miRNA display CGI


Results 1 - 13 of 13 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
30904 3' -56.9 NC_006552.1 + 6128 0.66 0.645306
Target:  5'- -uGGCCAUUggCUGGUcaggGUUGCGCc -3'
miRNA:   3'- acCCGGUGAaaGACCAcga-CGACGCG- -5'
30904 3' -56.9 NC_006552.1 + 42341 0.66 0.645306
Target:  5'- gGGGCCuuCUUcggUUUGGUGCUGggcuuCUGgGUc -3'
miRNA:   3'- aCCCGGu-GAA---AGACCACGAC-----GACgCG- -5'
30904 3' -56.9 NC_006552.1 + 59463 0.66 0.645306
Target:  5'- uUGGGCgGCUgagcugCUGGUGagGCgccacuucgGCGCu -3'
miRNA:   3'- -ACCCGgUGAaa----GACCACgaCGa--------CGCG- -5'
30904 3' -56.9 NC_006552.1 + 23684 0.66 0.634382
Target:  5'- -uGGCCACgcggCUaauGUGCcccugaUGCUGCGCg -3'
miRNA:   3'- acCCGGUGaaa-GAc--CACG------ACGACGCG- -5'
30904 3' -56.9 NC_006552.1 + 35702 0.67 0.569118
Target:  5'- cGGuGCCAgUUUCUGGUccacgaguGC-GCUcacGCGCg -3'
miRNA:   3'- aCC-CGGUgAAAGACCA--------CGaCGA---CGCG- -5'
30904 3' -56.9 NC_006552.1 + 61376 0.67 0.547679
Target:  5'- cGGGCCAUgUUUUGGcGCgccgGCgGCGg -3'
miRNA:   3'- aCCCGGUGaAAGACCaCGa---CGaCGCg -5'
30904 3' -56.9 NC_006552.1 + 41521 0.68 0.505638
Target:  5'- cGGGCUGCa---UGGUGCUGCUaccacuCGCc -3'
miRNA:   3'- aCCCGGUGaaagACCACGACGAc-----GCG- -5'
30904 3' -56.9 NC_006552.1 + 18331 0.7 0.406608
Target:  5'- uUGGcGCCGCUgcaccCUGG-GCUGCUugcugaccacgaaGCGCc -3'
miRNA:   3'- -ACC-CGGUGAaa---GACCaCGACGA-------------CGCG- -5'
30904 3' -56.9 NC_006552.1 + 15523 0.7 0.384025
Target:  5'- uUGGGCCuGCUggaugUCguccugcacgccgauUGGcgucggggcuUGCUGCUGCGCc -3'
miRNA:   3'- -ACCCGG-UGAa----AG---------------ACC----------ACGACGACGCG- -5'
30904 3' -56.9 NC_006552.1 + 25191 0.71 0.363143
Target:  5'- gUGGuGCCACcc-UUGGUGCUGUUggucagcaGCGCg -3'
miRNA:   3'- -ACC-CGGUGaaaGACCACGACGA--------CGCG- -5'
30904 3' -56.9 NC_006552.1 + 35429 0.71 0.363143
Target:  5'- cUGGGCCGCagccuucgcgUCUugcgcguucGGcUGCUGCUGCGa -3'
miRNA:   3'- -ACCCGGUGaa--------AGA---------CC-ACGACGACGCg -5'
30904 3' -56.9 NC_006552.1 + 19731 0.71 0.354678
Target:  5'- -cGGCCACg--UUGGcGCUggccGCUGCGCg -3'
miRNA:   3'- acCCGGUGaaaGACCaCGA----CGACGCG- -5'
30904 3' -56.9 NC_006552.1 + 48876 0.85 0.039875
Target:  5'- -aGGCCACg--CcGGUGCUGCUGCGCa -3'
miRNA:   3'- acCCGGUGaaaGaCCACGACGACGCG- -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.