miRNA display CGI


Results 1 - 20 of 31 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
18132 3' -62.6 NC_004680.1 + 12733 0.66 0.37877
Target:  5'- cACcCCggUCUGcGCGGcCUGaCCAgcGCCGGg -3'
miRNA:   3'- -UGcGGuuGGAC-CGCC-GAC-GGU--CGGCC- -5'
18132 3' -62.6 NC_004680.1 + 759 0.66 0.37877
Target:  5'- -gGCUGGCCgucGGCGGUUcgaGCgGGCUGGc -3'
miRNA:   3'- ugCGGUUGGa--CCGCCGA---CGgUCGGCC- -5'
18132 3' -62.6 NC_004680.1 + 35175 0.66 0.37877
Target:  5'- -aGCCAACCUcgGGcCGGCgaaaCAGuuGGg -3'
miRNA:   3'- ugCGGUUGGA--CC-GCCGacg-GUCggCC- -5'
18132 3' -62.6 NC_004680.1 + 52286 0.66 0.37877
Target:  5'- cCGCCu-CCUGGCucgucGGCuUGCCGGCg-- -3'
miRNA:   3'- uGCGGuuGGACCG-----CCG-ACGGUCGgcc -5'
18132 3' -62.6 NC_004680.1 + 13145 0.66 0.370408
Target:  5'- -gGgCGGCCUGGCGGUccCCGaCCGGa -3'
miRNA:   3'- ugCgGUUGGACCGCCGacGGUcGGCC- -5'
18132 3' -62.6 NC_004680.1 + 12591 0.66 0.362173
Target:  5'- uGCGCuCGGaaUGGCGG-UGCaGGCCGGc -3'
miRNA:   3'- -UGCG-GUUggACCGCCgACGgUCGGCC- -5'
18132 3' -62.6 NC_004680.1 + 50288 0.66 0.354066
Target:  5'- gACGCuCAACCUcGGCuaccaauucGGCgagCAGCCGGu -3'
miRNA:   3'- -UGCG-GUUGGA-CCG---------CCGacgGUCGGCC- -5'
18132 3' -62.6 NC_004680.1 + 25048 0.66 0.338239
Target:  5'- -gGCagguCCcggUGGCGGUgggGCCGGUCGGg -3'
miRNA:   3'- ugCGguu-GG---ACCGCCGa--CGGUCGGCC- -5'
18132 3' -62.6 NC_004680.1 + 40106 0.67 0.311064
Target:  5'- uCGCCu-CCUGGCGugggggugacggcccGCUGCguCAGCCGu -3'
miRNA:   3'- uGCGGuuGGACCGC---------------CGACG--GUCGGCc -5'
18132 3' -62.6 NC_004680.1 + 34561 0.67 0.30815
Target:  5'- uGCGCCGcCCaUGuuGUGGgUGCCGucGCCGGg -3'
miRNA:   3'- -UGCGGUuGG-AC--CGCCgACGGU--CGGCC- -5'
18132 3' -62.6 NC_004680.1 + 12439 0.67 0.300954
Target:  5'- cUGCCcACCaccgguggUGGCGGCgGCCcgauggcuGCCGGu -3'
miRNA:   3'- uGCGGuUGG--------ACCGCCGaCGGu-------CGGCC- -5'
18132 3' -62.6 NC_004680.1 + 47385 0.67 0.293889
Target:  5'- --cUCAACCUGGa--CUGCCAGCCGa -3'
miRNA:   3'- ugcGGUUGGACCgccGACGGUCGGCc -5'
18132 3' -62.6 NC_004680.1 + 17168 0.68 0.286954
Target:  5'- cCGCCAAUCgaaCGGCUGC--GCCGGg -3'
miRNA:   3'- uGCGGUUGGaccGCCGACGguCGGCC- -5'
18132 3' -62.6 NC_004680.1 + 10361 0.68 0.280148
Target:  5'- aACGCUGAUCcgGGCGGUugagaagaaUGCU-GCCGGg -3'
miRNA:   3'- -UGCGGUUGGa-CCGCCG---------ACGGuCGGCC- -5'
18132 3' -62.6 NC_004680.1 + 1342 0.68 0.266923
Target:  5'- gAUGCUGcCCUGcccCGGCUGcCCAGCCGu -3'
miRNA:   3'- -UGCGGUuGGACc--GCCGAC-GGUCGGCc -5'
18132 3' -62.6 NC_004680.1 + 27109 0.68 0.260501
Target:  5'- -gGCCAACCUGG-GGUUGUUGGCgGc -3'
miRNA:   3'- ugCGGUUGGACCgCCGACGGUCGgCc -5'
18132 3' -62.6 NC_004680.1 + 22181 0.69 0.248037
Target:  5'- cACGCCgAGCCUGG-GGUucgagGCCGcGCCGa -3'
miRNA:   3'- -UGCGG-UUGGACCgCCGa----CGGU-CGGCc -5'
18132 3' -62.6 NC_004680.1 + 56912 0.69 0.236071
Target:  5'- uACGCCGAauUCUagGGCGG-UGCCGGUgGGg -3'
miRNA:   3'- -UGCGGUU--GGA--CCGCCgACGGUCGgCC- -5'
18132 3' -62.6 NC_004680.1 + 12258 0.69 0.228555
Target:  5'- cCGCCAccgucggaacggauACCUGgGCGGCagcGCCGGaCGGg -3'
miRNA:   3'- uGCGGU--------------UGGAC-CGCCGa--CGGUCgGCC- -5'
18132 3' -62.6 NC_004680.1 + 39527 0.69 0.224592
Target:  5'- uCGCCGauuugcaucGCCgGGCGGCUGCgGGUgaGGu -3'
miRNA:   3'- uGCGGU---------UGGaCCGCCGACGgUCGg-CC- -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.