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
28446 3' -53.5 NC_005946.1 + 23929 0.66 0.946843
Target:  5'- cAGGUaGCCCUCGUugGGGaUGUAaaagACUu -3'
miRNA:   3'- -UCCG-CGGGAGCAugCUUaGCAUg---UGG- -5'
28446 3' -53.5 NC_005946.1 + 81820 0.66 0.942247
Target:  5'- cGGCGaCCCUCagGgGAcUCG-ACGCCa -3'
miRNA:   3'- uCCGC-GGGAGcaUgCUuAGCaUGUGG- -5'
28446 3' -53.5 NC_005946.1 + 32425 0.66 0.942247
Target:  5'- uGGGa-CCCUUGUugGuGUCGUaGCACa -3'
miRNA:   3'- -UCCgcGGGAGCAugCuUAGCA-UGUGg -5'
28446 3' -53.5 NC_005946.1 + 79233 0.66 0.9323
Target:  5'- cGGCGgCCUC-UGCGAcuAUgG-ACGCCa -3'
miRNA:   3'- uCCGCgGGAGcAUGCU--UAgCaUGUGG- -5'
28446 3' -53.5 NC_005946.1 + 66333 0.66 0.926947
Target:  5'- aGGGaGaCCC-CGUACGucucuucggCGUGCGCCg -3'
miRNA:   3'- -UCCgC-GGGaGCAUGCuua------GCAUGUGG- -5'
28446 3' -53.5 NC_005946.1 + 7342 0.67 0.915479
Target:  5'- cGGCaCCuCUCaGUGCGA---GUGCACCg -3'
miRNA:   3'- uCCGcGG-GAG-CAUGCUuagCAUGUGG- -5'
28446 3' -53.5 NC_005946.1 + 42992 0.67 0.909366
Target:  5'- uGGCcagCCUCuUGCGAccGUCGUugACCg -3'
miRNA:   3'- uCCGcg-GGAGcAUGCU--UAGCAugUGG- -5'
28446 3' -53.5 NC_005946.1 + 68594 0.67 0.909366
Target:  5'- uGGGCGCCUauguagucuUCGU-CGGGcUCGUcagACACUg -3'
miRNA:   3'- -UCCGCGGG---------AGCAuGCUU-AGCA---UGUGG- -5'
28446 3' -53.5 NC_005946.1 + 48022 0.68 0.888837
Target:  5'- uGGGCGgCCUCcuugGCGAcagucuuGUCGUACAa- -3'
miRNA:   3'- -UCCGCgGGAGca--UGCU-------UAGCAUGUgg -5'
28446 3' -53.5 NC_005946.1 + 79003 0.68 0.859756
Target:  5'- cGGCGgCCaCGgagGCGg--CGUACGCCa -3'
miRNA:   3'- uCCGCgGGaGCa--UGCuuaGCAUGUGG- -5'
28446 3' -53.5 NC_005946.1 + 27407 0.7 0.79955
Target:  5'- cGGUGCCCUgGUugGAuUC-UAC-CCa -3'
miRNA:   3'- uCCGCGGGAgCAugCUuAGcAUGuGG- -5'
28446 3' -53.5 NC_005946.1 + 99080 1.13 0.002075
Target:  5'- aAGGCGCCCUCGUACGAAUCGUACACCa -3'
miRNA:   3'- -UCCGCGGGAGCAUGCUUAGCAUGUGG- -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.