miRNA display CGI


Results 1 - 11 of 11 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
23517 3' -44.5 NC_005260.1 + 129605 0.67 1
Target:  5'- gUGguGGugGUGAGgaAGAUAUCGAgCGUc -3'
miRNA:   3'- -ACuuUCugUACUC--UCUGUAGUUaGCG- -5'
23517 3' -44.5 NC_005260.1 + 89062 0.67 1
Target:  5'- cUGGAcGACcgGAGcGACGUCA-UCGg -3'
miRNA:   3'- -ACUUuCUGuaCUCuCUGUAGUuAGCg -5'
23517 3' -44.5 NC_005260.1 + 20671 0.68 0.999999
Target:  5'- aGGAAGAguUGAcGAGAUucaAUCcaaGAUCGCu -3'
miRNA:   3'- aCUUUCUguACU-CUCUG---UAG---UUAGCG- -5'
23517 3' -44.5 NC_005260.1 + 128467 0.68 0.999999
Target:  5'- uUGAAA-ACAUGAgcGAGGCAUCGGcuacCGCu -3'
miRNA:   3'- -ACUUUcUGUACU--CUCUGUAGUUa---GCG- -5'
23517 3' -44.5 NC_005260.1 + 139928 0.68 0.999999
Target:  5'- cUGGGAGACGUGgcaaucaguccAGcGACGcuucCAAUCGCa -3'
miRNA:   3'- -ACUUUCUGUAC-----------UCuCUGUa---GUUAGCG- -5'
23517 3' -44.5 NC_005260.1 + 70741 0.7 0.999976
Target:  5'- gGAAGGAgcucauUAUGAGccguauaACGUCAAUCGCg -3'
miRNA:   3'- aCUUUCU------GUACUCuc-----UGUAGUUAGCG- -5'
23517 3' -44.5 NC_005260.1 + 75662 0.72 0.999717
Target:  5'- uUGAAGGGCAUcGGuccuaaGGACAUUAuUCGCa -3'
miRNA:   3'- -ACUUUCUGUAcUC------UCUGUAGUuAGCG- -5'
23517 3' -44.5 NC_005260.1 + 51064 0.72 0.999437
Target:  5'- -aGAAGACAUGAaAG-CGUCAAUgGCa -3'
miRNA:   3'- acUUUCUGUACUcUCuGUAGUUAgCG- -5'
23517 3' -44.5 NC_005260.1 + 98935 0.73 0.9993
Target:  5'- aUGAAuauccAGAUAUGAGAaucuGAUAUCGAUUGUu -3'
miRNA:   3'- -ACUU-----UCUGUACUCU----CUGUAGUUAGCG- -5'
23517 3' -44.5 NC_005260.1 + 226077 0.86 0.701944
Target:  5'- -aAAAGACAUGGGAGAaAUCAAUCGUg -3'
miRNA:   3'- acUUUCUGUACUCUCUgUAGUUAGCG- -5'
23517 3' -44.5 NC_005260.1 + 15519 1.16 0.024738
Target:  5'- aUGAAAGACAUGAGAGACAUCAAUCGCg -3'
miRNA:   3'- -ACUUUCUGUACUCUCUGUAGUUAGCG- -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.