miRNA display CGI


Results 1 - 20 of 39 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
25473 3' -52.9 NC_005336.1 + 87085 0.66 0.974361
Target:  5'- -cGCGGUGguGGGCucGGUGUccacGCGGUUGg -3'
miRNA:   3'- gaCGUUACuuCCUG--CUACG----CGCCAGC- -5'
25473 3' -52.9 NC_005336.1 + 48092 0.66 0.971581
Target:  5'- cCUGCg--GAuGGAC---GCGCGGUCGc -3'
miRNA:   3'- -GACGuuaCUuCCUGcuaCGCGCCAGC- -5'
25473 3' -52.9 NC_005336.1 + 125479 0.66 0.971581
Target:  5'- gCUGCGAUGGGuGcGCGugcGUGCGGUCc -3'
miRNA:   3'- -GACGUUACUU-CcUGCua-CGCGCCAGc -5'
25473 3' -52.9 NC_005336.1 + 128230 0.66 0.97041
Target:  5'- -aGCGAUGgcGGACGugugugucuaccGCGCGG-CGc -3'
miRNA:   3'- gaCGUUACuuCCUGCua----------CGCGCCaGC- -5'
25473 3' -52.9 NC_005336.1 + 131585 0.66 0.969812
Target:  5'- aUGCAG-GAAGG-CGAcguUcuggucguucccgccGCGCGGUCGa -3'
miRNA:   3'- gACGUUaCUUCCuGCU---A---------------CGCGCCAGC- -5'
25473 3' -52.9 NC_005336.1 + 29074 0.66 0.96859
Target:  5'- -gGCGAc-AAGGGCGAccGCGCcGGUCGc -3'
miRNA:   3'- gaCGUUacUUCCUGCUa-CGCG-CCAGC- -5'
25473 3' -52.9 NC_005336.1 + 41105 0.66 0.96195
Target:  5'- uCUGCGcgcGUGAugacggacgagaAGGGCGcgccgcugccguGUGCGCGGaUCGc -3'
miRNA:   3'- -GACGU---UACU------------UCCUGC------------UACGCGCC-AGC- -5'
25473 3' -52.9 NC_005336.1 + 84323 0.66 0.96195
Target:  5'- aUGguGUaGccGGGCGAggcgcGUGCGGUCGa -3'
miRNA:   3'- gACguUA-CuuCCUGCUa----CGCGCCAGC- -5'
25473 3' -52.9 NC_005336.1 + 124452 0.66 0.96195
Target:  5'- gCUGCcgccGGAGGugG-UGCGCGG-Ca -3'
miRNA:   3'- -GACGuua-CUUCCugCuACGCGCCaGc -5'
25473 3' -52.9 NC_005336.1 + 84246 0.66 0.96195
Target:  5'- -gGCGAUGGcgcuaGGGGCGAcUGUcCGGUUGg -3'
miRNA:   3'- gaCGUUACU-----UCCUGCU-ACGcGCCAGC- -5'
25473 3' -52.9 NC_005336.1 + 91321 0.67 0.958289
Target:  5'- aCUGC-AUGccGGGCGAggccacGCGCagGGUCGc -3'
miRNA:   3'- -GACGuUACuuCCUGCUa-----CGCG--CCAGC- -5'
25473 3' -52.9 NC_005336.1 + 23797 0.67 0.954393
Target:  5'- -gGCAGUGGAaugugaguGGACGGUGgGUccuuGGUCa -3'
miRNA:   3'- gaCGUUACUU--------CCUGCUACgCG----CCAGc -5'
25473 3' -52.9 NC_005336.1 + 130045 0.67 0.950259
Target:  5'- aCUGCGAguucuGGGGCGGcgucUGCGUGGaCGu -3'
miRNA:   3'- -GACGUUacu--UCCUGCU----ACGCGCCaGC- -5'
25473 3' -52.9 NC_005336.1 + 71385 0.67 0.950259
Target:  5'- -cGCAGcGggGGcGCGA-GCGCGGgcgCGc -3'
miRNA:   3'- gaCGUUaCuuCC-UGCUaCGCGCCa--GC- -5'
25473 3' -52.9 NC_005336.1 + 68245 0.67 0.945882
Target:  5'- gCUGCc--GAcGGACGcgGCGCuGGUCc -3'
miRNA:   3'- -GACGuuaCUuCCUGCuaCGCG-CCAGc -5'
25473 3' -52.9 NC_005336.1 + 30766 0.67 0.945882
Target:  5'- -cGCGagcGUGGAGG-CG-UGCGCGGaCGa -3'
miRNA:   3'- gaCGU---UACUUCCuGCuACGCGCCaGC- -5'
25473 3' -52.9 NC_005336.1 + 66391 0.67 0.941259
Target:  5'- -cGCAccUGGAGGugGGccuccgcaGCGUGGUCGu -3'
miRNA:   3'- gaCGUu-ACUUCCugCUa-------CGCGCCAGC- -5'
25473 3' -52.9 NC_005336.1 + 42576 0.67 0.941259
Target:  5'- -gGCGAUG-AGGugGca-CGCGGUCa -3'
miRNA:   3'- gaCGUUACuUCCugCuacGCGCCAGc -5'
25473 3' -52.9 NC_005336.1 + 25753 0.68 0.936388
Target:  5'- -aGCAGcaucGGGAUGAUGCccuuggccucGCGGUCGa -3'
miRNA:   3'- gaCGUUacu-UCCUGCUACG----------CGCCAGC- -5'
25473 3' -52.9 NC_005336.1 + 74948 0.68 0.925896
Target:  5'- -cGCAcgGu-GGGCGGgucgcccaGCGCGGUCa -3'
miRNA:   3'- gaCGUuaCuuCCUGCUa-------CGCGCCAGc -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.