miRNA display CGI


Results 1 - 12 of 12 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
12615 3' -56.7 NC_003345.1 + 6951 0.66 0.76481
Target:  5'- --uUC-UCUGCgAAGGCUGUCuCUCGGu -3'
miRNA:   3'- uguAGuAGGCG-UUCCGGCAG-GAGCCc -5'
12615 3' -56.7 NC_003345.1 + 29060 0.68 0.651715
Target:  5'- gGCAUCAUCUGCAucccgAGGaCGgCCUUGcGGa -3'
miRNA:   3'- -UGUAGUAGGCGU-----UCCgGCaGGAGC-CC- -5'
12615 3' -56.7 NC_003345.1 + 75722 0.68 0.609406
Target:  5'- aACAgcUCG-CCGCAguugcggcggAGGCUGUUCUCGGu -3'
miRNA:   3'- -UGU--AGUaGGCGU----------UCCGGCAGGAGCCc -5'
12615 3' -56.7 NC_003345.1 + 73090 0.69 0.588325
Target:  5'- -gGUCG-CCauaGCGAGGUCGUCCuucccaUCGGGg -3'
miRNA:   3'- ugUAGUaGG---CGUUCCGGCAGG------AGCCC- -5'
12615 3' -56.7 NC_003345.1 + 21655 0.69 0.588325
Target:  5'- cGCGUCGUCgGgCAGGaaGCCGUCCUUGu- -3'
miRNA:   3'- -UGUAGUAGgC-GUUC--CGGCAGGAGCcc -5'
12615 3' -56.7 NC_003345.1 + 60549 0.7 0.536346
Target:  5'- aACGUC--CCGUggGGCggugUGUCCUCGGa -3'
miRNA:   3'- -UGUAGuaGGCGuuCCG----GCAGGAGCCc -5'
12615 3' -56.7 NC_003345.1 + 249 0.7 0.515985
Target:  5'- ---cCGUCCauacGGGCCGUCuCUCGGGa -3'
miRNA:   3'- uguaGUAGGcgu-UCCGGCAG-GAGCCC- -5'
12615 3' -56.7 NC_003345.1 + 77536 0.7 0.515985
Target:  5'- ---cCGUCCauacGGGCCGUCuCUCGGGa -3'
miRNA:   3'- uguaGUAGGcgu-UCCGGCAG-GAGCCC- -5'
12615 3' -56.7 NC_003345.1 + 20111 0.7 0.515985
Target:  5'- -aGUCAgCCGgGuucGGGCCGUUCUCGGu -3'
miRNA:   3'- ugUAGUaGGCgU---UCCGGCAGGAGCCc -5'
12615 3' -56.7 NC_003345.1 + 69101 0.7 0.495944
Target:  5'- uCGUCGUCCuucGCAcGGGUCGUUC-CGGGg -3'
miRNA:   3'- uGUAGUAGG---CGU-UCCGGCAGGaGCCC- -5'
12615 3' -56.7 NC_003345.1 + 23078 0.71 0.44749
Target:  5'- aACGUCccaCCGUucGGGCCGUCgUCGGa -3'
miRNA:   3'- -UGUAGua-GGCGu-UCCGGCAGgAGCCc -5'
12615 3' -56.7 NC_003345.1 + 28943 1.1 0.000999
Target:  5'- cACAUCAUCCGCAAGGCCGUCCUCGGGa -3'
miRNA:   3'- -UGUAGUAGGCGUUCCGGCAGGAGCCC- -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.