miRNA display CGI


Results 1 - 20 of 88 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
19261 3' -61.6 NC_004684.1 + 66972 1.1 0.000288
Target:  5'- uCGACCUCGGGGUGCCAGUCGCCCAGCu -3'
miRNA:   3'- -GCUGGAGCCCCACGGUCAGCGGGUCG- -5'
19261 3' -61.6 NC_004684.1 + 1227 0.86 0.018357
Target:  5'- uCGGCCUCGGcGGccugGUCGGUCGCCCGGCc -3'
miRNA:   3'- -GCUGGAGCC-CCa---CGGUCAGCGGGUCG- -5'
19261 3' -61.6 NC_004684.1 + 41872 0.77 0.093882
Target:  5'- cCGGCgUCGGcGGUcgagaacagccgcucGCCGGUCGCCUGGCc -3'
miRNA:   3'- -GCUGgAGCC-CCA---------------CGGUCAGCGGGUCG- -5'
19261 3' -61.6 NC_004684.1 + 33224 0.75 0.126716
Target:  5'- uGAgCUCGGGcGUGCCGGUgagcagcaccgugcCGCCCgaGGCg -3'
miRNA:   3'- gCUgGAGCCC-CACGGUCA--------------GCGGG--UCG- -5'
19261 3' -61.6 NC_004684.1 + 44566 0.73 0.156896
Target:  5'- cCGGCCUgcaccgcCGGGaacUGCCGGUCGaCCAGCg -3'
miRNA:   3'- -GCUGGA-------GCCCc--ACGGUCAGCgGGUCG- -5'
19261 3' -61.6 NC_004684.1 + 26424 0.73 0.165611
Target:  5'- uGGCagCGGGGUucgccGCCGGUgGCCCGGUg -3'
miRNA:   3'- gCUGgaGCCCCA-----CGGUCAgCGGGUCG- -5'
19261 3' -61.6 NC_004684.1 + 39287 0.72 0.191004
Target:  5'- aGGCCUCGaaccgcaccacccGGUGCgGGUCGCgCGGCg -3'
miRNA:   3'- gCUGGAGCc------------CCACGgUCAGCGgGUCG- -5'
19261 3' -61.6 NC_004684.1 + 45544 0.72 0.197866
Target:  5'- gCGGCCUUGcGGGcgGCCauGGaUGCCCGGCu -3'
miRNA:   3'- -GCUGGAGC-CCCa-CGG--UCaGCGGGUCG- -5'
19261 3' -61.6 NC_004684.1 + 24230 0.71 0.213295
Target:  5'- gCGACCUCGGcggucugcucGGUGCCaAGgaagaggUGCgCCAGCu -3'
miRNA:   3'- -GCUGGAGCC----------CCACGG-UCa------GCG-GGUCG- -5'
19261 3' -61.6 NC_004684.1 + 55030 0.71 0.218664
Target:  5'- -aGCCgaaGGuGGUGCgCAGUgUGCCCAGCg -3'
miRNA:   3'- gcUGGag-CC-CCACG-GUCA-GCGGGUCG- -5'
19261 3' -61.6 NC_004684.1 + 40646 0.71 0.218664
Target:  5'- aCGAaCUUGGGGgccuggccccGCCAGUCGCgcucggCCAGCa -3'
miRNA:   3'- -GCUgGAGCCCCa---------CGGUCAGCG------GGUCG- -5'
19261 3' -61.6 NC_004684.1 + 19074 0.71 0.224147
Target:  5'- gCGuCCUCGGaGGUGaggCAGUCGCauCCGGUg -3'
miRNA:   3'- -GCuGGAGCC-CCACg--GUCAGCG--GGUCG- -5'
19261 3' -61.6 NC_004684.1 + 32914 0.71 0.224147
Target:  5'- uGuCCUCGGcGGUGCCGGaccgggUGCCUcgGGCa -3'
miRNA:   3'- gCuGGAGCC-CCACGGUCa-----GCGGG--UCG- -5'
19261 3' -61.6 NC_004684.1 + 66754 0.71 0.228055
Target:  5'- uGuCCUUGGGGUcGCCgugcucgucggccaGGUCGUCCAGg -3'
miRNA:   3'- gCuGGAGCCCCA-CGG--------------UCAGCGGGUCg -5'
19261 3' -61.6 NC_004684.1 + 29343 0.71 0.229747
Target:  5'- uGGCCUCGGGGgugGUCGGcgcguacagggCGUCCAGg -3'
miRNA:   3'- gCUGGAGCCCCa--CGGUCa----------GCGGGUCg -5'
19261 3' -61.6 NC_004684.1 + 63050 0.71 0.235465
Target:  5'- aGACCUCagcgguGGGUGucauaggcacuCCAGUgCGCCCGGUg -3'
miRNA:   3'- gCUGGAGc-----CCCAC-----------GGUCA-GCGGGUCG- -5'
19261 3' -61.6 NC_004684.1 + 60268 0.71 0.235465
Target:  5'- uGuACCUCGGcGGUGgCGGUUgcgugGCCCGGUc -3'
miRNA:   3'- gC-UGGAGCC-CCACgGUCAG-----CGGGUCG- -5'
19261 3' -61.6 NC_004684.1 + 40035 0.7 0.247258
Target:  5'- uGGCCUUGGGcaucaUGCCGGU-GCCCAcgGCg -3'
miRNA:   3'- gCUGGAGCCCc----ACGGUCAgCGGGU--CG- -5'
19261 3' -61.6 NC_004684.1 + 52079 0.7 0.247258
Target:  5'- -uGCUUCGcGGGuUGCCAccgcGUCGCgCCAGCc -3'
miRNA:   3'- gcUGGAGC-CCC-ACGGU----CAGCG-GGUCG- -5'
19261 3' -61.6 NC_004684.1 + 30829 0.7 0.259536
Target:  5'- gCGGCaugagCGGGuagGUGCCGGaaugCGCCCGGUa -3'
miRNA:   3'- -GCUGga---GCCC---CACGGUCa---GCGGGUCG- -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.