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 + 161909 1.08 0.005881
Target:  5'- cGACCGGUCACUCGUCUCGAGUCACCGu -3'
miRNA:   3'- -CUGGCCAGUGAGCAGAGCUCAGUGGC- -5'
16161 3' -55.9 NC_004065.1 + 68076 0.75 0.60343
Target:  5'- cGAgCGGUCACUCGaCgCGAG-CACCGa -3'
miRNA:   3'- -CUgGCCAGUGAGCaGaGCUCaGUGGC- -5'
16161 3' -55.9 NC_004065.1 + 191080 0.73 0.672195
Target:  5'- cGCCGGUCGCUCGagCUCGA--CACCc -3'
miRNA:   3'- cUGGCCAGUGAGCa-GAGCUcaGUGGc -5'
16161 3' -55.9 NC_004065.1 + 223942 0.71 0.79384
Target:  5'- aGACCGGgu-CUCGUCagcggcaGGGUCACCa -3'
miRNA:   3'- -CUGGCCaguGAGCAGag-----CUCAGUGGc -5'
16161 3' -55.9 NC_004065.1 + 223478 0.71 0.802478
Target:  5'- cACCGGUCccgagAC-CGUCUCGGGaccagcagaUCGCCGg -3'
miRNA:   3'- cUGGCCAG-----UGaGCAGAGCUC---------AGUGGC- -5'
16161 3' -55.9 NC_004065.1 + 71502 0.71 0.810973
Target:  5'- cGCCGGUCGCg---CUCGcAGUCugCGa -3'
miRNA:   3'- cUGGCCAGUGagcaGAGC-UCAGugGC- -5'
16161 3' -55.9 NC_004065.1 + 31251 0.71 0.810974
Target:  5'- cGACCGuGUCcgaUCGUCUCugcGGUCGCCa -3'
miRNA:   3'- -CUGGC-CAGug-AGCAGAGc--UCAGUGGc -5'
16161 3' -55.9 NC_004065.1 + 162303 0.71 0.810974
Target:  5'- cGAgCGGUCGCUCGUCacggCGA--UACCGa -3'
miRNA:   3'- -CUgGCCAGUGAGCAGa---GCUcaGUGGC- -5'
16161 3' -55.9 NC_004065.1 + 141108 0.71 0.819319
Target:  5'- cGGCCGcUCGCUCGUCUCcgucAGcuUCGCCGu -3'
miRNA:   3'- -CUGGCcAGUGAGCAGAGc---UC--AGUGGC- -5'
16161 3' -55.9 NC_004065.1 + 144236 0.7 0.843386
Target:  5'- cGCCGGUU-CUCGcgcCUCG-GUCGCCGa -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'
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 + 207405 0.68 0.915268
Target:  5'- cGACCGGUCgaucacacguccguGCUCGaCUCGccaggcGGUCuGCCGa -3'
miRNA:   3'- -CUGGCCAG--------------UGAGCaGAGC------UCAG-UGGC- -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 + 169584 0.67 0.937282
Target:  5'- cGACgUGGUC-CUCgGUCUCG-GUUGCCGc -3'
miRNA:   3'- -CUG-GCCAGuGAG-CAGAGCuCAGUGGC- -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 + 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' 
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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.