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
7228 3' -61.8 NC_001900.1 + 32291 0.66 0.385951
Target:  5'- aACGGcccgaGcCGCUucACGCGCCuucuuCCGGGGGa -3'
miRNA:   3'- gUGCCa----C-GCGG--UGCGUGGu----GGCCCUC- -5'
7228 3' -61.8 NC_001900.1 + 16021 0.66 0.37738
Target:  5'- gGCGGUG-GCCAgcaGCACCAgucUCGGGc- -3'
miRNA:   3'- gUGCCACgCGGUg--CGUGGU---GGCCCuc -5'
7228 3' -61.8 NC_001900.1 + 25046 0.66 0.37653
Target:  5'- gCGCGG-GCuucgGCCGCGCugguagcaccuguGCCGCCGuuGGGGa -3'
miRNA:   3'- -GUGCCaCG----CGGUGCG-------------UGGUGGC--CCUC- -5'
7228 3' -61.8 NC_001900.1 + 1176 0.66 0.360626
Target:  5'- gGCGGUGgaGCCGCcggaaGCgGCCGGGGc -3'
miRNA:   3'- gUGCCACg-CGGUGcg---UGgUGGCCCUc -5'
7228 3' -61.8 NC_001900.1 + 28022 0.66 0.352445
Target:  5'- gGCuGGUGC-CCAgGaACCACgGGGAGu -3'
miRNA:   3'- gUG-CCACGcGGUgCgUGGUGgCCCUC- -5'
7228 3' -61.8 NC_001900.1 + 30923 0.66 0.339632
Target:  5'- gGCGacUGCGCCgacgagucugccaggACGCcaACCAgCCGGGAGa -3'
miRNA:   3'- gUGCc-ACGCGG---------------UGCG--UGGU-GGCCCUC- -5'
7228 3' -61.8 NC_001900.1 + 18881 0.66 0.336482
Target:  5'- gACGGUGCGaucuCCAagGcCAUCACCGaGGGGa -3'
miRNA:   3'- gUGCCACGC----GGUg-C-GUGGUGGC-CCUC- -5'
7228 3' -61.8 NC_001900.1 + 16822 0.66 0.336482
Target:  5'- gAUGGU-CGUCACGggcaACCACCGGGc- -3'
miRNA:   3'- gUGCCAcGCGGUGCg---UGGUGGCCCuc -5'
7228 3' -61.8 NC_001900.1 + 3173 0.67 0.3287
Target:  5'- aGCGGuUGcCGCUACcgacuGCucccCCGCCGGGGGu -3'
miRNA:   3'- gUGCC-AC-GCGGUG-----CGu---GGUGGCCCUC- -5'
7228 3' -61.8 NC_001900.1 + 47304 0.67 0.327929
Target:  5'- aCGCGGUcGCGuCCGgGCAggagaacccuugcCCACUGGGcAGa -3'
miRNA:   3'- -GUGCCA-CGC-GGUgCGU-------------GGUGGCCC-UC- -5'
7228 3' -61.8 NC_001900.1 + 21237 0.67 0.321052
Target:  5'- uCGCGGaacugGCuaCAacggaGCGCCugCGGGAGc -3'
miRNA:   3'- -GUGCCa----CGcgGUg----CGUGGugGCCCUC- -5'
7228 3' -61.8 NC_001900.1 + 3024 0.67 0.313538
Target:  5'- uCAUGGUugccauGCGCCGCGCucgGCgGCUGGGc- -3'
miRNA:   3'- -GUGCCA------CGCGGUGCG---UGgUGGCCCuc -5'
7228 3' -61.8 NC_001900.1 + 10261 0.67 0.306158
Target:  5'- gGCGaUGCGCCugGC-CUACCGGc-- -3'
miRNA:   3'- gUGCcACGCGGugCGuGGUGGCCcuc -5'
7228 3' -61.8 NC_001900.1 + 1839 0.68 0.277972
Target:  5'- aGCaGUGUGCUGCuGCACaACUGGGAGc -3'
miRNA:   3'- gUGcCACGCGGUG-CGUGgUGGCCCUC- -5'
7228 3' -61.8 NC_001900.1 + 40735 0.69 0.237831
Target:  5'- aGCGGUcagcgaugucgucaGCGCCGCgaGCGCCGCCGuGAa -3'
miRNA:   3'- gUGCCA--------------CGCGGUG--CGUGGUGGCcCUc -5'
7228 3' -61.8 NC_001900.1 + 17561 0.69 0.224431
Target:  5'- cUACGGcGUGaaccccgccaccaucUCGCGCACCGuCCGGGGGa -3'
miRNA:   3'- -GUGCCaCGC---------------GGUGCGUGGU-GGCCCUC- -5'
7228 3' -61.8 NC_001900.1 + 21567 0.7 0.200583
Target:  5'- gACGGUGCGCCGCuaCAUCGCCGa--- -3'
miRNA:   3'- gUGCCACGCGGUGc-GUGGUGGCccuc -5'
7228 3' -61.8 NC_001900.1 + 40308 0.72 0.154468
Target:  5'- gCGCGGaacGCGaCCACGUcgUACCGGGAGa -3'
miRNA:   3'- -GUGCCa--CGC-GGUGCGugGUGGCCCUC- -5'
7228 3' -61.8 NC_001900.1 + 16213 0.72 0.13887
Target:  5'- aACGGcUGauCCACGCuugacaGCCACCGGGGGc -3'
miRNA:   3'- gUGCC-ACgcGGUGCG------UGGUGGCCCUC- -5'
7228 3' -61.8 NC_001900.1 + 24096 0.72 0.131625
Target:  5'- uGCGGcUGCGCCGC-CGCCACCaGGuGc -3'
miRNA:   3'- gUGCC-ACGCGGUGcGUGGUGGcCCuC- -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.