miRNA display CGI


Results 1 - 14 of 14 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
26390 3' -55.8 NC_005345.2 + 23648 0.66 0.685797
Target:  5'- cGGCCGAGACGCagcagccagaaGUCGGGguugucgagUUCCg- -3'
miRNA:   3'- cUUGGCUCUGCGag---------CAGCCC---------AAGGac -5'
26390 3' -55.8 NC_005345.2 + 22397 0.66 0.666154
Target:  5'- -cGCCGGGGa-CUCGUCGaGUUCCUc -3'
miRNA:   3'- cuUGGCUCUgcGAGCAGCcCAAGGAc -5'
26390 3' -55.8 NC_005345.2 + 43734 0.66 0.644209
Target:  5'- aGAACucggCGAGACGCUCGgccgaccgcCGGG--CCUGa -3'
miRNA:   3'- -CUUG----GCUCUGCGAGCa--------GCCCaaGGAC- -5'
26390 3' -55.8 NC_005345.2 + 45099 0.67 0.633215
Target:  5'- -uACCGugucGGCGCUCGUCGGcg-CCg- -3'
miRNA:   3'- cuUGGCu---CUGCGAGCAGCCcaaGGac -5'
26390 3' -55.8 NC_005345.2 + 3151 0.67 0.600266
Target:  5'- -uGCCGAcGGCgucggcgaGCUCGUCGGGgugCCg- -3'
miRNA:   3'- cuUGGCU-CUG--------CGAGCAGCCCaa-GGac -5'
26390 3' -55.8 NC_005345.2 + 23423 0.67 0.600266
Target:  5'- -cACCGcGACGCccgggUGUCGGGUUCg-- -3'
miRNA:   3'- cuUGGCuCUGCGa----GCAGCCCAAGgac -5'
26390 3' -55.8 NC_005345.2 + 21321 0.68 0.56756
Target:  5'- -cACCGGGuACaGCUCgGUCGGGU-CCUc -3'
miRNA:   3'- cuUGGCUC-UG-CGAG-CAGCCCAaGGAc -5'
26390 3' -55.8 NC_005345.2 + 48267 0.68 0.51839
Target:  5'- -uAUCGAGACGCcguucccugcgaugCGUCGGGcauaccgcgcguUUCCUGa -3'
miRNA:   3'- cuUGGCUCUGCGa-------------GCAGCCC------------AAGGAC- -5'
26390 3' -55.8 NC_005345.2 + 29977 0.68 0.51419
Target:  5'- --gUCGAGGgGCUCGUCGGcgUCCUc -3'
miRNA:   3'- cuuGGCUCUgCGAGCAGCCcaAGGAc -5'
26390 3' -55.8 NC_005345.2 + 7628 0.69 0.473014
Target:  5'- -cGCCGAGACGCUCGcgcuccgcguUCGGGacggugugCCg- -3'
miRNA:   3'- cuUGGCUCUGCGAGC----------AGCCCaa------GGac -5'
26390 3' -55.8 NC_005345.2 + 9495 0.7 0.453056
Target:  5'- aGACCGAGugGCa-GUCGcGGgcCCUGu -3'
miRNA:   3'- cUUGGCUCugCGagCAGC-CCaaGGAC- -5'
26390 3' -55.8 NC_005345.2 + 18551 0.7 0.44325
Target:  5'- -uGCuCGGGGCGCUCGcCGGGUgcgcgCCc- -3'
miRNA:   3'- cuUG-GCUCUGCGAGCaGCCCAa----GGac -5'
26390 3' -55.8 NC_005345.2 + 26921 0.7 0.405268
Target:  5'- cGACCGGuacGACGCgcuGUCGGGUUgCUGc -3'
miRNA:   3'- cUUGGCU---CUGCGag-CAGCCCAAgGAC- -5'
26390 3' -55.8 NC_005345.2 + 28722 1.07 0.0011
Target:  5'- gGAACCGAGACGCUCGUCGGGUUCCUGu -3'
miRNA:   3'- -CUUGGCUCUGCGAGCAGCCCAAGGAC- -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.