miRNA display CGI


Results 1 - 20 of 66 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
31036 3' -57.2 NC_006560.1 + 118039 0.66 0.847266
Target:  5'- gGGCU-CGgCGGGGgcgggcCCGGCGCCGCc- -3'
miRNA:   3'- -CUGAuGUgGCUCCa-----GGUCGUGGCGuu -5'
31036 3' -57.2 NC_006560.1 + 15605 0.66 0.847266
Target:  5'- gGGCcACA-CGGGGUCCAGCggggGCaCGCAGc -3'
miRNA:   3'- -CUGaUGUgGCUCCAGGUCG----UG-GCGUU- -5'
31036 3' -57.2 NC_006560.1 + 99153 0.66 0.847266
Target:  5'- cGGCcuCGCCGGGGgcggCCgucccgGGCGCCGCGc -3'
miRNA:   3'- -CUGauGUGGCUCCa---GG------UCGUGGCGUu -5'
31036 3' -57.2 NC_006560.1 + 128199 0.66 0.847266
Target:  5'- cGCcACGCCcGGGUUCucggAGCGCCGCGg -3'
miRNA:   3'- cUGaUGUGGcUCCAGG----UCGUGGCGUu -5'
31036 3' -57.2 NC_006560.1 + 35201 0.66 0.847266
Target:  5'- ---gGCGCCGGGGcCCGgGCGCCGa-- -3'
miRNA:   3'- cugaUGUGGCUCCaGGU-CGUGGCguu -5'
31036 3' -57.2 NC_006560.1 + 73779 0.66 0.847266
Target:  5'- cGGCUggaccgggugcGCGCCGAGGgCCAGaagGCCGuCGAg -3'
miRNA:   3'- -CUGA-----------UGUGGCUCCaGGUCg--UGGC-GUU- -5'
31036 3' -57.2 NC_006560.1 + 93867 0.66 0.847266
Target:  5'- -cCUGCGcCCGGGG-CUGGCGgCGCAGg -3'
miRNA:   3'- cuGAUGU-GGCUCCaGGUCGUgGCGUU- -5'
31036 3' -57.2 NC_006560.1 + 2119 0.66 0.846461
Target:  5'- cGGCgcgGCGUCGGGGUCCGGCucgggcagggcgcGCgCGCAGa -3'
miRNA:   3'- -CUGa--UGUGGCUCCAGGUCG-------------UG-GCGUU- -5'
31036 3' -57.2 NC_006560.1 + 30027 0.66 0.845653
Target:  5'- cGCgccgAgGCCGAGGaggcggugcgcgCCGGCACCGCc- -3'
miRNA:   3'- cUGa---UgUGGCUCCa-----------GGUCGUGGCGuu -5'
31036 3' -57.2 NC_006560.1 + 62964 0.66 0.83912
Target:  5'- aGCUGCGCCGAGGcgacggUgGGCAUcagCGCGAu -3'
miRNA:   3'- cUGAUGUGGCUCCa-----GgUCGUG---GCGUU- -5'
31036 3' -57.2 NC_006560.1 + 95577 0.66 0.830783
Target:  5'- ---gGgGCCGGGGgcgCCGGCACCGa-- -3'
miRNA:   3'- cugaUgUGGCUCCa--GGUCGUGGCguu -5'
31036 3' -57.2 NC_006560.1 + 57253 0.66 0.822262
Target:  5'- cGGCgcggggggGCcUCGGGGUCCGGCGCgGCc- -3'
miRNA:   3'- -CUGa-------UGuGGCUCCAGGUCGUGgCGuu -5'
31036 3' -57.2 NC_006560.1 + 93688 0.66 0.822262
Target:  5'- gGACgACGCCGcGGUCUcggAGCcgACCGCGg -3'
miRNA:   3'- -CUGaUGUGGCuCCAGG---UCG--UGGCGUu -5'
31036 3' -57.2 NC_006560.1 + 115176 0.66 0.822262
Target:  5'- cGAC-ACGCUGGGGcugcUCCuggcGUACCGCAGa -3'
miRNA:   3'- -CUGaUGUGGCUCC----AGGu---CGUGGCGUU- -5'
31036 3' -57.2 NC_006560.1 + 42923 0.66 0.817065
Target:  5'- cGACgGCGCCGcGGuagcgcggcgccggcUCCAGCcCCGCGGg -3'
miRNA:   3'- -CUGaUGUGGCuCC---------------AGGUCGuGGCGUU- -5'
31036 3' -57.2 NC_006560.1 + 2242 0.66 0.813565
Target:  5'- cGGC-GCACCcAGGccCCAGCGCgCGCAGg -3'
miRNA:   3'- -CUGaUGUGGcUCCa-GGUCGUG-GCGUU- -5'
31036 3' -57.2 NC_006560.1 + 57076 0.66 0.813565
Target:  5'- ---aGCGCCuGGG-CCAGCGCCGuCAGg -3'
miRNA:   3'- cugaUGUGGcUCCaGGUCGUGGC-GUU- -5'
31036 3' -57.2 NC_006560.1 + 134958 0.66 0.804702
Target:  5'- cGACc-CGCCG-GGUCC-GCACUGCGc -3'
miRNA:   3'- -CUGauGUGGCuCCAGGuCGUGGCGUu -5'
31036 3' -57.2 NC_006560.1 + 19571 0.66 0.804702
Target:  5'- aGGCgGCACCGGG---CGGCGCCGCGg -3'
miRNA:   3'- -CUGaUGUGGCUCcagGUCGUGGCGUu -5'
31036 3' -57.2 NC_006560.1 + 23759 0.67 0.795679
Target:  5'- ---cGCGCCGuGGgccucgucgCCGGCGCCGCc- -3'
miRNA:   3'- cugaUGUGGCuCCa--------GGUCGUGGCGuu -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.