miRNA display CGI


Results 1 - 6 of 6 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
21967 3' -60.1 NC_004914.1 + 21317 0.66 0.496607
Target:  5'- aGCGGGC-AGGCGuGGacgcucaguuaacuCCUGUGCUgucggaCCg -3'
miRNA:   3'- gUGCCCGuUCCGC-CC--------------GGACAUGGa-----GG- -5'
21967 3' -60.1 NC_004914.1 + 56370 0.66 0.479861
Target:  5'- uGCuGGgAAGGCuGGGCCauacuCCUCCg -3'
miRNA:   3'- gUGcCCgUUCCG-CCCGGacau-GGAGG- -5'
21967 3' -60.1 NC_004914.1 + 23546 0.67 0.436013
Target:  5'- cCACGGGCAaccgcuucaaccugcGGGacCGGGCUgccuuugGCUUCCg -3'
miRNA:   3'- -GUGCCCGU---------------UCC--GCCCGGaca----UGGAGG- -5'
21967 3' -60.1 NC_004914.1 + 62048 0.68 0.379055
Target:  5'- aUACGGGCAAuauuccGGUcaaGGGCCUGUucaGCUUUg -3'
miRNA:   3'- -GUGCCCGUU------CCG---CCCGGACA---UGGAGg -5'
21967 3' -60.1 NC_004914.1 + 17112 0.69 0.322731
Target:  5'- cCGCGuGGCAAGGCuGGCUg--ACCUUg -3'
miRNA:   3'- -GUGC-CCGUUCCGcCCGGacaUGGAGg -5'
21967 3' -60.1 NC_004914.1 + 21217 1.11 0.000271
Target:  5'- cCACGGGCAAGGCGGGCCUGUACCUCCg -3'
miRNA:   3'- -GUGCCCGUUCCGCCCGGACAUGGAGG- -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.