miRNA display CGI


Results 1 - 7 of 7 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
4334 3' -57.8 NC_001720.1 + 4244 0.7 0.311662
Target:  5'- cCCGGACAGAGcCUcauuaaccAGUUACCcUCCGa -3'
miRNA:   3'- uGGCCUGUCUCaGA--------UCGGUGGcAGGC- -5'
4334 3' -57.8 NC_001720.1 + 9879 0.66 0.502448
Target:  5'- cACCGGAaauGGGUCUggaucaccAGCCGCacUCCGg -3'
miRNA:   3'- -UGGCCUgu-CUCAGA--------UCGGUGgcAGGC- -5'
4334 3' -57.8 NC_001720.1 + 12163 1.07 0.0006
Target:  5'- cACCGGACAGAGUCUAGCCACCGUCCGc -3'
miRNA:   3'- -UGGCCUGUCUCAGAUCGGUGGCAGGC- -5'
4334 3' -57.8 NC_001720.1 + 22151 0.72 0.218185
Target:  5'- gUCGGGCGGAG-CaGGCCGCgGUCUGa -3'
miRNA:   3'- uGGCCUGUCUCaGaUCGGUGgCAGGC- -5'
4334 3' -57.8 NC_001720.1 + 24953 0.67 0.471858
Target:  5'- gUCGGAC-GAGgaagugCUGGCCAUCGUggacCCGa -3'
miRNA:   3'- uGGCCUGuCUCa-----GAUCGGUGGCA----GGC- -5'
4334 3' -57.8 NC_001720.1 + 26924 0.66 0.523315
Target:  5'- uGuuGGAaaucGAGUCguacgccGCCGCCGUCCc -3'
miRNA:   3'- -UggCCUgu--CUCAGau-----CGGUGGCAGGc -5'
4334 3' -57.8 NC_001720.1 + 37184 0.66 0.512838
Target:  5'- uACCGG-CAGAGUCUcgggguucuGGUC-CCaGUCCu -3'
miRNA:   3'- -UGGCCuGUCUCAGA---------UCGGuGG-CAGGc -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.