miRNA display CGI


Results 1 - 16 of 16 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
12956 5' -55.4 NC_003387.1 + 10510 0.66 0.672709
Target:  5'- -aGCGgg-GCGCUcggcucggcgaugcgGGCCGGGUUCGg- -3'
miRNA:   3'- uaCGCaagUGCGA---------------CCGGCUCAAGCag -5'
12956 5' -55.4 NC_003387.1 + 24834 0.66 0.668273
Target:  5'- -cGCGUgUGCGCUgucugcGGCCGGGUgCGUg -3'
miRNA:   3'- uaCGCAaGUGCGA------CCGGCUCAaGCAg -5'
12956 5' -55.4 NC_003387.1 + 51917 0.66 0.668273
Target:  5'- -cGCGcUUCGCGCaaaucagcuuGCCGAGgUCGUCc -3'
miRNA:   3'- uaCGC-AAGUGCGac--------CGGCUCaAGCAG- -5'
12956 5' -55.4 NC_003387.1 + 31024 0.66 0.657159
Target:  5'- -cGCGggcCGCGCUcGCCGAGgcggccagggCGUCg -3'
miRNA:   3'- uaCGCaa-GUGCGAcCGGCUCaa--------GCAG- -5'
12956 5' -55.4 NC_003387.1 + 19233 0.67 0.623718
Target:  5'- -aGCG-UCGCGCcgGGCCaGGUgcucaacaUCGUCg -3'
miRNA:   3'- uaCGCaAGUGCGa-CCGGcUCA--------AGCAG- -5'
12956 5' -55.4 NC_003387.1 + 38104 0.67 0.623718
Target:  5'- -cGCGUaCACGUcGGCCGGGUUg--- -3'
miRNA:   3'- uaCGCAaGUGCGaCCGGCUCAAgcag -5'
12956 5' -55.4 NC_003387.1 + 25082 0.67 0.601445
Target:  5'- uAUGaCGUgaaCACGCaGGCCGcGaUCGUCg -3'
miRNA:   3'- -UAC-GCAa--GUGCGaCCGGCuCaAGCAG- -5'
12956 5' -55.4 NC_003387.1 + 34966 0.67 0.590344
Target:  5'- -cGCGaUUUACGCgGGCCuGGUgccCGUCg -3'
miRNA:   3'- uaCGC-AAGUGCGaCCGGcUCAa--GCAG- -5'
12956 5' -55.4 NC_003387.1 + 24484 0.68 0.546387
Target:  5'- cUGCug-CGCGUccUGGCCGAccggcgGUUCGUCa -3'
miRNA:   3'- uACGcaaGUGCG--ACCGGCU------CAAGCAG- -5'
12956 5' -55.4 NC_003387.1 + 34713 0.69 0.493035
Target:  5'- cAUGCGg-CGCGacCUGGCCGAGcUgGUCa -3'
miRNA:   3'- -UACGCaaGUGC--GACCGGCUCaAgCAG- -5'
12956 5' -55.4 NC_003387.1 + 11397 0.69 0.481612
Target:  5'- -gGCGc-CACGCUGGCCGcgaucggccccgaGGUgcugUCGUCg -3'
miRNA:   3'- uaCGCaaGUGCGACCGGC-------------UCA----AGCAG- -5'
12956 5' -55.4 NC_003387.1 + 4360 0.69 0.472362
Target:  5'- -aGCGa-CugGCUcgacGCCGAGUUCGUCc -3'
miRNA:   3'- uaCGCaaGugCGAc---CGGCUCAAGCAG- -5'
12956 5' -55.4 NC_003387.1 + 34433 0.71 0.39816
Target:  5'- -cGCGgccgggUCgGCGCUGGUCGAGUagugcggcgaaauguUCGUCc -3'
miRNA:   3'- uaCGCa-----AG-UGCGACCGGCUCA---------------AGCAG- -5'
12956 5' -55.4 NC_003387.1 + 30217 0.71 0.382611
Target:  5'- -cGCGgcgggcaugauccaUUCGCGCcaguUGGCCGGG-UCGUCg -3'
miRNA:   3'- uaCGC--------------AAGUGCG----ACCGGCUCaAGCAG- -5'
12956 5' -55.4 NC_003387.1 + 6948 0.71 0.36747
Target:  5'- gGUGCGUgagggCACccuGCUGGCCGcccUCGUCg -3'
miRNA:   3'- -UACGCAa----GUG---CGACCGGCucaAGCAG- -5'
12956 5' -55.4 NC_003387.1 + 35393 1.08 0.000915
Target:  5'- cAUGCGUUCACGCUGGCCGAGUUCGUCg -3'
miRNA:   3'- -UACGCAAGUGCGACCGGCUCAAGCAG- -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.