miRNA display CGI


Results 1 - 20 of 25 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
415 3' -58.1 AC_000011.1 + 26648 0.66 0.445513
Target:  5'- uGCGgGGCgUGGCGGUGa----GCGCu- -3'
miRNA:   3'- -CGCgCCG-ACCGCCACgaguuUGCGug -5'
415 3' -58.1 AC_000011.1 + 15857 0.66 0.439557
Target:  5'- cGCGCauGGC-GGgGGUGCUCcggugccgccgggcGAUGCGCc -3'
miRNA:   3'- -CGCG--CCGaCCgCCACGAGu-------------UUGCGUG- -5'
415 3' -58.1 AC_000011.1 + 6580 0.66 0.435611
Target:  5'- gGCGC-GCUGGCcGUGCgcgAAugGCAa -3'
miRNA:   3'- -CGCGcCGACCGcCACGag-UUugCGUg -5'
415 3' -58.1 AC_000011.1 + 17277 0.66 0.435611
Target:  5'- -aGCGGUUGGgGGgagGCUUccugccCGCGCu -3'
miRNA:   3'- cgCGCCGACCgCCa--CGAGuuu---GCGUG- -5'
415 3' -58.1 AC_000011.1 + 16562 0.66 0.425838
Target:  5'- cCGCGGCgccGcGcCGGggGUUCAAGCGCGa -3'
miRNA:   3'- cGCGCCGa--C-C-GCCa-CGAGUUUGCGUg -5'
415 3' -58.1 AC_000011.1 + 16085 0.66 0.416196
Target:  5'- uGCGaGGggGGCgGGUGCgcacgggCAcGCGCACa -3'
miRNA:   3'- -CGCgCCgaCCG-CCACGa------GUuUGCGUG- -5'
415 3' -58.1 AC_000011.1 + 8411 0.66 0.41333
Target:  5'- uGgGCGGCUggggcgacgggGGCGGUGCcucuuccauggUUAgaagcggcggcgagGACGCGCg -3'
miRNA:   3'- -CgCGCCGA-----------CCGCCACG-----------AGU--------------UUGCGUG- -5'
415 3' -58.1 AC_000011.1 + 26785 0.67 0.379002
Target:  5'- -aGCGGCUGGUGauccgGggCAGAgGCACa -3'
miRNA:   3'- cgCGCCGACCGCca---CgaGUUUgCGUG- -5'
415 3' -58.1 AC_000011.1 + 15888 0.67 0.379002
Target:  5'- cGCGCGGCUucaGGCGccaGCgccggCAggacccggaGACGCGCg -3'
miRNA:   3'- -CGCGCCGA---CCGCca-CGa----GU---------UUGCGUG- -5'
415 3' -58.1 AC_000011.1 + 11121 0.67 0.364761
Target:  5'- cGCGCGGCccgguuccacgcggGGCGGgaGCUgcGGCGCGg -3'
miRNA:   3'- -CGCGCCGa-------------CCGCCa-CGAguUUGCGUg -5'
415 3' -58.1 AC_000011.1 + 18155 0.67 0.344104
Target:  5'- uCGCaugagGGCgGGCGGUGCcccCGGgucGCGCGCg -3'
miRNA:   3'- cGCG-----CCGaCCGCCACGa--GUU---UGCGUG- -5'
415 3' -58.1 AC_000011.1 + 21073 0.68 0.327542
Target:  5'- cCGCGGUggGGCuGGUGCacUCGGACG-ACg -3'
miRNA:   3'- cGCGCCGa-CCG-CCACG--AGUUUGCgUG- -5'
415 3' -58.1 AC_000011.1 + 23830 0.68 0.326729
Target:  5'- gGCGCGGCUGagcuccuccacGCugaggggcaccucGGUGCggUCGAGCaGCGCa -3'
miRNA:   3'- -CGCGCCGAC-----------CG-------------CCACG--AGUUUG-CGUG- -5'
415 3' -58.1 AC_000011.1 + 16259 0.68 0.303819
Target:  5'- uGCGCGaGUUcgccccccGGCGGcGCgugCAGugGCGCg -3'
miRNA:   3'- -CGCGC-CGA--------CCGCCaCGa--GUUugCGUG- -5'
415 3' -58.1 AC_000011.1 + 15819 0.69 0.274277
Target:  5'- cGCGCGGCgcgagccuugcUGcGCaGG-GC-CAGGCGCACg -3'
miRNA:   3'- -CGCGCCG-----------AC-CG-CCaCGaGUUUGCGUG- -5'
415 3' -58.1 AC_000011.1 + 30443 0.69 0.26726
Target:  5'- aGCGaGGagagauUGGCGGUGCUagaGAAgGCACu -3'
miRNA:   3'- -CGCgCCg-----ACCGCCACGAg--UUUgCGUG- -5'
415 3' -58.1 AC_000011.1 + 10256 0.7 0.253663
Target:  5'- uGC-CGGC-GGCGGUGgUgGAGgCGCGCg -3'
miRNA:   3'- -CGcGCCGaCCGCCACgAgUUU-GCGUG- -5'
415 3' -58.1 AC_000011.1 + 21755 0.7 0.234339
Target:  5'- aUGCGGUcgaaGGCGGUGgccuuCUCGAuGCGCGCg -3'
miRNA:   3'- cGCGCCGa---CCGCCAC-----GAGUU-UGCGUG- -5'
415 3' -58.1 AC_000011.1 + 21303 0.7 0.228178
Target:  5'- uCGCGGCcGGCcGUGUUgaCGAugGCGCa -3'
miRNA:   3'- cGCGCCGaCCGcCACGA--GUUugCGUG- -5'
415 3' -58.1 AC_000011.1 + 17117 0.71 0.199402
Target:  5'- uGCGCGGCcgcGGCGGUacaCUCuc-CGCACc -3'
miRNA:   3'- -CGCGCCGa--CCGCCAc--GAGuuuGCGUG- -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.