miRNA display CGI


Results 1 - 20 of 78 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
6678 3' -56 NC_001847.1 + 11541 0.66 0.902344
Target:  5'- uGCcGCCuuGGCUGGGcuugcaaagCCCg -3'
miRNA:   3'- -CGuCGGggCCGACCCauauaua--GGGg -5'
6678 3' -56 NC_001847.1 + 75286 0.66 0.901708
Target:  5'- cGCGGCCCuCGGCgaccgcgccUGGccg-GUG-CCCCg -3'
miRNA:   3'- -CGUCGGG-GCCG---------ACCcauaUAUaGGGG- -5'
6678 3' -56 NC_001847.1 + 22856 0.66 0.901708
Target:  5'- cGCGGUCCUGGguuucagcuCUGGGgg-GUcgCCgCCg -3'
miRNA:   3'- -CGUCGGGGCC---------GACCCauaUAuaGG-GG- -5'
6678 3' -56 NC_001847.1 + 125669 0.66 0.901708
Target:  5'- cGCGGUCCUGGguuucagcuCUGGGgg-GUcgCCgCCg -3'
miRNA:   3'- -CGUCGGGGCC---------GACCCauaUAuaGG-GG- -5'
6678 3' -56 NC_001847.1 + 6985 0.66 0.901068
Target:  5'- aUAGCUugCCGGCgUGGGUAguuUGUAUaugcacacccgcgCCCCu -3'
miRNA:   3'- cGUCGG--GGCCG-ACCCAU---AUAUA-------------GGGG- -5'
6678 3' -56 NC_001847.1 + 106897 0.66 0.89521
Target:  5'- uCGGCCUCGGCcucagcgucGGcGUcgGUGcUCCCCu -3'
miRNA:   3'- cGUCGGGGCCGa--------CC-CAuaUAU-AGGGG- -5'
6678 3' -56 NC_001847.1 + 4084 0.66 0.89521
Target:  5'- uCGGCCUCGGCcucagcgucGGcGUcgGUGcUCCCCu -3'
miRNA:   3'- cGUCGGGGCCGa--------CC-CAuaUAU-AGGGG- -5'
6678 3' -56 NC_001847.1 + 13955 0.66 0.893882
Target:  5'- uGCGGCUgCGGCccgUGGGagcccg-CCCCu -3'
miRNA:   3'- -CGUCGGgGCCG---ACCCauauauaGGGG- -5'
6678 3' -56 NC_001847.1 + 75646 0.66 0.891199
Target:  5'- uGCGGCCucggcgcacccccugCCGGCUGGGgacuacGUGUAcgUgCCg -3'
miRNA:   3'- -CGUCGG---------------GGCCGACCCa-----UAUAUa-GgGG- -5'
6678 3' -56 NC_001847.1 + 11586 0.66 0.889162
Target:  5'- gGCGGCCCCGGCccaag------CCCCg -3'
miRNA:   3'- -CGUCGGGGCCGacccauauauaGGGG- -5'
6678 3' -56 NC_001847.1 + 64449 0.66 0.888479
Target:  5'- gGCGGCCaCGGCcagccccGGGcccgcgGUCCCCu -3'
miRNA:   3'- -CGUCGGgGCCGa------CCCauaua-UAGGGG- -5'
6678 3' -56 NC_001847.1 + 93439 0.66 0.888479
Target:  5'- --cGCCCUGGCccucGGUGUAgcccagcUCCCCc -3'
miRNA:   3'- cguCGGGGCCGac--CCAUAUau-----AGGGG- -5'
6678 3' -56 NC_001847.1 + 123622 0.66 0.888479
Target:  5'- cGCAGCaCCCGGC-GGcUAcGUgccaGUUCCCg -3'
miRNA:   3'- -CGUCG-GGGCCGaCCcAUaUA----UAGGGG- -5'
6678 3' -56 NC_001847.1 + 16245 0.66 0.887105
Target:  5'- uCGGCCCCGGCcccGGccccgg-CCCCg -3'
miRNA:   3'- cGUCGGGGCCGac-CCauauauaGGGG- -5'
6678 3' -56 NC_001847.1 + 36456 0.66 0.885028
Target:  5'- uCGGCCCCGGCUucGGccccggcuucggCCCCg -3'
miRNA:   3'- cGUCGGGGCCGA--CCcauauaua----GGGG- -5'
6678 3' -56 NC_001847.1 + 8737 0.66 0.877236
Target:  5'- cCAGCCCCGGCaaaggcaaGGUAagcgcauccgCCCCg -3'
miRNA:   3'- cGUCGGGGCCGac------CCAUauaua-----GGGG- -5'
6678 3' -56 NC_001847.1 + 111550 0.66 0.877236
Target:  5'- cCAGCCCCGGCaaaggcaaGGUAagcgcauccgCCCCg -3'
miRNA:   3'- cGUCGGGGCCGac------CCAUauaua-----GGGG- -5'
6678 3' -56 NC_001847.1 + 59282 0.66 0.875065
Target:  5'- -gAGCCCCGGCggcGGGaaaccguaCCCa -3'
miRNA:   3'- cgUCGGGGCCGa--CCCauauauagGGG- -5'
6678 3' -56 NC_001847.1 + 28307 0.66 0.871401
Target:  5'- aGCGGCCCCgcgagaggcgGGCgccGGGcccggcgCCCCg -3'
miRNA:   3'- -CGUCGGGG----------CCGa--CCCauauauaGGGG- -5'
6678 3' -56 NC_001847.1 + 131120 0.66 0.871401
Target:  5'- aGCGGCCCCgcgagaggcgGGCgccGGGcccggcgCCCCg -3'
miRNA:   3'- -CGUCGGGG----------CCGa--CCCauauauaGGGG- -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.