miRNA display CGI


Results 1 - 20 of 53 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
18990 3' -57.5 NC_004684.1 + 47686 0.66 0.652612
Target:  5'- uCUUGUCGaaGGUGaugcUGGUUGgcgcGGUugCCa -3'
miRNA:   3'- -GAACAGCggCCAC----ACCGAC----UCGugGG- -5'
18990 3' -57.5 NC_004684.1 + 5959 0.67 0.567391
Target:  5'- -cUGgccgCGCCGGUGagcgaccGGCcGAGCAaguCCCg -3'
miRNA:   3'- gaACa---GCGGCCACa------CCGaCUCGU---GGG- -5'
18990 3' -57.5 NC_004684.1 + 14505 0.67 0.567391
Target:  5'- --gGUCGCCGGUGgcacGGUgacGGUgACCCu -3'
miRNA:   3'- gaaCAGCGGCCACa---CCGac-UCG-UGGG- -5'
18990 3' -57.5 NC_004684.1 + 28071 0.67 0.577953
Target:  5'- ----cCGgCGGUGUGGCcGGGCcgccgcgcgACCCg -3'
miRNA:   3'- gaacaGCgGCCACACCGaCUCG---------UGGG- -5'
18990 3' -57.5 NC_004684.1 + 706 0.67 0.588556
Target:  5'- --aGcCGCCGGUGgacGGCcuGGCGCuCCa -3'
miRNA:   3'- gaaCaGCGGCCACa--CCGacUCGUG-GG- -5'
18990 3' -57.5 NC_004684.1 + 26839 0.67 0.588556
Target:  5'- --cG-CGCUGGUGgaccGGUcGAGCACCa -3'
miRNA:   3'- gaaCaGCGGCCACa---CCGaCUCGUGGg -5'
18990 3' -57.5 NC_004684.1 + 1574 0.67 0.599194
Target:  5'- -aUGgugCGCCuGUcUGcGCUGAGCGCCa -3'
miRNA:   3'- gaACa--GCGGcCAcAC-CGACUCGUGGg -5'
18990 3' -57.5 NC_004684.1 + 5695 0.66 0.631234
Target:  5'- -cUGaCGCCGGUG-GaGCaGcGCGCCCu -3'
miRNA:   3'- gaACaGCGGCCACaC-CGaCuCGUGGG- -5'
18990 3' -57.5 NC_004684.1 + 42634 0.66 0.631234
Target:  5'- --cGcCGCCGGUGcUGGUgccgccagcgaUGAGCGCg- -3'
miRNA:   3'- gaaCaGCGGCCAC-ACCG-----------ACUCGUGgg -5'
18990 3' -57.5 NC_004684.1 + 19015 0.68 0.556879
Target:  5'- --gGUCGCUGGUcuccgGGUUG-GCACCg -3'
miRNA:   3'- gaaCAGCGGCCAca---CCGACuCGUGGg -5'
18990 3' -57.5 NC_004684.1 + 16880 0.69 0.495224
Target:  5'- -cUG-CGCCGGUGUGGUgcaGAguuucaagcGCACaCCg -3'
miRNA:   3'- gaACaGCGGCCACACCGa--CU---------CGUG-GG- -5'
18990 3' -57.5 NC_004684.1 + 27262 0.69 0.485239
Target:  5'- -cUGUCGgcguucggcaCGGUGaccgGGCUGAucaGCACCCu -3'
miRNA:   3'- gaACAGCg---------GCCACa---CCGACU---CGUGGG- -5'
18990 3' -57.5 NC_004684.1 + 48371 0.75 0.197492
Target:  5'- -gUGcUUGCCGGUGUGGUgcacgaucAGCACCCc -3'
miRNA:   3'- gaAC-AGCGGCCACACCGac------UCGUGGG- -5'
18990 3' -57.5 NC_004684.1 + 17796 0.75 0.213421
Target:  5'- -cUGUCGCCGGaaaugaagGcGGCUGAGCAgCUg -3'
miRNA:   3'- gaACAGCGGCCa-------CaCCGACUCGUgGG- -5'
18990 3' -57.5 NC_004684.1 + 64038 0.74 0.22293
Target:  5'- -gUGUCGgCGGUGUcGGCcucgaacaccucguUGAGCGCCUu -3'
miRNA:   3'- gaACAGCgGCCACA-CCG--------------ACUCGUGGG- -5'
18990 3' -57.5 NC_004684.1 + 40296 0.73 0.288423
Target:  5'- --cGUCGuuGGUGUcgauGGCguAGCGCCCg -3'
miRNA:   3'- gaaCAGCggCCACA----CCGacUCGUGGG- -5'
18990 3' -57.5 NC_004684.1 + 2828 0.69 0.446313
Target:  5'- -cUG-CGCgGGUG-GGUggaUGAGCACCUg -3'
miRNA:   3'- gaACaGCGgCCACaCCG---ACUCGUGGG- -5'
18990 3' -57.5 NC_004684.1 + 7572 0.69 0.465565
Target:  5'- -gUGgCGCUGGUGcGGCUGgugcgcGGCaACCCg -3'
miRNA:   3'- gaACaGCGGCCACaCCGAC------UCG-UGGG- -5'
18990 3' -57.5 NC_004684.1 + 41447 0.69 0.475351
Target:  5'- -gUGcCGCCGGUGUcaguggGGCUGA-C-CCCg -3'
miRNA:   3'- gaACaGCGGCCACA------CCGACUcGuGGG- -5'
18990 3' -57.5 NC_004684.1 + 13279 0.69 0.485239
Target:  5'- --gGUgGCCGccgGUGGCUGGuGCGCgCCg -3'
miRNA:   3'- gaaCAgCGGCca-CACCGACU-CGUG-GG- -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.