miRNA display CGI


Results 1 - 20 of 21 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
18724 3' -56.1 NC_004682.1 + 21973 0.66 0.672479
Target:  5'- cAGAACgcuGACAGcGUgaacGCCuuGGUGGCGUUCUc -3'
miRNA:   3'- -UCUUG---CUGUC-CA----CGG--CCACUGCGAGG- -5'
18724 3' -56.1 NC_004682.1 + 7980 0.66 0.672479
Target:  5'- cGAGgGACucguacuGGcUGCCGGUcGACGagaUCCu -3'
miRNA:   3'- uCUUgCUGu------CC-ACGGCCA-CUGCg--AGG- -5'
18724 3' -56.1 NC_004682.1 + 31477 0.66 0.660501
Target:  5'- cAGGugGGcCAGGaucuucgUGUCGGUGAC-CUUCg -3'
miRNA:   3'- -UCUugCU-GUCC-------ACGGCCACUGcGAGG- -5'
18724 3' -56.1 NC_004682.1 + 50522 0.66 0.650677
Target:  5'- cAGGGCaGgGGGUGCCaGGUGGgguaccCGCUaCCg -3'
miRNA:   3'- -UCUUGcUgUCCACGG-CCACU------GCGA-GG- -5'
18724 3' -56.1 NC_004682.1 + 3161 0.66 0.650677
Target:  5'- cGGugGugGGGUaGCCGGgcUGGCucgcgcccGUUCCg -3'
miRNA:   3'- uCUugCugUCCA-CGGCC--ACUG--------CGAGG- -5'
18724 3' -56.1 NC_004682.1 + 28671 0.66 0.639745
Target:  5'- --uACGGgGGGagGCCGGau-CGCUCCg -3'
miRNA:   3'- ucuUGCUgUCCa-CGGCCacuGCGAGG- -5'
18724 3' -56.1 NC_004682.1 + 40607 0.67 0.606949
Target:  5'- cGAGCcauGCA-GUGCCGcGUgccGACGCUCCc -3'
miRNA:   3'- uCUUGc--UGUcCACGGC-CA---CUGCGAGG- -5'
18724 3' -56.1 NC_004682.1 + 24285 0.67 0.606949
Target:  5'- -uGGCGAC-GGUGCCcGaGAUGCUCUg -3'
miRNA:   3'- ucUUGCUGuCCACGGcCaCUGCGAGG- -5'
18724 3' -56.1 NC_004682.1 + 40838 0.67 0.585176
Target:  5'- uGGGCGugGGGUGCCcgccagucgGGcUGGcCGgUCCa -3'
miRNA:   3'- uCUUGCugUCCACGG---------CC-ACU-GCgAGG- -5'
18724 3' -56.1 NC_004682.1 + 19832 0.67 0.570023
Target:  5'- cGGAGCGcccaaccACGGGaUGCCGGgGAUguacggcucagcggGCUCCu -3'
miRNA:   3'- -UCUUGC-------UGUCC-ACGGCCaCUG--------------CGAGG- -5'
18724 3' -56.1 NC_004682.1 + 3105 0.68 0.563558
Target:  5'- ---cCGACAG-UGCCGGUGAC-CUgCg -3'
miRNA:   3'- ucuuGCUGUCcACGGCCACUGcGAgG- -5'
18724 3' -56.1 NC_004682.1 + 16899 0.68 0.510592
Target:  5'- cGGcGCGuucGGUGCCGGUGucggcgcugugGCGCUCg -3'
miRNA:   3'- -UCuUGCuguCCACGGCCAC-----------UGCGAGg -5'
18724 3' -56.1 NC_004682.1 + 594 0.69 0.500239
Target:  5'- cGGA-GACAGGUGCuCcGUGACGCgggCUg -3'
miRNA:   3'- uCUUgCUGUCCACG-GcCACUGCGa--GG- -5'
18724 3' -56.1 NC_004682.1 + 12200 0.69 0.477799
Target:  5'- aGGAGCGACAGGgcguuguugaccGCCaGGUaGGCGUUgCCc -3'
miRNA:   3'- -UCUUGCUGUCCa-----------CGG-CCA-CUGCGA-GG- -5'
18724 3' -56.1 NC_004682.1 + 49379 0.69 0.469763
Target:  5'- gGGAacACGuuggccCAGGUGaaGGUccGACGCUCCc -3'
miRNA:   3'- -UCU--UGCu-----GUCCACggCCA--CUGCGAGG- -5'
18724 3' -56.1 NC_004682.1 + 33716 0.69 0.469763
Target:  5'- aAGGGCGGCA----CCGGguucGACGCUCCg -3'
miRNA:   3'- -UCUUGCUGUccacGGCCa---CUGCGAGG- -5'
18724 3' -56.1 NC_004682.1 + 45650 0.71 0.384591
Target:  5'- cGAACGcugcccACGGGUGCU--UGGCGUUCCa -3'
miRNA:   3'- uCUUGC------UGUCCACGGccACUGCGAGG- -5'
18724 3' -56.1 NC_004682.1 + 46281 0.73 0.267127
Target:  5'- uGGGGCGACGGcuaccugGCCGGUGAC-CUCg -3'
miRNA:   3'- -UCUUGCUGUCca-----CGGCCACUGcGAGg -5'
18724 3' -56.1 NC_004682.1 + 24587 0.74 0.253858
Target:  5'- cGAACG-C-GGUGCUGGUGucgUGCUCCg -3'
miRNA:   3'- uCUUGCuGuCCACGGCCACu--GCGAGG- -5'
18724 3' -56.1 NC_004682.1 + 9786 0.75 0.20075
Target:  5'- gAGAACGACAGGUaguacgggggcaGcCCGGUGuACGCggcagCCu -3'
miRNA:   3'- -UCUUGCUGUCCA------------C-GGCCAC-UGCGa----GG- -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.