miRNA display CGI


Results 1 - 18 of 18 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
12201 5' -56.1 NC_003309.1 + 26505 0.66 0.657778
Target:  5'- uACUGGCUGCugcacGCAGAggcUUGGcuCGCGCGa -3'
miRNA:   3'- uUGACUGGCG-----CGUCU---AGCUu-GCGCGC- -5'
12201 5' -56.1 NC_003309.1 + 11993 0.66 0.657778
Target:  5'- uGCUGcCCGCGCGcGGcagcCGcGGCGCGCGc -3'
miRNA:   3'- uUGACuGGCGCGU-CUa---GC-UUGCGCGC- -5'
12201 5' -56.1 NC_003309.1 + 33048 0.66 0.642372
Target:  5'- ---cGACuCGCGCAcGAUCGAcgaccugaucaacCGCGCGa -3'
miRNA:   3'- uugaCUG-GCGCGU-CUAGCUu------------GCGCGC- -5'
12201 5' -56.1 NC_003309.1 + 15916 0.66 0.635762
Target:  5'- cGCaGcACuCGCGCGGAUacucugCGAGCGCGUGc -3'
miRNA:   3'- uUGaC-UG-GCGCGUCUA------GCUUGCGCGC- -5'
12201 5' -56.1 NC_003309.1 + 11233 0.67 0.613733
Target:  5'- cGCgGACUGCGC--GUCGucugccGCGCGCGa -3'
miRNA:   3'- uUGaCUGGCGCGucUAGCu-----UGCGCGC- -5'
12201 5' -56.1 NC_003309.1 + 19967 0.67 0.613733
Target:  5'- uGCUGcGCCuGCGCGcGAuccgcuUCGAcGCGCGCGa -3'
miRNA:   3'- uUGAC-UGG-CGCGU-CU------AGCU-UGCGCGC- -5'
12201 5' -56.1 NC_003309.1 + 46303 0.67 0.591767
Target:  5'- ---cGGCCuucuGCGCAcg-CGAGCGCGCGu -3'
miRNA:   3'- uugaCUGG----CGCGUcuaGCUUGCGCGC- -5'
12201 5' -56.1 NC_003309.1 + 44094 0.67 0.569938
Target:  5'- uGugUGACCGauuGCcGggCGAACGUGCa -3'
miRNA:   3'- -UugACUGGCg--CGuCuaGCUUGCGCGc -5'
12201 5' -56.1 NC_003309.1 + 34435 0.68 0.516383
Target:  5'- ---cGACCGUGgAGAgcgCGAugGCGUa -3'
miRNA:   3'- uugaCUGGCGCgUCUa--GCUugCGCGc -5'
12201 5' -56.1 NC_003309.1 + 4188 0.68 0.492421
Target:  5'- cAACgaGGCaGCGCGGAugucguccgccagcUCGAACGCGCc -3'
miRNA:   3'- -UUGa-CUGgCGCGUCU--------------AGCUUGCGCGc -5'
12201 5' -56.1 NC_003309.1 + 15729 0.69 0.475044
Target:  5'- cGCUGAucuucCUGCuGCAucGAUCGAGCGCGgGa -3'
miRNA:   3'- uUGACU-----GGCG-CGU--CUAGCUUGCGCgC- -5'
12201 5' -56.1 NC_003309.1 + 31808 0.69 0.445151
Target:  5'- cGACUGGCUGCuacugacgaaGCGaAUCGGaaACGCGCGg -3'
miRNA:   3'- -UUGACUGGCG----------CGUcUAGCU--UGCGCGC- -5'
12201 5' -56.1 NC_003309.1 + 1976 0.7 0.416341
Target:  5'- -gUUGcGCCGUGCGGGUCGAGCggaGUGCa -3'
miRNA:   3'- uuGAC-UGGCGCGUCUAGCUUG---CGCGc -5'
12201 5' -56.1 NC_003309.1 + 12236 0.7 0.410717
Target:  5'- cGCUuGCUGCGCAGAuccgucaccuuuugaUCGAACGCGa- -3'
miRNA:   3'- uUGAcUGGCGCGUCU---------------AGCUUGCGCgc -5'
12201 5' -56.1 NC_003309.1 + 2476 0.7 0.3887
Target:  5'- cGCUGAacgacUCGCGCAGcgCGAGcCGcCGCGa -3'
miRNA:   3'- uUGACU-----GGCGCGUCuaGCUU-GC-GCGC- -5'
12201 5' -56.1 NC_003309.1 + 35673 0.71 0.34539
Target:  5'- aAGCUGcucgcACCGCGCgAGAUCcAGCGCGaCGa -3'
miRNA:   3'- -UUGAC-----UGGCGCG-UCUAGcUUGCGC-GC- -5'
12201 5' -56.1 NC_003309.1 + 9555 0.72 0.313311
Target:  5'- cGGCuUGugCGUauucGCGGAUCGAACuGCGCGc -3'
miRNA:   3'- -UUG-ACugGCG----CGUCUAGCUUG-CGCGC- -5'
12201 5' -56.1 NC_003309.1 + 22605 0.73 0.283542
Target:  5'- cGGCUG-CCGUGCAGuGUCGGacagcgACGCGCa -3'
miRNA:   3'- -UUGACuGGCGCGUC-UAGCU------UGCGCGc -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.