miRNA display CGI


Results 1 - 20 of 24 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
12608 3' -48.6 NC_003345.1 + 43106 0.66 0.990338
Target:  5'- cACGggGa-GCGGGacaGGAAUCuucACAUCc -3'
miRNA:   3'- -UGCuuUagCGUCCg--CCUUAGu--UGUAG- -5'
12608 3' -48.6 NC_003345.1 + 68382 0.66 0.990338
Target:  5'- cCGAAAUC-CGGGCGuucacCGGCAUCg -3'
miRNA:   3'- uGCUUUAGcGUCCGCcuua-GUUGUAG- -5'
12608 3' -48.6 NC_003345.1 + 16562 0.66 0.988877
Target:  5'- aGCGAuuucggugaacaAGUCGCAGGUGucGUUGGCAgUCg -3'
miRNA:   3'- -UGCU------------UUAGCGUCCGCcuUAGUUGU-AG- -5'
12608 3' -48.6 NC_003345.1 + 73769 0.66 0.988877
Target:  5'- uCGAAGUCGCcccGGaCGGGuUCcACGUCc -3'
miRNA:   3'- uGCUUUAGCGu--CC-GCCUuAGuUGUAG- -5'
12608 3' -48.6 NC_003345.1 + 68480 0.66 0.987078
Target:  5'- gGCucGGUCGCggggccacccgugGGGCGGGuaAUCuGCAUCg -3'
miRNA:   3'- -UGcuUUAGCG-------------UCCGCCU--UAGuUGUAG- -5'
12608 3' -48.6 NC_003345.1 + 72238 0.66 0.985445
Target:  5'- cCGAAAUCGUcGGUGGggUCu----- -3'
miRNA:   3'- uGCUUUAGCGuCCGCCuuAGuuguag -5'
12608 3' -48.6 NC_003345.1 + 45448 0.66 0.985445
Target:  5'- aGCGAGAagGC-GGCGGu-UCAGC-UCg -3'
miRNA:   3'- -UGCUUUagCGuCCGCCuuAGUUGuAG- -5'
12608 3' -48.6 NC_003345.1 + 767 0.67 0.973371
Target:  5'- cCGAAcgGUCGgGGGCGGGuaaguACGUCu -3'
miRNA:   3'- uGCUU--UAGCgUCCGCCUuagu-UGUAG- -5'
12608 3' -48.6 NC_003345.1 + 46230 0.67 0.973371
Target:  5'- uACGAGGUCGC--GCGGugcGUCAugcgauACAUCg -3'
miRNA:   3'- -UGCUUUAGCGucCGCCu--UAGU------UGUAG- -5'
12608 3' -48.6 NC_003345.1 + 49428 0.67 0.970273
Target:  5'- uAUGGAAUCGgGaaguguGGCuGGAAUCAguACGUCg -3'
miRNA:   3'- -UGCUUUAGCgU------CCG-CCUUAGU--UGUAG- -5'
12608 3' -48.6 NC_003345.1 + 62674 0.68 0.966926
Target:  5'- uCGu-GUCGCuGaCGGAGUUAACGUCg -3'
miRNA:   3'- uGCuuUAGCGuCcGCCUUAGUUGUAG- -5'
12608 3' -48.6 NC_003345.1 + 57628 0.68 0.966926
Target:  5'- cCGAAGUCG-AGGuCGGGAcgcUCAGCAa- -3'
miRNA:   3'- uGCUUUAGCgUCC-GCCUU---AGUUGUag -5'
12608 3' -48.6 NC_003345.1 + 30020 0.68 0.950886
Target:  5'- gACGAGAaCGCcGaGCGGAAUCAGgCAg- -3'
miRNA:   3'- -UGCUUUaGCGuC-CGCCUUAGUU-GUag -5'
12608 3' -48.6 NC_003345.1 + 2566 0.68 0.950886
Target:  5'- uCGAAGUCGaugagacGGCGGAAUCgAACGa- -3'
miRNA:   3'- uGCUUUAGCgu-----CCGCCUUAG-UUGUag -5'
12608 3' -48.6 NC_003345.1 + 37959 0.69 0.935909
Target:  5'- uCGAGAagauguguaaGCGGGuCGGAAUCGACGUg -3'
miRNA:   3'- uGCUUUag--------CGUCC-GCCUUAGUUGUAg -5'
12608 3' -48.6 NC_003345.1 + 43593 0.7 0.904423
Target:  5'- -aGAGGUCGUAguuccccguGGUGGAGUCAuacaguuguucgaGCAUCg -3'
miRNA:   3'- ugCUUUAGCGU---------CCGCCUUAGU-------------UGUAG- -5'
12608 3' -48.6 NC_003345.1 + 50527 0.7 0.898083
Target:  5'- cGCGGgccacAAUCGCGGGgGGAG-CGGCAg- -3'
miRNA:   3'- -UGCU-----UUAGCGUCCgCCUUaGUUGUag -5'
12608 3' -48.6 NC_003345.1 + 26564 0.71 0.858784
Target:  5'- cCGggGUgGUAgcGGCGGAgguggGUCGGCAUCc -3'
miRNA:   3'- uGCuuUAgCGU--CCGCCU-----UAGUUGUAG- -5'
12608 3' -48.6 NC_003345.1 + 50055 0.72 0.841253
Target:  5'- uACGAGGUUGCuGGUGGGGggacuggaAACGUCa -3'
miRNA:   3'- -UGCUUUAGCGuCCGCCUUag------UUGUAG- -5'
12608 3' -48.6 NC_003345.1 + 24503 0.72 0.841253
Target:  5'- gACGAGAcgaGCgAGGuCGGAcgaGUCAACGUCa -3'
miRNA:   3'- -UGCUUUag-CG-UCC-GCCU---UAGUUGUAG- -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.