miRNA display CGI


Results 1 - 20 of 22 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
12347 3' -53.9 NC_003324.1 + 16251 0.66 0.793569
Target:  5'- aGCUgcgGUgcCCGCCUCgGUGCcagcgaugccuGGCGCGg -3'
miRNA:   3'- gCGGa--UAa-GGUGGAGaUACG-----------UCGCGC- -5'
12347 3' -53.9 NC_003324.1 + 1804 0.66 0.793569
Target:  5'- uCGCuCUcgUCCACCUCgucgaGCucgguccaaGGCGUGg -3'
miRNA:   3'- -GCG-GAuaAGGUGGAGaua--CG---------UCGCGC- -5'
12347 3' -53.9 NC_003324.1 + 16690 0.66 0.777558
Target:  5'- cCGCCUGUUgUGauuucuucguguaacCCUUgucgAUGCAGCGCu -3'
miRNA:   3'- -GCGGAUAAgGU---------------GGAGa---UACGUCGCGc -5'
12347 3' -53.9 NC_003324.1 + 21528 0.66 0.773491
Target:  5'- gGCCg---CCACggcgcaUCgaugugAUGCAGCGCGa -3'
miRNA:   3'- gCGGauaaGGUGg-----AGa-----UACGUCGCGC- -5'
12347 3' -53.9 NC_003324.1 + 53760 0.66 0.773491
Target:  5'- gCGCCUGUUUCGCCguaucaaGCucGGCGCu -3'
miRNA:   3'- -GCGGAUAAGGUGGagaua--CG--UCGCGc -5'
12347 3' -53.9 NC_003324.1 + 19172 0.67 0.74228
Target:  5'- uGCUUGUagCGguCCUCUGcGCGGCGCu -3'
miRNA:   3'- gCGGAUAagGU--GGAGAUaCGUCGCGc -5'
12347 3' -53.9 NC_003324.1 + 48272 0.67 0.74228
Target:  5'- gGCCUAUuuUCCACC-CccUGCagcagaucgacaAGCGCGg -3'
miRNA:   3'- gCGGAUA--AGGUGGaGauACG------------UCGCGC- -5'
12347 3' -53.9 NC_003324.1 + 53926 0.67 0.731632
Target:  5'- aGUC-AUUCCACUUCUcgGCAuaGCa -3'
miRNA:   3'- gCGGaUAAGGUGGAGAuaCGUcgCGc -5'
12347 3' -53.9 NC_003324.1 + 29002 0.67 0.720881
Target:  5'- gCGUCgAUUUCGCUUCcuuaGCAGCGCGc -3'
miRNA:   3'- -GCGGaUAAGGUGGAGaua-CGUCGCGC- -5'
12347 3' -53.9 NC_003324.1 + 5198 0.67 0.71004
Target:  5'- uCGCUUA--CC-CCUCUAUcGCuGGCGCGg -3'
miRNA:   3'- -GCGGAUaaGGuGGAGAUA-CG-UCGCGC- -5'
12347 3' -53.9 NC_003324.1 + 8207 0.67 0.71004
Target:  5'- gCGCCUGgcacuucgaCCAUCUCUGUGaCGG-GCGu -3'
miRNA:   3'- -GCGGAUaa-------GGUGGAGAUAC-GUCgCGC- -5'
12347 3' -53.9 NC_003324.1 + 3007 0.67 0.71004
Target:  5'- gGCCcagUAaUUCGCCUCUAUGCGGU-CGa -3'
miRNA:   3'- gCGG---AUaAGGUGGAGAUACGUCGcGC- -5'
12347 3' -53.9 NC_003324.1 + 26311 0.68 0.666007
Target:  5'- aCGUCUGUUCCgcgGCUUCUuu-CAGCGCc -3'
miRNA:   3'- -GCGGAUAAGG---UGGAGAuacGUCGCGc -5'
12347 3' -53.9 NC_003324.1 + 49932 0.68 0.65489
Target:  5'- uGCCguacUCCGCCUUgAUGCcAGcCGCGg -3'
miRNA:   3'- gCGGaua-AGGUGGAGaUACG-UC-GCGC- -5'
12347 3' -53.9 NC_003324.1 + 9243 0.68 0.65489
Target:  5'- uCGCCauUGUuaUCgACCgCUAuuUGCGGCGCGg -3'
miRNA:   3'- -GCGG--AUA--AGgUGGaGAU--ACGUCGCGC- -5'
12347 3' -53.9 NC_003324.1 + 53568 0.69 0.6326
Target:  5'- uCGCCggcAUUCgGCCUCg--GCuuccGCGCGg -3'
miRNA:   3'- -GCGGa--UAAGgUGGAGauaCGu---CGCGC- -5'
12347 3' -53.9 NC_003324.1 + 1399 0.69 0.599187
Target:  5'- gCGCCgacgGUgcugggcguucUUCGCCUCgucgaGCAGCGCGa -3'
miRNA:   3'- -GCGGa---UA-----------AGGUGGAGaua--CGUCGCGC- -5'
12347 3' -53.9 NC_003324.1 + 33765 0.7 0.566031
Target:  5'- aGCCUGUgauGCCUUggcgGCAGCGCa -3'
miRNA:   3'- gCGGAUAaggUGGAGaua-CGUCGCGc -5'
12347 3' -53.9 NC_003324.1 + 5956 0.71 0.511968
Target:  5'- aGCgaaCUAc-CCGCCgaauggCUAUGCAGCGCGa -3'
miRNA:   3'- gCG---GAUaaGGUGGa-----GAUACGUCGCGC- -5'
12347 3' -53.9 NC_003324.1 + 55112 0.72 0.420784
Target:  5'- aGCCg--UCCGCCUUgccUGCccGGCGCGa -3'
miRNA:   3'- gCGGauaAGGUGGAGau-ACG--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.