miRNA display CGI


Results 1 - 20 of 88 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
19261 3' -61.6 NC_004684.1 + 373 0.67 0.418764
Target:  5'- aGGCCaUCGuGGUGCCGGUcaggaucacCGCCgUGGCg -3'
miRNA:   3'- gCUGG-AGCcCCACGGUCA---------GCGG-GUCG- -5'
19261 3' -61.6 NC_004684.1 + 1227 0.86 0.018357
Target:  5'- uCGGCCUCGGcGGccugGUCGGUCGCCCGGCc -3'
miRNA:   3'- -GCUGGAGCC-CCa---CGGUCAGCGGGUCG- -5'
19261 3' -61.6 NC_004684.1 + 3651 0.66 0.464515
Target:  5'- uGGCCgcccGGUGCCgggucaucguacGGUgGCCCGGCa -3'
miRNA:   3'- gCUGGagccCCACGG------------UCAgCGGGUCG- -5'
19261 3' -61.6 NC_004684.1 + 5460 0.67 0.418764
Target:  5'- aGGCC-CGgcGGGUGCC-GUgGCCC-GCa -3'
miRNA:   3'- gCUGGaGC--CCCACGGuCAgCGGGuCG- -5'
19261 3' -61.6 NC_004684.1 + 5672 0.66 0.445894
Target:  5'- -aGCCguggUCGGaGGUgGCCGGg-GCCCGGCc -3'
miRNA:   3'- gcUGG----AGCC-CCA-CGGUCagCGGGUCG- -5'
19261 3' -61.6 NC_004684.1 + 6084 0.69 0.306431
Target:  5'- gCGGCCcggCGGcGGUgcuGCCGGaaaUCGaCCCGGCg -3'
miRNA:   3'- -GCUGGa--GCC-CCA---CGGUC---AGC-GGGUCG- -5'
19261 3' -61.6 NC_004684.1 + 6228 0.7 0.281543
Target:  5'- cCGACCUgGccGGGUGgcugaccgaguacacCCAGUCGCUgGGCc -3'
miRNA:   3'- -GCUGGAgC--CCCAC---------------GGUCAGCGGgUCG- -5'
19261 3' -61.6 NC_004684.1 + 7297 0.66 0.464515
Target:  5'- aGaACUUCGGGGUGgcCCGGUgaagGCCC-GCa -3'
miRNA:   3'- gC-UGGAGCCCCAC--GGUCAg---CGGGuCG- -5'
19261 3' -61.6 NC_004684.1 + 12394 0.69 0.306431
Target:  5'- -uGCgCUCGGuGGUGCaCGGUCGCCguuUAGUg -3'
miRNA:   3'- gcUG-GAGCC-CCACG-GUCAGCGG---GUCG- -5'
19261 3' -61.6 NC_004684.1 + 15526 0.68 0.351577
Target:  5'- aGGCCUUGGaGGUGCUGGagGUgCAGg -3'
miRNA:   3'- gCUGGAGCC-CCACGGUCagCGgGUCg -5'
19261 3' -61.6 NC_004684.1 + 17280 0.69 0.292402
Target:  5'- uGGCCaucgaggUGGGG-GCCAGcCGCCUGGUc -3'
miRNA:   3'- gCUGGa------GCCCCaCGGUCaGCGGGUCG- -5'
19261 3' -61.6 NC_004684.1 + 18353 0.68 0.375858
Target:  5'- cCGACCggCGGcgcGGUGCCGcUCGacaucaCCGGCa -3'
miRNA:   3'- -GCUGGa-GCC---CCACGGUcAGCg-----GGUCG- -5'
19261 3' -61.6 NC_004684.1 + 19074 0.71 0.224147
Target:  5'- gCGuCCUCGGaGGUGaggCAGUCGCauCCGGUg -3'
miRNA:   3'- -GCuGGAGCC-CCACg--GUCAGCG--GGUCG- -5'
19261 3' -61.6 NC_004684.1 + 20310 0.66 0.455153
Target:  5'- cCGACaccauggCGGcGGcgGCCAucgagaucggcGUCGCCCGGUg -3'
miRNA:   3'- -GCUGga-----GCC-CCa-CGGU-----------CAGCGGGUCG- -5'
19261 3' -61.6 NC_004684.1 + 20348 0.66 0.476834
Target:  5'- uCGGCCUCcggguGGGGcggcuacugcgaagGCCAGUCGuuccccgacggcaCCCGGUu -3'
miRNA:   3'- -GCUGGAG-----CCCCa-------------CGGUCAGC-------------GGGUCG- -5'
19261 3' -61.6 NC_004684.1 + 20536 0.69 0.285577
Target:  5'- -cGCCUgGGuGG-GCCAGgcauUCGUCCAGCu -3'
miRNA:   3'- gcUGGAgCC-CCaCGGUC----AGCGGGUCG- -5'
19261 3' -61.6 NC_004684.1 + 21048 0.66 0.483534
Target:  5'- aGACC-CGugcacGGGUGCCGGUgcUGaCCgGGCa -3'
miRNA:   3'- gCUGGaGC-----CCCACGGUCA--GC-GGgUCG- -5'
19261 3' -61.6 NC_004684.1 + 24230 0.71 0.213295
Target:  5'- gCGACCUCGGcggucugcucGGUGCCaAGgaagaggUGCgCCAGCu -3'
miRNA:   3'- -GCUGGAGCC----------CCACGG-UCa------GCG-GGUCG- -5'
19261 3' -61.6 NC_004684.1 + 24505 0.66 0.464515
Target:  5'- gCGGUCUCGG--UGCCAGagGCCgGGCg -3'
miRNA:   3'- -GCUGGAGCCccACGGUCagCGGgUCG- -5'
19261 3' -61.6 NC_004684.1 + 25103 0.66 0.436741
Target:  5'- aGcACCUgcUGGGcGUGCUGGaUUGCCCAGg -3'
miRNA:   3'- gC-UGGA--GCCC-CACGGUC-AGCGGGUCg -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.