miRNA display CGI


Results 1 - 10 of 10 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
11702 3' -50.3 NC_003102.1 + 17423 0.66 0.995569
Target:  5'- aGCGUGUGcC--GGGCCa--GCGAUCCc -3'
miRNA:   3'- -CGUACGCaGauCUCGGguuUGCUAGG- -5'
11702 3' -50.3 NC_003102.1 + 81739 0.66 0.995569
Target:  5'- ---gGCGccgaaCUAGAGCUCGAAuCGAUCa -3'
miRNA:   3'- cguaCGCa----GAUCUCGGGUUU-GCUAGg -5'
11702 3' -50.3 NC_003102.1 + 42074 0.66 0.993989
Target:  5'- cGUcgGCGUCgcacaaucuGAcgcgcGCaCUAAACGAUCCg -3'
miRNA:   3'- -CGuaCGCAGau-------CU-----CG-GGUUUGCUAGG- -5'
11702 3' -50.3 NC_003102.1 + 19017 0.67 0.990798
Target:  5'- -gAUGCGUCUAucacgucuauGCCCAGAuCGucGUCCa -3'
miRNA:   3'- cgUACGCAGAUcu--------CGGGUUU-GC--UAGG- -5'
11702 3' -50.3 NC_003102.1 + 49497 0.67 0.990798
Target:  5'- aGUccGCGUUUAGAGCUgCAuggucGGCGGUCa -3'
miRNA:   3'- -CGuaCGCAGAUCUCGG-GU-----UUGCUAGg -5'
11702 3' -50.3 NC_003102.1 + 47344 0.68 0.973006
Target:  5'- cGCAUGCuauuGUUUGGAcacacGCCCAAguuucugaacACGAUCg -3'
miRNA:   3'- -CGUACG----CAGAUCU-----CGGGUU----------UGCUAGg -5'
11702 3' -50.3 NC_003102.1 + 48904 0.69 0.970073
Target:  5'- aGCGUGCGUCUucgauuGGUUCAauGAUGAUUCg -3'
miRNA:   3'- -CGUACGCAGAuc----UCGGGU--UUGCUAGG- -5'
11702 3' -50.3 NC_003102.1 + 1453 0.74 0.779105
Target:  5'- uGCGUGUGUCUGGuuuuggugcugccGGUUCGAugGGUCUa -3'
miRNA:   3'- -CGUACGCAGAUC-------------UCGGGUUugCUAGG- -5'
11702 3' -50.3 NC_003102.1 + 110519 0.75 0.760495
Target:  5'- cGCAUGCGUC-GGAGUuUCGAucAUGAUCCg -3'
miRNA:   3'- -CGUACGCAGaUCUCG-GGUU--UGCUAGG- -5'
11702 3' -50.3 NC_003102.1 + 110374 1.15 0.003865
Target:  5'- cGCAUGCGUCUAGAGCCCAAACGAUCCu -3'
miRNA:   3'- -CGUACGCAGAUCUCGGGUUUGCUAGG- -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.