miRNA display CGI


Results 1 - 20 of 22 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
10509 5' -57.9 NC_002687.1 + 68034 0.66 0.961806
Target:  5'- gGGAcGGGACGgUGAcGgCACCGGGUGc -3'
miRNA:   3'- aCCUcCUCUGCaGCU-CgGUGGCCUAC- -5'
10509 5' -57.9 NC_002687.1 + 215215 0.66 0.954938
Target:  5'- gUGGAGGAGuuuGCGUCGuguGCCGauauuucgauagUCGGGa- -3'
miRNA:   3'- -ACCUCCUC---UGCAGCu--CGGU------------GGCCUac -5'
10509 5' -57.9 NC_002687.1 + 326846 0.66 0.951208
Target:  5'- gUGGAGGuAGACGaCGGcaaccCCACUGGAa- -3'
miRNA:   3'- -ACCUCC-UCUGCaGCUc----GGUGGCCUac -5'
10509 5' -57.9 NC_002687.1 + 308871 0.66 0.951208
Target:  5'- gUGGuGGGGGCGUCagcggGGGCUcccugcucgGCCGGGg- -3'
miRNA:   3'- -ACCuCCUCUGCAG-----CUCGG---------UGGCCUac -5'
10509 5' -57.9 NC_002687.1 + 180412 0.66 0.951208
Target:  5'- gGGAGaucaucGGugGUUugGAGCCACUGGAa- -3'
miRNA:   3'- aCCUCc-----UCugCAG--CUCGGUGGCCUac -5'
10509 5' -57.9 NC_002687.1 + 224925 0.67 0.933791
Target:  5'- aGGAGGAGacagugauggcaaGCGugcgugcggUCGAGCUggaGCCGGAg- -3'
miRNA:   3'- aCCUCCUC-------------UGC---------AGCUCGG---UGGCCUac -5'
10509 5' -57.9 NC_002687.1 + 89869 0.68 0.913986
Target:  5'- uUGGAGGAauCGUC--GUCGCUGGAUGa -3'
miRNA:   3'- -ACCUCCUcuGCAGcuCGGUGGCCUAC- -5'
10509 5' -57.9 NC_002687.1 + 122956 0.68 0.908399
Target:  5'- cGGAcuuucgugGGAGACgGUCGAGggcCCACCGacGAUGa -3'
miRNA:   3'- aCCU--------CCUCUG-CAGCUC---GGUGGC--CUAC- -5'
10509 5' -57.9 NC_002687.1 + 226405 0.68 0.89661
Target:  5'- aGG-GGGGugGUgUGGGCgGCCGGGa- -3'
miRNA:   3'- aCCuCCUCugCA-GCUCGgUGGCCUac -5'
10509 5' -57.9 NC_002687.1 + 308654 0.68 0.89661
Target:  5'- gUGGGGGGGACGUggacagGAGgCGCgCGGAg- -3'
miRNA:   3'- -ACCUCCUCUGCAg-----CUCgGUG-GCCUac -5'
10509 5' -57.9 NC_002687.1 + 144573 0.68 0.884017
Target:  5'- aGGGGGAuagGugGUCGcaaGGCUACCGaGAUu -3'
miRNA:   3'- aCCUCCU---CugCAGC---UCGGUGGC-CUAc -5'
10509 5' -57.9 NC_002687.1 + 278115 0.68 0.884017
Target:  5'- gGGuGGGGGugGUUGGuGCCcgauuauCCGGGUGg -3'
miRNA:   3'- aCC-UCCUCugCAGCU-CGGu------GGCCUAC- -5'
10509 5' -57.9 NC_002687.1 + 225845 0.69 0.877427
Target:  5'- aGaGGGGGGugGUgUGGGCgGCCGGGa- -3'
miRNA:   3'- aC-CUCCUCugCA-GCUCGgUGGCCUac -5'
10509 5' -57.9 NC_002687.1 + 226031 0.69 0.877427
Target:  5'- aGaGGGGGGugGUgUGGGCgGCCGGGa- -3'
miRNA:   3'- aC-CUCCUCugCA-GCUCGgUGGCCUac -5'
10509 5' -57.9 NC_002687.1 + 211938 0.7 0.834036
Target:  5'- aUGGuGGAGACG--GAGgCGCaCGGAUGg -3'
miRNA:   3'- -ACCuCCUCUGCagCUCgGUG-GCCUAC- -5'
10509 5' -57.9 NC_002687.1 + 226220 0.71 0.749666
Target:  5'- gGGGGGuGGCGU-GGGCgGCCGGGa- -3'
miRNA:   3'- aCCUCCuCUGCAgCUCGgUGGCCUac -5'
10509 5' -57.9 NC_002687.1 + 225662 0.71 0.749666
Target:  5'- gGGGGGuGGCGU-GGGCgGCCGGGa- -3'
miRNA:   3'- aCCUCCuCUGCAgCUCGgUGGCCUac -5'
10509 5' -57.9 NC_002687.1 + 225621 0.72 0.712984
Target:  5'- gUGGAGGAcgcaccggugGGCgGUCGAGCUggaGCCGGAc- -3'
miRNA:   3'- -ACCUCCU----------CUG-CAGCUCGG---UGGCCUac -5'
10509 5' -57.9 NC_002687.1 + 133695 0.72 0.712984
Target:  5'- -aGAGGAGACG-CGAGaauguucacaCCACCGGAg- -3'
miRNA:   3'- acCUCCUCUGCaGCUC----------GGUGGCCUac -5'
10509 5' -57.9 NC_002687.1 + 71936 0.73 0.67534
Target:  5'- cGGGGGAacGACGUac-GCCGCCGGAg- -3'
miRNA:   3'- aCCUCCU--CUGCAgcuCGGUGGCCUac -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.