miRNA display CGI


Results 1 - 20 of 21 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
12694 3' -54.9 NC_003347.1 + 3450 0.66 0.20033
Target:  5'- gAGCUACCccAUCCAGcaacugcucGCCAcccaGaCCUUCCg -3'
miRNA:   3'- -UCGGUGG--UAGGUU---------CGGUug--C-GGAAGG- -5'
12694 3' -54.9 NC_003347.1 + 4313 0.66 0.194136
Target:  5'- cGCCACCcacgccuUCCucGCCcACGCC--CCa -3'
miRNA:   3'- uCGGUGGu------AGGuuCGGuUGCGGaaGG- -5'
12694 3' -54.9 NC_003347.1 + 1676 0.66 0.194136
Target:  5'- cGCCcCCGUCCGccCCAACaCCUacuUCCu -3'
miRNA:   3'- uCGGuGGUAGGUucGGUUGcGGA---AGG- -5'
12694 3' -54.9 NC_003347.1 + 774 0.66 0.194136
Target:  5'- cGCCcUCAaCCAAGCCGGCauccccGCCacUUCCu -3'
miRNA:   3'- uCGGuGGUaGGUUCGGUUG------CGG--AAGG- -5'
12694 3' -54.9 NC_003347.1 + 4198 0.66 0.188109
Target:  5'- aAGCCGauCCcUCCAAGCCc-CGCC--CCa -3'
miRNA:   3'- -UCGGU--GGuAGGUUCGGuuGCGGaaGG- -5'
12694 3' -54.9 NC_003347.1 + 2830 0.66 0.188109
Target:  5'- uGGCCucuccaccaACCAUCUcaccGCCcuCGCCUUCa -3'
miRNA:   3'- -UCGG---------UGGUAGGuu--CGGuuGCGGAAGg -5'
12694 3' -54.9 NC_003347.1 + 4504 0.66 0.176549
Target:  5'- cAGCCGCCGacgaccauccCCGAGUCAACcccaCCUUCg -3'
miRNA:   3'- -UCGGUGGUa---------GGUUCGGUUGc---GGAAGg -5'
12694 3' -54.9 NC_003347.1 + 5422 0.66 0.176549
Target:  5'- cGGCgCAUCuUCCAAGCCucgagcacGACGgCUUCa -3'
miRNA:   3'- -UCG-GUGGuAGGUUCGG--------UUGCgGAAGg -5'
12694 3' -54.9 NC_003347.1 + 5924 0.67 0.17101
Target:  5'- uGCCGCCAcgccucUCCccAGCUAAagcuCGCCcUCCg -3'
miRNA:   3'- uCGGUGGU------AGGu-UCGGUU----GCGGaAGG- -5'
12694 3' -54.9 NC_003347.1 + 5734 0.67 0.155312
Target:  5'- cGCCggcGCCGUCCGcGCCccccGCGCCcuUUUCg -3'
miRNA:   3'- uCGG---UGGUAGGUuCGGu---UGCGG--AAGG- -5'
12694 3' -54.9 NC_003347.1 + 6077 0.67 0.155312
Target:  5'- aGGCuCACCuccUCCccuccGGCC-ACGCCcUCCa -3'
miRNA:   3'- -UCG-GUGGu--AGGu----UCGGuUGCGGaAGG- -5'
12694 3' -54.9 NC_003347.1 + 34 0.68 0.132032
Target:  5'- cGCCACCcuGUCCAAGuCCGGC-CCgugCUc -3'
miRNA:   3'- uCGGUGG--UAGGUUC-GGUUGcGGaa-GG- -5'
12694 3' -54.9 NC_003347.1 + 1308 0.68 0.132032
Target:  5'- uGGCuCACCAccuccUCCAucaccGCCGGCGaCCU-CCa -3'
miRNA:   3'- -UCG-GUGGU-----AGGUu----CGGUUGC-GGAaGG- -5'
12694 3' -54.9 NC_003347.1 + 3215 0.69 0.10517
Target:  5'- -aCCGCCAgccccucccgauccgCCAAGUCcACGCCUacUCCa -3'
miRNA:   3'- ucGGUGGUa--------------GGUUCGGuUGCGGA--AGG- -5'
12694 3' -54.9 NC_003347.1 + 629 0.69 0.104822
Target:  5'- cAGCCGCCuUCCAA-CCcGCGaucgaCUUCCu -3'
miRNA:   3'- -UCGGUGGuAGGUUcGGuUGCg----GAAGG- -5'
12694 3' -54.9 NC_003347.1 + 3969 0.7 0.094852
Target:  5'- cGGCCACCGcgCCAucaCCuacGCGCCUcCCa -3'
miRNA:   3'- -UCGGUGGUa-GGUuc-GGu--UGCGGAaGG- -5'
12694 3' -54.9 NC_003347.1 + 2974 0.73 0.055226
Target:  5'- cGCCACCGU-CGGGCaCuuCGCCUcUCCg -3'
miRNA:   3'- uCGGUGGUAgGUUCG-GuuGCGGA-AGG- -5'
12694 3' -54.9 NC_003347.1 + 1352 0.73 0.049842
Target:  5'- cGUCACCGUCCucGAGUCAugGUUcUCCg -3'
miRNA:   3'- uCGGUGGUAGG--UUCGGUugCGGaAGG- -5'
12694 3' -54.9 NC_003347.1 + 1865 0.74 0.044971
Target:  5'- cGGCCACCAUuucaccccccCCAAGauCCucgcuCGCCUUCCc -3'
miRNA:   3'- -UCGGUGGUA----------GGUUC--GGuu---GCGGAAGG- -5'
12694 3' -54.9 NC_003347.1 + 1802 0.77 0.026802
Target:  5'- cGCCGCCAUCCccaucGCCAuCGCCcgCCu -3'
miRNA:   3'- uCGGUGGUAGGuu---CGGUuGCGGaaGG- -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.