miRNA display CGI


Results 1 - 20 of 30 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
11451 3' -55.7 NC_003085.1 + 42527 0.79 0.096272
Target:  5'- cACCUgcguggCCUCCCGCUUCGCCUCGgccAGCg -3'
miRNA:   3'- uUGGA------GGAGGGUGAGGUGGAGUa--UCG- -5'
11451 3' -55.7 NC_003085.1 + 2313 0.66 0.640456
Target:  5'- uGGCCUgCCUCgCCACcggccgCCGCUUCAUcGGUu -3'
miRNA:   3'- -UUGGA-GGAG-GGUGa-----GGUGGAGUA-UCG- -5'
11451 3' -55.7 NC_003085.1 + 47167 0.66 0.62926
Target:  5'- uGACCUCCUCCaccacgUACUCCGUCUUGacGCg -3'
miRNA:   3'- -UUGGAGGAGG------GUGAGGUGGAGUauCG- -5'
11451 3' -55.7 NC_003085.1 + 27707 0.67 0.584603
Target:  5'- gGGCgUCCgCCCGCugUCgCGCCUCGUugcuGGCg -3'
miRNA:   3'- -UUGgAGGaGGGUG--AG-GUGGAGUA----UCG- -5'
11451 3' -55.7 NC_003085.1 + 6910 0.67 0.562484
Target:  5'- cGACCgCUUCCCGCucauggUCCACCgCAUcccgGGCg -3'
miRNA:   3'- -UUGGaGGAGGGUG------AGGUGGaGUA----UCG- -5'
11451 3' -55.7 NC_003085.1 + 29752 0.67 0.562484
Target:  5'- uGGCCgCCgUCgCGCcCCACCUCGUGcGCa -3'
miRNA:   3'- -UUGGaGG-AGgGUGaGGUGGAGUAU-CG- -5'
11451 3' -55.7 NC_003085.1 + 44118 0.67 0.551507
Target:  5'- uGCCUCUUCCgCcuuugcugACUUCGCCUCcagcGUGGCc -3'
miRNA:   3'- uUGGAGGAGG-G--------UGAGGUGGAG----UAUCG- -5'
11451 3' -55.7 NC_003085.1 + 42639 0.67 0.540596
Target:  5'- -cCCUCgUCgUCGCgCCACCUcCAUAGCc -3'
miRNA:   3'- uuGGAGgAG-GGUGaGGUGGA-GUAUCG- -5'
11451 3' -55.7 NC_003085.1 + 48225 0.68 0.529758
Target:  5'- uGCCUCCgcagCCC-CUCCAacuCCUCcagcAGCg -3'
miRNA:   3'- uUGGAGGa---GGGuGAGGU---GGAGua--UCG- -5'
11451 3' -55.7 NC_003085.1 + 43167 0.68 0.508332
Target:  5'- cGGCCUgCUCCaguCGCUCCACCgccgCGcGGUa -3'
miRNA:   3'- -UUGGAgGAGG---GUGAGGUGGa---GUaUCG- -5'
11451 3' -55.7 NC_003085.1 + 49240 0.69 0.426804
Target:  5'- cGCCUCUuccacugCCCGCUCCgucucuuccuGCgUCAUGGCc -3'
miRNA:   3'- uUGGAGGa------GGGUGAGG----------UGgAGUAUCG- -5'
11451 3' -55.7 NC_003085.1 + 21686 0.72 0.280873
Target:  5'- cGCCUCCaggacgagguggCCCGCUUCGCCUCGgacauccAGCg -3'
miRNA:   3'- uUGGAGGa-----------GGGUGAGGUGGAGUa------UCG- -5'
11451 3' -55.7 NC_003085.1 + 27210 0.67 0.584603
Target:  5'- cGGCCUgCUgCCGCUCCuucgUCUCGuUGGCc -3'
miRNA:   3'- -UUGGAgGAgGGUGAGGu---GGAGU-AUCG- -5'
11451 3' -55.7 NC_003085.1 + 38886 0.66 0.606887
Target:  5'- uGCCUCgugcugcgCCCGCUCCuucGCCUCuu-GCg -3'
miRNA:   3'- uUGGAGga------GGGUGAGG---UGGAGuauCG- -5'
11451 3' -55.7 NC_003085.1 + 5125 0.66 0.606887
Target:  5'- cGCCcUCUCCCGCgucgCCGCC-CA-GGCa -3'
miRNA:   3'- uUGGaGGAGGGUGa---GGUGGaGUaUCG- -5'
11451 3' -55.7 NC_003085.1 + 21716 0.66 0.62926
Target:  5'- uGGCCgugacguacgUgUCCUugUCCACCUCGccAGCa -3'
miRNA:   3'- -UUGGa---------GgAGGGugAGGUGGAGUa-UCG- -5'
11451 3' -55.7 NC_003085.1 + 37757 0.66 0.62926
Target:  5'- cGGCgUCCUCCUGCUcgcCCAUgaaCUgGUAGCg -3'
miRNA:   3'- -UUGgAGGAGGGUGA---GGUG---GAgUAUCG- -5'
11451 3' -55.7 NC_003085.1 + 48191 0.66 0.62926
Target:  5'- -uCC-CCUCCUGCUCCAggUCGUGcGCg -3'
miRNA:   3'- uuGGaGGAGGGUGAGGUggAGUAU-CG- -5'
11451 3' -55.7 NC_003085.1 + 9784 0.66 0.651644
Target:  5'- gAGCCUCCagcgCCUGCUgCugCUCAcgcGCg -3'
miRNA:   3'- -UUGGAGGa---GGGUGAgGugGAGUau-CG- -5'
11451 3' -55.7 NC_003085.1 + 28670 1.1 0.000573
Target:  5'- cAACCUCCUCCCACUCCACCUCAUAGCg -3'
miRNA:   3'- -UUGGAGGAGGGUGAGGUGGAGUAUCG- -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.