miRNA display CGI


Results 1 - 16 of 16 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
23120 3' -57 NC_005178.1 + 12916 0.66 0.475281
Target:  5'- uGGCCGgugGUGG-GCUggaggACGUGGCGcgccAGGUg -3'
miRNA:   3'- -UCGGUa--CGCCgCGA-----UGUACCGU----UCCA- -5'
23120 3' -57 NC_005178.1 + 11254 0.66 0.46485
Target:  5'- cGCCAUgGCGGacaGUUGCccGGCGGuGGUu -3'
miRNA:   3'- uCGGUA-CGCCg--CGAUGuaCCGUU-CCA- -5'
23120 3' -57 NC_005178.1 + 26914 0.66 0.45454
Target:  5'- cGCCGgccGgGGCGUUGCGccccggcuuagUGGaCAGGGUg -3'
miRNA:   3'- uCGGUa--CgCCGCGAUGU-----------ACC-GUUCCA- -5'
23120 3' -57 NC_005178.1 + 14623 0.66 0.444355
Target:  5'- gGGCCA-GCGGCaGCUgguaGCG-GGCGugcAGGUg -3'
miRNA:   3'- -UCGGUaCGCCG-CGA----UGUaCCGU---UCCA- -5'
23120 3' -57 NC_005178.1 + 8953 0.67 0.414591
Target:  5'- cGcCCAUGCuugGGCGUgguagGgAUGGCGGGGa -3'
miRNA:   3'- uC-GGUACG---CCGCGa----UgUACCGUUCCa -5'
23120 3' -57 NC_005178.1 + 25780 0.68 0.350142
Target:  5'- cGGCC-UGCGGCGgaACccccAUGGCucGGg -3'
miRNA:   3'- -UCGGuACGCCGCgaUG----UACCGuuCCa -5'
23120 3' -57 NC_005178.1 + 24084 0.69 0.316645
Target:  5'- cGGCCcgGacaaccuGGCGCUuacccucUAUGGCAAGGUc -3'
miRNA:   3'- -UCGGuaCg------CCGCGAu------GUACCGUUCCA- -5'
23120 3' -57 NC_005178.1 + 30472 0.69 0.311834
Target:  5'- uGCCGUGCgccaucuaugcguucGGCGCUcagcagcgcucGCGguaugugGGCGAGGUg -3'
miRNA:   3'- uCGGUACG---------------CCGCGA-----------UGUa------CCGUUCCA- -5'
23120 3' -57 NC_005178.1 + 16537 0.69 0.285621
Target:  5'- aGGCCGgugGCGGUGCUGCcgcccacGGCGAacccGGUa -3'
miRNA:   3'- -UCGGUa--CGCCGCGAUGua-----CCGUU----CCA- -5'
23120 3' -57 NC_005178.1 + 25883 0.71 0.237181
Target:  5'- aGGCCAUGCGGCaGUUGCcgGcGCAGa-- -3'
miRNA:   3'- -UCGGUACGCCG-CGAUGuaC-CGUUcca -5'
23120 3' -57 NC_005178.1 + 23678 0.71 0.212714
Target:  5'- cGCCggGCGGCGCUGgccuUcgGGuCGGGGUc -3'
miRNA:   3'- uCGGuaCGCCGCGAU----GuaCC-GUUCCA- -5'
23120 3' -57 NC_005178.1 + 26453 0.72 0.195815
Target:  5'- cAGCagcGCGGCGCUGCcgGcCGAGGUg -3'
miRNA:   3'- -UCGguaCGCCGCGAUGuaCcGUUCCA- -5'
23120 3' -57 NC_005178.1 + 28523 0.72 0.195815
Target:  5'- aGGauggGCGGCGCUACAUgacugGGCGGGGg -3'
miRNA:   3'- -UCgguaCGCCGCGAUGUA-----CCGUUCCa -5'
23120 3' -57 NC_005178.1 + 20057 0.74 0.139491
Target:  5'- uGCCAUGUaGCGCcGCAUGGCuGGGc -3'
miRNA:   3'- uCGGUACGcCGCGaUGUACCGuUCCa -5'
23120 3' -57 NC_005178.1 + 14035 0.76 0.093853
Target:  5'- aAGCCAuUGCGGCGCcGCGUGGUAAugccaaguccacccuGGUg -3'
miRNA:   3'- -UCGGU-ACGCCGCGaUGUACCGUU---------------CCA- -5'
23120 3' -57 NC_005178.1 + 17496 1.08 0.000391
Target:  5'- cAGCCAUGCGGCGCUACAUGGCAAGGUg -3'
miRNA:   3'- -UCGGUACGCCGCGAUGUACCGUUCCA- -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.