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 + 30013 0.69 0.433107
Target:  5'- -uCUUCGaGCGagugcccgaACCCGC-CGGCCUCGAa -3'
miRNA:   3'- cuGGAGC-CGU---------UGGGUGaGCUGGAGCU- -5'
1436 3' -57.4 NC_001335.1 + 32006 0.66 0.574902
Target:  5'- --gCUCGGUcagcaccGACCUGCU-GGCCUCGAu -3'
miRNA:   3'- cugGAGCCG-------UUGGGUGAgCUGGAGCU- -5'
1436 3' -57.4 NC_001335.1 + 46852 0.66 0.585656
Target:  5'- cGACCUgGGCcaucuccAGCCCguACUUGGCCaucagcUCGAa -3'
miRNA:   3'- -CUGGAgCCG-------UUGGG--UGAGCUGG------AGCU- -5'
1436 3' -57.4 NC_001335.1 + 46468 0.66 0.619195
Target:  5'- cGGCCUgGGCGaaGCCUGCgauccaCGACCggCGGu -3'
miRNA:   3'- -CUGGAgCCGU--UGGGUGa-----GCUGGa-GCU- -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 + 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 + 23336 0.72 0.290119
Target:  5'- aGCUUCGGCAGCCCGuaccgcuCUCGGaaUCGAu -3'
miRNA:   3'- cUGGAGCCGUUGGGU-------GAGCUggAGCU- -5'
1436 3' -57.4 NC_001335.1 + 37994 0.71 0.32855
Target:  5'- cACCgUCGGCAGCCCacacaGCUCGGCggUGAu -3'
miRNA:   3'- cUGG-AGCCGUUGGG-----UGAGCUGgaGCU- -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 + 2868 0.67 0.53347
Target:  5'- cGACCgacUGGCAgaugGCCCgACUCGcCCUCu- -3'
miRNA:   3'- -CUGGa--GCCGU----UGGG-UGAGCuGGAGcu -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 + 30185 0.68 0.452337
Target:  5'- cGCCgauGGCGAUCCGCaCGuCCUCGAu -3'
miRNA:   3'- cUGGag-CCGUUGGGUGaGCuGGAGCU- -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 + 31665 0.68 0.452337
Target:  5'- gGAUCUCGGC-AUCCg--CGGCCUCGu -3'
miRNA:   3'- -CUGGAGCCGuUGGGugaGCUGGAGCu -5'
1436 3' -57.4 NC_001335.1 + 27302 0.68 0.472023
Target:  5'- uGGCCUCGGCGcGgUCACg-GGCCUCGu -3'
miRNA:   3'- -CUGGAGCCGU-UgGGUGagCUGGAGCu -5'
1436 3' -57.4 NC_001335.1 + 34461 0.67 0.544003
Target:  5'- cGACCagcgCaGCAGCCCAgcccuCUCGugaguCCUCGAu -3'
miRNA:   3'- -CUGGa---GcCGUUGGGU-----GAGCu----GGAGCU- -5'
1436 3' -57.4 NC_001335.1 + 38265 0.66 0.575976
Target:  5'- aGACCgaacCGGCuuaguUCCGCUCGGCCggccagcccgCGAc -3'
miRNA:   3'- -CUGGa---GCCGuu---GGGUGAGCUGGa---------GCU- -5'
1436 3' -57.4 NC_001335.1 + 33338 0.68 0.459177
Target:  5'- cACCUCGGUguucggagcgaagaGAUCCuuCUCGAUCUCGu -3'
miRNA:   3'- cUGGAGCCG--------------UUGGGu-GAGCUGGAGCu -5'
1436 3' -57.4 NC_001335.1 + 32237 0.68 0.471029
Target:  5'- cGACCUCGaauccgaugucccGCAACgCACccggaUCGAUCUCGGu -3'
miRNA:   3'- -CUGGAGC-------------CGUUGgGUG-----AGCUGGAGCU- -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.