miRNA display CGI


Results 1 - 20 of 25 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
13230 3' -57.3 NC_003401.1 + 58161 0.66 0.85773
Target:  5'- cCGGCUGGUaUuuuuaaaaacacggACGCGGAgcaGACCUc -3'
miRNA:   3'- uGCCGGCCAaA--------------UGCGCCUag-CUGGGa -5'
13230 3' -57.3 NC_003401.1 + 16236 0.66 0.836333
Target:  5'- cGCcGCCaGggUGCGcCGGAUCG-CCCUu -3'
miRNA:   3'- -UGcCGGcCaaAUGC-GCCUAGCuGGGA- -5'
13230 3' -57.3 NC_003401.1 + 23956 0.66 0.835514
Target:  5'- cCGcGCCGGUUUcauauauccgccaAC-CGGcgCGGCCCUc -3'
miRNA:   3'- uGC-CGGCCAAA-------------UGcGCCuaGCUGGGA- -5'
13230 3' -57.3 NC_003401.1 + 106986 0.66 0.831392
Target:  5'- gACGGCUGGcgagaguuuggACGCGGucccuauaaaGACCCUa -3'
miRNA:   3'- -UGCCGGCCaaa--------UGCGCCuag-------CUGGGA- -5'
13230 3' -57.3 NC_003401.1 + 121028 0.66 0.828063
Target:  5'- cACGGgcCCGGccgAgGgGGGUCGAUCCUg -3'
miRNA:   3'- -UGCC--GGCCaaaUgCgCCUAGCUGGGA- -5'
13230 3' -57.3 NC_003401.1 + 132612 0.67 0.814468
Target:  5'- uCGGCCGGgcccgGCGGAgcggcacccgggggCGGCCCc -3'
miRNA:   3'- uGCCGGCCaaaugCGCCUa-------------GCUGGGa -5'
13230 3' -57.3 NC_003401.1 + 21994 0.67 0.802229
Target:  5'- aACaGCCGGgccGCGCcuguGGUCGGCCCc -3'
miRNA:   3'- -UGcCGGCCaaaUGCGc---CUAGCUGGGa -5'
13230 3' -57.3 NC_003401.1 + 125394 0.67 0.793304
Target:  5'- aACGGCCGGUaccuggGCGUGaGAU--ACCCg -3'
miRNA:   3'- -UGCCGGCCAaa----UGCGC-CUAgcUGGGa -5'
13230 3' -57.3 NC_003401.1 + 90903 0.67 0.793304
Target:  5'- gGCGGCCGcGggUACGCuGucuGUUGGCCUg -3'
miRNA:   3'- -UGCCGGC-CaaAUGCGcC---UAGCUGGGa -5'
13230 3' -57.3 NC_003401.1 + 118865 0.67 0.793304
Target:  5'- cGCGGCCGGUUcuggggaaauuUcCGCGccagCGGCCCc -3'
miRNA:   3'- -UGCCGGCCAA-----------AuGCGCcua-GCUGGGa -5'
13230 3' -57.3 NC_003401.1 + 117872 0.68 0.756257
Target:  5'- aGCGGCCGauGggUACGCGcGG-CGACCa- -3'
miRNA:   3'- -UGCCGGC--CaaAUGCGC-CUaGCUGGga -5'
13230 3' -57.3 NC_003401.1 + 118447 0.68 0.756257
Target:  5'- cCGGCCGGccaaaggUGCGaucgcgGGGUCuGACCCa -3'
miRNA:   3'- uGCCGGCCaa-----AUGCg-----CCUAG-CUGGGa -5'
13230 3' -57.3 NC_003401.1 + 16732 0.68 0.756257
Target:  5'- -aGGCCGuUUUGCGaauGaGGUCGACCCc -3'
miRNA:   3'- ugCCGGCcAAAUGCg--C-CUAGCUGGGa -5'
13230 3' -57.3 NC_003401.1 + 17846 0.68 0.73705
Target:  5'- cGCGGCgcacaGGgacGCGCGGAUCucCCCg -3'
miRNA:   3'- -UGCCGg----CCaaaUGCGCCUAGcuGGGa -5'
13230 3' -57.3 NC_003401.1 + 129904 0.68 0.717483
Target:  5'- -aGGCgGGUUUACGUGGcagggUGACUCa -3'
miRNA:   3'- ugCCGgCCAAAUGCGCCua---GCUGGGa -5'
13230 3' -57.3 NC_003401.1 + 132436 0.68 0.717483
Target:  5'- cGCGGgcCCGGggggcGCGCGGGg-GACCCUc -3'
miRNA:   3'- -UGCC--GGCCaaa--UGCGCCUagCUGGGA- -5'
13230 3' -57.3 NC_003401.1 + 14192 0.69 0.687615
Target:  5'- cCGGCCGGg-UGCGCGaaucGAUUGGCCg- -3'
miRNA:   3'- uGCCGGCCaaAUGCGC----CUAGCUGGga -5'
13230 3' -57.3 NC_003401.1 + 123360 0.69 0.687615
Target:  5'- -aGG-CGGUUUGgcCGCGGcgCGGCCCc -3'
miRNA:   3'- ugCCgGCCAAAU--GCGCCuaGCUGGGa -5'
13230 3' -57.3 NC_003401.1 + 49525 0.69 0.657339
Target:  5'- -gGGCaCGGUUUcuCGCGGAUguggguucaaCGGCCCg -3'
miRNA:   3'- ugCCG-GCCAAAu-GCGCCUA----------GCUGGGa -5'
13230 3' -57.3 NC_003401.1 + 132688 0.69 0.657339
Target:  5'- uCGGCgGGgcccgGCGCGGGgcgCGACCg- -3'
miRNA:   3'- uGCCGgCCaaa--UGCGCCUa--GCUGGga -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.