miRNA display CGI


Results 1 - 20 of 22 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
19608 3' -51.9 NC_004686.1 + 20359 0.66 0.90921
Target:  5'- gCGGUgcgUGGCCGGCA--UAUUCGCg -3'
miRNA:   3'- gGCUAgaaGUCGGCCGUcuGUAAGCG- -5'
19608 3' -51.9 NC_004686.1 + 25905 0.66 0.902467
Target:  5'- uUGAUCUguccCGGCC-GCGGGCcggCGCa -3'
miRNA:   3'- gGCUAGAa---GUCGGcCGUCUGuaaGCG- -5'
19608 3' -51.9 NC_004686.1 + 43875 0.66 0.902467
Target:  5'- uCUGAUC--CAGUCGGCGcGCGaugauUUCGCa -3'
miRNA:   3'- -GGCUAGaaGUCGGCCGUcUGU-----AAGCG- -5'
19608 3' -51.9 NC_004686.1 + 4570 0.66 0.902467
Target:  5'- cUCGAUCUcgUCgAGCuUGGCAG-CcUUCGCc -3'
miRNA:   3'- -GGCUAGA--AG-UCG-GCCGUCuGuAAGCG- -5'
19608 3' -51.9 NC_004686.1 + 2182 0.66 0.902467
Target:  5'- gCCGGcgugaUUCAGCa-GCAGACgGUUCGUa -3'
miRNA:   3'- -GGCUag---AAGUCGgcCGUCUG-UAAGCG- -5'
19608 3' -51.9 NC_004686.1 + 12157 0.66 0.895447
Target:  5'- gCGGUCa--GGCCgcggggccagcGGCGG-CGUUCGCa -3'
miRNA:   3'- gGCUAGaagUCGG-----------CCGUCuGUAAGCG- -5'
19608 3' -51.9 NC_004686.1 + 34703 0.66 0.895447
Target:  5'- gCCGAagcgaaUCgguggCAG-CGGCAGAaGUUCGCc -3'
miRNA:   3'- -GGCU------AGaa---GUCgGCCGUCUgUAAGCG- -5'
19608 3' -51.9 NC_004686.1 + 54949 0.66 0.880595
Target:  5'- aCGcgUUUCAgGuuGGCGGGCcggCGCg -3'
miRNA:   3'- gGCuaGAAGU-CggCCGUCUGuaaGCG- -5'
19608 3' -51.9 NC_004686.1 + 52400 0.67 0.872772
Target:  5'- uCCGGUCcccaAGUggugUGGCAGuucugGCAUUCGCa -3'
miRNA:   3'- -GGCUAGaag-UCG----GCCGUC-----UGUAAGCG- -5'
19608 3' -51.9 NC_004686.1 + 25671 0.68 0.82906
Target:  5'- uUGAUCUcCgccauguaccgcaGGCCGGCGGAC--UCGUg -3'
miRNA:   3'- gGCUAGAaG-------------UCGGCCGUCUGuaAGCG- -5'
19608 3' -51.9 NC_004686.1 + 11916 0.68 0.811296
Target:  5'- gCCGGUCggu-GCCGGUGGGCAaccCGUc -3'
miRNA:   3'- -GGCUAGaaguCGGCCGUCUGUaa-GCG- -5'
19608 3' -51.9 NC_004686.1 + 8022 0.68 0.801662
Target:  5'- aCGGUCUUCAGCaCGacCGGAUucgacUCGCa -3'
miRNA:   3'- gGCUAGAAGUCG-GCc-GUCUGua---AGCG- -5'
19608 3' -51.9 NC_004686.1 + 18519 0.68 0.791846
Target:  5'- gCCGAUUggugugaUCGGCUGGCucGGCAagggaUCGCa -3'
miRNA:   3'- -GGCUAGa------AGUCGGCCGu-CUGUa----AGCG- -5'
19608 3' -51.9 NC_004686.1 + 40469 0.68 0.791846
Target:  5'- uCUGAU--UCGuGCCGGCAGGCGgcgauccuugCGCa -3'
miRNA:   3'- -GGCUAgaAGU-CGGCCGUCUGUaa--------GCG- -5'
19608 3' -51.9 NC_004686.1 + 9450 0.69 0.771713
Target:  5'- cCCGAUCUUCuGCCcggaacGGCGGGa---CGCc -3'
miRNA:   3'- -GGCUAGAAGuCGG------CCGUCUguaaGCG- -5'
19608 3' -51.9 NC_004686.1 + 12114 0.69 0.771713
Target:  5'- aCCGcggCUUCGGCugccgcaaCGGCGGGCAguUUCGg -3'
miRNA:   3'- -GGCua-GAAGUCG--------GCCGUCUGU--AAGCg -5'
19608 3' -51.9 NC_004686.1 + 5358 0.7 0.675168
Target:  5'- -gGAUCUUC-GCCGGCGaacccGACAgagcCGCa -3'
miRNA:   3'- ggCUAGAAGuCGGCCGU-----CUGUaa--GCG- -5'
19608 3' -51.9 NC_004686.1 + 19052 0.71 0.630663
Target:  5'- gUCGGgugCU--GGCCGGCAGGCGUcuuuggCGCa -3'
miRNA:   3'- -GGCUa--GAagUCGGCCGUCUGUAa-----GCG- -5'
19608 3' -51.9 NC_004686.1 + 47276 0.71 0.619513
Target:  5'- uCCGAggacCUUCGcuucGCCGGCGGugAggUUGCu -3'
miRNA:   3'- -GGCUa---GAAGU----CGGCCGUCugUa-AGCG- -5'
19608 3' -51.9 NC_004686.1 + 9239 0.72 0.597258
Target:  5'- aCCGAUCUcaCGGCCGGCGGcuuguCAgagggaCGCu -3'
miRNA:   3'- -GGCUAGAa-GUCGGCCGUCu----GUaa----GCG- -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.