miRNA display CGI


Results 1 - 20 of 26 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
12322 3' -60.4 NC_003324.1 + 40319 0.66 0.47342
Target:  5'- gGCgGCAgucGaGCGGGaGCCagcACCGAAGCc -3'
miRNA:   3'- -CGaCGUa--C-CGCCCgCGG---UGGCUUCGc -5'
12322 3' -60.4 NC_003324.1 + 12037 0.66 0.454085
Target:  5'- uGCuUGCcgGGCaGGGCGCCGacucuucuCCGaAAGaCGu -3'
miRNA:   3'- -CG-ACGuaCCG-CCCGCGGU--------GGC-UUC-GC- -5'
12322 3' -60.4 NC_003324.1 + 16909 0.66 0.448368
Target:  5'- uUUGCAaggUGGCGGcugccaGCGUCACCGAuagaucgguuccgccAGCa -3'
miRNA:   3'- cGACGU---ACCGCC------CGCGGUGGCU---------------UCGc -5'
12322 3' -60.4 NC_003324.1 + 27375 0.66 0.443635
Target:  5'- cGCgaagGCAaggGGCGGgaaauccGCGCCACCaacgcgGAAGCc -3'
miRNA:   3'- -CGa---CGUa--CCGCC-------CGCGGUGG------CUUCGc -5'
12322 3' -60.4 NC_003324.1 + 6042 0.66 0.435186
Target:  5'- cGCUGCAUagccauucGGCGGGUaguucGCUGCCuGAuagccagcAGCGa -3'
miRNA:   3'- -CGACGUA--------CCGCCCG-----CGGUGG-CU--------UCGC- -5'
12322 3' -60.4 NC_003324.1 + 28509 0.66 0.429606
Target:  5'- --gGCAacGCGGGCGCCcuucggaccgagaccACUGAGGCc -3'
miRNA:   3'- cgaCGUacCGCCCGCGG---------------UGGCUUCGc -5'
12322 3' -60.4 NC_003324.1 + 48805 0.66 0.425909
Target:  5'- --aGCc-GGaaGGUGCCACCGAGGCc -3'
miRNA:   3'- cgaCGuaCCgcCCGCGGUGGCUUCGc -5'
12322 3' -60.4 NC_003324.1 + 30453 0.67 0.3988
Target:  5'- gGCgGCAUGGCcgaGGGCgacGCCAUCaAGGCu -3'
miRNA:   3'- -CGaCGUACCG---CCCG---CGGUGGcUUCGc -5'
12322 3' -60.4 NC_003324.1 + 22208 0.67 0.390012
Target:  5'- -aUGU-UGGUGGGCuuGCCGCCGcgcaccuucggGAGCGg -3'
miRNA:   3'- cgACGuACCGCCCG--CGGUGGC-----------UUCGC- -5'
12322 3' -60.4 NC_003324.1 + 38319 0.67 0.378778
Target:  5'- uGCaGCAUGucuuUGGGCGUcucgaucacgagggCACCGggGCGg -3'
miRNA:   3'- -CGaCGUACc---GCCCGCG--------------GUGGCuuCGC- -5'
12322 3' -60.4 NC_003324.1 + 8274 0.68 0.36442
Target:  5'- -gUGCcaGGCGcGCGCCGCCGGgcAGUGa -3'
miRNA:   3'- cgACGuaCCGCcCGCGGUGGCU--UCGC- -5'
12322 3' -60.4 NC_003324.1 + 12494 0.68 0.363587
Target:  5'- uGCUGCAUcgaaucgGGaUGGGUGCCGgCG-AGCa -3'
miRNA:   3'- -CGACGUA-------CC-GCCCGCGGUgGCuUCGc -5'
12322 3' -60.4 NC_003324.1 + 20615 0.68 0.332146
Target:  5'- uGUUGCcgGcGCugauGGGCGCUugCGGucGGCGg -3'
miRNA:   3'- -CGACGuaC-CG----CCCGCGGugGCU--UCGC- -5'
12322 3' -60.4 NC_003324.1 + 23521 0.69 0.316814
Target:  5'- aGCgacgGCAagacugUGGUcaaccaGGGCGCCACCGc-GCGg -3'
miRNA:   3'- -CGa---CGU------ACCG------CCCGCGGUGGCuuCGC- -5'
12322 3' -60.4 NC_003324.1 + 3629 0.69 0.316814
Target:  5'- gGCUGCAuagcccuucuUGGCGGGgGCCucGuuGAGGg- -3'
miRNA:   3'- -CGACGU----------ACCGCCCgCGG--UggCUUCgc -5'
12322 3' -60.4 NC_003324.1 + 5491 0.69 0.30935
Target:  5'- cGCcGCAgGuGCGGGCGCCAucuuCCGAGcCGa -3'
miRNA:   3'- -CGaCGUaC-CGCCCGCGGU----GGCUUcGC- -5'
12322 3' -60.4 NC_003324.1 + 30468 0.69 0.30935
Target:  5'- cGUUGCG-GGuCGaaucGGCGCCGCCG-AGCa -3'
miRNA:   3'- -CGACGUaCC-GC----CCGCGGUGGCuUCGc -5'
12322 3' -60.4 NC_003324.1 + 49967 0.69 0.287767
Target:  5'- --aGCAUGGCGaucGGCGCUGCCcugaugGggGCa -3'
miRNA:   3'- cgaCGUACCGC---CCGCGGUGG------CuuCGc -5'
12322 3' -60.4 NC_003324.1 + 21101 0.69 0.285675
Target:  5'- uGCUGCGUcggcuuccacgucgGGCuGGCGCUugCGcAGCa -3'
miRNA:   3'- -CGACGUA--------------CCGcCCGCGGugGCuUCGc -5'
12322 3' -60.4 NC_003324.1 + 5710 0.7 0.274047
Target:  5'- -aUGCAccGCGGGCGCaACCGAaaccuccguuGGCGg -3'
miRNA:   3'- cgACGUacCGCCCGCGgUGGCU----------UCGC- -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.