miRNA display CGI


Results 1 - 20 of 23 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
23113 3' -57.5 NC_005178.1 + 26770 0.66 0.492941
Target:  5'- -uCGGCCAGGAUGgcGGCgGCGUagucGCGg -3'
miRNA:   3'- cuGCUGGUCCUGC--UCGaCGCGaa--CGC- -5'
23113 3' -57.5 NC_005178.1 + 12881 0.66 0.472195
Target:  5'- gGACGACUGGGACaaGGCgcaaucgGCGCagUUGCu -3'
miRNA:   3'- -CUGCUGGUCCUGc-UCGa------CGCG--AACGc -5'
23113 3' -57.5 NC_005178.1 + 31518 0.66 0.451899
Target:  5'- cGACGGCgGucuGGCGAuGCUGCGCg-GCGa -3'
miRNA:   3'- -CUGCUGgUc--CUGCU-CGACGCGaaCGC- -5'
23113 3' -57.5 NC_005178.1 + 7517 0.66 0.441932
Target:  5'- aAUGGCCcGGcGCuGAGCUGCGCUaugguUGCu -3'
miRNA:   3'- cUGCUGGuCC-UG-CUCGACGCGA-----ACGc -5'
23113 3' -57.5 NC_005178.1 + 35091 0.66 0.441932
Target:  5'- -cCGACC-GGAcuacucgccgcCGAGCUGCcGCUgGCGg -3'
miRNA:   3'- cuGCUGGuCCU-----------GCUCGACG-CGAaCGC- -5'
23113 3' -57.5 NC_005178.1 + 25676 0.67 0.422377
Target:  5'- cACGGCCuGGGCGAucuGCUcgGCGCUguaggGCu -3'
miRNA:   3'- cUGCUGGuCCUGCU---CGA--CGCGAa----CGc -5'
23113 3' -57.5 NC_005178.1 + 20838 0.67 0.421413
Target:  5'- cGAgGACCAGGGCGccggcucAGUUGgGCgaugccUGCGc -3'
miRNA:   3'- -CUgCUGGUCCUGC-------UCGACgCGa-----ACGC- -5'
23113 3' -57.5 NC_005178.1 + 474 0.67 0.412797
Target:  5'- -cCGACCGGGACGccAGCgaGUGCU-GCc -3'
miRNA:   3'- cuGCUGGUCCUGC--UCGa-CGCGAaCGc -5'
23113 3' -57.5 NC_005178.1 + 18827 0.67 0.412797
Target:  5'- gGACGuCCAGGACcgcaucGCgUGCGCUUGg- -3'
miRNA:   3'- -CUGCuGGUCCUGcu----CG-ACGCGAACgc -5'
23113 3' -57.5 NC_005178.1 + 2919 0.67 0.403352
Target:  5'- -uCGGCCAGGuCGAGCcGCaGCU-GCu -3'
miRNA:   3'- cuGCUGGUCCuGCUCGaCG-CGAaCGc -5'
23113 3' -57.5 NC_005178.1 + 35972 0.67 0.394045
Target:  5'- -uCGACCAGGcguCGAGCaUGUuCUUGCu -3'
miRNA:   3'- cuGCUGGUCCu--GCUCG-ACGcGAACGc -5'
23113 3' -57.5 NC_005178.1 + 4911 0.69 0.332916
Target:  5'- aGACGACCAGGuCGAcgGCacCGCUcgGCGa -3'
miRNA:   3'- -CUGCUGGUCCuGCU--CGacGCGAa-CGC- -5'
23113 3' -57.5 NC_005178.1 + 33597 0.69 0.304298
Target:  5'- cGCGACCGGcGACGcGCUcGCGCUcaaauugguugaacaUGCa -3'
miRNA:   3'- cUGCUGGUC-CUGCuCGA-CGCGA---------------ACGc -5'
23113 3' -57.5 NC_005178.1 + 3027 0.7 0.28629
Target:  5'- --gGACCAGGcCGAGCgugGCGCccuggUGCc -3'
miRNA:   3'- cugCUGGUCCuGCUCGa--CGCGa----ACGc -5'
23113 3' -57.5 NC_005178.1 + 23442 0.7 0.28629
Target:  5'- cGACGcCCAGGGCGAcgGCcaggGCGCccgGCGc -3'
miRNA:   3'- -CUGCuGGUCCUGCU--CGa---CGCGaa-CGC- -5'
23113 3' -57.5 NC_005178.1 + 21030 0.7 0.28629
Target:  5'- --aGACCAGG-CGGGggGCGCggcgUGCGu -3'
miRNA:   3'- cugCUGGUCCuGCUCgaCGCGa---ACGC- -5'
23113 3' -57.5 NC_005178.1 + 17587 0.7 0.285558
Target:  5'- --aGuCCAGGACGGGCggagucuUGCGCgaccgUGCGc -3'
miRNA:   3'- cugCuGGUCCUGCUCG-------ACGCGa----ACGC- -5'
23113 3' -57.5 NC_005178.1 + 21872 0.7 0.279039
Target:  5'- --aGGCCgAGGAC-AGC-GCGCUUGCGc -3'
miRNA:   3'- cugCUGG-UCCUGcUCGaCGCGAACGC- -5'
23113 3' -57.5 NC_005178.1 + 22051 0.71 0.226227
Target:  5'- aGAcCGGCCAGGugcGCGGuCUGCuGCUUGCGc -3'
miRNA:   3'- -CU-GCUGGUCC---UGCUcGACG-CGAACGC- -5'
23113 3' -57.5 NC_005178.1 + 26410 0.72 0.208717
Target:  5'- cGGCGGCCAGGGCGc-CcGCGCUgaUGUGg -3'
miRNA:   3'- -CUGCUGGUCCUGCucGaCGCGA--ACGC- -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.