miRNA display CGI


Results 1 - 14 of 14 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
20803 3' -56.5 NC_004689.1 + 24790 0.66 0.749248
Target:  5'- aGcACCACGGCguuuUCGaucaCGUCGuaGGCAAa -3'
miRNA:   3'- gC-UGGUGCCGa---AGCg---GCAGC--UCGUUc -5'
20803 3' -56.5 NC_004689.1 + 14591 0.66 0.714502
Target:  5'- uCGACCACGGCaucccagUUGCCuacgagaaugaaaUCGuAGCGAGa -3'
miRNA:   3'- -GCUGGUGCCGa------AGCGGc------------AGC-UCGUUC- -5'
20803 3' -56.5 NC_004689.1 + 51741 0.67 0.697821
Target:  5'- uCGAUCugguCGGCUUCGgUGcCGAGuCGAGc -3'
miRNA:   3'- -GCUGGu---GCCGAAGCgGCaGCUC-GUUC- -5'
20803 3' -56.5 NC_004689.1 + 53750 0.67 0.683098
Target:  5'- aCGACCcCGGCUUgaugugguagaacgCGCCGUCacugaguGuGCAGGc -3'
miRNA:   3'- -GCUGGuGCCGAA--------------GCGGCAG-------CuCGUUC- -5'
20803 3' -56.5 NC_004689.1 + 44972 0.67 0.666164
Target:  5'- cCGAUCACGGCgcaaaggauuUUC-UCGUCGGGCGu- -3'
miRNA:   3'- -GCUGGUGCCG----------AAGcGGCAGCUCGUuc -5'
20803 3' -56.5 NC_004689.1 + 13479 0.67 0.644894
Target:  5'- cCGGCUcgACGGCUaCGCCGUUGccuucGGCGu- -3'
miRNA:   3'- -GCUGG--UGCCGAaGCGGCAGC-----UCGUuc -5'
20803 3' -56.5 NC_004689.1 + 11545 0.69 0.570564
Target:  5'- cCGACUcCGGUgUUGaucccaCCGUCGAGCAGGu -3'
miRNA:   3'- -GCUGGuGCCGaAGC------GGCAGCUCGUUC- -5'
20803 3' -56.5 NC_004689.1 + 25511 0.69 0.560071
Target:  5'- -aGCCACGGC-UCGCCcUUGGGguAGc -3'
miRNA:   3'- gcUGGUGCCGaAGCGGcAGCUCguUC- -5'
20803 3' -56.5 NC_004689.1 + 39427 0.7 0.508552
Target:  5'- -cGCCACGGCUcaagUGCgCGUCGAGUu-- -3'
miRNA:   3'- gcUGGUGCCGAa---GCG-GCAGCUCGuuc -5'
20803 3' -56.5 NC_004689.1 + 41910 0.7 0.502498
Target:  5'- aCGGCCaccuucgcaGCGGCUUCGUCGugcgccaggaucagaUCGAGCu-- -3'
miRNA:   3'- -GCUGG---------UGCCGAAGCGGC---------------AGCUCGuuc -5'
20803 3' -56.5 NC_004689.1 + 49745 0.7 0.488498
Target:  5'- aCGACCACGGUggaaaccgucUUUGCCcUUGGGCGGu -3'
miRNA:   3'- -GCUGGUGCCG----------AAGCGGcAGCUCGUUc -5'
20803 3' -56.5 NC_004689.1 + 23975 0.71 0.440096
Target:  5'- uCGAUCAUGGCgUUUGUCGuuUCGAGCAc- -3'
miRNA:   3'- -GCUGGUGCCG-AAGCGGC--AGCUCGUuc -5'
20803 3' -56.5 NC_004689.1 + 13834 0.72 0.394543
Target:  5'- gCGACCAUGGaCUgaUCGUcuuCGUCGGGCAc- -3'
miRNA:   3'- -GCUGGUGCC-GA--AGCG---GCAGCUCGUuc -5'
20803 3' -56.5 NC_004689.1 + 37359 1.1 0.001047
Target:  5'- aCGACCACGGCUUCGCCGUCGAGCAAGa -3'
miRNA:   3'- -GCUGGUGCCGAAGCGGCAGCUCGUUC- -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.