCCGUUGGGUGAgCUGGAGCu -5'
1436 3' -57.4 NC_001335.1 + 21613 0.68 0.492133
Target:  5'- cGACCUCGGCua-UCGCUgGGCCggGGg -3'
miRNA:   3'- -CUGGAGCCGuugGGUGAgCUGGagCU- -5'
1436 3' -57.4 NC_001335.1 + 22904 0.66 0.608351
Target:  5'- cGACCgUCGGCAucACCgACggCGugUUCGu -3'
miRNA:   3'- -CUGG-AGCCGU--UGGgUGa-GCugGAGCu -5'
1436 3' -57.4 NC_001335.1 + 23336 0.72 0.290119
Target:  5'- aGCUUCGGCAGCCCGuaccgcuCUCGGaaUCGAu -3'
miRNA:   3'- cUGGAGCCGUUGGGU-------GAGCUggAGCU- -5'
1436 3' -57.4 NC_001335.1 + 27302 0.68 0.472023
Target:  5'- uGGCCUCGGCGcGgUCACg-GGCCUCGu -3'
miRNA:   3'- -CUGGAGCCGU-UgGGUGagCUGGAGCu -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.