miRNA display CGI


Results 1 - 20 of 30 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
16161 3' -55.9 NC_004065.1 + 138953 0.66 0.97317
Target:  5'- gGGCCaGUCGCUgcgCGUCUgCGAgaccaGUCGCCu -3'
miRNA:   3'- -CUGGcCAGUGA---GCAGA-GCU-----CAGUGGc -5'
16161 3' -55.9 NC_004065.1 + 115146 0.66 0.97317
Target:  5'- gGAgaGGUCACcgccaUCGUCgUCGGG-CGCCGc -3'
miRNA:   3'- -CUggCCAGUG-----AGCAG-AGCUCaGUGGC- -5'
16161 3' -55.9 NC_004065.1 + 198129 0.66 0.970481
Target:  5'- cGCCGcGUCagGCcCGcUCUCGAGUaCACCa -3'
miRNA:   3'- cUGGC-CAG--UGaGC-AGAGCUCA-GUGGc -5'
16161 3' -55.9 NC_004065.1 + 170917 0.66 0.970481
Target:  5'- -gUCGGUCGgUCuGUCUCGuGUCcuucuuucGCCGg -3'
miRNA:   3'- cuGGCCAGUgAG-CAGAGCuCAG--------UGGC- -5'
16161 3' -55.9 NC_004065.1 + 161943 0.66 0.967605
Target:  5'- cGACuCGGU-GCUCGcgUCGAGUgACCGc -3'
miRNA:   3'- -CUG-GCCAgUGAGCagAGCUCAgUGGC- -5'
16161 3' -55.9 NC_004065.1 + 68131 0.66 0.961269
Target:  5'- uGACCGGUCgACgagCGUCggUCaGGcCGCCGa -3'
miRNA:   3'- -CUGGCCAG-UGa--GCAG--AGcUCaGUGGC- -5'
16161 3' -55.9 NC_004065.1 + 227377 0.66 0.961269
Target:  5'- gGACaaaaGGUCAUUCGggagCUgGGGUCAUgGa -3'
miRNA:   3'- -CUGg---CCAGUGAGCa---GAgCUCAGUGgC- -5'
16161 3' -55.9 NC_004065.1 + 6564 0.66 0.959212
Target:  5'- gGACCGGUgCuucuccugccagauCUUGgggcCUCGGGUCGCCa -3'
miRNA:   3'- -CUGGCCA-Gu-------------GAGCa---GAGCUCAGUGGc -5'
16161 3' -55.9 NC_004065.1 + 30148 0.66 0.957799
Target:  5'- cGACCGGcCGCUCGUgCUgUGcGG-CACCGa -3'
miRNA:   3'- -CUGGCCaGUGAGCA-GA-GC-UCaGUGGC- -5'
16161 3' -55.9 NC_004065.1 + 193899 0.67 0.954122
Target:  5'- aGCCGGUUuccauguuguuGCUCGUCgaucccgccUGAGUCGCgCGg -3'
miRNA:   3'- cUGGCCAG-----------UGAGCAGa--------GCUCAGUG-GC- -5'
16161 3' -55.9 NC_004065.1 + 191085 0.67 0.946134
Target:  5'- -uUCGGUCucccguCUUGaucaCUCGGGUCGCCGu -3'
miRNA:   3'- cuGGCCAGu-----GAGCa---GAGCUCAGUGGC- -5'
16161 3' -55.9 NC_004065.1 + 206853 0.67 0.946134
Target:  5'- cGACCuGcucgagaaUCGCUgGUUaCGAGUCGCCGg -3'
miRNA:   3'- -CUGGcC--------AGUGAgCAGaGCUCAGUGGC- -5'
16161 3' -55.9 NC_004065.1 + 159930 0.67 0.941817
Target:  5'- uGCCGGUgcUGCUCGUCgccUCGGGguccgCGCCu -3'
miRNA:   3'- cUGGCCA--GUGAGCAG---AGCUCa----GUGGc -5'
16161 3' -55.9 NC_004065.1 + 85519 0.67 0.941817
Target:  5'- -uCCGGUCGCcgCGcC-CGAaGUCGCCGu -3'
miRNA:   3'- cuGGCCAGUGa-GCaGaGCU-CAGUGGC- -5'
16161 3' -55.9 NC_004065.1 + 4590 0.67 0.941817
Target:  5'- cACCGGcCAUUCGaUUCGuGUCgACCGa -3'
miRNA:   3'- cUGGCCaGUGAGCaGAGCuCAG-UGGC- -5'
16161 3' -55.9 NC_004065.1 + 169584 0.67 0.937282
Target:  5'- cGACgUGGUC-CUCgGUCUCG-GUUGCCGc -3'
miRNA:   3'- -CUG-GCCAGuGAG-CAGAGCuCAGUGGC- -5'
16161 3' -55.9 NC_004065.1 + 78861 0.68 0.916936
Target:  5'- cGGCCGG-CGCgccagCUCGcGGUCGCCGa -3'
miRNA:   3'- -CUGGCCaGUGagca-GAGC-UCAGUGGC- -5'
16161 3' -55.9 NC_004065.1 + 207405 0.68 0.915268
Target:  5'- cGACCGGUCgaucacacguccguGCUCGaCUCGccaggcGGUCuGCCGa -3'
miRNA:   3'- -CUGGCCAG--------------UGAGCaGAGC------UCAG-UGGC- -5'
16161 3' -55.9 NC_004065.1 + 186962 0.68 0.911298
Target:  5'- cGugCGGUCugUCGcgccgacgcCUCGAGaaGCCGa -3'
miRNA:   3'- -CugGCCAGugAGCa--------GAGCUCagUGGC- -5'
16161 3' -55.9 NC_004065.1 + 85807 0.69 0.886584
Target:  5'- aACCGGcgUCgGCgagaGUCUCGAGUCgACCGa -3'
miRNA:   3'- cUGGCC--AG-UGag--CAGAGCUCAG-UGGC- -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.