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
11889 5' -57.7 NC_003266.2 + 7059 0.66 0.486689
Target:  5'- aGCCCUUcuccACGg--GgAGGGCauaggCCUGGGCg -3'
miRNA:   3'- -CGGGGA----UGCagaUgUUCCG-----GGACCCG- -5'
11889 5' -57.7 NC_003266.2 + 13588 0.67 0.426444
Target:  5'- cCCCCUGCGUUgccCGGGGaucguCCCUGuGCu -3'
miRNA:   3'- cGGGGAUGCAGau-GUUCC-----GGGACcCG- -5'
11889 5' -57.7 NC_003266.2 + 11270 0.67 0.426444
Target:  5'- cGCaCCCUGa-UCgcgcGCGAGGaggugaCCCUGGGCc -3'
miRNA:   3'- -CG-GGGAUgcAGa---UGUUCC------GGGACCCG- -5'
11889 5' -57.7 NC_003266.2 + 17996 0.67 0.405486
Target:  5'- aGCCCCUGcCGcCggugGCcguGGCCCgcgcgcgaccggGGGCu -3'
miRNA:   3'- -CGGGGAU-GCaGa---UGuu-CCGGGa-----------CCCG- -5'
11889 5' -57.7 NC_003266.2 + 24668 0.67 0.37977
Target:  5'- aGCUCCUGCagaagaacCU-CAAGGCCCUGuGGa -3'
miRNA:   3'- -CGGGGAUGca------GAuGUUCCGGGAC-CCg -5'
11889 5' -57.7 NC_003266.2 + 25328 0.68 0.365574
Target:  5'- cCCCCUGgGUgaugacgcaggccgaCaGCucGGCCUUGGGCg -3'
miRNA:   3'- cGGGGAUgCA---------------GaUGuuCCGGGACCCG- -5'
11889 5' -57.7 NC_003266.2 + 3830 0.68 0.353456
Target:  5'- cGCCCagGCG-CUGgguCAAGGCCucgagCUGGGCc -3'
miRNA:   3'- -CGGGgaUGCaGAU---GUUCCGG-----GACCCG- -5'
11889 5' -57.7 NC_003266.2 + 428 0.68 0.335817
Target:  5'- aCCCCcACGuaaacggucaaagUCUACucGGCCCUcGGCa -3'
miRNA:   3'- cGGGGaUGC-------------AGAUGuuCCGGGAcCCG- -5'
11889 5' -57.7 NC_003266.2 + 33783 0.69 0.304789
Target:  5'- gGUCCCUGCG-CUGCAuGGC---GGGCg -3'
miRNA:   3'- -CGGGGAUGCaGAUGUuCCGggaCCCG- -5'
11889 5' -57.7 NC_003266.2 + 14736 0.69 0.304789
Target:  5'- aGCCaCC-GCcUCUAcCGAGGUCCgGGGCg -3'
miRNA:   3'- -CGG-GGaUGcAGAU-GUUCCGGGaCCCG- -5'
11889 5' -57.7 NC_003266.2 + 23938 0.7 0.280292
Target:  5'- cGCCuCCUugGaagaguucccaagaUCUuCGAGGgUCUGGGCa -3'
miRNA:   3'- -CGG-GGAugC--------------AGAuGUUCCgGGACCCG- -5'
11889 5' -57.7 NC_003266.2 + 16731 0.7 0.275301
Target:  5'- uGUCCacg-GUCUGCAcgccaAGGCCCgGGGCc -3'
miRNA:   3'- -CGGGgaugCAGAUGU-----UCCGGGaCCCG- -5'
11889 5' -57.7 NC_003266.2 + 3474 0.7 0.261434
Target:  5'- aGCCCUUA--UCUgACGGGGCgucuccccuCCUGGGCg -3'
miRNA:   3'- -CGGGGAUgcAGA-UGUUCCG---------GGACCCG- -5'
11889 5' -57.7 NC_003266.2 + 6623 0.71 0.211596
Target:  5'- aGCCCCUcuACGUCUACGAca-UCUGcGGCa -3'
miRNA:   3'- -CGGGGA--UGCAGAUGUUccgGGAC-CCG- -5'
11889 5' -57.7 NC_003266.2 + 15842 0.73 0.160992
Target:  5'- uGgCCCUGCGUCccgUGCGccuGGCCCUGcGCa -3'
miRNA:   3'- -CgGGGAUGCAG---AUGUu--CCGGGACcCG- -5'
11889 5' -57.7 NC_003266.2 + 15342 1.14 0.00015
Target:  5'- uGCCCCUACGUCUACAAGGCCCUGGGCa -3'
miRNA:   3'- -CGGGGAUGCAGAUGUUCCGGGACCCG- -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.