miRNA display CGI


Results 1 - 17 of 17 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
10425 5' -57.3 NC_002687.1 + 308397 0.66 0.967215
Target:  5'- -uCCgagGCCCCGgGGGAugcugcaccaguuGACGgGCGGu -3'
miRNA:   3'- uuGGaa-CGGGGCgCUCU-------------CUGUgUGCC- -5'
10425 5' -57.3 NC_002687.1 + 246778 0.66 0.964494
Target:  5'- gGACUUccaagaugUGCCCCGgGGGGuGugGCGgGGa -3'
miRNA:   3'- -UUGGA--------ACGGGGCgCUCU-CugUGUgCC- -5'
10425 5' -57.3 NC_002687.1 + 319137 0.66 0.964494
Target:  5'- gGACUUccaagaugUGCCCCGgGGGGuGugGCGgGGa -3'
miRNA:   3'- -UUGGA--------ACGGGGCgCUCU-CugUGUgCC- -5'
10425 5' -57.3 NC_002687.1 + 91488 0.66 0.961289
Target:  5'- -cCCUUGCCCUGUGcGAuaauggucGACGCuuCGGa -3'
miRNA:   3'- uuGGAACGGGGCGCuCU--------CUGUGu-GCC- -5'
10425 5' -57.3 NC_002687.1 + 89661 0.66 0.961289
Target:  5'- cACC-UGCuCCCGCGAcaacgGAGGC-CGCGa -3'
miRNA:   3'- uUGGaACG-GGGCGCU-----CUCUGuGUGCc -5'
10425 5' -57.3 NC_002687.1 + 308781 0.66 0.954292
Target:  5'- cGCCc-GCCCCGCcGGGGuCGC-CGGg -3'
miRNA:   3'- uUGGaaCGGGGCGcUCUCuGUGuGCC- -5'
10425 5' -57.3 NC_002687.1 + 98645 0.67 0.939644
Target:  5'- cACCUUGCa--GCGAGAGuggcuaucaagcgacGCACACGa -3'
miRNA:   3'- uUGGAACGgggCGCUCUC---------------UGUGUGCc -5'
10425 5' -57.3 NC_002687.1 + 96974 0.67 0.933216
Target:  5'- aAGCCUUGCaCUC----GAGACACGCGGa -3'
miRNA:   3'- -UUGGAACG-GGGcgcuCUCUGUGUGCC- -5'
10425 5' -57.3 NC_002687.1 + 238644 0.67 0.932741
Target:  5'- gAGCCagggUGCCCUuucugauGCGAGAGcaagUGCACGGa -3'
miRNA:   3'- -UUGGa---ACGGGG-------CGCUCUCu---GUGUGCC- -5'
10425 5' -57.3 NC_002687.1 + 262188 0.68 0.906864
Target:  5'- gAACUggGCgaUGCGAGAGAaGCACGGg -3'
miRNA:   3'- -UUGGaaCGggGCGCUCUCUgUGUGCC- -5'
10425 5' -57.3 NC_002687.1 + 96486 0.68 0.900962
Target:  5'- -----aGCCCCGCGAGcGACGCG-GGc -3'
miRNA:   3'- uuggaaCGGGGCGCUCuCUGUGUgCC- -5'
10425 5' -57.3 NC_002687.1 + 201320 0.68 0.900962
Target:  5'- cGCC-UGCCCCGCccGAGcGCGCAUGa -3'
miRNA:   3'- uUGGaACGGGGCGcuCUC-UGUGUGCc -5'
10425 5' -57.3 NC_002687.1 + 317024 0.68 0.900962
Target:  5'- cGACCauccguggUGUCUCGCGAGAGGCuCcCGGu -3'
miRNA:   3'- -UUGGa-------ACGGGGCGCUCUCUGuGuGCC- -5'
10425 5' -57.3 NC_002687.1 + 202234 0.69 0.882027
Target:  5'- cGCC-UGCCCCGCccGAG-CGCGCGu -3'
miRNA:   3'- uUGGaACGGGGCGcuCUCuGUGUGCc -5'
10425 5' -57.3 NC_002687.1 + 25575 0.69 0.882027
Target:  5'- uGACCUUGCCgCagaaccaGCGGcuuggcacaaccGAGACACGCGa -3'
miRNA:   3'- -UUGGAACGG-Gg------CGCU------------CUCUGUGUGCc -5'
10425 5' -57.3 NC_002687.1 + 142949 0.69 0.875317
Target:  5'- uGCCac-CCCCGUGuGAGACGCAaaaGGg -3'
miRNA:   3'- uUGGaacGGGGCGCuCUCUGUGUg--CC- -5'
10425 5' -57.3 NC_002687.1 + 308694 1.09 0.005393
Target:  5'- aAACCUUGCCCCGCGAGAGACACACGGg -3'
miRNA:   3'- -UUGGAACGGGGCGCUCUCUGUGUGCC- -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.