miRNA display CGI


Results 1 - 20 of 25 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
10919 3' -56.8 NC_002794.1 + 155096 0.66 0.931173
Target:  5'- -aGGUgUGGGaggCCuuggCGUCGAGCUGGu -3'
miRNA:   3'- agUCGgACCCguaGG----GCAGCUUGACC- -5'
10919 3' -56.8 NC_002794.1 + 134819 0.66 0.926075
Target:  5'- cCAGaugcuCCUGGGCAUCcCCGUgcaCGGGCa-- -3'
miRNA:   3'- aGUC-----GGACCCGUAG-GGCA---GCUUGacc -5'
10919 3' -56.8 NC_002794.1 + 157730 0.66 0.926075
Target:  5'- cCAGCUgGGGCGUggaGUCGAGCaGGa -3'
miRNA:   3'- aGUCGGaCCCGUAgggCAGCUUGaCC- -5'
10919 3' -56.8 NC_002794.1 + 129898 0.66 0.920206
Target:  5'- -gAGCg-GcGGCGUCUccuccggcaccaaCGUCGAACUGGg -3'
miRNA:   3'- agUCGgaC-CCGUAGG-------------GCAGCUUGACC- -5'
10919 3' -56.8 NC_002794.1 + 125188 0.66 0.909425
Target:  5'- gCGGCCgccGcGGCggugacGUCCUGUCGccGCUGGg -3'
miRNA:   3'- aGUCGGa--C-CCG------UAGGGCAGCu-UGACC- -5'
10919 3' -56.8 NC_002794.1 + 113733 0.66 0.909425
Target:  5'- cUCGGCgUGGGCGUCaCGUgggCGGACa-- -3'
miRNA:   3'- -AGUCGgACCCGUAGgGCA---GCUUGacc -5'
10919 3' -56.8 NC_002794.1 + 69816 0.67 0.903427
Target:  5'- uUCGGCCUGG-----CgGUCGGACUGGu -3'
miRNA:   3'- -AGUCGGACCcguagGgCAGCUUGACC- -5'
10919 3' -56.8 NC_002794.1 + 106378 0.67 0.897207
Target:  5'- cCGGCCUGcGGUGucUCCCGcgaugCGGGCaGGa -3'
miRNA:   3'- aGUCGGAC-CCGU--AGGGCa----GCUUGaCC- -5'
10919 3' -56.8 NC_002794.1 + 48077 0.67 0.890769
Target:  5'- gCGGCgaccCUGGGCGUCUCG--GAGCUGa -3'
miRNA:   3'- aGUCG----GACCCGUAGGGCagCUUGACc -5'
10919 3' -56.8 NC_002794.1 + 84145 0.67 0.869462
Target:  5'- -gAGCUUgagguugacgagcGGGCGaacgcgCUCGUCGAGCUGGc -3'
miRNA:   3'- agUCGGA-------------CCCGUa-----GGGCAGCUUGACC- -5'
10919 3' -56.8 NC_002794.1 + 19111 0.68 0.847775
Target:  5'- -gGGUCUGcGGCAUCCCcgaacGUCGA--UGGa -3'
miRNA:   3'- agUCGGAC-CCGUAGGG-----CAGCUugACC- -5'
10919 3' -56.8 NC_002794.1 + 69410 0.68 0.831903
Target:  5'- cUCGGcCCUGGGUccggCUCGUCGGGaccuuggcCUGGg -3'
miRNA:   3'- -AGUC-GGACCCGua--GGGCAGCUU--------GACC- -5'
10919 3' -56.8 NC_002794.1 + 146506 0.69 0.815343
Target:  5'- aCAGCUUGcG-AUCgCCGUCGAugUGGa -3'
miRNA:   3'- aGUCGGACcCgUAG-GGCAGCUugACC- -5'
10919 3' -56.8 NC_002794.1 + 111903 0.69 0.806823
Target:  5'- --cGCCUGGGCcgCCUGgagCGc-CUGGa -3'
miRNA:   3'- aguCGGACCCGuaGGGCa--GCuuGACC- -5'
10919 3' -56.8 NC_002794.1 + 45203 0.69 0.806823
Target:  5'- gUCGaCCUGGGCuggCCCG-CGAACgaGGu -3'
miRNA:   3'- -AGUcGGACCCGua-GGGCaGCUUGa-CC- -5'
10919 3' -56.8 NC_002794.1 + 104830 0.69 0.798154
Target:  5'- -gAGCuCUGGGCggCCC-UCGGGgUGGa -3'
miRNA:   3'- agUCG-GACCCGuaGGGcAGCUUgACC- -5'
10919 3' -56.8 NC_002794.1 + 179655 0.69 0.798154
Target:  5'- --cGCCUGGGCAcggucgaggUCCggcgggucagGUCGGGCUGGc -3'
miRNA:   3'- aguCGGACCCGU---------AGGg---------CAGCUUGACC- -5'
10919 3' -56.8 NC_002794.1 + 43439 0.69 0.798154
Target:  5'- gCuGCCccGGGCcgUCUGUCGGcaGCUGGg -3'
miRNA:   3'- aGuCGGa-CCCGuaGGGCAGCU--UGACC- -5'
10919 3' -56.8 NC_002794.1 + 141838 0.69 0.797279
Target:  5'- aCGGCCgccuucuUGGGCGUcagcugcgaCCCGUCGAcgUGGc -3'
miRNA:   3'- aGUCGG-------ACCCGUA---------GGGCAGCUugACC- -5'
10919 3' -56.8 NC_002794.1 + 115408 0.7 0.774969
Target:  5'- cCGGCCcgucGGCGgcccgcugcccgucuUCCgCGUCGAGCUGGc -3'
miRNA:   3'- aGUCGGac--CCGU---------------AGG-GCAGCUUGACC- -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.