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
30428 3' -58.6 NC_006548.1 + 18331 0.66 0.47355
Target:  5'- -cCCGGUaGGUcaGCCGUCGCaucugGCugCUCg -3'
miRNA:   3'- cuGGCUA-CCAa-CGGCAGCG-----CGugGGG- -5'
30428 3' -58.6 NC_006548.1 + 4326 0.66 0.461527
Target:  5'- -cCCGAugccUGGaUGCCGUCaacaacgccaccCGCGCCCUg -3'
miRNA:   3'- cuGGCU----ACCaACGGCAGc-----------GCGUGGGG- -5'
30428 3' -58.6 NC_006548.1 + 20834 0.66 0.453602
Target:  5'- uGCUGGUGaGUcUGcCCGUCGa-CACCCCc -3'
miRNA:   3'- cUGGCUAC-CA-AC-GGCAGCgcGUGGGG- -5'
30428 3' -58.6 NC_006548.1 + 9074 0.66 0.43412
Target:  5'- aGACC--UGGgUGCCG-CGCuCGCCCUg -3'
miRNA:   3'- -CUGGcuACCaACGGCaGCGcGUGGGG- -5'
30428 3' -58.6 NC_006548.1 + 34425 0.66 0.43124
Target:  5'- gGACCaGgcGGUUGcCCGUguguugcucgaugcCGCGCugCUCa -3'
miRNA:   3'- -CUGG-CuaCCAAC-GGCA--------------GCGCGugGGG- -5'
30428 3' -58.6 NC_006548.1 + 21402 0.66 0.424562
Target:  5'- cGCCccUGGgcgucgGCCGUCaGCGCAUCaCCg -3'
miRNA:   3'- cUGGcuACCaa----CGGCAG-CGCGUGG-GG- -5'
30428 3' -58.6 NC_006548.1 + 13961 0.67 0.393032
Target:  5'- cGGCCGGUGGgcccuacgagggGCCGguccucucggUCGCacagagcgaGUACCCCg -3'
miRNA:   3'- -CUGGCUACCaa----------CGGC----------AGCG---------CGUGGGG- -5'
30428 3' -58.6 NC_006548.1 + 21575 0.67 0.37873
Target:  5'- -uCCGAcgaGGUucUGCCG-CGCGUACCUg -3'
miRNA:   3'- cuGGCUa--CCA--ACGGCaGCGCGUGGGg -5'
30428 3' -58.6 NC_006548.1 + 22312 0.67 0.37873
Target:  5'- aGGCCGAaGGUggUGCCGUUGCGggUgUCg -3'
miRNA:   3'- -CUGGCUaCCA--ACGGCAGCGCguGgGG- -5'
30428 3' -58.6 NC_006548.1 + 23221 0.67 0.37873
Target:  5'- aGGCCGA-GGUguaGCCGcUUGCGacaACUCCu -3'
miRNA:   3'- -CUGGCUaCCAa--CGGC-AGCGCg--UGGGG- -5'
30428 3' -58.6 NC_006548.1 + 1925 0.68 0.35287
Target:  5'- -cCCGAuccccUGGUgcaGCCG-CGCGCGCuugCCCg -3'
miRNA:   3'- cuGGCU-----ACCAa--CGGCaGCGCGUG---GGG- -5'
30428 3' -58.6 NC_006548.1 + 34409 0.69 0.30499
Target:  5'- uGGCUccUGGUacucggGCUGUCGCGUuCCCCg -3'
miRNA:   3'- -CUGGcuACCAa-----CGGCAGCGCGuGGGG- -5'
30428 3' -58.6 NC_006548.1 + 36033 0.71 0.230472
Target:  5'- aGCCGAcgucgacacGUUGCaGUCGCGCGCCgCCa -3'
miRNA:   3'- cUGGCUac-------CAACGgCAGCGCGUGG-GG- -5'
30428 3' -58.6 NC_006548.1 + 29209 0.72 0.181471
Target:  5'- aGACCGAUGcaggucuagcaGUUGCUGcCGCGCGgCCa -3'
miRNA:   3'- -CUGGCUAC-----------CAACGGCaGCGCGUgGGg -5'
30428 3' -58.6 NC_006548.1 + 20127 0.73 0.149966
Target:  5'- cGGCauaGAgca-UGCCGUCGCGCACCuCCa -3'
miRNA:   3'- -CUGg--CUaccaACGGCAGCGCGUGG-GG- -5'
30428 3' -58.6 NC_006548.1 + 13347 0.76 0.101448
Target:  5'- cGCCGAgggcgGuGUUGaaGUCGCGCACCCa -3'
miRNA:   3'- cUGGCUa----C-CAACggCAGCGCGUGGGg -5'
30428 3' -58.6 NC_006548.1 + 11136 1.1 0.000249
Target:  5'- cGACCGAUGGUUGCCGUCGCGCACCCCc -3'
miRNA:   3'- -CUGGCUACCAACGGCAGCGCGUGGGG- -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.