miRNA display CGI


Results 1 - 17 of 17 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
12208 3' -55.1 NC_003309.1 + 30993 0.66 0.724416
Target:  5'- aUCGCGAGCGgcuacaacCGCAaCCGCgugCGa -3'
miRNA:   3'- cAGCGCUCGUac------GCGUaGGCGauaGC- -5'
12208 3' -55.1 NC_003309.1 + 10891 0.66 0.680904
Target:  5'- gGUCGCGGucGCc-GCGCGUuCCGCUcgCu -3'
miRNA:   3'- -CAGCGCU--CGuaCGCGUA-GGCGAuaGc -5'
12208 3' -55.1 NC_003309.1 + 5159 0.66 0.680904
Target:  5'- --gGCGAGC-UGCGCGUcgCCGCg--CGc -3'
miRNA:   3'- cagCGCUCGuACGCGUA--GGCGauaGC- -5'
12208 3' -55.1 NC_003309.1 + 37841 0.67 0.658818
Target:  5'- cGUCGCGGcCGUGCuGUuucucgugCUGCUGUCGa -3'
miRNA:   3'- -CAGCGCUcGUACG-CGua------GGCGAUAGC- -5'
12208 3' -55.1 NC_003309.1 + 11863 0.67 0.658818
Target:  5'- -gCGCGAGCucGCGCGUCagaUUGUCGa -3'
miRNA:   3'- caGCGCUCGuaCGCGUAGgc-GAUAGC- -5'
12208 3' -55.1 NC_003309.1 + 19977 0.67 0.658818
Target:  5'- gGUCGUGAucugcugcGCcUGCGCGcgaUCCGCU-UCGa -3'
miRNA:   3'- -CAGCGCU--------CGuACGCGU---AGGCGAuAGC- -5'
12208 3' -55.1 NC_003309.1 + 10491 0.67 0.647732
Target:  5'- aUCGCGAggcuuucgcGCAUcgcGCGCAUgCCGCgaguUCGg -3'
miRNA:   3'- cAGCGCU---------CGUA---CGCGUA-GGCGau--AGC- -5'
12208 3' -55.1 NC_003309.1 + 27936 0.67 0.647732
Target:  5'- cGUCGCGgcgGGCAcGCGCAauugaUCCGUcGUUGc -3'
miRNA:   3'- -CAGCGC---UCGUaCGCGU-----AGGCGaUAGC- -5'
12208 3' -55.1 NC_003309.1 + 19492 0.67 0.641072
Target:  5'- cGUCGCGAuucgGCGUGCGgcuguaccagaucucCGUUCGCUgcguGUCGc -3'
miRNA:   3'- -CAGCGCU----CGUACGC---------------GUAGGCGA----UAGC- -5'
12208 3' -55.1 NC_003309.1 + 45569 0.67 0.613318
Target:  5'- --gGaCGAGCAUGCcgucgcagguucuGCGUCCGCgagaagGUCGu -3'
miRNA:   3'- cagC-GCUCGUACG-------------CGUAGGCGa-----UAGC- -5'
12208 3' -55.1 NC_003309.1 + 9696 0.68 0.603344
Target:  5'- uGUCGCGcGCgAUGCGCAgcacgucguUCUGCgcaAUCGc -3'
miRNA:   3'- -CAGCGCuCG-UACGCGU---------AGGCGa--UAGC- -5'
12208 3' -55.1 NC_003309.1 + 12121 0.68 0.592286
Target:  5'- uGUUGuCGAGCAUGCGC--UCGCUuUCc -3'
miRNA:   3'- -CAGC-GCUCGUACGCGuaGGCGAuAGc -5'
12208 3' -55.1 NC_003309.1 + 12165 0.7 0.484907
Target:  5'- gGUUGCGAccgccucgacgcGCAguUGCGCgAUCCGCUGcCGg -3'
miRNA:   3'- -CAGCGCU------------CGU--ACGCG-UAGGCGAUaGC- -5'
12208 3' -55.1 NC_003309.1 + 41414 0.7 0.444535
Target:  5'- -gCGCG-GCAUGCGCAaggcaCCGCccGUCGa -3'
miRNA:   3'- caGCGCuCGUACGCGUa----GGCGa-UAGC- -5'
12208 3' -55.1 NC_003309.1 + 10588 0.7 0.434738
Target:  5'- cGUCGCGAcauGCGcuUGCGCcgCCGCc-UCGa -3'
miRNA:   3'- -CAGCGCU---CGU--ACGCGuaGGCGauAGC- -5'
12208 3' -55.1 NC_003309.1 + 51919 0.71 0.396844
Target:  5'- --aGCGAcagccGCA-GUGCGUCCGCUAUCc -3'
miRNA:   3'- cagCGCU-----CGUaCGCGUAGGCGAUAGc -5'
12208 3' -55.1 NC_003309.1 + 3940 0.72 0.369854
Target:  5'- -aUGCG-GCAgccaucUGCGCG-CCGCUGUCGa -3'
miRNA:   3'- caGCGCuCGU------ACGCGUaGGCGAUAGC- -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.