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
1478 3' -50.4 NC_001335.1 + 39139 0.66 0.907574
Target:  5'- --cGCAGCUCUacgaGCUGGGagacCCGgauccugGCCa -3'
miRNA:   3'- gaaCGUCGAGAg---UGACUC----GGUaa-----UGG- -5'
1478 3' -50.4 NC_001335.1 + 9872 0.66 0.900508
Target:  5'- --gGCGGCUCaagccgcgaUCACUGcgGGUC-UUGCCa -3'
miRNA:   3'- gaaCGUCGAG---------AGUGAC--UCGGuAAUGG- -5'
1478 3' -50.4 NC_001335.1 + 17521 0.67 0.885492
Target:  5'- --aGuCGGCUCUCGCcaaccUGAugGCCAUcgGCCu -3'
miRNA:   3'- gaaC-GUCGAGAGUG-----ACU--CGGUAa-UGG- -5'
1478 3' -50.4 NC_001335.1 + 46836 0.67 0.869333
Target:  5'- cCUUGCuuGCUCgccUCGacCUGGGCCAUcuCCa -3'
miRNA:   3'- -GAACGu-CGAG---AGU--GACUCGGUAauGG- -5'
1478 3' -50.4 NC_001335.1 + 29762 0.67 0.860842
Target:  5'- -cUGCAGaUCUCACUGAucuuguGCUcgUACg -3'
miRNA:   3'- gaACGUCgAGAGUGACU------CGGuaAUGg -5'
1478 3' -50.4 NC_001335.1 + 29162 0.67 0.852088
Target:  5'- --gGCgaaGGCUCUCGCUGAGgCAguggggAUCu -3'
miRNA:   3'- gaaCG---UCGAGAGUGACUCgGUaa----UGG- -5'
1478 3' -50.4 NC_001335.1 + 48265 0.67 0.852088
Target:  5'- cCUUGCGGCgCUCGC---GCCG-UACCu -3'
miRNA:   3'- -GAACGUCGaGAGUGacuCGGUaAUGG- -5'
1478 3' -50.4 NC_001335.1 + 16188 0.67 0.852088
Target:  5'- --aGCAGCUC-CGCUGgucggcaucguGGCCGgucugcugGCCg -3'
miRNA:   3'- gaaCGUCGAGaGUGAC-----------UCGGUaa------UGG- -5'
1478 3' -50.4 NC_001335.1 + 33953 0.67 0.852088
Target:  5'- -aUGCGGCgagaUCACUcucgaaccguggGAGCCGUgcaACCu -3'
miRNA:   3'- gaACGUCGag--AGUGA------------CUCGGUAa--UGG- -5'
1478 3' -50.4 NC_001335.1 + 37978 0.68 0.843079
Target:  5'- ----gGGCUC-CGCUGAGCCcc-ACCg -3'
miRNA:   3'- gaacgUCGAGaGUGACUCGGuaaUGG- -5'
1478 3' -50.4 NC_001335.1 + 32875 0.68 0.833826
Target:  5'- --cGCGGuCUCagGCUcagGAGCCGggGCCg -3'
miRNA:   3'- gaaCGUC-GAGagUGA---CUCGGUaaUGG- -5'
1478 3' -50.4 NC_001335.1 + 46501 0.68 0.814629
Target:  5'- --gGUAGCUCUUgaGCUG-GCCAgcggUGCUc -3'
miRNA:   3'- gaaCGUCGAGAG--UGACuCGGUa---AUGG- -5'
1478 3' -50.4 NC_001335.1 + 25916 0.69 0.773796
Target:  5'- --cGCAGCcagCUCGCUgaGAGCCGUgaacgACa -3'
miRNA:   3'- gaaCGUCGa--GAGUGA--CUCGGUAa----UGg -5'
1478 3' -50.4 NC_001335.1 + 19481 0.7 0.719228
Target:  5'- --cGCAGCUCUaCGucgggaugcUUGAGCCGUU-CCu -3'
miRNA:   3'- gaaCGUCGAGA-GU---------GACUCGGUAAuGG- -5'
1478 3' -50.4 NC_001335.1 + 46720 0.72 0.627629
Target:  5'- uCUUGCAGUgcagggC-CUGAGCCAU-GCCg -3'
miRNA:   3'- -GAACGUCGaga---GuGACUCGGUAaUGG- -5'
1478 3' -50.4 NC_001335.1 + 29376 0.72 0.625317
Target:  5'- -gUGCGGCgaugcuucaUCGCUGAGCCAggcgauugaugGCCu -3'
miRNA:   3'- gaACGUCGag-------AGUGACUCGGUaa---------UGG- -5'
1478 3' -50.4 NC_001335.1 + 48720 0.75 0.419432
Target:  5'- gUUGCGcuugauguauccGCUCUCACcGGGCUcgUACCa -3'
miRNA:   3'- gAACGU------------CGAGAGUGaCUCGGuaAUGG- -5'
1478 3' -50.4 NC_001335.1 + 10451 0.76 0.362571
Target:  5'- -cUGCGGCUUcCGCUGAGCUguaggcgaaGUUGCCc -3'
miRNA:   3'- gaACGUCGAGaGUGACUCGG---------UAAUGG- -5'
1478 3' -50.4 NC_001335.1 + 19517 1.13 0.001387
Target:  5'- cCUUGCAGCUCUCACUGAGCCAUUACCu -3'
miRNA:   3'- -GAACGUCGAGAGUGACUCGGUAAUGG- -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.