miRNA display CGI


Results 1 - 15 of 15 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
12585 3' -53.6 NC_003345.1 + 32364 0.66 0.898399
Target:  5'- --cGGCUcaaUCuc-GUCGGGAGUGaCCCg -3'
miRNA:   3'- cuuUCGA---AGcucCAGCCCUCACaGGG- -5'
12585 3' -53.6 NC_003345.1 + 71569 0.66 0.898399
Target:  5'- uAGAGUcggCG-GGUgGGGAGgucaaGUCCCg -3'
miRNA:   3'- cUUUCGaa-GCuCCAgCCCUCa----CAGGG- -5'
12585 3' -53.6 NC_003345.1 + 40461 0.66 0.898399
Target:  5'- cGAAGGCUUCGAGGUCuucucGuGAGcGUUUg -3'
miRNA:   3'- -CUUUCGAAGCUCCAGc----C-CUCaCAGGg -5'
12585 3' -53.6 NC_003345.1 + 48446 0.66 0.897027
Target:  5'- aGAGAGCUUauuucacCGcacagcuugucucAGGUCGGGGGagagaUGUUCCc -3'
miRNA:   3'- -CUUUCGAA-------GC-------------UCCAGCCCUC-----ACAGGG- -5'
12585 3' -53.6 NC_003345.1 + 75408 0.67 0.85289
Target:  5'- cGGGGCcgCGAGGUCGGcGGUucagCCCu -3'
miRNA:   3'- cUUUCGaaGCUCCAGCCcUCAca--GGG- -5'
12585 3' -53.6 NC_003345.1 + 8212 0.67 0.844482
Target:  5'- aGAGGCUUCGGGucGUCGGGGucgGUCa- -3'
miRNA:   3'- cUUUCGAAGCUC--CAGCCCUca-CAGgg -5'
12585 3' -53.6 NC_003345.1 + 25216 0.67 0.834985
Target:  5'- aGAGGGCggCGuAGGUCGcGGGGaaguagucgauaaUGUCCa -3'
miRNA:   3'- -CUUUCGaaGC-UCCAGC-CCUC-------------ACAGGg -5'
12585 3' -53.6 NC_003345.1 + 21606 0.68 0.80878
Target:  5'- --cGGcCUUCGAGGUCGucacGGAGUucgagagcGUCCUc -3'
miRNA:   3'- cuuUC-GAAGCUCCAGC----CCUCA--------CAGGG- -5'
12585 3' -53.6 NC_003345.1 + 13547 0.69 0.718999
Target:  5'- ---cGUUUCGGGGgcCGGGAGUcucguUCCCa -3'
miRNA:   3'- cuuuCGAAGCUCCa-GCCCUCAc----AGGG- -5'
12585 3' -53.6 NC_003345.1 + 58006 0.7 0.665697
Target:  5'- --cGGCUUCGAGGUCGcGGAuaacGUcUUCCu -3'
miRNA:   3'- cuuUCGAAGCUCCAGC-CCU----CAcAGGG- -5'
12585 3' -53.6 NC_003345.1 + 40112 0.71 0.600825
Target:  5'- --uGGCUgaguUCGAGGUCGGGu---UCCCa -3'
miRNA:   3'- cuuUCGA----AGCUCCAGCCCucacAGGG- -5'
12585 3' -53.6 NC_003345.1 + 69812 0.72 0.536852
Target:  5'- --cGGCUUCGGGGUCGaGAGUuUCaCCg -3'
miRNA:   3'- cuuUCGAAGCUCCAGCcCUCAcAG-GG- -5'
12585 3' -53.6 NC_003345.1 + 20454 0.74 0.465496
Target:  5'- ---cGCUUCGAGGUCGccGGAG-GUCUg -3'
miRNA:   3'- cuuuCGAAGCUCCAGC--CCUCaCAGGg -5'
12585 3' -53.6 NC_003345.1 + 49157 0.75 0.390437
Target:  5'- cGGAGCaaCGuGGUCGGGAGcGUCCUc -3'
miRNA:   3'- cUUUCGaaGCuCCAGCCCUCaCAGGG- -5'
12585 3' -53.6 NC_003345.1 + 2480 1.13 0.001375
Target:  5'- gGAAAGCUUCGAGGUCGGGAGUGUCCCg -3'
miRNA:   3'- -CUUUCGAAGCUCCAGCCCUCACAGGG- -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.