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
18348 3' -59.1 NC_004681.1 + 24471 0.66 0.527591
Target:  5'- cGAGGcGCcgggaGAGUUCCAgCGCUacGAGCUg -3'
miRNA:   3'- aCUCC-CGa----CUCGAGGU-GCGA--CUCGAg -5'
18348 3' -59.1 NC_004681.1 + 5931 0.67 0.50716
Target:  5'- aGAGGGCaugGAGC-CCAuucCGCUGcAGUUg -3'
miRNA:   3'- aCUCCCGa--CUCGaGGU---GCGAC-UCGAg -5'
18348 3' -59.1 NC_004681.1 + 51734 0.67 0.506147
Target:  5'- gGAGGGCUGgucuugccAGgUCCGCcacuucucuacgaGCUGGGCg- -3'
miRNA:   3'- aCUCCCGAC--------UCgAGGUG-------------CGACUCGag -5'
18348 3' -59.1 NC_004681.1 + 27558 0.67 0.46737
Target:  5'- cGGGGG-UGAuCUUCugucCGCUGGGCUCg -3'
miRNA:   3'- aCUCCCgACUcGAGGu---GCGACUCGAG- -5'
18348 3' -59.1 NC_004681.1 + 42720 0.67 0.46737
Target:  5'- gUGAGGGCUucguugcacAGCUCUugGauguccaUGAGCUUg -3'
miRNA:   3'- -ACUCCCGAc--------UCGAGGugCg------ACUCGAG- -5'
18348 3' -59.1 NC_004681.1 + 60314 0.68 0.454786
Target:  5'- gGAGGGUUGGGgUaCCGCGCuaaaaaccaucguuUGAGCcCg -3'
miRNA:   3'- aCUCCCGACUCgA-GGUGCG--------------ACUCGaG- -5'
18348 3' -59.1 NC_004681.1 + 68783 0.68 0.429251
Target:  5'- gGAGG--UGAGCUCCACGaagGAcaGCUCg -3'
miRNA:   3'- aCUCCcgACUCGAGGUGCga-CU--CGAG- -5'
18348 3' -59.1 NC_004681.1 + 2914 0.69 0.401895
Target:  5'- cUGGGGGCcuggcUGGGCgacggcaccgCCACGCgcgccGAGUUCa -3'
miRNA:   3'- -ACUCCCG-----ACUCGa---------GGUGCGa----CUCGAG- -5'
18348 3' -59.1 NC_004681.1 + 30071 0.69 0.384284
Target:  5'- uUGGGGGUUGGGCcgaCCugGC-GGGCa- -3'
miRNA:   3'- -ACUCCCGACUCGa--GGugCGaCUCGag -5'
18348 3' -59.1 NC_004681.1 + 437 0.69 0.375672
Target:  5'- cGAGGGCcuccgcUGGGCguccaaCCugGCcGAGUUCg -3'
miRNA:   3'- aCUCCCG------ACUCGa-----GGugCGaCUCGAG- -5'
18348 3' -59.1 NC_004681.1 + 50213 0.69 0.375672
Target:  5'- cGAGGGCgaUGAGCUCCucgAgGCUGAuGUa- -3'
miRNA:   3'- aCUCCCG--ACUCGAGG---UgCGACU-CGag -5'
18348 3' -59.1 NC_004681.1 + 38061 0.7 0.350631
Target:  5'- -cGGGGCUGA-CUCgCuCGCUGAcGCUCg -3'
miRNA:   3'- acUCCCGACUcGAG-GuGCGACU-CGAG- -5'
18348 3' -59.1 NC_004681.1 + 32388 0.7 0.318365
Target:  5'- cUGGGGGUcgccguUGAGCUCCACccccaggucgaugGCcuUGAGUUCg -3'
miRNA:   3'- -ACUCCCG------ACUCGAGGUG-------------CG--ACUCGAG- -5'
18348 3' -59.1 NC_004681.1 + 30173 0.7 0.311588
Target:  5'- aUGuGcGGCUGAGC-CUGCGCgacagcggGAGCUCc -3'
miRNA:   3'- -ACuC-CCGACUCGaGGUGCGa-------CUCGAG- -5'
18348 3' -59.1 NC_004681.1 + 75607 0.71 0.275938
Target:  5'- --cGGGUUGAGCcUCugGCguaUGAGCUCg -3'
miRNA:   3'- acuCCCGACUCGaGGugCG---ACUCGAG- -5'
18348 3' -59.1 NC_004681.1 + 57596 0.76 0.140358
Target:  5'- gUGAGGGCgcgGAcGCUCuCACGCUcgccguagaggauGAGCUCc -3'
miRNA:   3'- -ACUCCCGa--CU-CGAG-GUGCGA-------------CUCGAG- -5'
18348 3' -59.1 NC_004681.1 + 70135 1.08 0.000589
Target:  5'- cUGAGGGCUGAGCUCCACGCUGAGCUCc -3'
miRNA:   3'- -ACUCCCGACUCGAGGUGCGACUCGAG- -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.