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
27404 3' -55.2 NC_005869.1 + 15053 0.66 0.570064
Target:  5'- aGUCUCGGGgugguGACCCCgaGGGuGCUcagcaGCCg -3'
miRNA:   3'- -UAGAGUUU-----CUGGGGgaCUCuCGG-----UGG- -5'
27404 3' -55.2 NC_005869.1 + 21589 0.66 0.570064
Target:  5'- -gUUCAucu-CCUCCgcgaaGGGAGCCACCa -3'
miRNA:   3'- uaGAGUuucuGGGGGa----CUCUCGGUGG- -5'
27404 3' -55.2 NC_005869.1 + 9368 0.67 0.49236
Target:  5'- aGUCaggUAAGGGggUCCCaCUGGGcAGCCGCCa -3'
miRNA:   3'- -UAGa--GUUUCU--GGGG-GACUC-UCGGUGG- -5'
27404 3' -55.2 NC_005869.1 + 16917 0.67 0.471033
Target:  5'- aGUCcUGGAGGCgCCCCUGGuGGCCAUg -3'
miRNA:   3'- -UAGaGUUUCUG-GGGGACUcUCGGUGg -5'
27404 3' -55.2 NC_005869.1 + 24565 0.67 0.460547
Target:  5'- -cUUCGAGcugcGGCCCCggGAGGGCgGCCg -3'
miRNA:   3'- uaGAGUUU----CUGGGGgaCUCUCGgUGG- -5'
27404 3' -55.2 NC_005869.1 + 25804 0.68 0.439953
Target:  5'- -gCU--GGGACCCCCcgcccGAGGGcCCGCCg -3'
miRNA:   3'- uaGAguUUCUGGGGGa----CUCUC-GGUGG- -5'
27404 3' -55.2 NC_005869.1 + 26092 0.68 0.428853
Target:  5'- cGUCUaccuAGACCCCCacaccgGAGAggagcucaacaccGCCGCCc -3'
miRNA:   3'- -UAGAguu-UCUGGGGGa-----CUCU-------------CGGUGG- -5'
27404 3' -55.2 NC_005869.1 + 25500 0.69 0.4004
Target:  5'- ---cCAGcuGCCCgCCUGAGAccgGCCGCCg -3'
miRNA:   3'- uagaGUUucUGGG-GGACUCU---CGGUGG- -5'
27404 3' -55.2 NC_005869.1 + 23114 0.69 0.381491
Target:  5'- -gCUCGAAGGCCUgCUGcgccuuGGAGCCcuCCg -3'
miRNA:   3'- uaGAGUUUCUGGGgGAC------UCUCGGu-GG- -5'
27404 3' -55.2 NC_005869.1 + 13029 0.7 0.34032
Target:  5'- -cCUCAGAGcccuccuccuccuucAcCCCCCUGccccugaccgaGGAGCCGCCc -3'
miRNA:   3'- uaGAGUUUC---------------U-GGGGGAC-----------UCUCGGUGG- -5'
27404 3' -55.2 NC_005869.1 + 16178 0.7 0.328444
Target:  5'- -cCUCAucGGCCCCCggcGGuaccGCCGCCu -3'
miRNA:   3'- uaGAGUuuCUGGGGGac-UCu---CGGUGG- -5'
27404 3' -55.2 NC_005869.1 + 27258 0.7 0.312017
Target:  5'- -cUUCAucGGCCUCCUGcgGGAGCC-CCu -3'
miRNA:   3'- uaGAGUuuCUGGGGGAC--UCUCGGuGG- -5'
27404 3' -55.2 NC_005869.1 + 19839 0.72 0.252577
Target:  5'- -cCUCcuuGACCCCCUGcu-GCCGCCc -3'
miRNA:   3'- uaGAGuuuCUGGGGGACucuCGGUGG- -5'
27404 3' -55.2 NC_005869.1 + 18829 0.72 0.239252
Target:  5'- uUC-CAAAGGCCCCCcaggUGGGGGuCCGCg -3'
miRNA:   3'- uAGaGUUUCUGGGGG----ACUCUC-GGUGg -5'
27404 3' -55.2 NC_005869.1 + 26403 0.73 0.222813
Target:  5'- ---cCGAGGACCCCCUGGccuaugcccagcugcGGcGCCGCCg -3'
miRNA:   3'- uagaGUUUCUGGGGGACU---------------CU-CGGUGG- -5'
27404 3' -55.2 NC_005869.1 + 24959 0.74 0.186412
Target:  5'- -cCUCGAGGACCUCCUGGuGGUCAgCg -3'
miRNA:   3'- uaGAGUUUCUGGGGGACUcUCGGUgG- -5'
27404 3' -55.2 NC_005869.1 + 33263 1.1 0.000419
Target:  5'- cAUCUCAAAGACCCCCUGAGAGCCACCu -3'
miRNA:   3'- -UAGAGUUUCUGGGGGACUCUCGGUGG- -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.