miRNA display CGI


Results 1 - 20 of 64 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
2748 3' -51.8 NC_001491.2 + 2584 0.84 0.233458
Target:  5'- aCAGCUguuuaaaaAGAAGCGCCAgacGCGCCCCu -3'
miRNA:   3'- -GUCGAag------UCUUCGCGGUau-UGUGGGG- -5'
2748 3' -51.8 NC_001491.2 + 141557 0.76 0.580121
Target:  5'- gGGC--CAGggGCguucugcgccccGCCGUGGCGCCCCg -3'
miRNA:   3'- gUCGaaGUCuuCG------------CGGUAUUGUGGGG- -5'
2748 3' -51.8 NC_001491.2 + 120758 0.74 0.727386
Target:  5'- -cGUcUCGGGAGCGCgCAUGGCACCgugCCa -3'
miRNA:   3'- guCGaAGUCUUCGCG-GUAUUGUGG---GG- -5'
2748 3' -51.8 NC_001491.2 + 115897 0.73 0.767461
Target:  5'- cCGGCUccuccUCGGAcgaccGUGCCAUccacgGGCGCCCCa -3'
miRNA:   3'- -GUCGA-----AGUCUu----CGCGGUA-----UUGUGGGG- -5'
2748 3' -51.8 NC_001491.2 + 116046 0.72 0.805465
Target:  5'- gAGCggCGGAGGCGCCGgggcuACgACCgCCa -3'
miRNA:   3'- gUCGaaGUCUUCGCGGUau---UG-UGG-GG- -5'
2748 3' -51.8 NC_001491.2 + 119553 0.71 0.860427
Target:  5'- gGGCgUUCAccuuuaugcauaugaGAGGCGCUAUucGGCAUCCCg -3'
miRNA:   3'- gUCG-AAGU---------------CUUCGCGGUA--UUGUGGGG- -5'
2748 3' -51.8 NC_001491.2 + 117600 0.7 0.894459
Target:  5'- uCGGCUcuggCGGGAGCGUCGaAGCgcaagcgggccaACCCCa -3'
miRNA:   3'- -GUCGAa---GUCUUCGCGGUaUUG------------UGGGG- -5'
2748 3' -51.8 NC_001491.2 + 121688 0.7 0.8917
Target:  5'- aGGCgguUCAcaucGggGCGCCAcggcggggcgcagAACGCCCCu -3'
miRNA:   3'- gUCGa--AGU----CuuCGCGGUa------------UUGUGGGG- -5'
2748 3' -51.8 NC_001491.2 + 84783 0.7 0.894459
Target:  5'- cCAGCaaaaaCAGu-GCGCCAUAACGaacauuCCCCa -3'
miRNA:   3'- -GUCGaa---GUCuuCGCGGUAUUGU------GGGG- -5'
2748 3' -51.8 NC_001491.2 + 34420 0.7 0.893085
Target:  5'- aCGGCcgucgcaugggCAGAgAGCGCCccggagcuuaAUAGCGCCCCc -3'
miRNA:   3'- -GUCGaa---------GUCU-UCGCGG----------UAUUGUGGGG- -5'
2748 3' -51.8 NC_001491.2 + 88492 0.69 0.931001
Target:  5'- -cGCUUCAGu--CGCCuggugGACACCUCu -3'
miRNA:   3'- guCGAAGUCuucGCGGua---UUGUGGGG- -5'
2748 3' -51.8 NC_001491.2 + 1565 0.69 0.916293
Target:  5'- cCGGCUauucagCGGggGCGCaCAgcccagcgaugcgcGGCGCCCCc -3'
miRNA:   3'- -GUCGAa-----GUCuuCGCG-GUa-------------UUGUGGGG- -5'
2748 3' -51.8 NC_001491.2 + 129151 0.69 0.925549
Target:  5'- aCAGCaaCAGuuuGCGCgCAUAGaugaACCCCa -3'
miRNA:   3'- -GUCGaaGUCuu-CGCG-GUAUUg---UGGGG- -5'
2748 3' -51.8 NC_001491.2 + 137678 0.69 0.925549
Target:  5'- gAGCgggcgCGGGAGCGCgcgAGCGCCgCCu -3'
miRNA:   3'- gUCGaa---GUCUUCGCGguaUUGUGG-GG- -5'
2748 3' -51.8 NC_001491.2 + 30210 0.68 0.945818
Target:  5'- uGGCcuucaucauagUCAGGAGUGCUGUAAUgaccggaaGCCCCu -3'
miRNA:   3'- gUCGa----------AGUCUUCGCGGUAUUG--------UGGGG- -5'
2748 3' -51.8 NC_001491.2 + 70883 0.68 0.945818
Target:  5'- gCAGCUUUAGcaucagcGCGUCA-AGCGCCCa -3'
miRNA:   3'- -GUCGAAGUCuu-----CGCGGUaUUGUGGGg -5'
2748 3' -51.8 NC_001491.2 + 140557 0.68 0.945818
Target:  5'- aAGCgugaauGAcAGCGCCAUcACACCCa -3'
miRNA:   3'- gUCGaagu--CU-UCGCGGUAuUGUGGGg -5'
2748 3' -51.8 NC_001491.2 + 140103 0.68 0.945818
Target:  5'- -cGCUcCGGAgcGGCGCCGggcCGCCCg -3'
miRNA:   3'- guCGAaGUCU--UCGCGGUauuGUGGGg -5'
2748 3' -51.8 NC_001491.2 + 54883 0.68 0.945818
Target:  5'- gAGaCUUCGGAgAGCGCCucacacgAugACCCa -3'
miRNA:   3'- gUC-GAAGUCU-UCGCGGua-----UugUGGGg -5'
2748 3' -51.8 NC_001491.2 + 39173 0.68 0.945818
Target:  5'- -cGCcUCAGAuagcAGCGCUGcccACGCCCCc -3'
miRNA:   3'- guCGaAGUCU----UCGCGGUau-UGUGGGG- -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.