miRNA display CGI


Results 1 - 20 of 45 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
18527 3' -57.6 NC_004681.1 + 17779 0.66 0.701604
Target:  5'- aGgCGUAGucGGGAGCUgccGGUGAgagcGGGAUCg -3'
miRNA:   3'- -CgGCGUC--UCCUCGA---CCACU----UCCUGGg -5'
18527 3' -57.6 NC_004681.1 + 40292 0.66 0.699526
Target:  5'- aGCCGaagcCAGGGGAGCUcaguagugggggcGGUGAagaaaucGGGauaguucuccucGCCCg -3'
miRNA:   3'- -CGGC----GUCUCCUCGA-------------CCACU-------UCC------------UGGG- -5'
18527 3' -57.6 NC_004681.1 + 8615 0.66 0.680726
Target:  5'- gGCCGC--GGGGGC-GGUcucaccguccgcGAAGGcGCCCa -3'
miRNA:   3'- -CGGCGucUCCUCGaCCA------------CUUCC-UGGG- -5'
18527 3' -57.6 NC_004681.1 + 39554 0.66 0.680726
Target:  5'- aCCGCGGAGGugugucgcAGCcGGUGcGGGuggaaGCCUg -3'
miRNA:   3'- cGGCGUCUCC--------UCGaCCACuUCC-----UGGG- -5'
18527 3' -57.6 NC_004681.1 + 726 0.66 0.680726
Target:  5'- uGCCGgGaaucGAGGAcGaCUGGUGAcGGccuACCCg -3'
miRNA:   3'- -CGGCgU----CUCCU-C-GACCACUuCC---UGGG- -5'
18527 3' -57.6 NC_004681.1 + 26965 0.66 0.670218
Target:  5'- cGCCGCcauAGGuGGC-GGUGggGaccGGCCCa -3'
miRNA:   3'- -CGGCGuc-UCC-UCGaCCACuuC---CUGGG- -5'
18527 3' -57.6 NC_004681.1 + 32699 0.66 0.659677
Target:  5'- cGUCGCGc---GGCUGGUGGaugAGGACCUc -3'
miRNA:   3'- -CGGCGUcuccUCGACCACU---UCCUGGG- -5'
18527 3' -57.6 NC_004681.1 + 55490 0.66 0.659677
Target:  5'- cGCCcaGCAGuGGAcgacgucgucGCUGGUGcAGGGCaCUu -3'
miRNA:   3'- -CGG--CGUCuCCU----------CGACCACuUCCUG-GG- -5'
18527 3' -57.6 NC_004681.1 + 50385 0.66 0.658621
Target:  5'- gGCCGCGG-GGAcguggcccuucuuGC-GGUGGgcgcGGGACCa -3'
miRNA:   3'- -CGGCGUCuCCU-------------CGaCCACU----UCCUGGg -5'
18527 3' -57.6 NC_004681.1 + 40736 0.67 0.649112
Target:  5'- cGUgGCGGAGuAGCUGGgaGAGGGcgGCCa -3'
miRNA:   3'- -CGgCGUCUCcUCGACCa-CUUCC--UGGg -5'
18527 3' -57.6 NC_004681.1 + 54936 0.67 0.649112
Target:  5'- gGUCGCAuGAuGAGCUGGUcGAAGGGg-- -3'
miRNA:   3'- -CGGCGU-CUcCUCGACCA-CUUCCUggg -5'
18527 3' -57.6 NC_004681.1 + 14484 0.67 0.638532
Target:  5'- cGCCgaGCAGGGcGcGCUGGUGGccGGugCUg -3'
miRNA:   3'- -CGG--CGUCUC-CuCGACCACUu-CCugGG- -5'
18527 3' -57.6 NC_004681.1 + 28424 0.67 0.627948
Target:  5'- cCCGCGGAgauGGAGCUcGcGUGggGcacuCCCg -3'
miRNA:   3'- cGGCGUCU---CCUCGA-C-CACuuCcu--GGG- -5'
18527 3' -57.6 NC_004681.1 + 59366 0.67 0.627948
Target:  5'- aCCGUAGAGGAGUUccagcuUGccGGACCUg -3'
miRNA:   3'- cGGCGUCUCCUCGAcc----ACuuCCUGGG- -5'
18527 3' -57.6 NC_004681.1 + 69090 0.67 0.617366
Target:  5'- -aCGCGGGGGAGUgugugGuGUGAAGcGCCg -3'
miRNA:   3'- cgGCGUCUCCUCGa----C-CACUUCcUGGg -5'
18527 3' -57.6 NC_004681.1 + 8763 0.67 0.617366
Target:  5'- -aCGaCAGGuucGGGCUGGUGAcGGGCCg -3'
miRNA:   3'- cgGC-GUCUc--CUCGACCACUuCCUGGg -5'
18527 3' -57.6 NC_004681.1 + 48501 0.67 0.606797
Target:  5'- cGCCGCGGAgaacccGGAGCgGGUGgcGcACUg -3'
miRNA:   3'- -CGGCGUCU------CCUCGaCCACuuCcUGGg -5'
18527 3' -57.6 NC_004681.1 + 54675 0.67 0.606797
Target:  5'- aUUGCGGGGGgcAGCUGGcUGAuGGuuCCCa -3'
miRNA:   3'- cGGCGUCUCC--UCGACC-ACUuCCu-GGG- -5'
18527 3' -57.6 NC_004681.1 + 57571 0.67 0.596248
Target:  5'- cGCCGUAGAGGAugaGCUcc--AGGGACCg -3'
miRNA:   3'- -CGGCGUCUCCU---CGAccacUUCCUGGg -5'
18527 3' -57.6 NC_004681.1 + 36789 0.68 0.585727
Target:  5'- uCCGUccccgauGAGGAGCccgUGGUGAugcugcucucGGACCCc -3'
miRNA:   3'- cGGCGu------CUCCUCG---ACCACUu---------CCUGGG- -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.