miRNA display CGI


Results 1 - 20 of 87 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
11462 5' -58.9 NC_003085.1 + 596 0.7 0.299329
Target:  5'- aGgGUGUCuCGacuggCGCCGUCCuGGgcGCGCu -3'
miRNA:   3'- -CgCACGG-GCa----GUGGCAGG-CCuuCGCG- -5'
11462 5' -58.9 NC_003085.1 + 674 0.66 0.541181
Target:  5'- aCGUcGCCgGcCACCugucccgcGUCCGGccucGGGCGCg -3'
miRNA:   3'- cGCA-CGGgCaGUGG--------CAGGCC----UUCGCG- -5'
11462 5' -58.9 NC_003085.1 + 1029 0.66 0.51954
Target:  5'- cGCG-GCC--UCGCCGUCCaugcggaGGAAGCcaGCg -3'
miRNA:   3'- -CGCaCGGgcAGUGGCAGG-------CCUUCG--CG- -5'
11462 5' -58.9 NC_003085.1 + 1113 0.67 0.460763
Target:  5'- aGCGaGCCCGUC-CCGauguccaucggCCGaGAGCGUg -3'
miRNA:   3'- -CGCaCGGGCAGuGGCa----------GGCcUUCGCG- -5'
11462 5' -58.9 NC_003085.1 + 1485 0.74 0.17121
Target:  5'- ---cGCCCGUCACCGUcgccagccucggCCGGu-GCGCc -3'
miRNA:   3'- cgcaCGGGCAGUGGCA------------GGCCuuCGCG- -5'
11462 5' -58.9 NC_003085.1 + 1795 0.66 0.520563
Target:  5'- gGUG-GCCCGUUgGCUGgCCGGGacuGGUGCg -3'
miRNA:   3'- -CGCaCGGGCAG-UGGCaGGCCU---UCGCG- -5'
11462 5' -58.9 NC_003085.1 + 1983 0.67 0.459796
Target:  5'- cGCGUGCaugagcacCCGUCcacuucuACCGagCGGAugcggcguGGCGCg -3'
miRNA:   3'- -CGCACG--------GGCAG-------UGGCagGCCU--------UCGCG- -5'
11462 5' -58.9 NC_003085.1 + 2047 0.76 0.117236
Target:  5'- -aGUGCCCGUCACCauggaugccaagGcCCGGAcggugacgcgacgAGCGCa -3'
miRNA:   3'- cgCACGGGCAGUGG------------CaGGCCU-------------UCGCG- -5'
11462 5' -58.9 NC_003085.1 + 2147 0.66 0.520563
Target:  5'- gGCG-GCCCccgccUCAugacguCCGUgCUGGAAGUGCg -3'
miRNA:   3'- -CGCaCGGGc----AGU------GGCA-GGCCUUCGCG- -5'
11462 5' -58.9 NC_003085.1 + 2671 0.77 0.099733
Target:  5'- aCGUGgccaCCGUCAUCGUCgCGGAGGCGg -3'
miRNA:   3'- cGCACg---GGCAGUGGCAG-GCCUUCGCg -5'
11462 5' -58.9 NC_003085.1 + 2750 0.66 0.530836
Target:  5'- gGCGcUGCCCaaggacucCGCUGgCCGGAAGCagGCa -3'
miRNA:   3'- -CGC-ACGGGca------GUGGCaGGCCUUCG--CG- -5'
11462 5' -58.9 NC_003085.1 + 4088 0.69 0.36995
Target:  5'- gGUGgagcGCCCGcacUCGCCG-CUGGAguugGGCGCc -3'
miRNA:   3'- -CGCa---CGGGC---AGUGGCaGGCCU----UCGCG- -5'
11462 5' -58.9 NC_003085.1 + 4429 0.73 0.205557
Target:  5'- -gGUGCCCGacggugcuccUCACCGUcgCCGucGGCGCa -3'
miRNA:   3'- cgCACGGGC----------AGUGGCA--GGCcuUCGCG- -5'
11462 5' -58.9 NC_003085.1 + 5310 0.66 0.530836
Target:  5'- gGCGcGCgCCGUCcugaaGgCGaCCGaGAAGCGCg -3'
miRNA:   3'- -CGCaCG-GGCAG-----UgGCaGGC-CUUCGCG- -5'
11462 5' -58.9 NC_003085.1 + 5318 0.66 0.551593
Target:  5'- cGCGaGCgCGUgGCCacgCUGGAGGCGa -3'
miRNA:   3'- -CGCaCGgGCAgUGGca-GGCCUUCGCg -5'
11462 5' -58.9 NC_003085.1 + 5373 0.7 0.320887
Target:  5'- cGCGUccgGuCCCGUCACCGUcgaggccuacgCCGccaaguggauggaGggGCGCg -3'
miRNA:   3'- -CGCA---C-GGGCAGUGGCA-----------GGC-------------CuuCGCG- -5'
11462 5' -58.9 NC_003085.1 + 5525 0.68 0.432251
Target:  5'- aCGUGCUCG-CACUgGUgCGcGAAGUGCg -3'
miRNA:   3'- cGCACGGGCaGUGG-CAgGC-CUUCGCG- -5'
11462 5' -58.9 NC_003085.1 + 5785 0.68 0.404796
Target:  5'- cGCGUGCUCuaCGCCGUggccuucgUCGGAgcGGUGCg -3'
miRNA:   3'- -CGCACGGGcaGUGGCA--------GGCCU--UCGCG- -5'
11462 5' -58.9 NC_003085.1 + 5846 0.68 0.432251
Target:  5'- cCGUGCCCGcUCugCacUCgGGAuggcAGCGCc -3'
miRNA:   3'- cGCACGGGC-AGugGc-AGgCCU----UCGCG- -5'
11462 5' -58.9 NC_003085.1 + 5952 0.69 0.353312
Target:  5'- cCGUuCCCGUCcacGCCGggcugCUGGAGGCGg -3'
miRNA:   3'- cGCAcGGGCAG---UGGCa----GGCCUUCGCg -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.