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 + 12986 0.66 0.861909
Target:  5'- --cCACCGugGUGCUC-GCGUucGCa-- -3'
miRNA:   3'- guuGUGGCugCACGAGuUGCG--CGacu -5'
23435 3' -53.7 NC_005259.1 + 59380 0.66 0.861909
Target:  5'- -uACGCCGcacCGUGcCUCcGCGCGCg-- -3'
miRNA:   3'- guUGUGGCu--GCAC-GAGuUGCGCGacu -5'
23435 3' -53.7 NC_005259.1 + 28133 0.66 0.836433
Target:  5'- ---uGCCGACGUaggcgaugagcuGCccggccUCGACGCGCUGc -3'
miRNA:   3'- guugUGGCUGCA------------CG------AGUUGCGCGACu -5'
23435 3' -53.7 NC_005259.1 + 493 0.66 0.836433
Target:  5'- cCGACGCC-ACGcUGCUCGACG-GCa-- -3'
miRNA:   3'- -GUUGUGGcUGC-ACGAGUUGCgCGacu -5'
23435 3' -53.7 NC_005259.1 + 55831 0.66 0.836433
Target:  5'- --cCGCCG-CGUcCUCGACGCGUgugGAc -3'
miRNA:   3'- guuGUGGCuGCAcGAGUUGCGCGa--CU- -5'
23435 3' -53.7 NC_005259.1 + 9896 0.67 0.81837
Target:  5'- -cGCGCgCGACGaGCUUucggcccuCGCGCUGGu -3'
miRNA:   3'- guUGUG-GCUGCaCGAGuu------GCGCGACU- -5'
23435 3' -53.7 NC_005259.1 + 8070 0.67 0.809042
Target:  5'- cCGACAUCGAgauCGUGC----CGCGCUGGc -3'
miRNA:   3'- -GUUGUGGCU---GCACGaguuGCGCGACU- -5'
23435 3' -53.7 NC_005259.1 + 64429 0.67 0.809042
Target:  5'- gGAuCGCCGACGaGCUgcCGGgGCGCUGc -3'
miRNA:   3'- gUU-GUGGCUGCaCGA--GUUgCGCGACu -5'
23435 3' -53.7 NC_005259.1 + 34029 0.67 0.779997
Target:  5'- --uCGgCGGCGUGCgUCGGCGCGUUc- -3'
miRNA:   3'- guuGUgGCUGCACG-AGUUGCGCGAcu -5'
23435 3' -53.7 NC_005259.1 + 66950 0.67 0.779997
Target:  5'- gGACACCGGCGagcUGUUUcuuGCGCGCc-- -3'
miRNA:   3'- gUUGUGGCUGC---ACGAGu--UGCGCGacu -5'
23435 3' -53.7 NC_005259.1 + 37085 0.67 0.769997
Target:  5'- -cGCACCGGCGgugGUguaGACGCGUgUGAu -3'
miRNA:   3'- guUGUGGCUGCa--CGag-UUGCGCG-ACU- -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 + 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 + 37737 0.68 0.727643
Target:  5'- --cCGCCGACGagcUGCUCGaugaccaGCGCGgUGGc -3'
miRNA:   3'- guuGUGGCUGC---ACGAGU-------UGCGCgACU- -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 + 50682 0.69 0.69668
Target:  5'- uCggUGCCGACGaggcgcUGCUCGucguCGCGCUuGAg -3'
miRNA:   3'- -GuuGUGGCUGC------ACGAGUu---GCGCGA-CU- -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 + 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' 
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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.