miRNA display CGI


Results 1 - 20 of 107 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
23572 3' -53.9 NC_005261.1 + 117011 1.1 0.003443
Target:  5'- gCGAGCGUGCUGACGCAGGUAACCUACu -3'
miRNA:   3'- -GCUCGCACGACUGCGUCCAUUGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 76196 0.82 0.21489
Target:  5'- uGGGCGUGCUGAUGCAGcagccgcGCCUGCg -3'
miRNA:   3'- gCUCGCACGACUGCGUCcau----UGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 11778 0.79 0.302809
Target:  5'- gCGAGCGcGCUGGCGCGGcUGGCCUuuGCg -3'
miRNA:   3'- -GCUCGCaCGACUGCGUCcAUUGGA--UG- -5'
23572 3' -53.9 NC_005261.1 + 20571 0.79 0.310049
Target:  5'- gCGcAGCGgcgccgGC-GGCGCGGGUGGCCUACg -3'
miRNA:   3'- -GC-UCGCa-----CGaCUGCGUCCAUUGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 38583 0.79 0.331784
Target:  5'- -cAGCGUGCUGGCGCgcaugugcaucccGGGcGACCUGCu -3'
miRNA:   3'- gcUCGCACGACUGCG-------------UCCaUUGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 89099 0.76 0.452704
Target:  5'- cCGGGCGcGCUGGCGCGcGcGUGGCaCUGCg -3'
miRNA:   3'- -GCUCGCaCGACUGCGU-C-CAUUG-GAUG- -5'
23572 3' -53.9 NC_005261.1 + 136128 0.75 0.510952
Target:  5'- aGGGCGUGCUgcugcucgcGACGCGGGaccUGGCCUuccGCg -3'
miRNA:   3'- gCUCGCACGA---------CUGCGUCC---AUUGGA---UG- -5'
23572 3' -53.9 NC_005261.1 + 31611 0.75 0.510952
Target:  5'- aGGGCGUGCUgcugcucgcGACGCGGGaccUGGCCUuccGCg -3'
miRNA:   3'- gCUCGCACGA---------CUGCGUCC---AUUGGA---UG- -5'
23572 3' -53.9 NC_005261.1 + 68498 0.74 0.561746
Target:  5'- gGAGUGcuucgcGCUGAUGCAGGcguGCCUGCc -3'
miRNA:   3'- gCUCGCa-----CGACUGCGUCCau-UGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 45123 0.74 0.586632
Target:  5'- aCGGGCGcgcugaUGCUGACGCucgacggccgcgccgAGGaagUGACCUGCg -3'
miRNA:   3'- -GCUCGC------ACGACUGCG---------------UCC---AUUGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 97634 0.73 0.613812
Target:  5'- gCGGGCGgaGCgGGCGCGGGUGccgcACCUGg -3'
miRNA:   3'- -GCUCGCa-CGaCUGCGUCCAU----UGGAUg -5'
23572 3' -53.9 NC_005261.1 + 43172 0.73 0.6243
Target:  5'- gCGGGCGUGCaUGGCGgAGGgcggUCUGCg -3'
miRNA:   3'- -GCUCGCACG-ACUGCgUCCauu-GGAUG- -5'
23572 3' -53.9 NC_005261.1 + 87883 0.72 0.670404
Target:  5'- aCGGGCGcggccuaccggcggcUGCUGGUGCAGGUGgaaaGCUUGCa -3'
miRNA:   3'- -GCUCGC---------------ACGACUGCGUCCAU----UGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 96857 0.72 0.687053
Target:  5'- aCGGGgG-GCUcggggGGCGCGGGUAGCgUGCg -3'
miRNA:   3'- -GCUCgCaCGA-----CUGCGUCCAUUGgAUG- -5'
23572 3' -53.9 NC_005261.1 + 16387 0.72 0.687053
Target:  5'- gCGGGC-UGCUGGCGCcGGUGcgccGCCgcgGCg -3'
miRNA:   3'- -GCUCGcACGACUGCGuCCAU----UGGa--UG- -5'
23572 3' -53.9 NC_005261.1 + 134565 0.72 0.697399
Target:  5'- uGGGCGgcgccgcgGCUG-CGCAGGgcgGGCCUGg -3'
miRNA:   3'- gCUCGCa-------CGACuGCGUCCa--UUGGAUg -5'
23572 3' -53.9 NC_005261.1 + 86932 0.71 0.717908
Target:  5'- -cGGCGUGCgcGAgGUAGGUGGCCgcgGCc -3'
miRNA:   3'- gcUCGCACGa-CUgCGUCCAUUGGa--UG- -5'
23572 3' -53.9 NC_005261.1 + 35116 0.71 0.717908
Target:  5'- cCGGGCGcGCUGGCGCcgGGGgcGCUgGCc -3'
miRNA:   3'- -GCUCGCaCGACUGCG--UCCauUGGaUG- -5'
23572 3' -53.9 NC_005261.1 + 79310 0.71 0.732086
Target:  5'- -cGGCGUGCgcgGGCGCGcuGGUGcgcgcgcuggcgcgcGCCUGCg -3'
miRNA:   3'- gcUCGCACGa--CUGCGU--CCAU---------------UGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 34834 0.71 0.738109
Target:  5'- gGAGC-UGgaGGCGCAGGcGGCCgcgGCg -3'
miRNA:   3'- gCUCGcACgaCUGCGUCCaUUGGa--UG- -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.