miRNA display CGI


Results 1 - 17 of 17 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
19427 3' -50 NC_004685.1 + 19595 0.66 0.969081
Target:  5'- -cUCAACACgCCug-GUGaUCA-GGGCa -3'
miRNA:   3'- caAGUUGUG-GGugaCACaAGUaCCCG- -5'
19427 3' -50 NC_004685.1 + 6641 0.66 0.961962
Target:  5'- ----cGCACCUGCUGcuUGUcgGUGGGCu -3'
miRNA:   3'- caaguUGUGGGUGAC--ACAagUACCCG- -5'
19427 3' -50 NC_004685.1 + 27549 0.66 0.961962
Target:  5'- -gUCAugGCCgcaGCgg-GUUCcgGGGCg -3'
miRNA:   3'- caAGUugUGGg--UGacaCAAGuaCCCG- -5'
19427 3' -50 NC_004685.1 + 68796 0.66 0.958007
Target:  5'- uGUUCGguuuccgaACACCCACgUGUucgaacguauGUUCGUGccGGCa -3'
miRNA:   3'- -CAAGU--------UGUGGGUG-ACA----------CAAGUAC--CCG- -5'
19427 3' -50 NC_004685.1 + 13086 0.67 0.949273
Target:  5'- cGggCAAgGCCCACgccggUCAUGGGg -3'
miRNA:   3'- -CaaGUUgUGGGUGacacaAGUACCCg -5'
19427 3' -50 NC_004685.1 + 29280 0.67 0.944484
Target:  5'- cUUCGcugGCACCCcacaGCUGggguaucagcUGUUCcGUGGGCu -3'
miRNA:   3'- cAAGU---UGUGGG----UGAC----------ACAAG-UACCCG- -5'
19427 3' -50 NC_004685.1 + 53265 0.68 0.922441
Target:  5'- cGUgCAguACACCCGCUGgggGcgCAaccggcUGGGCg -3'
miRNA:   3'- -CAaGU--UGUGGGUGACa--CaaGU------ACCCG- -5'
19427 3' -50 NC_004685.1 + 45686 0.68 0.916203
Target:  5'- --aCAGCACCCACcccuucGUGUcgaacggcUCGaagcUGGGCa -3'
miRNA:   3'- caaGUUGUGGGUGa-----CACA--------AGU----ACCCG- -5'
19427 3' -50 NC_004685.1 + 27222 0.68 0.893571
Target:  5'- aGUUCGGCACCaCcgacgccgccaaggGCUG---UCGUGGGCg -3'
miRNA:   3'- -CAAGUUGUGG-G--------------UGACacaAGUACCCG- -5'
19427 3' -50 NC_004685.1 + 1131 0.69 0.888375
Target:  5'- -cUCAACACCgACUG-GUgcucGGGCu -3'
miRNA:   3'- caAGUUGUGGgUGACaCAaguaCCCG- -5'
19427 3' -50 NC_004685.1 + 15470 0.69 0.880718
Target:  5'- cUUCGACuCCCAgaUUGUGUUCucGGGUg -3'
miRNA:   3'- cAAGUUGuGGGU--GACACAAGuaCCCG- -5'
19427 3' -50 NC_004685.1 + 4279 0.69 0.880718
Target:  5'- aGUUCGGCACCCaACUGgccgagCuggcGGGCg -3'
miRNA:   3'- -CAAGUUGUGGG-UGACacaa--Gua--CCCG- -5'
19427 3' -50 NC_004685.1 + 69362 0.69 0.856156
Target:  5'- cUUCAccgcGCGCCUGCUGUGcgUCAccGGCg -3'
miRNA:   3'- cAAGU----UGUGGGUGACACa-AGUacCCG- -5'
19427 3' -50 NC_004685.1 + 51277 0.7 0.839436
Target:  5'- -cUCGACACCCucGCUGUGcgaggUCAccuugaucgcgucagGGGCg -3'
miRNA:   3'- caAGUUGUGGG--UGACACa----AGUa--------------CCCG- -5'
19427 3' -50 NC_004685.1 + 20295 0.71 0.78051
Target:  5'- cUUCGACGCCCACUGcagg-AUGGGg -3'
miRNA:   3'- cAAGUUGUGGGUGACacaagUACCCg -5'
19427 3' -50 NC_004685.1 + 2680 0.74 0.604461
Target:  5'- --gCAGCACCCGCUGUGUgauucgaggUCA--GGCa -3'
miRNA:   3'- caaGUUGUGGGUGACACA---------AGUacCCG- -5'
19427 3' -50 NC_004685.1 + 15337 1.14 0.002112
Target:  5'- aGUUCAACACCCACUGUGUUCAUGGGCa -3'
miRNA:   3'- -CAAGUUGUGGGUGACACAAGUACCCG- -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.