miRNA display CGI


Results 1 - 20 of 127 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
6673 3' -58.8 NC_001847.1 + 43826 0.76 0.250479
Target:  5'- gCGGCCgcuUCUuugccGCGCUGGCgcugcuggagccCGAGGCUGUGu -3'
miRNA:   3'- -GCCGG---AGA-----UGCGACCG------------GCUCCGAUAC- -5'
6673 3' -58.8 NC_001847.1 + 69252 0.69 0.581921
Target:  5'- uGGCCUaCUACGCgcGGCUGGcGGCg--- -3'
miRNA:   3'- gCCGGA-GAUGCGa-CCGGCU-CCGauac -5'
6673 3' -58.8 NC_001847.1 + 62466 0.69 0.581921
Target:  5'- cCGGCCUCa--GCagGGCCGGGGUc--- -3'
miRNA:   3'- -GCCGGAGaugCGa-CCGGCUCCGauac -5'
6673 3' -58.8 NC_001847.1 + 33975 0.69 0.551845
Target:  5'- gGcGCCgggcGCGCUGGCCG-GGCUGg- -3'
miRNA:   3'- gC-CGGaga-UGCGACCGGCuCCGAUac -5'
6673 3' -58.8 NC_001847.1 + 131424 0.7 0.54192
Target:  5'- gCGGCCgcgcgCUACGCggcGGCCGcgGGGCc--- -3'
miRNA:   3'- -GCCGGa----GAUGCGa--CCGGC--UCCGauac -5'
6673 3' -58.8 NC_001847.1 + 33333 0.7 0.539942
Target:  5'- aCGGCCUCgcggccugggugGCGCUGcuGCaCGAGGCg--- -3'
miRNA:   3'- -GCCGGAGa-----------UGCGAC--CG-GCUCCGauac -5'
6673 3' -58.8 NC_001847.1 + 10847 0.7 0.512527
Target:  5'- aCGGCg---GCGCgUGGCCGAGGCg--- -3'
miRNA:   3'- -GCCGgagaUGCG-ACCGGCUCCGauac -5'
6673 3' -58.8 NC_001847.1 + 37556 0.7 0.49712
Target:  5'- gCGGCC-CUucggaagacgcggcgGCGCUGGCCGcugcGGCUGc- -3'
miRNA:   3'- -GCCGGaGA---------------UGCGACCGGCu---CCGAUac -5'
6673 3' -58.8 NC_001847.1 + 53023 0.71 0.483812
Target:  5'- gCGGCCgCUGCGCgcucgGGCCucGGCUccGa -3'
miRNA:   3'- -GCCGGaGAUGCGa----CCGGcuCCGAuaC- -5'
6673 3' -58.8 NC_001847.1 + 36938 0.71 0.483812
Target:  5'- uGuGCUUCU-CGCUGGCCGAgcgggGGCUGc- -3'
miRNA:   3'- gC-CGGAGAuGCGACCGGCU-----CCGAUac -5'
6673 3' -58.8 NC_001847.1 + 130529 0.71 0.465104
Target:  5'- gGGCCgcccgCgccgaGCUGGCCGA-GCUGUGg -3'
miRNA:   3'- gCCGGa----Gaug--CGACCGGCUcCGAUAC- -5'
6673 3' -58.8 NC_001847.1 + 76388 0.71 0.455892
Target:  5'- aCGGCCUCgggggggGCGCcgggGGCCGcGGCg--- -3'
miRNA:   3'- -GCCGGAGa------UGCGa---CCGGCuCCGauac -5'
6673 3' -58.8 NC_001847.1 + 132290 0.71 0.455892
Target:  5'- uCGGCCUggGCGCUGGCgCGcGcGCUGUu -3'
miRNA:   3'- -GCCGGAgaUGCGACCG-GCuC-CGAUAc -5'
6673 3' -58.8 NC_001847.1 + 17327 0.71 0.44136
Target:  5'- aCGGCCgcguagccggcgccuUCUAgCGCUGGCUGGGGUUc-- -3'
miRNA:   3'- -GCCGG---------------AGAU-GCGACCGGCUCCGAuac -5'
6673 3' -58.8 NC_001847.1 + 132173 0.72 0.420065
Target:  5'- gCGGCCcCggcgGCGCUGcgcGCCGAGGCg--- -3'
miRNA:   3'- -GCCGGaGa---UGCGAC---CGGCUCCGauac -5'
6673 3' -58.8 NC_001847.1 + 60038 0.73 0.361669
Target:  5'- uCGGCCUCUuCGUcgGGCgCGAGGCg--- -3'
miRNA:   3'- -GCCGGAGAuGCGa-CCG-GCUCCGauac -5'
6673 3' -58.8 NC_001847.1 + 81560 0.73 0.346055
Target:  5'- cCGGCCccgcgcagCUGCGCggGGCCGGcGGCUAc- -3'
miRNA:   3'- -GCCGGa-------GAUGCGa-CCGGCU-CCGAUac -5'
6673 3' -58.8 NC_001847.1 + 86029 0.74 0.316296
Target:  5'- aCGGCaCUgCUGCGCUGGUugggCGAGGCgcUGg -3'
miRNA:   3'- -GCCG-GA-GAUGCGACCG----GCUCCGauAC- -5'
6673 3' -58.8 NC_001847.1 + 74125 0.75 0.288508
Target:  5'- cCGGCCguggugCUGCGCgugGcGCCGGGGCgaaugAUGg -3'
miRNA:   3'- -GCCGGa-----GAUGCGa--C-CGGCUCCGa----UAC- -5'
6673 3' -58.8 NC_001847.1 + 116274 1.07 0.001772
Target:  5'- uCGGCCUCUACGCUGGCCGAGGCUAUGc -3'
miRNA:   3'- -GCCGGAGAUGCGACCGGCUCCGAUAC- -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.