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
8933 3' -59.7 NC_002484.1 + 38829 0.68 0.375956
Target:  5'- gCgGGgaGCGCuacauGCC-GUUCAAGCCGa -3'
miRNA:   3'- gGgCCgaCGUGu----CGGuCGAGUUCGGC- -5'
8933 3' -59.7 NC_002484.1 + 54735 0.66 0.468141
Target:  5'- cCCCGGCgauaccucGCGCcuuGCCGGCgguauguugCcAGCCGc -3'
miRNA:   3'- -GGGCCGa-------CGUGu--CGGUCGa--------GuUCGGC- -5'
8933 3' -59.7 NC_002484.1 + 51382 0.66 0.458392
Target:  5'- gCCUGGCagaacagGCAUAaCCAGCUCAacGGUCu -3'
miRNA:   3'- -GGGCCGa------CGUGUcGGUCGAGU--UCGGc -5'
8933 3' -59.7 NC_002484.1 + 52818 0.66 0.448752
Target:  5'- cCCCGGCUgGUAgAGCUucuGC-CAGGCUu -3'
miRNA:   3'- -GGGCCGA-CGUgUCGGu--CGaGUUCGGc -5'
8933 3' -59.7 NC_002484.1 + 34090 0.67 0.429816
Target:  5'- aCCGGCUgGCcugaagaaAGCCAGCUCAuGaCCc -3'
miRNA:   3'- gGGCCGA-CGug------UCGGUCGAGUuC-GGc -5'
8933 3' -59.7 NC_002484.1 + 50606 0.67 0.409539
Target:  5'- gCCGGCUGCGCAGaguGCauucgggaauucCAAGCUGg -3'
miRNA:   3'- gGGCCGACGUGUCgguCGa-----------GUUCGGC- -5'
8933 3' -59.7 NC_002484.1 + 24792 0.67 0.403213
Target:  5'- aUCGGCgagguacugcgugacGCGCAccaacaaaaacGCCGGCUCGagGGCCGg -3'
miRNA:   3'- gGGCCGa--------------CGUGU-----------CGGUCGAGU--UCGGC- -5'
8933 3' -59.7 NC_002484.1 + 3984 0.67 0.393398
Target:  5'- --aGGCgGCAgAGgCAGC-CAGGCCGa -3'
miRNA:   3'- gggCCGaCGUgUCgGUCGaGUUCGGC- -5'
8933 3' -59.7 NC_002484.1 + 51867 0.68 0.384612
Target:  5'- uCCCGGCgGuUGCGGUCGGCgauGGCCu -3'
miRNA:   3'- -GGGCCGaC-GUGUCGGUCGaguUCGGc -5'
8933 3' -59.7 NC_002484.1 + 52924 0.68 0.384612
Target:  5'- gCUGGCUGUGCAGCCgGGCgugCAcccAGCa- -3'
miRNA:   3'- gGGCCGACGUGUCGG-UCGa--GU---UCGgc -5'
8933 3' -59.7 NC_002484.1 + 38365 0.81 0.045902
Target:  5'- aCCCGGCaauacgacgacaUGCGCcGCCGGCUCGAcGCCGc -3'
miRNA:   3'- -GGGCCG------------ACGUGuCGGUCGAGUU-CGGC- -5'
8933 3' -59.7 NC_002484.1 + 11421 0.68 0.367433
Target:  5'- gCUCGGCgGCAUccauGCCGGC-CAcgaAGCCGc -3'
miRNA:   3'- -GGGCCGaCGUGu---CGGUCGaGU---UCGGC- -5'
8933 3' -59.7 NC_002484.1 + 46891 0.68 0.350789
Target:  5'- aCCGGUUGC--AGCCGGCgcacgCAaugaaAGCCGc -3'
miRNA:   3'- gGGCCGACGugUCGGUCGa----GU-----UCGGC- -5'
8933 3' -59.7 NC_002484.1 + 40549 0.68 0.34267
Target:  5'- uCCCGGCUGaCAUGGgcgaugaCGGCUCuGGUCGc -3'
miRNA:   3'- -GGGCCGAC-GUGUCg------GUCGAGuUCGGC- -5'
8933 3' -59.7 NC_002484.1 + 52157 0.69 0.311563
Target:  5'- uCCUGGCguacuUGCugGaGCCGGCguuaCAGGCCu -3'
miRNA:   3'- -GGGCCG-----ACGugU-CGGUCGa---GUUCGGc -5'
8933 3' -59.7 NC_002484.1 + 26635 0.69 0.310813
Target:  5'- aCUGGCaUGCucuguugGCAGCCAGCagUUggGCCu -3'
miRNA:   3'- gGGCCG-ACG-------UGUCGGUCG--AGuuCGGc -5'
8933 3' -59.7 NC_002484.1 + 10323 0.7 0.282647
Target:  5'- uCCCGGCgUGCGCAgGCCGcGCaggUAGcGCCGa -3'
miRNA:   3'- -GGGCCG-ACGUGU-CGGU-CGa--GUU-CGGC- -5'
8933 3' -59.7 NC_002484.1 + 7363 0.7 0.282647
Target:  5'- uCCUuGUUGCGCAGCCAGUugUCcAGUCGc -3'
miRNA:   3'- -GGGcCGACGUGUCGGUCG--AGuUCGGC- -5'
8933 3' -59.7 NC_002484.1 + 39457 0.72 0.192973
Target:  5'- aCCGGCUGCGCGGCCAuccaaaggaGUccugaUCAuGCCu -3'
miRNA:   3'- gGGCCGACGUGUCGGU---------CG-----AGUuCGGc -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.