miRNA display CGI


Results 1 - 20 of 23 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
16467 3' -57.8 NC_004084.1 + 3451 0.66 0.666593
Target:  5'- gACCUGUCGGaUCGcgagCGccgggggaauacggaACGGCGUUcgacgUCGa -3'
miRNA:   3'- -UGGACAGCC-AGCa---GC---------------UGCCGCAG-----AGC- -5'
16467 3' -57.8 NC_004084.1 + 22809 0.66 0.659199
Target:  5'- gACCUGacuguggagaUCGGgccgggugaggcguUCGUCGACGGC--CUCGu -3'
miRNA:   3'- -UGGAC----------AGCC--------------AGCAGCUGCCGcaGAGC- -5'
16467 3' -57.8 NC_004084.1 + 54596 0.66 0.651794
Target:  5'- cACCUcgcuuuucgaGUCaGUCaUCGGCGGCGUCacguaUCGa -3'
miRNA:   3'- -UGGA----------CAGcCAGcAGCUGCCGCAG-----AGC- -5'
16467 3' -57.8 NC_004084.1 + 50157 0.66 0.641202
Target:  5'- -gUUGUCGaggauGUCGUCaGCGGCGUCgaUCGu -3'
miRNA:   3'- ugGACAGC-----CAGCAGcUGCCGCAG--AGC- -5'
16467 3' -57.8 NC_004084.1 + 14854 0.66 0.630602
Target:  5'- cGCCUcGUCGGga--UGACGGCcgccgGUCUCGg -3'
miRNA:   3'- -UGGA-CAGCCagcaGCUGCCG-----CAGAGC- -5'
16467 3' -57.8 NC_004084.1 + 10245 0.66 0.620003
Target:  5'- cGCCUGgUGaGUCG-CGGuCGGCGUC-CGg -3'
miRNA:   3'- -UGGACaGC-CAGCaGCU-GCCGCAGaGC- -5'
16467 3' -57.8 NC_004084.1 + 29411 0.66 0.609414
Target:  5'- uCCUGgggcgucgCGGUugcCGUCGACGGCGagCUUc -3'
miRNA:   3'- uGGACa-------GCCA---GCAGCUGCCGCa-GAGc -5'
16467 3' -57.8 NC_004084.1 + 56664 0.67 0.588299
Target:  5'- gGCCccgcUCGGUacuUCGGCGGCGggUCUCGg -3'
miRNA:   3'- -UGGac--AGCCAgc-AGCUGCCGC--AGAGC- -5'
16467 3' -57.8 NC_004084.1 + 32438 0.67 0.56732
Target:  5'- gACCgGUacaaCGGUCGUUcaGGCGGCGaaUCUCu -3'
miRNA:   3'- -UGGaCA----GCCAGCAG--CUGCCGC--AGAGc -5'
16467 3' -57.8 NC_004084.1 + 8303 0.67 0.5569
Target:  5'- uCCcGUUGGgcuUCGUCcaGACGGCGUCggcgCGg -3'
miRNA:   3'- uGGaCAGCC---AGCAG--CUGCCGCAGa---GC- -5'
16467 3' -57.8 NC_004084.1 + 26193 0.68 0.536234
Target:  5'- gACC-GUCGGcgUCGUCGAgGaGCaUCUCGa -3'
miRNA:   3'- -UGGaCAGCC--AGCAGCUgC-CGcAGAGC- -5'
16467 3' -57.8 NC_004084.1 + 15022 0.69 0.476059
Target:  5'- gGCUcGUCGaG-CGUCGACGGCcaCUCGa -3'
miRNA:   3'- -UGGaCAGC-CaGCAGCUGCCGcaGAGC- -5'
16467 3' -57.8 NC_004084.1 + 21875 0.69 0.476059
Target:  5'- uCCgucGUCGauaccGUUGUCGcgauCGGCGUCUCGg -3'
miRNA:   3'- uGGa--CAGC-----CAGCAGCu---GCCGCAGAGC- -5'
16467 3' -57.8 NC_004084.1 + 37042 0.7 0.428587
Target:  5'- cGCCUcaCGGUCGUCGAUGuCGauguUCUCGg -3'
miRNA:   3'- -UGGAcaGCCAGCAGCUGCcGC----AGAGC- -5'
16467 3' -57.8 NC_004084.1 + 47374 0.7 0.410394
Target:  5'- cCCUucGUcCGcGUCGUCGACGGCGagCUCc -3'
miRNA:   3'- uGGA--CA-GC-CAGCAGCUGCCGCa-GAGc -5'
16467 3' -57.8 NC_004084.1 + 33584 0.7 0.410394
Target:  5'- aAUCUGUUugauaaGGUCGUagUGAgUGGCGUCUCGa -3'
miRNA:   3'- -UGGACAG------CCAGCA--GCU-GCCGCAGAGC- -5'
16467 3' -57.8 NC_004084.1 + 53242 0.71 0.358803
Target:  5'- uACgaGcgggCGGUCGUCGACGGCGacgagaUCGg -3'
miRNA:   3'- -UGgaCa---GCCAGCAGCUGCCGCag----AGC- -5'
16467 3' -57.8 NC_004084.1 + 3910 0.71 0.350657
Target:  5'- uGCCgGUUGuaGUCGUCGAaGGCGUcCUCGa -3'
miRNA:   3'- -UGGaCAGC--CAGCAGCUgCCGCA-GAGC- -5'
16467 3' -57.8 NC_004084.1 + 18691 0.72 0.327017
Target:  5'- uCCUcGUCauccUCGUCGACGGCGUCgUCGc -3'
miRNA:   3'- uGGA-CAGcc--AGCAGCUGCCGCAG-AGC- -5'
16467 3' -57.8 NC_004084.1 + 45982 0.73 0.28334
Target:  5'- uCCUG-CGGUCGUC-ACGGCGU-UCGa -3'
miRNA:   3'- uGGACaGCCAGCAGcUGCCGCAgAGC- -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.