miRNA display CGI


Results 1 - 11 of 11 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
28358 3' -55.3 NC_005946.1 + 12584 0.66 0.883621
Target:  5'- ---gCUCCUGAcGGUGUCUCCcgUGGAGAc -3'
miRNA:   3'- cguaGGGGGUU-UCGCAGAGG--ACCUCU- -5'
28358 3' -55.3 NC_005946.1 + 15934 0.66 0.861067
Target:  5'- cGCAagUCUgCCGAGGCgGUCguggCCaUGGAGGc -3'
miRNA:   3'- -CGU--AGGgGGUUUCG-CAGa---GG-ACCUCU- -5'
28358 3' -55.3 NC_005946.1 + 20000 1.11 0.001666
Target:  5'- aGCAUCCCCCAAAGCGUCUCCUGGAGAc -3'
miRNA:   3'- -CGUAGGGGGUUUCGCAGAGGACCUCU- -5'
28358 3' -55.3 NC_005946.1 + 48887 0.66 0.865741
Target:  5'- cGCAggacucuUCCCUCAGGuggaguaucaccguGgGUCUCCUGGAc- -3'
miRNA:   3'- -CGU-------AGGGGGUUU--------------CgCAGAGGACCUcu -5'
28358 3' -55.3 NC_005946.1 + 49701 0.73 0.495314
Target:  5'- cGCAaCCCUCAGGGCGUacaccagcCUCCUGGcGGu -3'
miRNA:   3'- -CGUaGGGGGUUUCGCA--------GAGGACCuCU- -5'
28358 3' -55.3 NC_005946.1 + 56328 0.66 0.853103
Target:  5'- cGC-UgCCCUGGuccucGCGUCcaUCCUGGAGAc -3'
miRNA:   3'- -CGuAgGGGGUUu----CGCAG--AGGACCUCU- -5'
28358 3' -55.3 NC_005946.1 + 59846 0.7 0.660902
Target:  5'- uGCAaaguaCgAGAGCGUCUCCUGGAGc -3'
miRNA:   3'- -CGUaggg-GgUUUCGCAGAGGACCUCu -5'
28358 3' -55.3 NC_005946.1 + 79521 0.7 0.660902
Target:  5'- aGCGg--CCCGGGGCGUUguagugCCUGGAGGg -3'
miRNA:   3'- -CGUaggGGGUUUCGCAGa-----GGACCUCU- -5'
28358 3' -55.3 NC_005946.1 + 84071 0.77 0.277237
Target:  5'- -gGUCCUCau-GGCGUCUUCUGGAGAc -3'
miRNA:   3'- cgUAGGGGguuUCGCAGAGGACCUCU- -5'
28358 3' -55.3 NC_005946.1 + 95342 0.67 0.81025
Target:  5'- gGCAgguucCCCCCGAGGCGaUUUCCcccggcgcccgUGGAcGAg -3'
miRNA:   3'- -CGUa----GGGGGUUUCGC-AGAGG-----------ACCU-CU- -5'
28358 3' -55.3 NC_005946.1 + 104369 0.66 0.844926
Target:  5'- gGCggCCCUCAGGGCcaccaUCUCCUcGGGAg -3'
miRNA:   3'- -CGuaGGGGGUUUCGc----AGAGGAcCUCU- -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.