miRNA display CGI


Results 1 - 20 of 28 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
18417 3' -60.2 NC_004681.1 + 23848 1.09 0.000405
Target:  5'- uCAGCCCAGCUGGAUCAGCGGCCUGACg -3'
miRNA:   3'- -GUCGGGUCGACCUAGUCGCCGGACUG- -5'
18417 3' -60.2 NC_004681.1 + 65077 0.66 0.517914
Target:  5'- -cGCUCGGgUGGucgccgaGGuCGGCCUGGCa -3'
miRNA:   3'- guCGGGUCgACCuag----UC-GCCGGACUG- -5'
18417 3' -60.2 NC_004681.1 + 16112 0.66 0.517914
Target:  5'- aCAGCCgccaCGGCUGuGUCGgguaucggcuucGCGGCgCUGGCg -3'
miRNA:   3'- -GUCGG----GUCGACcUAGU------------CGCCG-GACUG- -5'
18417 3' -60.2 NC_004681.1 + 60015 0.66 0.467331
Target:  5'- aAGCCCGG-UGGGcaccugcucgccuUCGGCGGCUcccgcaccUGGCa -3'
miRNA:   3'- gUCGGGUCgACCU-------------AGUCGCCGG--------ACUG- -5'
18417 3' -60.2 NC_004681.1 + 60488 0.67 0.449141
Target:  5'- -uGCgCAGCgGGAUUAGUGGCggcaaUGGCg -3'
miRNA:   3'- guCGgGUCGaCCUAGUCGCCGg----ACUG- -5'
18417 3' -60.2 NC_004681.1 + 14808 0.67 0.439726
Target:  5'- -cGCCCAGCUGGcccguaccGagGGCgugGGCCUGGa -3'
miRNA:   3'- guCGGGUCGACC--------UagUCG---CCGGACUg -5'
18417 3' -60.2 NC_004681.1 + 54504 0.67 0.438791
Target:  5'- aGGCCaagAGCUggucccaGGAUCGGUGGCCcGAg -3'
miRNA:   3'- gUCGGg--UCGA-------CCUAGUCGCCGGaCUg -5'
18417 3' -60.2 NC_004681.1 + 17587 0.68 0.394408
Target:  5'- gCGGCCaAGCgccgUGGuAUCGGCGGCUcgGGCg -3'
miRNA:   3'- -GUCGGgUCG----ACC-UAGUCGCCGGa-CUG- -5'
18417 3' -60.2 NC_004681.1 + 59698 0.69 0.32085
Target:  5'- -cGCCCccuGCUGGGaguGCGGCCUGcCa -3'
miRNA:   3'- guCGGGu--CGACCUaguCGCCGGACuG- -5'
18417 3' -60.2 NC_004681.1 + 51614 0.69 0.32085
Target:  5'- -cGCCCAGCUcguaGAgaagUGGCGGaCCUGGCa -3'
miRNA:   3'- guCGGGUCGAc---CUa---GUCGCC-GGACUG- -5'
18417 3' -60.2 NC_004681.1 + 14898 0.67 0.412173
Target:  5'- aCGGgCCAGCUGGGcgccagccuUCAGgaUGGCCagGGCg -3'
miRNA:   3'- -GUCgGGUCGACCU---------AGUC--GCCGGa-CUG- -5'
18417 3' -60.2 NC_004681.1 + 32240 0.67 0.411273
Target:  5'- gCGGUCCAGCUGGucGUUGGCgugGGCCgccgcggUGACc -3'
miRNA:   3'- -GUCGGGUCGACC--UAGUCG---CCGG-------ACUG- -5'
18417 3' -60.2 NC_004681.1 + 3877 0.69 0.327723
Target:  5'- gAGCCCAGUgcaGAcuucgcgUCAGCGGCgaUGACg -3'
miRNA:   3'- gUCGGGUCGac-CU-------AGUCGCCGg-ACUG- -5'
18417 3' -60.2 NC_004681.1 + 51590 0.7 0.305964
Target:  5'- gUAGCCgAGCUGGcggCAGCGGUCg--- -3'
miRNA:   3'- -GUCGGgUCGACCua-GUCGCCGGacug -5'
18417 3' -60.2 NC_004681.1 + 9646 0.7 0.291614
Target:  5'- --cUUCAGCUGGAUCAGCuggaaGGCCgaggGGCg -3'
miRNA:   3'- gucGGGUCGACCUAGUCG-----CCGGa---CUG- -5'
18417 3' -60.2 NC_004681.1 + 30964 0.71 0.264504
Target:  5'- gGGCuCCAGC-GGGUCGGCGGgC-GGCg -3'
miRNA:   3'- gUCG-GGUCGaCCUAGUCGCCgGaCUG- -5'
18417 3' -60.2 NC_004681.1 + 36887 0.72 0.20567
Target:  5'- -uGCCUAGUcagcgGGGggcgggcCAGCGGCCUGGCa -3'
miRNA:   3'- guCGGGUCGa----CCUa------GUCGCCGGACUG- -5'
18417 3' -60.2 NC_004681.1 + 9872 0.73 0.188894
Target:  5'- uCAGCCCGGUuggcguaggcggagUGGAccgcggggaugaUCAGCGGCUUGGg -3'
miRNA:   3'- -GUCGGGUCG--------------ACCU------------AGUCGCCGGACUg -5'
18417 3' -60.2 NC_004681.1 + 8566 0.74 0.158508
Target:  5'- gCAGCCguGCcgGGGUCAGCcGCCUuGGCg -3'
miRNA:   3'- -GUCGGguCGa-CCUAGUCGcCGGA-CUG- -5'
18417 3' -60.2 NC_004681.1 + 38909 0.66 0.487867
Target:  5'- aGGCCCGGaUGGucUCGGCGGaCUUGcGCg -3'
miRNA:   3'- gUCGGGUCgACCu-AGUCGCC-GGAC-UG- -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.