miRNA display CGI


Results 1 - 17 of 17 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
18511 5' -59.4 NC_004681.1 + 8319 0.66 0.55632
Target:  5'- cGGCcuGGUGG-GCCUUgAAGUCGGGUu -3'
miRNA:   3'- -UCGucUCGCCgUGGGAgUUCAGCCCA- -5'
18511 5' -59.4 NC_004681.1 + 62088 0.66 0.55632
Target:  5'- uGGCGGccuccaugGGCGGCAUCCUgCugcAGUCGGuGg -3'
miRNA:   3'- -UCGUC--------UCGCCGUGGGA-Gu--UCAGCC-Ca -5'
18511 5' -59.4 NC_004681.1 + 46710 0.66 0.545982
Target:  5'- uGCGGGGCGGggUCCUCGgcgagugggccGGUCuGGGc -3'
miRNA:   3'- uCGUCUCGCCguGGGAGU-----------UCAG-CCCa -5'
18511 5' -59.4 NC_004681.1 + 5768 0.66 0.535706
Target:  5'- aAGCGGAuCGGCACgaCCUCGucGUCGGcGa -3'
miRNA:   3'- -UCGUCUcGCCGUG--GGAGUu-CAGCC-Ca -5'
18511 5' -59.4 NC_004681.1 + 34552 0.66 0.535706
Target:  5'- cGGCAGgucaucgucGGCGGCACCgUCAuc-UGGGa -3'
miRNA:   3'- -UCGUC---------UCGCCGUGGgAGUucaGCCCa -5'
18511 5' -59.4 NC_004681.1 + 66655 0.66 0.535706
Target:  5'- gGGCAucGGGgGGUACCCgagGGGcCGGGUg -3'
miRNA:   3'- -UCGU--CUCgCCGUGGGag-UUCaGCCCA- -5'
18511 5' -59.4 NC_004681.1 + 25238 0.66 0.535706
Target:  5'- cGGCGGccaUGGCGCCCgcggCGgcGGUUGGGUg -3'
miRNA:   3'- -UCGUCuc-GCCGUGGGa---GU--UCAGCCCA- -5'
18511 5' -59.4 NC_004681.1 + 57829 0.67 0.505314
Target:  5'- gAGCGGGGCuGGCcccuCCCUCucGcUUGGGa -3'
miRNA:   3'- -UCGUCUCG-CCGu---GGGAGuuC-AGCCCa -5'
18511 5' -59.4 NC_004681.1 + 2643 0.67 0.475686
Target:  5'- cGCGGA-CGGCACCCUagcc-CGGGUc -3'
miRNA:   3'- uCGUCUcGCCGUGGGAguucaGCCCA- -5'
18511 5' -59.4 NC_004681.1 + 50886 0.68 0.466002
Target:  5'- aAGCAG-GCGGCcuccaauaCUUCGAGUCGGa- -3'
miRNA:   3'- -UCGUCuCGCCGug------GGAGUUCAGCCca -5'
18511 5' -59.4 NC_004681.1 + 47153 0.68 0.428336
Target:  5'- uGGCGGGGUGcGCGCucgugcacauCCUCGucggGGUCGGGc -3'
miRNA:   3'- -UCGUCUCGC-CGUG----------GGAGU----UCAGCCCa -5'
18511 5' -59.4 NC_004681.1 + 39183 0.69 0.401297
Target:  5'- cGCGGAGauGCucGCCCUCGAcGUCGaGGa -3'
miRNA:   3'- uCGUCUCgcCG--UGGGAGUU-CAGC-CCa -5'
18511 5' -59.4 NC_004681.1 + 24888 0.69 0.392528
Target:  5'- uGGCgAGGGCGGCgACCCcggCAAGU-GGGc -3'
miRNA:   3'- -UCG-UCUCGCCG-UGGGa--GUUCAgCCCa -5'
18511 5' -59.4 NC_004681.1 + 56342 0.69 0.366982
Target:  5'- aAGguGcAGC-GCGCCUUCAAG-CGGGUg -3'
miRNA:   3'- -UCguC-UCGcCGUGGGAGUUCaGCCCA- -5'
18511 5' -59.4 NC_004681.1 + 16142 0.7 0.349792
Target:  5'- cGGCGGAugcggugacagcgGCGGCGCCCUUGccagcAGcCGGGa -3'
miRNA:   3'- -UCGUCU-------------CGCCGUGGGAGU-----UCaGCCCa -5'
18511 5' -59.4 NC_004681.1 + 67343 0.71 0.279328
Target:  5'- cGCAGGGCcuggugaagaagucgGGCGCCUgguUCAAGUaCGGGg -3'
miRNA:   3'- uCGUCUCG---------------CCGUGGG---AGUUCA-GCCCa -5'
18511 5' -59.4 NC_004681.1 + 60625 1.06 0.000818
Target:  5'- gAGCAGAGCGGCACCCUCAAGUCGGGUc -3'
miRNA:   3'- -UCGUCUCGCCGUGGGAGUUCAGCCCA- -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.