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
26596 3' -54.4 NC_005357.1 + 35777 0.66 0.714938
Target:  5'- -aCGACGGCUUCcccGGcaaccuguACGUGUCCGc -3'
miRNA:   3'- cgGCUGCUGAAGca-CC--------UGCACAGGUu -5'
26596 3' -54.4 NC_005357.1 + 35984 0.66 0.703967
Target:  5'- cGgCGACGcCUUCGcgggcGGugGUGUCgCGAg -3'
miRNA:   3'- -CgGCUGCuGAAGCa----CCugCACAG-GUU- -5'
26596 3' -54.4 NC_005357.1 + 1708 0.66 0.703967
Target:  5'- cGCCGugGGCcggCGUGccGGCGagggcGUCCAAg -3'
miRNA:   3'- -CGGCugCUGaa-GCAC--CUGCa----CAGGUU- -5'
26596 3' -54.4 NC_005357.1 + 25008 0.66 0.692924
Target:  5'- gGCCGACGACagCG-GGuuGccGUCCGAg -3'
miRNA:   3'- -CGGCUGCUGaaGCaCCugCa-CAGGUU- -5'
26596 3' -54.4 NC_005357.1 + 20757 0.66 0.670665
Target:  5'- uCUGGCuGACaUCGUGGACGUG-CgCGAg -3'
miRNA:   3'- cGGCUG-CUGaAGCACCUGCACaG-GUU- -5'
26596 3' -54.4 NC_005357.1 + 25150 0.67 0.648254
Target:  5'- cGgCGcCGGCUUCGUGGACGgcaauaUCCc- -3'
miRNA:   3'- -CgGCuGCUGAAGCACCUGCac----AGGuu -5'
26596 3' -54.4 NC_005357.1 + 8128 0.67 0.625782
Target:  5'- gGCCGGCGuuggUUGUGGGCGUG-CgGGu -3'
miRNA:   3'- -CGGCUGCuga-AGCACCUGCACaGgUU- -5'
26596 3' -54.4 NC_005357.1 + 5434 0.68 0.592141
Target:  5'- cGCgGAUGGCggCGUGGGCGagGUCgGu -3'
miRNA:   3'- -CGgCUGCUGaaGCACCUGCa-CAGgUu -5'
26596 3' -54.4 NC_005357.1 + 38981 0.69 0.504592
Target:  5'- aUCGACGACUUCGaGGugGUGg-CAu -3'
miRNA:   3'- cGGCUGCUGAAGCaCCugCACagGUu -5'
26596 3' -54.4 NC_005357.1 + 26006 0.69 0.504592
Target:  5'- cGCCGGCGAUUacccCGcGGcCGUGUCCu- -3'
miRNA:   3'- -CGGCUGCUGAa---GCaCCuGCACAGGuu -5'
26596 3' -54.4 NC_005357.1 + 23452 0.69 0.498231
Target:  5'- uGCgCGACuGGCguuacgUCGUccgcaucgccaauguGGACGUGUCCGAa -3'
miRNA:   3'- -CG-GCUG-CUGa-----AGCA---------------CCUGCACAGGUU- -5'
26596 3' -54.4 NC_005357.1 + 24166 0.7 0.483532
Target:  5'- cUCGACGGCUgcgCGcuucGGCGUGUCCAu -3'
miRNA:   3'- cGGCUGCUGAa--GCac--CUGCACAGGUu -5'
26596 3' -54.4 NC_005357.1 + 19052 0.7 0.432856
Target:  5'- cGCCGGCGGCgUCGaucaGCGUGUCCu- -3'
miRNA:   3'- -CGGCUGCUGaAGCacc-UGCACAGGuu -5'
26596 3' -54.4 NC_005357.1 + 33634 0.73 0.309111
Target:  5'- cUCGACGACaaccacaagUUCGUGGAgGUGUCgGAa -3'
miRNA:   3'- cGGCUGCUG---------AAGCACCUgCACAGgUU- -5'
26596 3' -54.4 NC_005357.1 + 14645 0.77 0.167345
Target:  5'- uGCgCGGCGcgcGCUUCGUGuACGUGUCCGAg -3'
miRNA:   3'- -CG-GCUGC---UGAAGCACcUGCACAGGUU- -5'
26596 3' -54.4 NC_005357.1 + 35300 0.85 0.052528
Target:  5'- aGCCGACGACUUCGcGGACGUGagCGGg -3'
miRNA:   3'- -CGGCUGCUGAAGCaCCUGCACagGUU- -5'
26596 3' -54.4 NC_005357.1 + 34851 1.09 0.000986
Target:  5'- cGCCGACGACUUCGUGGACGUGUCCAAg -3'
miRNA:   3'- -CGGCUGCUGAAGCACCUGCACAGGUU- -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.