miRNA display CGI


Results 1 - 20 of 23 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
12023 3' -64.2 NC_003278.1 + 30139 0.66 0.220778
Target:  5'- -gGCUGACcucgagcaCGCCC-AGGUGGuuGAGg -3'
miRNA:   3'- ugCGGCUGc-------GCGGGcUCCACCggCUC- -5'
12023 3' -64.2 NC_003278.1 + 2086 0.66 0.220778
Target:  5'- gGCGagaaCGAgGCuGCUCGAGGUauGCCGAGc -3'
miRNA:   3'- -UGCg---GCUgCG-CGGGCUCCAc-CGGCUC- -5'
12023 3' -64.2 NC_003278.1 + 20211 0.66 0.204432
Target:  5'- cCGCCGGCGUcgGCCgCGAGuacGGCCaGAGc -3'
miRNA:   3'- uGCGGCUGCG--CGG-GCUCca-CCGG-CUC- -5'
12023 3' -64.2 NC_003278.1 + 6037 0.67 0.198706
Target:  5'- cCGCCGguggaagugcccuACGUGCCCGAGaagGGCCu-- -3'
miRNA:   3'- uGCGGC-------------UGCGCGGGCUCca-CCGGcuc -5'
12023 3' -64.2 NC_003278.1 + 21519 0.67 0.179521
Target:  5'- -gGCCGGCGCcgagGCCCuGGGccaGGCCGGc -3'
miRNA:   3'- ugCGGCUGCG----CGGGcUCCa--CCGGCUc -5'
12023 3' -64.2 NC_003278.1 + 21697 0.67 0.174873
Target:  5'- gGCGCCGGCGCucuuGCCC-AGGUcgcccagcauGGCCa-- -3'
miRNA:   3'- -UGCGGCUGCG----CGGGcUCCA----------CCGGcuc -5'
12023 3' -64.2 NC_003278.1 + 21584 0.68 0.170333
Target:  5'- -aGCCuGACG-GCCCGcgcugaccAGGccuUGGCCGAGa -3'
miRNA:   3'- ugCGG-CUGCgCGGGC--------UCC---ACCGGCUC- -5'
12023 3' -64.2 NC_003278.1 + 31637 0.68 0.156091
Target:  5'- gGCGCCGcaggcuucaaccggGCGCGUCCGcGGGUcGGCaacguCGAGg -3'
miRNA:   3'- -UGCGGC--------------UGCGCGGGC-UCCA-CCG-----GCUC- -5'
12023 3' -64.2 NC_003278.1 + 33210 0.68 0.153212
Target:  5'- cCGCCGGCuGCGgCCGAGGccaucGCCGGc -3'
miRNA:   3'- uGCGGCUG-CGCgGGCUCCac---CGGCUc -5'
12023 3' -64.2 NC_003278.1 + 10257 0.69 0.145249
Target:  5'- uCGUCGucaaGCGCCgCGAGGaUGGCCGc- -3'
miRNA:   3'- uGCGGCug--CGCGG-GCUCC-ACCGGCuc -5'
12023 3' -64.2 NC_003278.1 + 6488 0.69 0.141411
Target:  5'- -gGCCGGCaaggGCGCCCaggacGAGGUGGUCa-- -3'
miRNA:   3'- ugCGGCUG----CGCGGG-----CUCCACCGGcuc -5'
12023 3' -64.2 NC_003278.1 + 34591 0.69 0.134012
Target:  5'- -aGCgGACGCcgcauuCCUGAGGUGGCCa-- -3'
miRNA:   3'- ugCGgCUGCGc-----GGGCUCCACCGGcuc -5'
12023 3' -64.2 NC_003278.1 + 21869 0.69 0.134012
Target:  5'- cGCGCCuGCGCGCCCGccuGcaGGaCCGGGa -3'
miRNA:   3'- -UGCGGcUGCGCGGGCu--CcaCC-GGCUC- -5'
12023 3' -64.2 NC_003278.1 + 14224 0.69 0.12358
Target:  5'- gACGCCGgcgGCGCGCCCGGcGagacGGCUGAc -3'
miRNA:   3'- -UGCGGC---UGCGCGGGCUcCa---CCGGCUc -5'
12023 3' -64.2 NC_003278.1 + 13181 0.7 0.120274
Target:  5'- uCGCCGACGCGaCCGucGGcGGCgCGGGc -3'
miRNA:   3'- uGCGGCUGCGCgGGCu-CCaCCG-GCUC- -5'
12023 3' -64.2 NC_003278.1 + 27225 0.7 0.104944
Target:  5'- -gGCCGcuCGagGCCCGAGG-GGCUGAGc -3'
miRNA:   3'- ugCGGCu-GCg-CGGGCUCCaCCGGCUC- -5'
12023 3' -64.2 NC_003278.1 + 7787 0.72 0.075331
Target:  5'- cCGCCGGCGUGaCCGAGGcGGUccuCGAGg -3'
miRNA:   3'- uGCGGCUGCGCgGGCUCCaCCG---GCUC- -5'
12023 3' -64.2 NC_003278.1 + 22866 0.72 0.073261
Target:  5'- aGCGCCGGCGCGagcaCCGgcuucAGGUuguuGCCGAGg -3'
miRNA:   3'- -UGCGGCUGCGCg---GGC-----UCCAc---CGGCUC- -5'
12023 3' -64.2 NC_003278.1 + 30486 0.73 0.065516
Target:  5'- cCGCCGACcacCGCCagaAGGUGGCCGAc -3'
miRNA:   3'- uGCGGCUGc--GCGGgc-UCCACCGGCUc -5'
12023 3' -64.2 NC_003278.1 + 6888 0.74 0.058564
Target:  5'- gAUGCCGGCuuGCaccuGCCCGGGuUGGCCGGGg -3'
miRNA:   3'- -UGCGGCUG--CG----CGGGCUCcACCGGCUC- -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.