miRNA display CGI


Results 1 - 16 of 16 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
21756 3' -61.8 NC_004813.1 + 45584 1.09 0.00026
Target:  5'- aGCGCACGCCCUUCACCACCCGCGGCGu -3'
miRNA:   3'- -CGCGUGCGGGAAGUGGUGGGCGCCGC- -5'
21756 3' -61.8 NC_004813.1 + 21478 0.72 0.164012
Target:  5'- uGCuGCAcCGCCCggugUCACCguaCUGCGGCGc -3'
miRNA:   3'- -CG-CGU-GCGGGa---AGUGGug-GGCGCCGC- -5'
21756 3' -61.8 NC_004813.1 + 30601 0.72 0.168315
Target:  5'- aGCGUGCGCCCUUC-CU--CUGCGGCu -3'
miRNA:   3'- -CGCGUGCGGGAAGuGGugGGCGCCGc -5'
21756 3' -61.8 NC_004813.1 + 41465 0.71 0.200852
Target:  5'- cCGCucacCGCCCUgcaccgucaggUCgauuucccagagcACCACCCGCGGUGa -3'
miRNA:   3'- cGCGu---GCGGGA-----------AG-------------UGGUGGGCGCCGC- -5'
21756 3' -61.8 NC_004813.1 + 42038 0.7 0.216632
Target:  5'- gGCGCAUGCCCggcggugugCGCCugCggagucgUGCGGCu -3'
miRNA:   3'- -CGCGUGCGGGaa-------GUGGugG-------GCGCCGc -5'
21756 3' -61.8 NC_004813.1 + 49715 0.7 0.228301
Target:  5'- aGCGCuggugaGCCCaccaUCACCGCCCcCGGUa -3'
miRNA:   3'- -CGCGug----CGGGa---AGUGGUGGGcGCCGc -5'
21756 3' -61.8 NC_004813.1 + 40840 0.68 0.291283
Target:  5'- cGCGCACacccagcgaGCCaucCGCCGCCCGCgucagaGGCa -3'
miRNA:   3'- -CGCGUG---------CGGgaaGUGGUGGGCG------CCGc -5'
21756 3' -61.8 NC_004813.1 + 41990 0.68 0.315598
Target:  5'- cGCGCAUGCacuugcugcaucuguCCUUCGgaUAUCCGUGGUGg -3'
miRNA:   3'- -CGCGUGCG---------------GGAAGUg-GUGGGCGCCGC- -5'
21756 3' -61.8 NC_004813.1 + 42273 0.68 0.320045
Target:  5'- aGCGCACuGCCCUgguggCuggUCugCCGgGGUGa -3'
miRNA:   3'- -CGCGUG-CGGGAa----Gu--GGugGGCgCCGC- -5'
21756 3' -61.8 NC_004813.1 + 31716 0.68 0.320045
Target:  5'- aGCGCuggaucaacugGCGUCg-UCGCCguaCCGCGGCGg -3'
miRNA:   3'- -CGCG-----------UGCGGgaAGUGGug-GGCGCCGC- -5'
21756 3' -61.8 NC_004813.1 + 52546 0.67 0.335205
Target:  5'- gGUGa--GCCCUccaUCACCGCCCcCGGUa -3'
miRNA:   3'- -CGCgugCGGGA---AGUGGUGGGcGCCGc -5'
21756 3' -61.8 NC_004813.1 + 12429 0.67 0.364615
Target:  5'- -gGCGCGauagUCUUCACCAugucaaacauccacUCUGCGGCGg -3'
miRNA:   3'- cgCGUGCg---GGAAGUGGU--------------GGGCGCCGC- -5'
21756 3' -61.8 NC_004813.1 + 22278 0.66 0.383775
Target:  5'- -gGUGCGCCCgUCAUCGCCUucCGGUGc -3'
miRNA:   3'- cgCGUGCGGGaAGUGGUGGGc-GCCGC- -5'
21756 3' -61.8 NC_004813.1 + 12810 0.66 0.383775
Target:  5'- cUGCGCuaCCUgUugUACCUGCGGCu -3'
miRNA:   3'- cGCGUGcgGGAaGugGUGGGCGCCGc -5'
21756 3' -61.8 NC_004813.1 + 4243 0.66 0.418649
Target:  5'- ---aACGCCCUUCGCagcauuGCCCGUcaGGCu -3'
miRNA:   3'- cgcgUGCGGGAAGUGg-----UGGGCG--CCGc -5'
21756 3' -61.8 NC_004813.1 + 38846 0.66 0.427664
Target:  5'- -gGC-UGCCCUUgC-CCGCgCCGUGGCa -3'
miRNA:   3'- cgCGuGCGGGAA-GuGGUG-GGCGCCGc -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.