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
19266 5' -63.1 NC_004685.1 + 64083 0.66 0.376101
Target:  5'- --cCCCCGCGU---CCCGCAGGuCUGg -3'
miRNA:   3'- uacGGGGCGUAggcGGGCGUCCuGAC- -5'
19266 5' -63.1 NC_004685.1 + 43731 0.66 0.376101
Target:  5'- -gGCCgCGaCAUUCcCCCGCucGGACUGg -3'
miRNA:   3'- uaCGGgGC-GUAGGcGGGCGu-CCUGAC- -5'
19266 5' -63.1 NC_004685.1 + 21072 0.66 0.367814
Target:  5'- -cGUCCgGcCGUCgGUCUGCAGGGCg- -3'
miRNA:   3'- uaCGGGgC-GUAGgCGGGCGUCCUGac -5'
19266 5' -63.1 NC_004685.1 + 62294 0.66 0.367814
Target:  5'- -cGCCCuCGCA-CCGCuuGCcgucGGGACc- -3'
miRNA:   3'- uaCGGG-GCGUaGGCGggCG----UCCUGac -5'
19266 5' -63.1 NC_004685.1 + 49651 0.66 0.343717
Target:  5'- --aCCCCGCGaugaUCCGCCCcgGCGGGuCg- -3'
miRNA:   3'- uacGGGGCGU----AGGCGGG--CGUCCuGac -5'
19266 5' -63.1 NC_004685.1 + 67981 0.66 0.343717
Target:  5'- --aCCCCGCAUUCGCCgaGUggaugauGGGCUGg -3'
miRNA:   3'- uacGGGGCGUAGGCGGg-CGu------CCUGAC- -5'
19266 5' -63.1 NC_004685.1 + 12861 0.67 0.311926
Target:  5'- uUGCCgCCGCAgcucucgccgcccaaUCCGCUgcugcccucgucgaGCGGGGCUGa -3'
miRNA:   3'- uACGG-GGCGU---------------AGGCGGg-------------CGUCCUGAC- -5'
19266 5' -63.1 NC_004685.1 + 2235 0.67 0.299002
Target:  5'- gGUGCcagaCCUGCcugCCGCCCGgCcGGGCUGa -3'
miRNA:   3'- -UACG----GGGCGua-GGCGGGC-GuCCUGAC- -5'
19266 5' -63.1 NC_004685.1 + 24540 0.67 0.298296
Target:  5'- cGUGUCCCGCAUCCccgucgacgagacGCCCuGCGaaguGaGGCUGg -3'
miRNA:   3'- -UACGGGGCGUAGG-------------CGGG-CGU----C-CUGAC- -5'
19266 5' -63.1 NC_004685.1 + 36775 0.67 0.291309
Target:  5'- -aGCCCUucgacugGCGgcCCGagCCGCAGGGCUGg -3'
miRNA:   3'- uaCGGGG-------CGUa-GGCg-GGCGUCCUGAC- -5'
19266 5' -63.1 NC_004685.1 + 6817 0.67 0.285131
Target:  5'- -gGCUacuUCGCA-CCGCCCGCAGGcGCa- -3'
miRNA:   3'- uaCGG---GGCGUaGGCGGGCGUCC-UGac -5'
19266 5' -63.1 NC_004685.1 + 66840 0.67 0.285131
Target:  5'- -cGCCCUGCAcguuggCCgGCCCGCAGaGCg- -3'
miRNA:   3'- uaCGGGGCGUa-----GG-CGGGCGUCcUGac -5'
19266 5' -63.1 NC_004685.1 + 37537 0.68 0.278389
Target:  5'- gGUGCCCUGCGUCggcaCGCCCaGC-GGugUc -3'
miRNA:   3'- -UACGGGGCGUAG----GCGGG-CGuCCugAc -5'
19266 5' -63.1 NC_004685.1 + 31761 0.68 0.265286
Target:  5'- -aGCUCCGaccacCCGCCCGCuGGGgUGg -3'
miRNA:   3'- uaCGGGGCgua--GGCGGGCGuCCUgAC- -5'
19266 5' -63.1 NC_004685.1 + 49357 0.69 0.240585
Target:  5'- -cGCCgCCGcCGUCCgGCCCGUcGGGCa- -3'
miRNA:   3'- uaCGG-GGC-GUAGG-CGGGCGuCCUGac -5'
19266 5' -63.1 NC_004685.1 + 1126 0.69 0.223343
Target:  5'- --aCCCCgacGCAUCggggCGCCCGCAucGGACUGg -3'
miRNA:   3'- uacGGGG---CGUAG----GCGGGCGU--CCUGAC- -5'
19266 5' -63.1 NC_004685.1 + 68496 0.69 0.215662
Target:  5'- -gGCCCCGCcaguccgaugcggggCCGCCaguccgaUGCGGGGCUGu -3'
miRNA:   3'- uaCGGGGCGua-------------GGCGG-------GCGUCCUGAC- -5'
19266 5' -63.1 NC_004685.1 + 14553 0.7 0.182448
Target:  5'- -aGCCCCGaCcgCCGCCacuGCuGGAUUGg -3'
miRNA:   3'- uaCGGGGC-GuaGGCGGg--CGuCCUGAC- -5'
19266 5' -63.1 NC_004685.1 + 206 0.7 0.177829
Target:  5'- cAUGCCCCGCGUCaucaaaggcgacUGCCCGCGuuuGACg- -3'
miRNA:   3'- -UACGGGGCGUAG------------GCGGGCGUc--CUGac -5'
19266 5' -63.1 NC_004685.1 + 1170 0.77 0.064462
Target:  5'- -aGCCCCGCAUCgGacuggcggcCCCGCAucGGACUGg -3'
miRNA:   3'- uaCGGGGCGUAGgC---------GGGCGU--CCUGAC- -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.