miRNA display CGI


Results 1 - 20 of 30 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
23435 3' -53.7 NC_005259.1 + 6045 0.82 0.137707
Target:  5'- gCGACACCGACGaGCUCGuguGCGCGgUGAu -3'
miRNA:   3'- -GUUGUGGCUGCaCGAGU---UGCGCgACU- -5'
23435 3' -53.7 NC_005259.1 + 24576 0.8 0.190914
Target:  5'- gGGCACCGcACGUGCUCAACGCuaccggugacgGUUGGg -3'
miRNA:   3'- gUUGUGGC-UGCACGAGUUGCG-----------CGACU- -5'
23435 3' -53.7 NC_005259.1 + 17732 0.77 0.26134
Target:  5'- -cGCACCGugGcUGCUCGACGCGauccgUGAg -3'
miRNA:   3'- guUGUGGCugC-ACGAGUUGCGCg----ACU- -5'
23435 3' -53.7 NC_005259.1 + 61632 0.75 0.374636
Target:  5'- gCAcCGCCGACgGUgaacucaccggucaGCUCAACGCGCUGc -3'
miRNA:   3'- -GUuGUGGCUG-CA--------------CGAGUUGCGCGACu -5'
23435 3' -53.7 NC_005259.1 + 51505 0.73 0.471682
Target:  5'- uCGACGCCGcCGauCUCGACGCGCgUGAc -3'
miRNA:   3'- -GUUGUGGCuGCacGAGUUGCGCG-ACU- -5'
23435 3' -53.7 NC_005259.1 + 14850 0.72 0.491982
Target:  5'- gGACACgGuCGUGCUCGcgagguuCGCGCUGc -3'
miRNA:   3'- gUUGUGgCuGCACGAGUu------GCGCGACu -5'
23435 3' -53.7 NC_005259.1 + 57011 0.72 0.502283
Target:  5'- gAGCACCucaGCGcgGCUCGGCGCGgUGGg -3'
miRNA:   3'- gUUGUGGc--UGCa-CGAGUUGCGCgACU- -5'
23435 3' -53.7 NC_005259.1 + 13463 0.72 0.53372
Target:  5'- gCGGCGCUG--GUGCUCAcCGCGCUGc -3'
miRNA:   3'- -GUUGUGGCugCACGAGUuGCGCGACu -5'
23435 3' -53.7 NC_005259.1 + 44038 0.69 0.661917
Target:  5'- gAACACCGGCcuugacgaccgGCUCGAgUGCGCUGu -3'
miRNA:   3'- gUUGUGGCUGca---------CGAGUU-GCGCGACu -5'
23435 3' -53.7 NC_005259.1 + 58745 0.69 0.664102
Target:  5'- cCGGCACCGGCGaaGUUCGGCGaacgaCGCUGc -3'
miRNA:   3'- -GUUGUGGCUGCa-CGAGUUGC-----GCGACu -5'
23435 3' -53.7 NC_005259.1 + 5192 0.69 0.664102
Target:  5'- cCGACGCCGcCGccaaGCUCAcCGCGCUc- -3'
miRNA:   3'- -GUUGUGGCuGCa---CGAGUuGCGCGAcu -5'
23435 3' -53.7 NC_005259.1 + 65787 0.69 0.664102
Target:  5'- -uGCGCC-AUG-GcCUCGACGCGCUGGu -3'
miRNA:   3'- guUGUGGcUGCaC-GAGUUGCGCGACU- -5'
23435 3' -53.7 NC_005259.1 + 640 0.69 0.664102
Target:  5'- aCAACGCCaccgccgagGACGUGCUCGAgGgcaUGCUGu -3'
miRNA:   3'- -GUUGUGG---------CUGCACGAGUUgC---GCGACu -5'
23435 3' -53.7 NC_005259.1 + 50682 0.69 0.69668
Target:  5'- uCggUGCCGACGaggcgcUGCUCGucguCGCGCUuGAg -3'
miRNA:   3'- -GuuGUGGCUGC------ACGAGUu---GCGCGA-CU- -5'
23435 3' -53.7 NC_005259.1 + 44908 0.68 0.718106
Target:  5'- -cGCGCUGugGgccGCcgCAuACGCGCUGAu -3'
miRNA:   3'- guUGUGGCugCa--CGa-GU-UGCGCGACU- -5'
23435 3' -53.7 NC_005259.1 + 37737 0.68 0.727643
Target:  5'- --cCGCCGACGagcUGCUCGaugaccaGCGCGgUGGc -3'
miRNA:   3'- guuGUGGCUGC---ACGAGU-------UGCGCgACU- -5'
23435 3' -53.7 NC_005259.1 + 32256 0.68 0.749584
Target:  5'- cCAACA-CGACGUGCaUCGAUGgGCa-- -3'
miRNA:   3'- -GUUGUgGCUGCACG-AGUUGCgCGacu -5'
23435 3' -53.7 NC_005259.1 + 19302 0.68 0.749584
Target:  5'- gAACGCCGAgGcaCUCGAggaagccauCGCGCUGAu -3'
miRNA:   3'- gUUGUGGCUgCacGAGUU---------GCGCGACU- -5'
23435 3' -53.7 NC_005259.1 + 52162 0.67 0.769997
Target:  5'- gCAGCGCCGAgGcGCUCAugcagcaggacCGCGCcGAc -3'
miRNA:   3'- -GUUGUGGCUgCaCGAGUu----------GCGCGaCU- -5'
23435 3' -53.7 NC_005259.1 + 37085 0.67 0.769997
Target:  5'- -cGCACCGGCGgugGUguaGACGCGUgUGAu -3'
miRNA:   3'- guUGUGGCUGCa--CGag-UUGCGCG-ACU- -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.