miRNA display CGI


Results 1 - 20 of 43 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
12329 3' -55.6 NC_003324.1 + 2827 0.67 0.605319
Target:  5'- cUGCGgUAUuuUCGCCGGgcgagGGGGAGCGUc -3'
miRNA:   3'- -ACGCgGUAu-AGCGGCC-----UCUUUCGCGc -5'
12329 3' -55.6 NC_003324.1 + 3146 0.67 0.660233
Target:  5'- aGCGCCGUGcgGCCauuGAGAGAGacCGCGc -3'
miRNA:   3'- aCGCGGUAUagCGGc--CUCUUUC--GCGC- -5'
12329 3' -55.6 NC_003324.1 + 4271 0.67 0.604222
Target:  5'- aUGCGCCAcggcguuucCGCCGGuGGcaagaugucccgcAAGCGCa -3'
miRNA:   3'- -ACGCGGUaua------GCGGCCuCU-------------UUCGCGc -5'
12329 3' -55.6 NC_003324.1 + 7166 0.69 0.540253
Target:  5'- cGCGCCAacaguUGgugCGCUGGcAGAAcucacGCGCGg -3'
miRNA:   3'- aCGCGGU-----AUa--GCGGCC-UCUUu----CGCGC- -5'
12329 3' -55.6 NC_003324.1 + 7775 0.67 0.660233
Target:  5'- cGCGCCgGUGUUuCCGGGGucGGCGg- -3'
miRNA:   3'- aCGCGG-UAUAGcGGCCUCuuUCGCgc -5'
12329 3' -55.6 NC_003324.1 + 8735 0.67 0.616293
Target:  5'- gGCGgCGg--UGUCGGAGAAgucGGUGCGa -3'
miRNA:   3'- aCGCgGUauaGCGGCCUCUU---UCGCGC- -5'
12329 3' -55.6 NC_003324.1 + 10758 1.1 0.000854
Target:  5'- cUGCGCCAUAUCGCCGGAGAAAGCGCGg -3'
miRNA:   3'- -ACGCGGUAUAGCGGCCUCUUUCGCGC- -5'
12329 3' -55.6 NC_003324.1 + 11589 0.67 0.649262
Target:  5'- cGCGgCucc-UGCCGGAGAcuGGUGCGa -3'
miRNA:   3'- aCGCgGuauaGCGGCCUCUu-UCGCGC- -5'
12329 3' -55.6 NC_003324.1 + 13012 0.66 0.671179
Target:  5'- aGCGCCucaagCGCCuuGAGAGAGaugGCGg -3'
miRNA:   3'- aCGCGGuaua-GCGGc-CUCUUUCg--CGC- -5'
12329 3' -55.6 NC_003324.1 + 13580 0.66 0.682088
Target:  5'- aGCGCCGUcgCGaugaCaGAGA-GGCGCu -3'
miRNA:   3'- aCGCGGUAuaGCg---GcCUCUuUCGCGc -5'
12329 3' -55.6 NC_003324.1 + 16155 0.7 0.467624
Target:  5'- cGCGCCAggcAUCGCUGGcaccGAGGCGgGc -3'
miRNA:   3'- aCGCGGUa--UAGCGGCCuc--UUUCGCgC- -5'
12329 3' -55.6 NC_003324.1 + 16820 0.67 0.616293
Target:  5'- aGCGgCAUGaacUCGCCGGgcAGAuugcccAGCGCu -3'
miRNA:   3'- aCGCgGUAU---AGCGGCC--UCUu-----UCGCGc -5'
12329 3' -55.6 NC_003324.1 + 20471 0.67 0.660233
Target:  5'- cGCGCUcgAUCGCCGcaucgcGGAGCGgGa -3'
miRNA:   3'- aCGCGGuaUAGCGGCcuc---UUUCGCgC- -5'
12329 3' -55.6 NC_003324.1 + 21396 0.66 0.671179
Target:  5'- cGCGCgAaaucgaggaUAUCGCCGGc-GAGGCgGCGa -3'
miRNA:   3'- aCGCGgU---------AUAGCGGCCucUUUCG-CGC- -5'
12329 3' -55.6 NC_003324.1 + 21862 0.66 0.713415
Target:  5'- aGCGCucgacaaCAUGUCGCCGGAcGAGuuccuCGCc -3'
miRNA:   3'- aCGCG-------GUAUAGCGGCCU-CUUuc---GCGc -5'
12329 3' -55.6 NC_003324.1 + 23044 0.67 0.616293
Target:  5'- aGCGCCuguUCGCucgcaucgccacCGGAGAcuGGGaCGCGg -3'
miRNA:   3'- aCGCGGuauAGCG------------GCCUCU--UUC-GCGC- -5'
12329 3' -55.6 NC_003324.1 + 23169 0.69 0.540253
Target:  5'- gGCGCCcacgGUAUgGUCGGc--GAGCGCGg -3'
miRNA:   3'- aCGCGG----UAUAgCGGCCucuUUCGCGC- -5'
12329 3' -55.6 NC_003324.1 + 23494 0.66 0.725137
Target:  5'- gGCGCCAccgCGCgGccaacGAGAaagccGAGCGCGu -3'
miRNA:   3'- aCGCGGUauaGCGgC-----CUCU-----UUCGCGC- -5'
12329 3' -55.6 NC_003324.1 + 26532 0.67 0.627282
Target:  5'- aUGuCGCCGacAUUGCCGucgaugaAGGAAGCGCGa -3'
miRNA:   3'- -AC-GCGGUa-UAGCGGCc------UCUUUCGCGC- -5'
12329 3' -55.6 NC_003324.1 + 27709 0.67 0.604222
Target:  5'- gUGCGCCucggccuUAUCGCgGGcaccGAAccacuucGGCGCGa -3'
miRNA:   3'- -ACGCGGu------AUAGCGgCCu---CUU-------UCGCGC- -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.