miRNA display CGI


Results 21 - 40 of 102 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
11541 3' -61 NC_003085.1 + 15918 0.66 0.384677
Target:  5'- -gGUCCGucgugcguggacGGCgUGUGACAGGCUCG-GCu -3'
miRNA:   3'- cgCAGGC------------CCG-ACGCUGUUCGGGCgCG- -5'
11541 3' -61 NC_003085.1 + 11988 0.66 0.384677
Target:  5'- -gGUCCucuuGGcCUGCGGCAgcagcGGCCUGaCGCu -3'
miRNA:   3'- cgCAGGc---CC-GACGCUGU-----UCGGGC-GCG- -5'
11541 3' -61 NC_003085.1 + 614 0.66 0.384677
Target:  5'- cCGUCCuGGGC-GCGcucgAGGCUgGCGCg -3'
miRNA:   3'- cGCAGG-CCCGaCGCug--UUCGGgCGCG- -5'
11541 3' -61 NC_003085.1 + 46912 0.67 0.375269
Target:  5'- uCGUcaCCGcGGCagGCGGCAcagguucGGCgCGCGCa -3'
miRNA:   3'- cGCA--GGC-CCGa-CGCUGU-------UCGgGCGCG- -5'
11541 3' -61 NC_003085.1 + 8959 0.67 0.367688
Target:  5'- uGCG-CUGGGCcaaggGCcGC-GGCCCGCGg -3'
miRNA:   3'- -CGCaGGCCCGa----CGcUGuUCGGGCGCg -5'
11541 3' -61 NC_003085.1 + 4520 0.67 0.367688
Target:  5'- aCG-CUGGGCacgGCGAUAccuCCCGUGCg -3'
miRNA:   3'- cGCaGGCCCGa--CGCUGUuc-GGGCGCG- -5'
11541 3' -61 NC_003085.1 + 7497 0.67 0.367688
Target:  5'- gGCGUCCGcgucgagcGGUUGCaggacaucaccGACGAGgaCGCGCg -3'
miRNA:   3'- -CGCAGGC--------CCGACG-----------CUGUUCggGCGCG- -5'
11541 3' -61 NC_003085.1 + 10792 0.67 0.367688
Target:  5'- aGCGUCCGcuuGCcgucagccagUGCcucGCGGGCCgCGCGCa -3'
miRNA:   3'- -CGCAGGCc--CG----------ACGc--UGUUCGG-GCGCG- -5'
11541 3' -61 NC_003085.1 + 41910 0.67 0.367688
Target:  5'- aGCGcaUCuCGGGC-GUGu--AGCCCGUGCc -3'
miRNA:   3'- -CGC--AG-GCCCGaCGCuguUCGGGCGCG- -5'
11541 3' -61 NC_003085.1 + 46855 0.67 0.359389
Target:  5'- aGCGUCUGGGCcuugGCcucggaGGCAGgggagaggguGCCCGUGg -3'
miRNA:   3'- -CGCAGGCCCGa---CG------CUGUU----------CGGGCGCg -5'
11541 3' -61 NC_003085.1 + 31013 0.67 0.359389
Target:  5'- ---cUCGGGuCUGCGGCu-GCCUGuCGCa -3'
miRNA:   3'- cgcaGGCCC-GACGCUGuuCGGGC-GCG- -5'
11541 3' -61 NC_003085.1 + 7905 0.67 0.359389
Target:  5'- gGCGUCgGGGCgagcGCGuCcuGUCgGCGUg -3'
miRNA:   3'- -CGCAGgCCCGa---CGCuGuuCGGgCGCG- -5'
11541 3' -61 NC_003085.1 + 45976 0.67 0.359389
Target:  5'- --cUCUGGGCgcacacgGCGACA--CCUGCGCc -3'
miRNA:   3'- cgcAGGCCCGa------CGCUGUucGGGCGCG- -5'
11541 3' -61 NC_003085.1 + 7214 0.67 0.359389
Target:  5'- uGCGgaUUCGucGGCUGCGGuguCAccAGCCgGCGCg -3'
miRNA:   3'- -CGC--AGGC--CCGACGCU---GU--UCGGgCGCG- -5'
11541 3' -61 NC_003085.1 + 35475 0.67 0.343188
Target:  5'- aCGUCCaacgucGGCUGCGcaGAGCCCGaUGUg -3'
miRNA:   3'- cGCAGGc-----CCGACGCugUUCGGGC-GCG- -5'
11541 3' -61 NC_003085.1 + 44321 0.67 0.335287
Target:  5'- -aGUCCGaGC-GCGACGcGGCCCG-GCa -3'
miRNA:   3'- cgCAGGCcCGaCGCUGU-UCGGGCgCG- -5'
11541 3' -61 NC_003085.1 + 6632 0.67 0.335287
Target:  5'- cGCuGUCaCGGGUUGUGcCAgucaacugcgccAGUCCGUGCc -3'
miRNA:   3'- -CG-CAG-GCCCGACGCuGU------------UCGGGCGCG- -5'
11541 3' -61 NC_003085.1 + 20278 0.67 0.335287
Target:  5'- gGCGUCCGcGUcGUGGCuGGCCCagucGUGCa -3'
miRNA:   3'- -CGCAGGCcCGaCGCUGuUCGGG----CGCG- -5'
11541 3' -61 NC_003085.1 + 48134 0.67 0.335287
Target:  5'- aGCaGUCUGGGCUGCcuccuccaGCGcGGCgUCGCGCu -3'
miRNA:   3'- -CG-CAGGCCCGACGc-------UGU-UCG-GGCGCG- -5'
11541 3' -61 NC_003085.1 + 16982 0.68 0.33061
Target:  5'- cGC-UCCGGGCccgcgacgccgacgGCGACGAGaa-GCGCg -3'
miRNA:   3'- -CGcAGGCCCGa-------------CGCUGUUCgggCGCG- -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.