miRNA display CGI


Results 1 - 15 of 15 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
20763 5' -52.8 NC_004689.1 + 22876 0.66 0.894386
Target:  5'- --uCUUCGGCGGcuGCGAUCUGuuguuccuucGACGc -3'
miRNA:   3'- gguGAGGCCGUCuuCGCUAGAC----------UUGC- -5'
20763 5' -52.8 NC_004689.1 + 19814 0.66 0.892262
Target:  5'- gCCGCUUCGGUcugcgaacauggucAGAAGCGccCaGAGCGc -3'
miRNA:   3'- -GGUGAGGCCG--------------UCUUCGCuaGaCUUGC- -5'
20763 5' -52.8 NC_004689.1 + 25552 0.67 0.87211
Target:  5'- aCACUUCGGCGGGaucaacAGCGAUggggUUGAAg- -3'
miRNA:   3'- gGUGAGGCCGUCU------UCGCUA----GACUUgc -5'
20763 5' -52.8 NC_004689.1 + 4020 0.67 0.864188
Target:  5'- cCCAC-CCGuGUGGggGCGA---GAACGg -3'
miRNA:   3'- -GGUGaGGC-CGUCuuCGCUagaCUUGC- -5'
20763 5' -52.8 NC_004689.1 + 11416 0.67 0.864188
Target:  5'- cCCA--CCGGCAGAAcGCGGUuggcCUGAgugGCGa -3'
miRNA:   3'- -GGUgaGGCCGUCUU-CGCUA----GACU---UGC- -5'
20763 5' -52.8 NC_004689.1 + 53826 0.67 0.864188
Target:  5'- uCCAUgagCGcGCAGAAGCGGa-UGAACGg -3'
miRNA:   3'- -GGUGag-GC-CGUCUUCGCUagACUUGC- -5'
20763 5' -52.8 NC_004689.1 + 62847 0.67 0.864188
Target:  5'- cUCAUUCCGGUAGggGUuGUgCaGGGCGa -3'
miRNA:   3'- -GGUGAGGCCGUCuuCGcUA-GaCUUGC- -5'
20763 5' -52.8 NC_004689.1 + 29226 0.67 0.856028
Target:  5'- cCCACUCCGGUAcGAAucGCaGAUggccgGAACGg -3'
miRNA:   3'- -GGUGAGGCCGU-CUU--CG-CUAga---CUUGC- -5'
20763 5' -52.8 NC_004689.1 + 9924 0.67 0.856028
Target:  5'- -gGCUCCGGCuuuuguGGAGUGAugaaaUCgcgUGAGCGa -3'
miRNA:   3'- ggUGAGGCCGu-----CUUCGCU-----AG---ACUUGC- -5'
20763 5' -52.8 NC_004689.1 + 10645 0.69 0.777266
Target:  5'- uCCACaCUGGCAGccccgccaggcuguuGGGCGGUCUgcgGAGCGc -3'
miRNA:   3'- -GGUGaGGCCGUC---------------UUCGCUAGA---CUUGC- -5'
20763 5' -52.8 NC_004689.1 + 17112 0.69 0.773286
Target:  5'- aCCACaCCGGCccugcgguGAGGCcGGUCUGAgugACGu -3'
miRNA:   3'- -GGUGaGGCCGu-------CUUCG-CUAGACU---UGC- -5'
20763 5' -52.8 NC_004689.1 + 42160 0.69 0.763237
Target:  5'- cCUGCgCUGGCGGGgauGCGAUCaGAGCGc -3'
miRNA:   3'- -GGUGaGGCCGUCUu--CGCUAGaCUUGC- -5'
20763 5' -52.8 NC_004689.1 + 16909 0.7 0.700556
Target:  5'- uUCGCUCCGGCGucAGCGAaaUGGcCGa -3'
miRNA:   3'- -GGUGAGGCCGUcuUCGCUagACUuGC- -5'
20763 5' -52.8 NC_004689.1 + 33680 0.71 0.668182
Target:  5'- uCgGCUCCGGCAGcGGCaucgGggUUGAGCGu -3'
miRNA:   3'- -GgUGAGGCCGUCuUCG----CuaGACUUGC- -5'
20763 5' -52.8 NC_004689.1 + 6821 1.11 0.002048
Target:  5'- cCCACUCCGGCAGAAGCGAUCUGAACGu -3'
miRNA:   3'- -GGUGAGGCCGUCUUCGCUAGACUUGC- -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.