miRNA display CGI


Results 1 - 20 of 24 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
1336 3' -53.2 NC_001335.1 + 5381 1.12 0.000958
Target:  5'- cGGCCAACACGAUUCGGUGCAGCUCACc -3'
miRNA:   3'- -CCGGUUGUGCUAAGCCACGUCGAGUG- -5'
1336 3' -53.2 NC_001335.1 + 597 0.79 0.183738
Target:  5'- aGGCCGGCACGAagUCGGU-CGGC-CGCa -3'
miRNA:   3'- -CCGGUUGUGCUa-AGCCAcGUCGaGUG- -5'
1336 3' -53.2 NC_001335.1 + 29024 0.74 0.365825
Target:  5'- cGUCAACGCGAUgggccggcggcugcCGGUGgaCAGCUCGCg -3'
miRNA:   3'- cCGGUUGUGCUAa-------------GCCAC--GUCGAGUG- -5'
1336 3' -53.2 NC_001335.1 + 30095 0.73 0.3893
Target:  5'- aGGCCGGCG-GGUUCGG-GCA-CUCGCu -3'
miRNA:   3'- -CCGGUUGUgCUAAGCCaCGUcGAGUG- -5'
1336 3' -53.2 NC_001335.1 + 17165 0.73 0.3893
Target:  5'- cGGCCAggucgcagGCGCGGUgc--UGCAGCUCGCu -3'
miRNA:   3'- -CCGGU--------UGUGCUAagccACGUCGAGUG- -5'
1336 3' -53.2 NC_001335.1 + 32684 0.71 0.477708
Target:  5'- cGGCCAACgGCGGcggCGGUggccagcaGCAGuCUCGCg -3'
miRNA:   3'- -CCGGUUG-UGCUaa-GCCA--------CGUC-GAGUG- -5'
1336 3' -53.2 NC_001335.1 + 33895 0.71 0.495514
Target:  5'- cGCC-GCAUGggUUGGUGCagaccacccgguugGGCUCACg -3'
miRNA:   3'- cCGGuUGUGCuaAGCCACG--------------UCGAGUG- -5'
1336 3' -53.2 NC_001335.1 + 34377 0.71 0.520069
Target:  5'- uGGCCccuUGCGGc-CGGaUGCGGCUCACg -3'
miRNA:   3'- -CCGGuu-GUGCUaaGCC-ACGUCGAGUG- -5'
1336 3' -53.2 NC_001335.1 + 39635 0.71 0.530894
Target:  5'- uGCCGuaGCGuucccaguCGGcUCGGUGCAGCUCGg -3'
miRNA:   3'- cCGGU--UGU--------GCUaAGCCACGUCGAGUg -5'
1336 3' -53.2 NC_001335.1 + 24419 0.71 0.530894
Target:  5'- cGGCCGAC-CGAUcUUGGcGUAGC-CACg -3'
miRNA:   3'- -CCGGUUGuGCUA-AGCCaCGUCGaGUG- -5'
1336 3' -53.2 NC_001335.1 + 32084 0.7 0.541799
Target:  5'- aGGCCAGCAgG--UCGGUGCugaccgagcuggAGCgUCACc -3'
miRNA:   3'- -CCGGUUGUgCuaAGCCACG------------UCG-AGUG- -5'
1336 3' -53.2 NC_001335.1 + 42338 0.7 0.549478
Target:  5'- cGGCCGaccgGCGCGAgcCGcGUGCgucucggcguccaaGGCUCGCu -3'
miRNA:   3'- -CCGGU----UGUGCUaaGC-CACG--------------UCGAGUG- -5'
1336 3' -53.2 NC_001335.1 + 24113 0.69 0.642254
Target:  5'- aGGUCuccGCACaGAgcggCGGUGCuggcGCUCGCg -3'
miRNA:   3'- -CCGGu--UGUG-CUaa--GCCACGu---CGAGUG- -5'
1336 3' -53.2 NC_001335.1 + 47059 0.68 0.664728
Target:  5'- cGCUu--GCGGUUaCGGUGCGGCUgCGCc -3'
miRNA:   3'- cCGGuugUGCUAA-GCCACGUCGA-GUG- -5'
1336 3' -53.2 NC_001335.1 + 8802 0.68 0.664728
Target:  5'- cGGCCGugAacguaaGcgUCGGUGUAGCcCAg -3'
miRNA:   3'- -CCGGUugUg-----CuaAGCCACGUCGaGUg -5'
1336 3' -53.2 NC_001335.1 + 23048 0.68 0.675923
Target:  5'- cGCCGGCACGGccaaCGGUGCugagaAGUUCGa -3'
miRNA:   3'- cCGGUUGUGCUaa--GCCACG-----UCGAGUg -5'
1336 3' -53.2 NC_001335.1 + 14297 0.68 0.687075
Target:  5'- cGGUCGGCuACGuguacgUCGGUGCuGCagGCa -3'
miRNA:   3'- -CCGGUUG-UGCua----AGCCACGuCGagUG- -5'
1336 3' -53.2 NC_001335.1 + 8913 0.68 0.698171
Target:  5'- gGGUCGAUcucgGCGugcAUUCGGguggGCGGCUCGa -3'
miRNA:   3'- -CCGGUUG----UGC---UAAGCCa---CGUCGAGUg -5'
1336 3' -53.2 NC_001335.1 + 50600 0.67 0.73101
Target:  5'- cGGCCAcgucggGCACGGUUCGGcacaAGCU-ACg -3'
miRNA:   3'- -CCGGU------UGUGCUAAGCCacg-UCGAgUG- -5'
1336 3' -53.2 NC_001335.1 + 4169 0.67 0.738551
Target:  5'- gGGCCAG-ACGGccUUCGGgccguccccugacgUGUAGCUCAa -3'
miRNA:   3'- -CCGGUUgUGCU--AAGCC--------------ACGUCGAGUg -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.