miRNA display CGI


Results 1 - 20 of 21 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
25530 3' -58.6 NC_005337.1 + 60218 0.66 0.812872
Target:  5'- --aCGGCUuGGGCGCG-GGGGCUggGg -3'
miRNA:   3'- guaGCCGGuCCUGUGCaCCCUGGagC- -5'
25530 3' -58.6 NC_005337.1 + 125547 0.66 0.812872
Target:  5'- aCAUcCGcGCCaAGGACgACGUGGGGCg--- -3'
miRNA:   3'- -GUA-GC-CGG-UCCUG-UGCACCCUGgagc -5'
25530 3' -58.6 NC_005337.1 + 82368 0.66 0.804208
Target:  5'- gGUCGGCCGcGACaccgagaccaGCGUGGGGCg--- -3'
miRNA:   3'- gUAGCCGGUcCUG----------UGCACCCUGgagc -5'
25530 3' -58.6 NC_005337.1 + 32553 0.66 0.804208
Target:  5'- --cCGGCacguCAGGGCA-GUGcGGGCCUCc -3'
miRNA:   3'- guaGCCG----GUCCUGUgCAC-CCUGGAGc -5'
25530 3' -58.6 NC_005337.1 + 67072 0.66 0.785533
Target:  5'- gCAUCcGCCAGGugAUGUacuucGGGcgcuucaACCUCGu -3'
miRNA:   3'- -GUAGcCGGUCCugUGCA-----CCC-------UGGAGC- -5'
25530 3' -58.6 NC_005337.1 + 106587 0.66 0.768127
Target:  5'- --gUGGCguGGACGCGcgaccUGGGGCC-Ca -3'
miRNA:   3'- guaGCCGguCCUGUGC-----ACCCUGGaGc -5'
25530 3' -58.6 NC_005337.1 + 28903 0.67 0.743635
Target:  5'- --cCGGCCGGGcgccgaggugaccaaGCACGcgaucgacGGGGCCUCc -3'
miRNA:   3'- guaGCCGGUCC---------------UGUGCa-------CCCUGGAGc -5'
25530 3' -58.6 NC_005337.1 + 31914 0.67 0.739807
Target:  5'- --gUGGCCAGGuGCGCGgccucgGGGGCaugUCGa -3'
miRNA:   3'- guaGCCGGUCC-UGUGCa-----CCCUGg--AGC- -5'
25530 3' -58.6 NC_005337.1 + 54488 0.67 0.730173
Target:  5'- -cUCGGCaccgugaAGGACccGCGccugGGGGCCUCc -3'
miRNA:   3'- guAGCCGg------UCCUG--UGCa---CCCUGGAGc -5'
25530 3' -58.6 NC_005337.1 + 32898 0.67 0.710667
Target:  5'- uGUCGGCCGGGAUcaGCGagGGGAacaCCg-- -3'
miRNA:   3'- gUAGCCGGUCCUG--UGCa-CCCU---GGagc -5'
25530 3' -58.6 NC_005337.1 + 98228 0.68 0.700813
Target:  5'- -cUCGGCCccgGGGGCcucgcccuCGUcGGACCUCGc -3'
miRNA:   3'- guAGCCGG---UCCUGu-------GCAcCCUGGAGC- -5'
25530 3' -58.6 NC_005337.1 + 64473 0.68 0.699825
Target:  5'- --aCGGCCGaGAC-CGUGGGGcacacgcCCUCGa -3'
miRNA:   3'- guaGCCGGUcCUGuGCACCCU-------GGAGC- -5'
25530 3' -58.6 NC_005337.1 + 13793 0.68 0.660924
Target:  5'- gCGUC-GCC-GGACACGUGGGcgauGCCcCGg -3'
miRNA:   3'- -GUAGcCGGuCCUGUGCACCC----UGGaGC- -5'
25530 3' -58.6 NC_005337.1 + 58026 0.68 0.65188
Target:  5'- -cUCGGCCAGGccgcgcucuucgacgGCgGCGUGcucgccaaccccgaGGACCUCGu -3'
miRNA:   3'- guAGCCGGUCC---------------UG-UGCAC--------------CCUGGAGC- -5'
25530 3' -58.6 NC_005337.1 + 11339 0.68 0.650874
Target:  5'- gUcgCGGCCGGGGauggagaagagcCGCGUGGaGAUgUCGa -3'
miRNA:   3'- -GuaGCCGGUCCU------------GUGCACC-CUGgAGC- -5'
25530 3' -58.6 NC_005337.1 + 10729 0.69 0.640811
Target:  5'- cCAUgUGGUCAGGGCG-GUGGGAcgugcacucgaCCUCGa -3'
miRNA:   3'- -GUA-GCCGGUCCUGUgCACCCU-----------GGAGC- -5'
25530 3' -58.6 NC_005337.1 + 115928 0.7 0.58055
Target:  5'- aGUCGGCCAcGGGCcCGUGcucGGACCa-- -3'
miRNA:   3'- gUAGCCGGU-CCUGuGCAC---CCUGGagc -5'
25530 3' -58.6 NC_005337.1 + 10011 0.7 0.560678
Target:  5'- uCGUCGuCCGGGACgAUGUccucgGGGACCUCc -3'
miRNA:   3'- -GUAGCcGGUCCUG-UGCA-----CCCUGGAGc -5'
25530 3' -58.6 NC_005337.1 + 58369 0.72 0.455915
Target:  5'- --gCGGCCGGcGACACcucgGGGugCUCGc -3'
miRNA:   3'- guaGCCGGUC-CUGUGca--CCCugGAGC- -5'
25530 3' -58.6 NC_005337.1 + 78543 0.73 0.419595
Target:  5'- cCAUCuGCCGGGGCACGUacagcagcggguuGuGGGCCUCc -3'
miRNA:   3'- -GUAGcCGGUCCUGUGCA-------------C-CCUGGAGc -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.