miRNA display CGI


Results 1 - 20 of 31 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
23267 3' -57.3 NC_005259.1 + 10616 0.66 0.70885
Target:  5'- -gCACaCGUGUGGguGCGUCGAg--GCCg -3'
miRNA:   3'- gaGUG-GCACACC--UGCGGCUagaCGGg -5'
23267 3' -57.3 NC_005259.1 + 55912 0.66 0.70885
Target:  5'- gUCGCUGgccaGAcCGCUGGUCUGCUCg -3'
miRNA:   3'- gAGUGGCacacCU-GCGGCUAGACGGG- -5'
23267 3' -57.3 NC_005259.1 + 50269 0.66 0.705741
Target:  5'- aCUCGCUGUcGUcGGugGCgGGaacgucgugcacgcUCUGCCa -3'
miRNA:   3'- -GAGUGGCA-CA-CCugCGgCU--------------AGACGGg -5'
23267 3' -57.3 NC_005259.1 + 63809 0.66 0.698462
Target:  5'- -cUugCGUGUGGucCGCuCGAUCUcGCgCa -3'
miRNA:   3'- gaGugGCACACCu-GCG-GCUAGA-CGgG- -5'
23267 3' -57.3 NC_005259.1 + 35539 0.66 0.698462
Target:  5'- -cCGCCGU-----CGCCGAUCcGCCCg -3'
miRNA:   3'- gaGUGGCAcaccuGCGGCUAGaCGGG- -5'
23267 3' -57.3 NC_005259.1 + 753 0.66 0.678568
Target:  5'- -cCGCCG-GUGccuaccgcguccaccGCGCCGAggcggCUGCCCu -3'
miRNA:   3'- gaGUGGCaCACc--------------UGCGGCUa----GACGGG- -5'
23267 3' -57.3 NC_005259.1 + 32420 0.66 0.677517
Target:  5'- -gCACCGUGUccucGGGCaGCuCGGUCUcaggGUCCa -3'
miRNA:   3'- gaGUGGCACA----CCUG-CG-GCUAGA----CGGG- -5'
23267 3' -57.3 NC_005259.1 + 42941 0.66 0.677517
Target:  5'- cCUCGCCGUGggcgaGGcCGCCGuuGUCgaacgggaUGCCg -3'
miRNA:   3'- -GAGUGGCACa----CCuGCGGC--UAG--------ACGGg -5'
23267 3' -57.3 NC_005259.1 + 63652 0.67 0.635222
Target:  5'- gCUCGCUGgccgGGACGCCGGacaccUCggGCaCCg -3'
miRNA:   3'- -GAGUGGCaca-CCUGCGGCU-----AGa-CG-GG- -5'
23267 3' -57.3 NC_005259.1 + 32367 0.67 0.624619
Target:  5'- -cCGCCGUGUaGGGCGggca-CUGCCCg -3'
miRNA:   3'- gaGUGGCACA-CCUGCggcuaGACGGG- -5'
23267 3' -57.3 NC_005259.1 + 21645 0.67 0.624619
Target:  5'- uUCGCCGaGgcucucgcgGaGAUGCCGAUCcaGCCCa -3'
miRNA:   3'- gAGUGGCaCa--------C-CUGCGGCUAGa-CGGG- -5'
23267 3' -57.3 NC_005259.1 + 22798 0.67 0.624619
Target:  5'- gCUCACCGa--GGGUGCCGAUUU-CCCg -3'
miRNA:   3'- -GAGUGGCacaCCUGCGGCUAGAcGGG- -5'
23267 3' -57.3 NC_005259.1 + 19530 0.67 0.614023
Target:  5'- cCUCACCGccGUGcAgGCCGAcgcguaUGCCCg -3'
miRNA:   3'- -GAGUGGCa-CACcUgCGGCUag----ACGGG- -5'
23267 3' -57.3 NC_005259.1 + 997 0.67 0.60344
Target:  5'- --aGCCGUGUGGuguACG-CGAUacguaUGCCCu -3'
miRNA:   3'- gagUGGCACACC---UGCgGCUAg----ACGGG- -5'
23267 3' -57.3 NC_005259.1 + 3853 0.68 0.571863
Target:  5'- -gCACCGUc--GACGCCGGUCgagcGCCUc -3'
miRNA:   3'- gaGUGGCAcacCUGCGGCUAGa---CGGG- -5'
23267 3' -57.3 NC_005259.1 + 26821 0.68 0.551027
Target:  5'- -gUACCGgcgGUGG-UGCCGGggcggUCUGCUCg -3'
miRNA:   3'- gaGUGGCa--CACCuGCGGCU-----AGACGGG- -5'
23267 3' -57.3 NC_005259.1 + 57686 0.68 0.551027
Target:  5'- aUCgACCGUGgccaGGuuGCCGggCuUGCCCg -3'
miRNA:   3'- gAG-UGGCACa---CCugCGGCuaG-ACGGG- -5'
23267 3' -57.3 NC_005259.1 + 28231 0.68 0.540695
Target:  5'- -cCACCGUcGgcggcggGGugGUCGAUCacgauccauUGCCCg -3'
miRNA:   3'- gaGUGGCA-Ca------CCugCGGCUAG---------ACGGG- -5'
23267 3' -57.3 NC_005259.1 + 50091 0.68 0.540695
Target:  5'- gCUCGCCGa-UGGuGCGcCCGAggUUGCCCg -3'
miRNA:   3'- -GAGUGGCacACC-UGC-GGCUa-GACGGG- -5'
23267 3' -57.3 NC_005259.1 + 11036 0.68 0.53658
Target:  5'- uUCGCCGgGUGGucaccgcaugacgUGCCGAUCgGCUCa -3'
miRNA:   3'- gAGUGGCaCACCu------------GCGGCUAGaCGGG- -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.