miRNA display CGI


Results 1 - 14 of 14 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
12139 5' -61.3 NC_003309.1 + 43290 0.66 0.395334
Target:  5'- uCAGUUCGACgaUGGCcGCGUCGCAgcacucaacggcgcUCGg -3'
miRNA:   3'- -GUCGGGCUG--ACCGaCGCGGCGU--------------AGCa -5'
12139 5' -61.3 NC_003309.1 + 33658 0.74 0.10015
Target:  5'- aCAGCgaaCGGCUGGCUGagGCCgGCAUCGa -3'
miRNA:   3'- -GUCGg--GCUGACCGACg-CGG-CGUAGCa -5'
12139 5' -61.3 NC_003309.1 + 11978 0.71 0.17204
Target:  5'- gCAGCCgCGGC--GC-GCGCCGCGUCGg -3'
miRNA:   3'- -GUCGG-GCUGacCGaCGCGGCGUAGCa -5'
12139 5' -61.3 NC_003309.1 + 10399 0.7 0.196148
Target:  5'- gCAGCUCGAUcgcccugcgcuuUGGCgagcgccgccUGCGCCGCcUCGUg -3'
miRNA:   3'- -GUCGGGCUG------------ACCG----------ACGCGGCGuAGCA- -5'
12139 5' -61.3 NC_003309.1 + 3577 0.7 0.219755
Target:  5'- cCAGCCCcACUGGCgcccgaccgcguagGCGgCGUAUCGc -3'
miRNA:   3'- -GUCGGGcUGACCGa-------------CGCgGCGUAGCa -5'
12139 5' -61.3 NC_003309.1 + 19895 0.69 0.228923
Target:  5'- gAGCUCGAUcgcuGCUGCGCCGCGacCGUg -3'
miRNA:   3'- gUCGGGCUGac--CGACGCGGCGUa-GCA- -5'
12139 5' -61.3 NC_003309.1 + 26486 0.69 0.234816
Target:  5'- aGGCuuGGCUcgcgcgaacGGCUGCGCCGCcuuccCGUu -3'
miRNA:   3'- gUCGggCUGA---------CCGACGCGGCGua---GCA- -5'
12139 5' -61.3 NC_003309.1 + 52714 0.67 0.31574
Target:  5'- cCAGCCCGGCuaccggcuccgaguUGGCgauuggcguguguUGUacgaaaucgaagaugGCCGCGUCGUa -3'
miRNA:   3'- -GUCGGGCUG--------------ACCG-------------ACG---------------CGGCGUAGCA- -5'
12139 5' -61.3 NC_003309.1 + 18992 0.67 0.323359
Target:  5'- -uGCCCGGCUcauaCUGUGUCGCGUUGa -3'
miRNA:   3'- guCGGGCUGAcc--GACGCGGCGUAGCa -5'
12139 5' -61.3 NC_003309.1 + 6698 0.67 0.343805
Target:  5'- uCGGCCCaACUGGacaagcucgaaaGCGCCuGCGUCGa -3'
miRNA:   3'- -GUCGGGcUGACCga----------CGCGG-CGUAGCa -5'
12139 5' -61.3 NC_003309.1 + 15334 0.66 0.355193
Target:  5'- gCAGCgUCGGCgaUGGCUGCuGC-GCGUCGg -3'
miRNA:   3'- -GUCG-GGCUG--ACCGACG-CGgCGUAGCa -5'
12139 5' -61.3 NC_003309.1 + 33854 0.66 0.371919
Target:  5'- uGGCaaGGCUGGCUGUacGUgGCAUuCGUg -3'
miRNA:   3'- gUCGggCUGACCGACG--CGgCGUA-GCA- -5'
12139 5' -61.3 NC_003309.1 + 18453 0.66 0.38048
Target:  5'- aCAGCCUGcuguACUGGUU-CGUCGgAUCGUu -3'
miRNA:   3'- -GUCGGGC----UGACCGAcGCGGCgUAGCA- -5'
12139 5' -61.3 NC_003309.1 + 23730 1.06 0.000363
Target:  5'- aCAGCCCGACUGGCUGCGCCGCAUCGUc -3'
miRNA:   3'- -GUCGGGCUGACCGACGCGGCGUAGCA- -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.