miRNA display CGI


Results 1 - 12 of 12 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
407 3' -63.3 AC_000011.1 + 6583 0.66 0.234539
Target:  5'- -cGaGGCGCGCUgGCCGugCgcgaaUGGCa- -3'
miRNA:   3'- uaC-CCGCGCGAgUGGCugGa----GCCGgu -5'
407 3' -63.3 AC_000011.1 + 13683 0.66 0.228561
Target:  5'- -cGGGCgGCGCUgCcCCGGCUcgUGGCCc -3'
miRNA:   3'- uaCCCG-CGCGA-GuGGCUGGa-GCCGGu -5'
407 3' -63.3 AC_000011.1 + 15828 0.66 0.222713
Target:  5'- -cGGGCGaUGCgccgcCGCCGGCuCUUGGCgCGg -3'
miRNA:   3'- uaCCCGC-GCGa----GUGGCUG-GAGCCG-GU- -5'
407 3' -63.3 AC_000011.1 + 11228 0.66 0.205927
Target:  5'- -cGcGCGCGCgCACgUGGCCgCGGCCAa -3'
miRNA:   3'- uaCcCGCGCGaGUG-GCUGGaGCCGGU- -5'
407 3' -63.3 AC_000011.1 + 18131 0.66 0.205927
Target:  5'- -cGGGuCGCGC--GCgGGCCaCGGCCAc -3'
miRNA:   3'- uaCCC-GCGCGagUGgCUGGaGCCGGU- -5'
407 3' -63.3 AC_000011.1 + 8875 0.67 0.185258
Target:  5'- cAUGGGC-CGCaUCuccaaCGACCUcgCGGCCAc -3'
miRNA:   3'- -UACCCGcGCG-AGug---GCUGGA--GCCGGU- -5'
407 3' -63.3 AC_000011.1 + 15007 0.68 0.172824
Target:  5'- -aGGGCGUgcgcuccuggacgcuGCUCACC-ACCUCGGaCGu -3'
miRNA:   3'- uaCCCGCG---------------CGAGUGGcUGGAGCCgGU- -5'
407 3' -63.3 AC_000011.1 + 25410 0.69 0.141427
Target:  5'- cUGGGUGaugaCGCagGCCGACagCUCGGCCu -3'
miRNA:   3'- uACCCGC----GCGagUGGCUG--GAGCCGGu -5'
407 3' -63.3 AC_000011.1 + 34667 0.69 0.141427
Target:  5'- -cGGGCGCuGCaCACCGAUCgccggCGGCg- -3'
miRNA:   3'- uaCCCGCG-CGaGUGGCUGGa----GCCGgu -5'
407 3' -63.3 AC_000011.1 + 23298 0.69 0.136481
Target:  5'- -gGGGUGCGCUCccggcggcgcucugACUGACUuccuccgCGGCCGg -3'
miRNA:   3'- uaCCCGCGCGAG--------------UGGCUGGa------GCCGGU- -5'
407 3' -63.3 AC_000011.1 + 9430 0.69 0.123262
Target:  5'- -cGGGCGCGCcgUCACCGagaccaugcgacGCCggcgCGGCgAg -3'
miRNA:   3'- uaCCCGCGCG--AGUGGC------------UGGa---GCCGgU- -5'
407 3' -63.3 AC_000011.1 + 20880 1.06 0.000147
Target:  5'- cAUGGGCGCGCUCACCGACCUCGGCCAg -3'
miRNA:   3'- -UACCCGCGCGAGUGGCUGGAGCCGGU- -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.