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
23059 3' -56.8 NC_005178.1 + 858 0.66 0.537527
Target:  5'- aGGUCGGaaCGCgCAUcgcggaGGUGGCUaggCUGCu -3'
miRNA:   3'- cCCAGCC--GUGgGUA------UCGCCGAa--GACG- -5'
23059 3' -56.8 NC_005178.1 + 4516 0.69 0.35127
Target:  5'- cGGUCGGCagggugaagACCUgggcgGUGGUGGCUUgggugguggCUGCg -3'
miRNA:   3'- cCCAGCCG---------UGGG-----UAUCGCCGAA---------GACG- -5'
23059 3' -56.8 NC_005178.1 + 5963 0.67 0.453729
Target:  5'- cGGGUCGuaGaCC-UGGCGGCgcgUCUcGCg -3'
miRNA:   3'- -CCCAGCcgUgGGuAUCGCCGa--AGA-CG- -5'
23059 3' -56.8 NC_005178.1 + 7119 0.67 0.453729
Target:  5'- aGGGcCGGgCACUCAauGCGGCU-CaGCg -3'
miRNA:   3'- -CCCaGCC-GUGGGUauCGCCGAaGaCG- -5'
23059 3' -56.8 NC_005178.1 + 12413 0.68 0.39577
Target:  5'- uGGG-CGGCACgUugacgGGCGGUUUCgaGCu -3'
miRNA:   3'- -CCCaGCCGUGgGua---UCGCCGAAGa-CG- -5'
23059 3' -56.8 NC_005178.1 + 16637 0.66 0.537527
Target:  5'- aGGGgCGGUAaugacguugCCAUGGCGGCcaggUCgGCc -3'
miRNA:   3'- -CCCaGCCGUg--------GGUAUCGCCGa---AGaCG- -5'
23059 3' -56.8 NC_005178.1 + 17780 0.66 0.515997
Target:  5'- cGGUCGGUcgucUCCAgGGUGGUcaaggUCUGCu -3'
miRNA:   3'- cCCAGCCGu---GGGUaUCGCCGa----AGACG- -5'
23059 3' -56.8 NC_005178.1 + 20041 0.68 0.39577
Target:  5'- aGGGUCuGGUGCUCGUAGUccaggacgGGCggagUCUuGCg -3'
miRNA:   3'- -CCCAG-CCGUGGGUAUCG--------CCGa---AGA-CG- -5'
23059 3' -56.8 NC_005178.1 + 20550 0.73 0.188263
Target:  5'- cGGGggCGGCgACCUucagcugggcgGUGGCGGCggcgaUCUGCu -3'
miRNA:   3'- -CCCa-GCCG-UGGG-----------UAUCGCCGa----AGACG- -5'
23059 3' -56.8 NC_005178.1 + 21267 0.73 0.193474
Target:  5'- cGGGuuUCGGUGCcguCCGUGGCGGCgacggUCUGg -3'
miRNA:   3'- -CCC--AGCCGUG---GGUAUCGCCGa----AGACg -5'
23059 3' -56.8 NC_005178.1 + 21465 0.7 0.287726
Target:  5'- --cUCGGCACuuCCAUGGCGauCUUCUGCc -3'
miRNA:   3'- cccAGCCGUG--GGUAUCGCc-GAAGACG- -5'
23059 3' -56.8 NC_005178.1 + 26652 0.69 0.381139
Target:  5'- uGGG-CGGC-CCCAgcgaaUcccuugcugaucgagGGCGGCUaUCUGCu -3'
miRNA:   3'- -CCCaGCCGuGGGU-----A---------------UCGCCGA-AGACG- -5'
23059 3' -56.8 NC_005178.1 + 28126 0.72 0.23358
Target:  5'- uGGGcggUGGCACCgAUGGCGGCgcccaggggCUGa -3'
miRNA:   3'- -CCCa--GCCGUGGgUAUCGCCGaa-------GACg -5'
23059 3' -56.8 NC_005178.1 + 28162 0.67 0.484385
Target:  5'- cGGUCGGCGCCU----CGGCUguaUCcGCc -3'
miRNA:   3'- cCCAGCCGUGGGuaucGCCGA---AGaCG- -5'
23059 3' -56.8 NC_005178.1 + 28189 0.67 0.474053
Target:  5'- cGGcCGGCGCCC-UGGCGacuGCUg--GCg -3'
miRNA:   3'- cCCaGCCGUGGGuAUCGC---CGAagaCG- -5'
23059 3' -56.8 NC_005178.1 + 28464 0.68 0.386583
Target:  5'- cGGUCGGCAUCCGccaugcAGCcagGGCUUacuccgCUGCu -3'
miRNA:   3'- cCCAGCCGUGGGUa-----UCG---CCGAA------GACG- -5'
23059 3' -56.8 NC_005178.1 + 29897 0.68 0.41456
Target:  5'- cGGUCGGUgACCCAgccaAG-GGUUUCgGCg -3'
miRNA:   3'- cCCAGCCG-UGGGUa---UCgCCGAAGaCG- -5'
23059 3' -56.8 NC_005178.1 + 32063 1.13 0.000216
Target:  5'- uGGGUCGGCACCCAUAGCGGCUUCUGCu -3'
miRNA:   3'- -CCCAGCCGUGGGUAUCGCCGAAGACG- -5'
23059 3' -56.8 NC_005178.1 + 32296 0.74 0.173366
Target:  5'- cGGUCGGCucgaccaggcgGCCCAgGGCGGCgUCgaugGCc -3'
miRNA:   3'- cCCAGCCG-----------UGGGUaUCGCCGaAGa---CG- -5'
23059 3' -56.8 NC_005178.1 + 33040 0.66 0.533195
Target:  5'- uGGG-CGGCACCgAgggcauuccggcaGGUGGCcaaCUGCg -3'
miRNA:   3'- -CCCaGCCGUGGgUa------------UCGCCGaa-GACG- -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.