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 + 1047 0.66 0.953316
Target:  5'- gCGGGCGgcgGCguuagcGGCGCGGGggGCUgGCc -3'
miRNA:   3'- -GCUCGCa--CGa-----CUGCGUCCauUGGaUG- -5'
23572 3' -53.9 NC_005261.1 + 1789 0.67 0.918703
Target:  5'- --cGCGUGCcccugcGACGCccgcgAGGggGCCUGCg -3'
miRNA:   3'- gcuCGCACGa-----CUGCG-----UCCauUGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 2346 0.66 0.949114
Target:  5'- aCGu-CGUGCUGcCGCAGG---CCUGCu -3'
miRNA:   3'- -GCucGCACGACuGCGUCCauuGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 4478 0.66 0.944668
Target:  5'- uCGcGCG-GCgc-CGCGGcGUAGCCUGCg -3'
miRNA:   3'- -GCuCGCaCGacuGCGUC-CAUUGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 7062 0.68 0.871953
Target:  5'- cCGGGCGUG-UGGCcCAGGggcagGACCUGu -3'
miRNA:   3'- -GCUCGCACgACUGcGUCCa----UUGGAUg -5'
23572 3' -53.9 NC_005261.1 + 7387 0.68 0.871953
Target:  5'- cCGGGCGcgcgcgcaagGUUGAgCGCAcGGUGGCCUGg -3'
miRNA:   3'- -GCUCGCa---------CGACU-GCGU-CCAUUGGAUg -5'
23572 3' -53.9 NC_005261.1 + 7989 0.67 0.912758
Target:  5'- aCGAGCc-GCUGGCGCGGc--GCCUGa -3'
miRNA:   3'- -GCUCGcaCGACUGCGUCcauUGGAUg -5'
23572 3' -53.9 NC_005261.1 + 8401 0.66 0.939007
Target:  5'- gGAGCGcGCgcugggcauccgGGCGCAGGgcGCggGCg -3'
miRNA:   3'- gCUCGCaCGa-----------CUGCGUCCauUGgaUG- -5'
23572 3' -53.9 NC_005261.1 + 11705 0.66 0.953316
Target:  5'- cCGAgGCGcgGCgGGCGCGGGcGcccaggcagaccGCCUGCg -3'
miRNA:   3'- -GCU-CGCa-CGaCUGCGUCCaU------------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 + 14379 0.66 0.949114
Target:  5'- aCGAGCG-GCUGcCGCuAGGcagcgcGACgCUGCa -3'
miRNA:   3'- -GCUCGCaCGACuGCG-UCCa-----UUG-GAUG- -5'
23572 3' -53.9 NC_005261.1 + 14609 0.66 0.944668
Target:  5'- gCGcAGCG-GCUGAUggGCAGccugAACCUGCu -3'
miRNA:   3'- -GC-UCGCaCGACUG--CGUCca--UUGGAUG- -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 + 16850 0.67 0.924398
Target:  5'- -aGGCGccGCcGcCGCGGGgcGCCUGCa -3'
miRNA:   3'- gcUCGCa-CGaCuGCGUCCauUGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 18859 0.69 0.856493
Target:  5'- gGAGCGUG--GAUGCAGG--GCUUGCa -3'
miRNA:   3'- gCUCGCACgaCUGCGUCCauUGGAUG- -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 + 21163 0.66 0.929842
Target:  5'- cCGAGCucGUGCUuaAC-CAGGcUGGCCUGCg -3'
miRNA:   3'- -GCUCG--CACGAc-UGcGUCC-AUUGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 26466 0.66 0.929842
Target:  5'- cCGGGCGcGCacGCGCAGGUGcacgagcuGCCcGCa -3'
miRNA:   3'- -GCUCGCaCGacUGCGUCCAU--------UGGaUG- -5'
23572 3' -53.9 NC_005261.1 + 26959 0.68 0.88651
Target:  5'- gCGGGCcggGUGCUcGCucucagcgGCAGGUGGCCUGg -3'
miRNA:   3'- -GCUCG---CACGAcUG--------CGUCCAUUGGAUg -5'
23572 3' -53.9 NC_005261.1 + 27200 0.66 0.949114
Target:  5'- uGuAGCGcucGCUG-CgGCAGGUGACCcGCg -3'
miRNA:   3'- gC-UCGCa--CGACuG-CGUCCAUUGGaUG- -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.