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
18071 3' -57.7 NC_004680.1 + 27947 0.66 0.602977
Target:  5'- aGCUUcgCGCCGA--UCGCGcCCAGCGc -3'
miRNA:   3'- aUGAG--GCGGCUuaGGCGCaGGUCGUc -5'
18071 3' -57.7 NC_004680.1 + 26610 0.66 0.602977
Target:  5'- cGCUCCGCUccAUCCcCGUucUCGGCGGa -3'
miRNA:   3'- aUGAGGCGGcuUAGGcGCA--GGUCGUC- -5'
18071 3' -57.7 NC_004680.1 + 27048 0.66 0.601896
Target:  5'- ---gCCGgCGAGUUCGCGcaacgagUCCAGCAa -3'
miRNA:   3'- augaGGCgGCUUAGGCGC-------AGGUCGUc -5'
18071 3' -57.7 NC_004680.1 + 16748 0.66 0.592182
Target:  5'- cUGCggCCGCaacugGAGgaucgCCGCG-CCAGCAGu -3'
miRNA:   3'- -AUGa-GGCGg----CUUa----GGCGCaGGUCGUC- -5'
18071 3' -57.7 NC_004680.1 + 43091 0.66 0.580344
Target:  5'- gACaggCCGCCGAAgaugCCGaacuguucguuguUGUCCAGCGc -3'
miRNA:   3'- aUGa--GGCGGCUUa---GGC-------------GCAGGUCGUc -5'
18071 3' -57.7 NC_004680.1 + 58424 0.66 0.570697
Target:  5'- gGCUgUGCCGA--CUGCGUggaguaggcgCCGGCAGg -3'
miRNA:   3'- aUGAgGCGGCUuaGGCGCA----------GGUCGUC- -5'
18071 3' -57.7 NC_004680.1 + 27982 0.67 0.528368
Target:  5'- --aUCCGCCGGAUCaagaCGUUCAuGCGGa -3'
miRNA:   3'- augAGGCGGCUUAGgc--GCAGGU-CGUC- -5'
18071 3' -57.7 NC_004680.1 + 47986 0.67 0.528368
Target:  5'- gGCUCCgguGUCGGAUCCcCGUaCCGGuCAGg -3'
miRNA:   3'- aUGAGG---CGGCUUAGGcGCA-GGUC-GUC- -5'
18071 3' -57.7 NC_004680.1 + 9673 0.68 0.447716
Target:  5'- -gUUCuCGCCG-AUCgCGCGgCCAGCAGc -3'
miRNA:   3'- auGAG-GCGGCuUAG-GCGCaGGUCGUC- -5'
18071 3' -57.7 NC_004680.1 + 37890 0.69 0.419261
Target:  5'- gACUgCCGCCGAGgaUGCGUaCCGGCGu -3'
miRNA:   3'- aUGA-GGCGGCUUagGCGCA-GGUCGUc -5'
18071 3' -57.7 NC_004680.1 + 12711 0.69 0.400911
Target:  5'- -cCagCGCCGggUgccaUCGCGUCCAGCGc -3'
miRNA:   3'- auGagGCGGCuuA----GGCGCAGGUCGUc -5'
18071 3' -57.7 NC_004680.1 + 53216 0.7 0.374366
Target:  5'- cGCUCuCGCCGAuguUCCGCacgagguugGUgCAGCGGc -3'
miRNA:   3'- aUGAG-GCGGCUu--AGGCG---------CAgGUCGUC- -5'
18071 3' -57.7 NC_004680.1 + 27449 0.71 0.294799
Target:  5'- gUGCUUCGCCGggUcCCGCGcugCCuggucGCGGg -3'
miRNA:   3'- -AUGAGGCGGCuuA-GGCGCa--GGu----CGUC- -5'
18071 3' -57.7 NC_004680.1 + 5305 0.74 0.217472
Target:  5'- cGCgUCCGCCGAgGUCUGCcggCCAGCGGc -3'
miRNA:   3'- aUG-AGGCGGCU-UAGGCGca-GGUCGUC- -5'
18071 3' -57.7 NC_004680.1 + 16868 0.76 0.153948
Target:  5'- cGCuUCCGCCGGugucgggucGUCCGgGUCCAGCu- -3'
miRNA:   3'- aUG-AGGCGGCU---------UAGGCgCAGGUCGuc -5'
18071 3' -57.7 NC_004680.1 + 8209 1.06 0.00099
Target:  5'- gUACUCCGCCGAAUCCGCGUCCAGCAGc -3'
miRNA:   3'- -AUGAGGCGGCUUAGGCGCAGGUCGUC- -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.