miRNA display CGI


Results 1 - 19 of 19 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
17016 3' -56.1 NC_004333.2 + 43915 0.66 0.647084
Target:  5'- -gUCGaCCGGGcgCAcgaacGUGCGCGGCa -3'
miRNA:   3'- ggAGC-GGUUCuaGUuc---CACGCGCCGa -5'
17016 3' -56.1 NC_004333.2 + 37520 0.66 0.645979
Target:  5'- gCCaCGUgAAGAUCAGucguuccGGUGCGCuGCUc -3'
miRNA:   3'- -GGaGCGgUUCUAGUU-------CCACGCGcCGA- -5'
17016 3' -56.1 NC_004333.2 + 8466 0.66 0.636022
Target:  5'- gCUUGCCGAGGUCGcuugucgucAGuG-GCGCaGGCa -3'
miRNA:   3'- gGAGCGGUUCUAGU---------UC-CaCGCG-CCGa -5'
17016 3' -56.1 NC_004333.2 + 43584 0.66 0.636022
Target:  5'- gCUCGCCucGAacgCGA-GUGCGCGaGCa -3'
miRNA:   3'- gGAGCGGuuCUa--GUUcCACGCGC-CGa -5'
17016 3' -56.1 NC_004333.2 + 32185 0.66 0.624956
Target:  5'- aCUCGCCGAGGUUcAGGacgacgaGCGCGaugaGCa -3'
miRNA:   3'- gGAGCGGUUCUAGuUCCa------CGCGC----CGa -5'
17016 3' -56.1 NC_004333.2 + 42974 0.67 0.569911
Target:  5'- cCCUCGCCGgcGGA-CGAGc-GgGCGGCg -3'
miRNA:   3'- -GGAGCGGU--UCUaGUUCcaCgCGCCGa -5'
17016 3' -56.1 NC_004333.2 + 30595 0.67 0.569911
Target:  5'- gCUUCGCCGAGAaacccCAggccggacgccAGGUcgugcagcaGCGCGGCa -3'
miRNA:   3'- -GGAGCGGUUCUa----GU-----------UCCA---------CGCGCCGa -5'
17016 3' -56.1 NC_004333.2 + 29898 0.67 0.537428
Target:  5'- aCUUCGCCuuGAUCGuuugcAGGUGUGCagGGUUc -3'
miRNA:   3'- -GGAGCGGuuCUAGU-----UCCACGCG--CCGA- -5'
17016 3' -56.1 NC_004333.2 + 22391 0.68 0.526739
Target:  5'- gCCgucUGCCA-GGUCGAGGcuuCGCGGCg -3'
miRNA:   3'- -GGa--GCGGUuCUAGUUCCac-GCGCCGa -5'
17016 3' -56.1 NC_004333.2 + 19126 0.68 0.495179
Target:  5'- aCUCGgCGcGAUCGuGGgcgGCGCGGUg -3'
miRNA:   3'- gGAGCgGUuCUAGUuCCa--CGCGCCGa -5'
17016 3' -56.1 NC_004333.2 + 47465 0.68 0.48485
Target:  5'- aCCUCGCCAcGGcgcUCGcGG-GCGgCGGCa -3'
miRNA:   3'- -GGAGCGGUuCU---AGUuCCaCGC-GCCGa -5'
17016 3' -56.1 NC_004333.2 + 11037 0.68 0.481771
Target:  5'- aUCUCGCCAagcgcgcccGGGUCGaauucucgaccgccGGGcGUGCGGCc -3'
miRNA:   3'- -GGAGCGGU---------UCUAGU--------------UCCaCGCGCCGa -5'
17016 3' -56.1 NC_004333.2 + 7833 0.69 0.444618
Target:  5'- gCUCGCC-AGAUCGAcgcGGccUGCGcCGGCc -3'
miRNA:   3'- gGAGCGGuUCUAGUU---CC--ACGC-GCCGa -5'
17016 3' -56.1 NC_004333.2 + 8850 0.69 0.434855
Target:  5'- uCCUUGUCu-GGUUAAGGUauCGCGGCUg -3'
miRNA:   3'- -GGAGCGGuuCUAGUUCCAc-GCGCCGA- -5'
17016 3' -56.1 NC_004333.2 + 27618 0.7 0.397083
Target:  5'- cCCgacgCGCCGAcGAUCAGcG-GCGCGGCc -3'
miRNA:   3'- -GGa---GCGGUU-CUAGUUcCaCGCGCCGa -5'
17016 3' -56.1 NC_004333.2 + 47967 0.7 0.397083
Target:  5'- -gUCGUCGGcGUCAucggcGGUGUGCGGCUg -3'
miRNA:   3'- ggAGCGGUUcUAGUu----CCACGCGCCGA- -5'
17016 3' -56.1 NC_004333.2 + 19289 0.7 0.370176
Target:  5'- gCCUgCGCCGAGcgCGAuc-GCGCGGCa -3'
miRNA:   3'- -GGA-GCGGUUCuaGUUccaCGCGCCGa -5'
17016 3' -56.1 NC_004333.2 + 418 0.71 0.328174
Target:  5'- uCCUUGaUCAAGA-CAGGcUGCGCGGCa -3'
miRNA:   3'- -GGAGC-GGUUCUaGUUCcACGCGCCGa -5'
17016 3' -56.1 NC_004333.2 + 39287 1.1 0.000548
Target:  5'- aCCUCGCCAAGAUCAAGGUGCGCGGCUa -3'
miRNA:   3'- -GGAGCGGUUCUAGUUCCACGCGCCGA- -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.