miRNA display CGI


Results 1 - 20 of 71 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
24577 3' -57 NC_005264.1 + 28728 0.66 0.885025
Target:  5'- -cCGCGCgaagcacuagucucaGCCUGCGCCCAGAcGuGcUCu -3'
miRNA:   3'- caGCGCG---------------UGGGCGCGGGUUUuC-CaAG- -5'
24577 3' -57 NC_005264.1 + 60979 0.66 0.882252
Target:  5'- gGUCGCgguGUACCUGCuGCUCGGuGGaGUUCg -3'
miRNA:   3'- -CAGCG---CGUGGGCG-CGGGUUuUC-CAAG- -5'
24577 3' -57 NC_005264.1 + 27974 0.66 0.882252
Target:  5'- -gUGCGCGCCCGUGguaucugaCCgAGAAGGcgCc -3'
miRNA:   3'- caGCGCGUGGGCGC--------GGgUUUUCCaaG- -5'
24577 3' -57 NC_005264.1 + 12691 0.66 0.882252
Target:  5'- cGUCGCGgACCa-CGCCCGGGAccGGaUCc -3'
miRNA:   3'- -CAGCGCgUGGgcGCGGGUUUU--CCaAG- -5'
24577 3' -57 NC_005264.1 + 64515 0.66 0.882252
Target:  5'- -cCGCGCuguucugUCCGCGCCgccgcggaGGGGGGUUCc -3'
miRNA:   3'- caGCGCGu------GGGCGCGGg-------UUUUCCAAG- -5'
24577 3' -57 NC_005264.1 + 86746 0.66 0.882252
Target:  5'- -cCGCGCugUuCGCGCCCGuAGAGccgUCg -3'
miRNA:   3'- caGCGCGugG-GCGCGGGU-UUUCca-AG- -5'
24577 3' -57 NC_005264.1 + 25697 0.66 0.875165
Target:  5'- -aCGCGCauGCCC-CGCCauaaaAAuuGGUUCg -3'
miRNA:   3'- caGCGCG--UGGGcGCGGg----UUuuCCAAG- -5'
24577 3' -57 NC_005264.1 + 16426 0.66 0.875165
Target:  5'- aUCGagccaucaGCACCCGC-CCUAcGAGGUcaUCg -3'
miRNA:   3'- cAGCg-------CGUGGGCGcGGGUuUUCCA--AG- -5'
24577 3' -57 NC_005264.1 + 113795 0.66 0.875165
Target:  5'- -cCGC-CACCCGCuGCCCccAGGGa-- -3'
miRNA:   3'- caGCGcGUGGGCG-CGGGuuUUCCaag -5'
24577 3' -57 NC_005264.1 + 133716 0.66 0.867863
Target:  5'- -aCGCGCuCCUcagguaCGCCuCGGGGGGUUCg -3'
miRNA:   3'- caGCGCGuGGGc-----GCGG-GUUUUCCAAG- -5'
24577 3' -57 NC_005264.1 + 69693 0.66 0.867863
Target:  5'- cUC-CGCGgUUGCGUCCuGGAGGUUCu -3'
miRNA:   3'- cAGcGCGUgGGCGCGGGuUUUCCAAG- -5'
24577 3' -57 NC_005264.1 + 61485 0.66 0.867863
Target:  5'- --aGCGCGCCgaCGCGCCCcgc-GGUcUCg -3'
miRNA:   3'- cagCGCGUGG--GCGCGGGuuuuCCA-AG- -5'
24577 3' -57 NC_005264.1 + 152288 0.66 0.862626
Target:  5'- uGUUGCGCGCCUGCGCaaguuucuucaGUUCg -3'
miRNA:   3'- -CAGCGCGUGGGCGCGgguuuuc----CAAG- -5'
24577 3' -57 NC_005264.1 + 69663 0.66 0.860351
Target:  5'- gGUCGgGCACgCgGCGCUgGGGccuuGGUUCu -3'
miRNA:   3'- -CAGCgCGUG-GgCGCGGgUUUu---CCAAG- -5'
24577 3' -57 NC_005264.1 + 59778 0.66 0.860351
Target:  5'- uUCGCGgGaCUCGuCGCCCGcAGGGggCg -3'
miRNA:   3'- cAGCGCgU-GGGC-GCGGGUuUUCCaaG- -5'
24577 3' -57 NC_005264.1 + 100478 0.66 0.860351
Target:  5'- uGUCGCgGCGgCCaGgGCCCugGAGGGGUUg -3'
miRNA:   3'- -CAGCG-CGUgGG-CgCGGG--UUUUCCAAg -5'
24577 3' -57 NC_005264.1 + 30075 0.66 0.860351
Target:  5'- cGUCgGCGC-CgCCGCGCCCGGAcAGaaUCg -3'
miRNA:   3'- -CAG-CGCGuG-GGCGCGGGUUU-UCcaAG- -5'
24577 3' -57 NC_005264.1 + 6157 0.67 0.84472
Target:  5'- cGUCGCGCAUCgCGUGCaCGAuguGGggCa -3'
miRNA:   3'- -CAGCGCGUGG-GCGCGgGUUuu-CCaaG- -5'
24577 3' -57 NC_005264.1 + 28319 0.67 0.84472
Target:  5'- -cCGCGCGCCUaCGUCUAGucGGUaUCg -3'
miRNA:   3'- caGCGCGUGGGcGCGGGUUuuCCA-AG- -5'
24577 3' -57 NC_005264.1 + 125184 0.67 0.84472
Target:  5'- cGUCGCGCAUCgCGUGCaCGAuguGGggCa -3'
miRNA:   3'- -CAGCGCGUGG-GCGCGgGUUuu-CCaaG- -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.