miRNA display CGI


Results 1 - 10 of 10 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
20746 3' -59.8 NC_004688.1 + 79836 0.66 0.689531
Target:  5'- cGGCCGaGUGGGCCcaaggUGCgagcaCCCUACcUGg -3'
miRNA:   3'- -CCGGCaCACCUGG-----ACGa----GGGGUGuGC- -5'
20746 3' -59.8 NC_004688.1 + 31469 0.67 0.612839
Target:  5'- aGGCCGggGUGGACCaggagcUGCUCguggaugccugcuguUCUGCGCGc -3'
miRNA:   3'- -CCGGCa-CACCUGG------ACGAG---------------GGGUGUGC- -5'
20746 3' -59.8 NC_004688.1 + 29805 0.67 0.605766
Target:  5'- uGCCGUccaggaaggugcccGUGGGCCccacgaUCCCCAUGCGg -3'
miRNA:   3'- cCGGCA--------------CACCUGGacg---AGGGGUGUGC- -5'
20746 3' -59.8 NC_004688.1 + 52448 0.67 0.598702
Target:  5'- cGGCCG-GUGGAaaauaCUGCaCCCgaagaACGCGg -3'
miRNA:   3'- -CCGGCaCACCUg----GACGaGGGg----UGUGC- -5'
20746 3' -59.8 NC_004688.1 + 45851 0.67 0.598702
Target:  5'- aGCCuugacugggGUGGAgaugacaugcaCCUGCUUUCCGCACGg -3'
miRNA:   3'- cCGGca-------CACCU-----------GGACGAGGGGUGUGC- -5'
20746 3' -59.8 NC_004688.1 + 3747 0.68 0.578591
Target:  5'- uGGCCGccaaaugaucguUGUGG-CCU--UCCCCGCGCu -3'
miRNA:   3'- -CCGGC------------ACACCuGGAcgAGGGGUGUGc -5'
20746 3' -59.8 NC_004688.1 + 6217 0.68 0.55863
Target:  5'- cGcCCGUGcGGAgUUGCUCCagCGCGCGg -3'
miRNA:   3'- cC-GGCACaCCUgGACGAGGg-GUGUGC- -5'
20746 3' -59.8 NC_004688.1 + 53431 0.68 0.548721
Target:  5'- cGCCGUGccgccccgGGGuCCUGUUCUgCAUACGg -3'
miRNA:   3'- cCGGCACa-------CCU-GGACGAGGgGUGUGC- -5'
20746 3' -59.8 NC_004688.1 + 19069 0.68 0.538868
Target:  5'- aGGCCGgcGUGGGCgUGUucggCCCCAUgGCGa -3'
miRNA:   3'- -CCGGCa-CACCUGgACGa---GGGGUG-UGC- -5'
20746 3' -59.8 NC_004688.1 + 52719 0.7 0.444474
Target:  5'- uGCUGg--GGGCCgGaCUCCCCGCAUGa -3'
miRNA:   3'- cCGGCacaCCUGGaC-GAGGGGUGUGC- -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.