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
1398 3' -58.9 NC_001335.1 + 48401 0.66 0.523953
Target:  5'- cGGCuuGCCCucGCGgUGCGUGCGGuGcAGGUu -3'
miRNA:   3'- -CCG--UGGGc-CGUgACGUACGCU-C-UCCG- -5'
1398 3' -58.9 NC_001335.1 + 2178 0.66 0.513609
Target:  5'- cGGCugUCGGcCACgaagugggGCGgugGCGAG-GGUc -3'
miRNA:   3'- -CCGugGGCC-GUGa-------CGUa--CGCUCuCCG- -5'
1398 3' -58.9 NC_001335.1 + 32906 0.66 0.493181
Target:  5'- cGGC-CUCGGCuGCUGUgcGCGAcucGAuGGCg -3'
miRNA:   3'- -CCGuGGGCCG-UGACGuaCGCU---CU-CCG- -5'
1398 3' -58.9 NC_001335.1 + 51818 0.66 0.493181
Target:  5'- gGGCugCCGGgACUGUccaGCGuGAccagcggauagcGGCa -3'
miRNA:   3'- -CCGugGGCCgUGACGua-CGCuCU------------CCG- -5'
1398 3' -58.9 NC_001335.1 + 33690 0.66 0.490148
Target:  5'- aGGCACCCGGagauaaGCGguucacccaguucuUGCGGGAgauGGCc -3'
miRNA:   3'- -CCGUGGGCCguga--CGU--------------ACGCUCU---CCG- -5'
1398 3' -58.9 NC_001335.1 + 32626 0.67 0.452533
Target:  5'- aGCGCCUGGUggcgagaagcgguACUGCcagcacgGCGAGAuGGUc -3'
miRNA:   3'- cCGUGGGCCG-------------UGACGua-----CGCUCU-CCG- -5'
1398 3' -58.9 NC_001335.1 + 21079 0.67 0.443856
Target:  5'- cGGCGCUCuuGGCACUGCggGgauucucuaaacCGAaAGGCa -3'
miRNA:   3'- -CCGUGGG--CCGUGACGuaC------------GCUcUCCG- -5'
1398 3' -58.9 NC_001335.1 + 19360 0.68 0.406462
Target:  5'- uGGCAgaagauccaauUgCGGCGCUGCAagcGCGAGcAGGa -3'
miRNA:   3'- -CCGU-----------GgGCCGUGACGUa--CGCUC-UCCg -5'
1398 3' -58.9 NC_001335.1 + 20633 0.68 0.39653
Target:  5'- cGGCGCguucauggaaguuCCGaCuCUGCGUGCGAuGGGCa -3'
miRNA:   3'- -CCGUG-------------GGCcGuGACGUACGCUcUCCG- -5'
1398 3' -58.9 NC_001335.1 + 42338 0.69 0.337913
Target:  5'- cGGCcgaCCGGCGCgagccGCGUGCGucucGGCg -3'
miRNA:   3'- -CCGug-GGCCGUGa----CGUACGCucu-CCG- -5'
1398 3' -58.9 NC_001335.1 + 42461 0.69 0.326816
Target:  5'- cGGCACCCGGCugaugaaccagaUGCA-GCGAGccuuGGa -3'
miRNA:   3'- -CCGUGGGCCGug----------ACGUaCGCUCu---CCg -5'
1398 3' -58.9 NC_001335.1 + 5486 0.71 0.259994
Target:  5'- cGGCAccgccgcCCCGGCACUGCuggGCaucguccugaucuGGGGCg -3'
miRNA:   3'- -CCGU-------GGGCCGUGACGua-CGcu-----------CUCCG- -5'
1398 3' -58.9 NC_001335.1 + 13197 0.71 0.251594
Target:  5'- uGGUACCgGGCACcgGUGU-CGAGgAGGCu -3'
miRNA:   3'- -CCGUGGgCCGUGa-CGUAcGCUC-UCCG- -5'
1398 3' -58.9 NC_001335.1 + 29158 0.72 0.221359
Target:  5'- cGGCACCUGG-GCUGCGUcaGCGgucaucugguGGAGGUc -3'
miRNA:   3'- -CCGUGGGCCgUGACGUA--CGC----------UCUCCG- -5'
1398 3' -58.9 NC_001335.1 + 31399 0.75 0.133376
Target:  5'- aGCACCUGaaaGCUGCGcUGgGAGAGGCg -3'
miRNA:   3'- cCGUGGGCcg-UGACGU-ACgCUCUCCG- -5'
1398 3' -58.9 NC_001335.1 + 39939 0.76 0.116255
Target:  5'- cGCACgaCGGC-CUGCA-GUGGGAGGCg -3'
miRNA:   3'- cCGUGg-GCCGuGACGUaCGCUCUCCG- -5'
1398 3' -58.9 NC_001335.1 + 39603 1.12 0.000223
Target:  5'- cGGCACCCGGCACUGCAUGCGAGAGGCc -3'
miRNA:   3'- -CCGUGGGCCGUGACGUACGCUCUCCG- -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.