miRNA display CGI


Results 1 - 20 of 26 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
7138 5' -59.5 NC_001895.1 + 1336 0.66 0.406789
Target:  5'- -uGCGGCugGCCUcAUaggugGCGCUGCGUCc -3'
miRNA:   3'- ccUGCCGugUGGGaUG-----CGCGGUGCGG- -5'
7138 5' -59.5 NC_001895.1 + 5962 0.66 0.406789
Target:  5'- cGGCGuGC-CGCCCUgGCGCGggGCGCa -3'
miRNA:   3'- cCUGC-CGuGUGGGA-UGCGCggUGCGg -5'
7138 5' -59.5 NC_001895.1 + 20613 0.66 0.397618
Target:  5'- cGGCGGUAUugUCgccgagcugGCGCGCC-UGCUu -3'
miRNA:   3'- cCUGCCGUGugGGa--------UGCGCGGuGCGG- -5'
7138 5' -59.5 NC_001895.1 + 5736 0.66 0.397618
Target:  5'- cGGCGGCAuCACC--AC-CGUCACGCa -3'
miRNA:   3'- cCUGCCGU-GUGGgaUGcGCGGUGCGg -5'
7138 5' -59.5 NC_001895.1 + 19848 0.66 0.38858
Target:  5'- cGcCGGaGCGCCUUuuCGCGCCAUGUg -3'
miRNA:   3'- cCuGCCgUGUGGGAu-GCGCGGUGCGg -5'
7138 5' -59.5 NC_001895.1 + 7625 0.66 0.370914
Target:  5'- uGACGGcCACGCUCUGCGgGUaaaucagggaCAgUGCCa -3'
miRNA:   3'- cCUGCC-GUGUGGGAUGCgCG----------GU-GCGG- -5'
7138 5' -59.5 NC_001895.1 + 19577 0.66 0.362289
Target:  5'- uGACGGCACcgaugcugACCgaGCaggaaguCGCCGCGCUg -3'
miRNA:   3'- cCUGCCGUG--------UGGgaUGc------GCGGUGCGG- -5'
7138 5' -59.5 NC_001895.1 + 8525 0.67 0.353804
Target:  5'- uGACGGCaucagucaGCGCCCUGCGCaGgC-UGUCg -3'
miRNA:   3'- cCUGCCG--------UGUGGGAUGCG-CgGuGCGG- -5'
7138 5' -59.5 NC_001895.1 + 1339 0.67 0.34546
Target:  5'- uGGGCGaccauGCACGCCCUguuaaAUGaGCCAcucacCGCCg -3'
miRNA:   3'- -CCUGC-----CGUGUGGGA-----UGCgCGGU-----GCGG- -5'
7138 5' -59.5 NC_001895.1 + 20727 0.67 0.34546
Target:  5'- cGACGGUuCGCCa---GCGCCAUGUUc -3'
miRNA:   3'- cCUGCCGuGUGGgaugCGCGGUGCGG- -5'
7138 5' -59.5 NC_001895.1 + 30244 0.67 0.34546
Target:  5'- -uACGGU-UGCUCcACGCGCCAgCGCCu -3'
miRNA:   3'- ccUGCCGuGUGGGaUGCGCGGU-GCGG- -5'
7138 5' -59.5 NC_001895.1 + 777 0.67 0.337259
Target:  5'- aGGACGGCacccaccaguaaACAUCCUcuucCaCGCCACGgCg -3'
miRNA:   3'- -CCUGCCG------------UGUGGGAu---GcGCGGUGCgG- -5'
7138 5' -59.5 NC_001895.1 + 5534 0.67 0.336447
Target:  5'- aGGAgGuaGCGCUUgcggccaUGCGCGCuCACGCUg -3'
miRNA:   3'- -CCUgCcgUGUGGG-------AUGCGCG-GUGCGG- -5'
7138 5' -59.5 NC_001895.1 + 11569 0.68 0.308918
Target:  5'- cGGCGGCACaggccagcaucaccGCCCgUGCG-GCCucauucacacgcugACGCCa -3'
miRNA:   3'- cCUGCCGUG--------------UGGG-AUGCgCGG--------------UGCGG- -5'
7138 5' -59.5 NC_001895.1 + 6620 0.68 0.291054
Target:  5'- gGGGCGGUGCugCC-ACaCGgCACcGCCg -3'
miRNA:   3'- -CCUGCCGUGugGGaUGcGCgGUG-CGG- -5'
7138 5' -59.5 NC_001895.1 + 20943 0.68 0.283853
Target:  5'- gGGACGGgAaGCCgUGCGUGUUAaGCCg -3'
miRNA:   3'- -CCUGCCgUgUGGgAUGCGCGGUgCGG- -5'
7138 5' -59.5 NC_001895.1 + 5255 0.68 0.269875
Target:  5'- gGGGCGGCuucCCgCUGCGCgGUCAuCGCUg -3'
miRNA:   3'- -CCUGCCGuguGG-GAUGCG-CGGU-GCGG- -5'
7138 5' -59.5 NC_001895.1 + 5817 0.69 0.263097
Target:  5'- -aGCGGC-CACCC-GCGCcCCGCGUa -3'
miRNA:   3'- ccUGCCGuGUGGGaUGCGcGGUGCGg -5'
7138 5' -59.5 NC_001895.1 + 29688 0.69 0.231265
Target:  5'- gGGACauuuGCccCACCCUGCGCGCUgauauacaACGCa -3'
miRNA:   3'- -CCUGc---CGu-GUGGGAUGCGCGG--------UGCGg -5'
7138 5' -59.5 NC_001895.1 + 29633 0.69 0.231265
Target:  5'- cGGCGGCGCgugcaGCCUcgACGCGCU-CGUCa -3'
miRNA:   3'- cCUGCCGUG-----UGGGa-UGCGCGGuGCGG- -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.