miRNA display CGI


Results 1 - 20 of 44 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
19749 3' -56.3 NC_004687.1 + 25771 0.72 0.595859
Target:  5'- cCUCGCUCUUGCccccGUCGCUcagGCCGcGcCCg -3'
miRNA:   3'- uGAGCGAGAACG----CAGCGG---UGGU-CaGG- -5'
19749 3' -56.3 NC_004687.1 + 127867 0.67 0.874749
Target:  5'- gGCagCGCgccgGUcacCGCCACCAGUCCg -3'
miRNA:   3'- -UGa-GCGagaaCGca-GCGGUGGUCAGG- -5'
19749 3' -56.3 NC_004687.1 + 126349 0.67 0.859932
Target:  5'- gGCUCugguGCUCcaaCGgCGCCACCAGcCCg -3'
miRNA:   3'- -UGAG----CGAGaacGCaGCGGUGGUCaGG- -5'
19749 3' -56.3 NC_004687.1 + 28433 0.67 0.859932
Target:  5'- --gCGCgagUUGCGcuaUCGCCGCCugguGUCCg -3'
miRNA:   3'- ugaGCGag-AACGC---AGCGGUGGu---CAGG- -5'
19749 3' -56.3 NC_004687.1 + 61216 0.68 0.810813
Target:  5'- aACUCGCgccagUGCGUCgagacucucgGUCACCcaGGUCCc -3'
miRNA:   3'- -UGAGCGaga--ACGCAG----------CGGUGG--UCAGG- -5'
19749 3' -56.3 NC_004687.1 + 101989 0.68 0.802021
Target:  5'- -gUCGgUCUUGCG-CaCCGCCauGGUCCg -3'
miRNA:   3'- ugAGCgAGAACGCaGcGGUGG--UCAGG- -5'
19749 3' -56.3 NC_004687.1 + 85326 0.69 0.783989
Target:  5'- aGCg-GCUCUUcGUGcCGUCGCCGGUCg -3'
miRNA:   3'- -UGagCGAGAA-CGCaGCGGUGGUCAGg -5'
19749 3' -56.3 NC_004687.1 + 72868 0.69 0.774766
Target:  5'- -gUCGCUg-UGUG-CGCCGCCGGuaUCCg -3'
miRNA:   3'- ugAGCGAgaACGCaGCGGUGGUC--AGG- -5'
19749 3' -56.3 NC_004687.1 + 61987 0.69 0.755952
Target:  5'- gACUCGCUUUacgacgUGC-UCGCCGUCGGUCa -3'
miRNA:   3'- -UGAGCGAGA------ACGcAGCGGUGGUCAGg -5'
19749 3' -56.3 NC_004687.1 + 99356 0.66 0.881838
Target:  5'- gGCUCGC-----CGcCGCC-CCAGUCCg -3'
miRNA:   3'- -UGAGCGagaacGCaGCGGuGGUCAGG- -5'
19749 3' -56.3 NC_004687.1 + 108569 0.66 0.895356
Target:  5'- gGCU-GCUCUccGgGUUGUC-CCAGUCCc -3'
miRNA:   3'- -UGAgCGAGAa-CgCAGCGGuGGUCAGG- -5'
19749 3' -56.3 NC_004687.1 + 86523 0.66 0.895356
Target:  5'- uCUC-UUCUUGgaCG-CGCCGCCAGUUCu -3'
miRNA:   3'- uGAGcGAGAAC--GCaGCGGUGGUCAGG- -5'
19749 3' -56.3 NC_004687.1 + 6308 0.66 0.895356
Target:  5'- aGCUCGUcgCacaUGCGUCGCaCGCgAGUgCg -3'
miRNA:   3'- -UGAGCGa-Ga--ACGCAGCG-GUGgUCAgG- -5'
19749 3' -56.3 NC_004687.1 + 108319 0.66 0.901775
Target:  5'- gGCUUGC-CgaGC-UCGCCGCCGGauaCCg -3'
miRNA:   3'- -UGAGCGaGaaCGcAGCGGUGGUCa--GG- -5'
19749 3' -56.3 NC_004687.1 + 2349 0.66 0.906745
Target:  5'- cAC-CGCUaucgUUGCGcaggucggccagCGCCGCCAGaUCCa -3'
miRNA:   3'- -UGaGCGAg---AACGCa-----------GCGGUGGUC-AGG- -5'
19749 3' -56.3 NC_004687.1 + 141106 0.66 0.907356
Target:  5'- cCUUGCUCUUGCuggugcggacgguGaCGUCACCGGUg- -3'
miRNA:   3'- uGAGCGAGAACG-------------CaGCGGUGGUCAgg -5'
19749 3' -56.3 NC_004687.1 + 68899 0.66 0.907965
Target:  5'- uGCUCaGCggcagCUUGaaaGUCGCCGugauaacuUCGGUCCc -3'
miRNA:   3'- -UGAG-CGa----GAACg--CAGCGGU--------GGUCAGG- -5'
19749 3' -56.3 NC_004687.1 + 69940 0.66 0.907965
Target:  5'- aGCUCGgUCUUGUGagGCCGgaUGGUCa -3'
miRNA:   3'- -UGAGCgAGAACGCagCGGUg-GUCAGg -5'
19749 3' -56.3 NC_004687.1 + 70347 0.66 0.907965
Target:  5'- ---gGCUCcgGCGUCGCCGCaCAG-Cg -3'
miRNA:   3'- ugagCGAGaaCGCAGCGGUG-GUCaGg -5'
19749 3' -56.3 NC_004687.1 + 135149 1.11 0.002059
Target:  5'- aACUCGCUCUUGCGUCGCCACCAGUCCu -3'
miRNA:   3'- -UGAGCGAGAACGCAGCGGUGGUCAGG- -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.