miRNA display CGI


Results 1 - 20 of 44 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
15881 3' -59.6 NC_004065.1 + 112623 0.66 0.865652
Target:  5'- ---cGcgCCGCGAGCCCAGCgcgcgcggccgAGcGUCg -3'
miRNA:   3'- ccucCuaGGCGCUCGGGUCG-----------UC-CAGa -5'
15881 3' -59.6 NC_004065.1 + 163352 0.66 0.85843
Target:  5'- uGGGGGggCUGUgggGGGCCCGGUGGcUCUc -3'
miRNA:   3'- -CCUCCuaGGCG---CUCGGGUCGUCcAGA- -5'
15881 3' -59.6 NC_004065.1 + 116404 0.66 0.851023
Target:  5'- -cGGGGUCCGCuuccAGCCCcuuGGCGGGa-- -3'
miRNA:   3'- ccUCCUAGGCGc---UCGGG---UCGUCCaga -5'
15881 3' -59.6 NC_004065.1 + 120267 0.66 0.851023
Target:  5'- --uGGAcCgGCGcguagaaacgcaAGCCCGGCGGGUCc -3'
miRNA:   3'- ccuCCUaGgCGC------------UCGGGUCGUCCAGa -5'
15881 3' -59.6 NC_004065.1 + 163092 0.66 0.851023
Target:  5'- cGAGGG-CCGCaccgagaacuggGGGCCCGGCuGG-CUg -3'
miRNA:   3'- cCUCCUaGGCG------------CUCGGGUCGuCCaGA- -5'
15881 3' -59.6 NC_004065.1 + 207981 0.66 0.843437
Target:  5'- cGGAGGGauaCCGCGGccuGCCCGGggccguggcCGGGUUa -3'
miRNA:   3'- -CCUCCUa--GGCGCU---CGGGUC---------GUCCAGa -5'
15881 3' -59.6 NC_004065.1 + 40945 0.66 0.835678
Target:  5'- cGAGG-UCCuCGAGCCCccGCAGGa-- -3'
miRNA:   3'- cCUCCuAGGcGCUCGGGu-CGUCCaga -5'
15881 3' -59.6 NC_004065.1 + 20841 0.66 0.835678
Target:  5'- cGAGGAaagcgccggUCCGCGAGC--GGUAGGUa- -3'
miRNA:   3'- cCUCCU---------AGGCGCUCGggUCGUCCAga -5'
15881 3' -59.6 NC_004065.1 + 29786 0.66 0.834893
Target:  5'- cGGGGGcgcUCCgGCGGGCCguuacacgcugcuCGGCcAGGUCg -3'
miRNA:   3'- -CCUCCu--AGG-CGCUCGG-------------GUCG-UCCAGa -5'
15881 3' -59.6 NC_004065.1 + 120412 0.66 0.827752
Target:  5'- uGGuGGGcaCCGCG-GCCCGG-GGGUCg -3'
miRNA:   3'- -CCuCCUa-GGCGCuCGGGUCgUCCAGa -5'
15881 3' -59.6 NC_004065.1 + 31507 0.67 0.811425
Target:  5'- cGAcGAUCUGCGGuaggacGCCCucacGCAGGUCg -3'
miRNA:   3'- cCUcCUAGGCGCU------CGGGu---CGUCCAGa -5'
15881 3' -59.6 NC_004065.1 + 228248 0.67 0.803038
Target:  5'- gGGAGGuagaaUGCGAcaCCCAGCGGGUg- -3'
miRNA:   3'- -CCUCCuag--GCGCUc-GGGUCGUCCAga -5'
15881 3' -59.6 NC_004065.1 + 136321 0.67 0.803038
Target:  5'- uGGAGG-UCCgGUGAGCCgAGgAGGg-- -3'
miRNA:   3'- -CCUCCuAGG-CGCUCGGgUCgUCCaga -5'
15881 3' -59.6 NC_004065.1 + 108730 0.67 0.803038
Target:  5'- aGGGGGcg-CGCGucGCCCucacGCGGGUCUu -3'
miRNA:   3'- -CCUCCuagGCGCu-CGGGu---CGUCCAGA- -5'
15881 3' -59.6 NC_004065.1 + 30286 0.67 0.79451
Target:  5'- -cGGGGU-CGUGGGCCU-GCGGGUCg -3'
miRNA:   3'- ccUCCUAgGCGCUCGGGuCGUCCAGa -5'
15881 3' -59.6 NC_004065.1 + 149919 0.67 0.785851
Target:  5'- uGAGGggCgCGCG-GCUCGGCAGGa-- -3'
miRNA:   3'- cCUCCuaG-GCGCuCGGGUCGUCCaga -5'
15881 3' -59.6 NC_004065.1 + 214511 0.67 0.785851
Target:  5'- aGuGGcauUCCucacCGAGCCCAGCcAGGUCg -3'
miRNA:   3'- cCuCCu--AGGc---GCUCGGGUCG-UCCAGa -5'
15881 3' -59.6 NC_004065.1 + 118206 0.68 0.750044
Target:  5'- aGGGGaGAUCCGCGcacaaAGaCCGGC-GGUCa -3'
miRNA:   3'- -CCUC-CUAGGCGC-----UCgGGUCGuCCAGa -5'
15881 3' -59.6 NC_004065.1 + 128454 0.68 0.750044
Target:  5'- cGGAGGcGUCCGCGGGCgCGauCAGG-CUa -3'
miRNA:   3'- -CCUCC-UAGGCGCUCGgGUc-GUCCaGA- -5'
15881 3' -59.6 NC_004065.1 + 80849 0.68 0.750044
Target:  5'- --cGGAUCgGaCGAGCgCCAGgcCAGGUCUc -3'
miRNA:   3'- ccuCCUAGgC-GCUCG-GGUC--GUCCAGA- -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.