miRNA display CGI


Results 1 - 20 of 29 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
1363 5' -62 NC_001335.1 + 10259 0.66 0.382809
Target:  5'- gAUCcGGCCcCGCagaucgugcagggcuGGGCGaGGGUCGCCa -3'
miRNA:   3'- -UGGuCCGGcGCG---------------UCCGCcUUCAGCGG- -5'
1363 5' -62 NC_001335.1 + 25268 0.66 0.370939
Target:  5'- aGCCuGGCU-CGCGGGCGaGAAG-CGgCu -3'
miRNA:   3'- -UGGuCCGGcGCGUCCGC-CUUCaGCgG- -5'
1363 5' -62 NC_001335.1 + 6976 0.66 0.370939
Target:  5'- cACC--GCCGCGCcugcuuGGCGGAAcucuGUgGCCc -3'
miRNA:   3'- -UGGucCGGCGCGu-----CCGCCUU----CAgCGG- -5'
1363 5' -62 NC_001335.1 + 10253 0.66 0.362615
Target:  5'- gGCCAGaGCCaacuuagagGuCGCAcucGGCGGAgAGUCgGCCu -3'
miRNA:   3'- -UGGUC-CGG---------C-GCGU---CCGCCU-UCAG-CGG- -5'
1363 5' -62 NC_001335.1 + 7686 0.66 0.362615
Target:  5'- uAUC-GGCaGC-CAGGUGGA-GUCGCCu -3'
miRNA:   3'- -UGGuCCGgCGcGUCCGCCUuCAGCGG- -5'
1363 5' -62 NC_001335.1 + 46250 0.66 0.36179
Target:  5'- cGCCAGcgcgugguucaucGCCGCGUu-GCGGccGUCGCg -3'
miRNA:   3'- -UGGUC-------------CGGCGCGucCGCCuuCAGCGg -5'
1363 5' -62 NC_001335.1 + 16252 0.66 0.354423
Target:  5'- uUCGGaGCCgGCGCuGGCGu-AGUCGCg -3'
miRNA:   3'- uGGUC-CGG-CGCGuCCGCcuUCAGCGg -5'
1363 5' -62 NC_001335.1 + 38324 0.66 0.353611
Target:  5'- gGCUGGGCuucCGgGCAGGCuuucucuguaccgGGAcGUUGCCu -3'
miRNA:   3'- -UGGUCCG---GCgCGUCCG-------------CCUuCAGCGG- -5'
1363 5' -62 NC_001335.1 + 36742 0.66 0.346361
Target:  5'- aACCGGGCCGuCGUAGaccuggcgcaGCGGcuccAGgaacCGCCg -3'
miRNA:   3'- -UGGUCCGGC-GCGUC----------CGCCu---UCa---GCGG- -5'
1363 5' -62 NC_001335.1 + 23839 0.66 0.343969
Target:  5'- cACCGGGCUcgucggagcuggagGCGCA-GCGGGAGcUgGCUc -3'
miRNA:   3'- -UGGUCCGG--------------CGCGUcCGCCUUC-AgCGG- -5'
1363 5' -62 NC_001335.1 + 22116 0.67 0.330636
Target:  5'- cACCGGcGCUGUGCAGGCGaucauGAAcgCGCUc -3'
miRNA:   3'- -UGGUC-CGGCGCGUCCGC-----CUUcaGCGG- -5'
1363 5' -62 NC_001335.1 + 35864 0.67 0.308046
Target:  5'- --gAGGCUcUGCAGG-GGGAGUCGaCCa -3'
miRNA:   3'- uggUCCGGcGCGUCCgCCUUCAGC-GG- -5'
1363 5' -62 NC_001335.1 + 48353 0.67 0.293651
Target:  5'- gGCC-GGCCGCGaCAagguacGGCGcGAG-CGCCg -3'
miRNA:   3'- -UGGuCCGGCGC-GU------CCGCcUUCaGCGG- -5'
1363 5' -62 NC_001335.1 + 29161 0.68 0.286653
Target:  5'- cACCuGGGCUGCGuCAgcggucaucuGGUGGAGGUcCGCa -3'
miRNA:   3'- -UGG-UCCGGCGC-GU----------CCGCCUUCA-GCGg -5'
1363 5' -62 NC_001335.1 + 32664 0.68 0.266449
Target:  5'- gGCCAGcagcagucucgcGCCcCGCAGGCagcucaGGAAG-CGCCu -3'
miRNA:   3'- -UGGUC------------CGGcGCGUCCG------CCUUCaGCGG- -5'
1363 5' -62 NC_001335.1 + 12185 0.69 0.247412
Target:  5'- gACCuGGCCccagacgaGCuGGCGGAAGUCaCCc -3'
miRNA:   3'- -UGGuCCGGcg------CGuCCGCCUUCAGcGG- -5'
1363 5' -62 NC_001335.1 + 5957 0.69 0.241321
Target:  5'- gACCAGGCCcgaGCGGGuCGGGcuGGccugUGCCg -3'
miRNA:   3'- -UGGUCCGGcg-CGUCC-GCCU--UCa---GCGG- -5'
1363 5' -62 NC_001335.1 + 15490 0.69 0.237727
Target:  5'- -aCAGGUCGCGCAGGUcuacccgguaguacuGGAgcaggucugcgaGGaUCGCCc -3'
miRNA:   3'- ugGUCCGGCGCGUCCG---------------CCU------------UC-AGCGG- -5'
1363 5' -62 NC_001335.1 + 32903 0.7 0.202126
Target:  5'- gGCuCGGGCUGgGCagGGGCGGugcuccacGGUCGUCg -3'
miRNA:   3'- -UG-GUCCGGCgCG--UCCGCCu-------UCAGCGG- -5'
1363 5' -62 NC_001335.1 + 612 0.7 0.197
Target:  5'- uCCAGGCCGCGagaUAGGCcggcacGAAGUCggucgGCCg -3'
miRNA:   3'- uGGUCCGGCGC---GUCCGc-----CUUCAG-----CGG- -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.