miRNA display CGI


Results 1 - 20 of 41 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
28155 3' -61.2 NC_005887.1 + 23349 0.66 0.378696
Target:  5'- uCUUCGGCgCGGGCugcggcaaccGCCaCGagcugcgccuuuUGcgCGCCGa -3'
miRNA:   3'- -GAAGCCG-GCCCG----------CGG-GU------------ACuaGCGGC- -5'
28155 3' -61.2 NC_005887.1 + 6591 0.66 0.370128
Target:  5'- aUUCGGCgGgGGCGaugCCGUcAUUGCCGu -3'
miRNA:   3'- gAAGCCGgC-CCGCg--GGUAcUAGCGGC- -5'
28155 3' -61.2 NC_005887.1 + 3471 0.66 0.370128
Target:  5'- gUUCgGGCCuGGcGCGCUgAUGAUCGagcaCGa -3'
miRNA:   3'- gAAG-CCGG-CC-CGCGGgUACUAGCg---GC- -5'
28155 3' -61.2 NC_005887.1 + 2955 0.66 0.361693
Target:  5'- --gCGGCCGacGUGUCCGUcGUCGCCu -3'
miRNA:   3'- gaaGCCGGCc-CGCGGGUAcUAGCGGc -5'
28155 3' -61.2 NC_005887.1 + 15558 0.66 0.361693
Target:  5'- -cUCGGCgCGcgcgaccGCGCUCGauucgcUGAUCGCCGa -3'
miRNA:   3'- gaAGCCG-GCc------CGCGGGU------ACUAGCGGC- -5'
28155 3' -61.2 NC_005887.1 + 14649 0.66 0.361693
Target:  5'- --cCGGCgCGGuGCuGCCC---GUCGCCGg -3'
miRNA:   3'- gaaGCCG-GCC-CG-CGGGuacUAGCGGC- -5'
28155 3' -61.2 NC_005887.1 + 8616 0.66 0.353393
Target:  5'- cCUUCGGCau-GCGCCCuccuaacugcggAUGAUCGgCGu -3'
miRNA:   3'- -GAAGCCGgccCGCGGG------------UACUAGCgGC- -5'
28155 3' -61.2 NC_005887.1 + 35635 0.66 0.353393
Target:  5'- ---aGGCCGuGUGCCCGgcgcUCGCCGc -3'
miRNA:   3'- gaagCCGGCcCGCGGGUacu-AGCGGC- -5'
28155 3' -61.2 NC_005887.1 + 14714 0.66 0.345228
Target:  5'- ---gGGCCGGGCGCggc-GAUCGCg- -3'
miRNA:   3'- gaagCCGGCCCGCGgguaCUAGCGgc -5'
28155 3' -61.2 NC_005887.1 + 32877 0.66 0.345228
Target:  5'- -gUCGGCCcgcuguucGUGCCCGUGAagcggcgcgCGCCGa -3'
miRNA:   3'- gaAGCCGGcc------CGCGGGUACUa--------GCGGC- -5'
28155 3' -61.2 NC_005887.1 + 841 0.66 0.326967
Target:  5'- --gCGGCCGcgaagaaagccaaGGUGCCCGUGGacgcguggcccgCGCCGc -3'
miRNA:   3'- gaaGCCGGC-------------CCGCGGGUACUa-----------GCGGC- -5'
28155 3' -61.2 NC_005887.1 + 38612 0.67 0.313936
Target:  5'- --cCGGCCaGuGGCGCCCGcUGGUguaagCGCCc -3'
miRNA:   3'- gaaGCCGG-C-CCGCGGGU-ACUA-----GCGGc -5'
28155 3' -61.2 NC_005887.1 + 18214 0.67 0.306457
Target:  5'- gCUUCGGCaCGacgucGGCgGCCCGcgcuUCGCCGg -3'
miRNA:   3'- -GAAGCCG-GC-----CCG-CGGGUacu-AGCGGC- -5'
28155 3' -61.2 NC_005887.1 + 22677 0.67 0.304239
Target:  5'- -aUCGGCCgguGGGCGCaaccguguugcguuCCucgacacGAUCGCCGu -3'
miRNA:   3'- gaAGCCGG---CCCGCG--------------GGua-----CUAGCGGC- -5'
28155 3' -61.2 NC_005887.1 + 41793 0.67 0.284839
Target:  5'- --gCGcGCCGGGaucggaucgcCGCCCGUcAUCGCCu -3'
miRNA:   3'- gaaGC-CGGCCC----------GCGGGUAcUAGCGGc -5'
28155 3' -61.2 NC_005887.1 + 33803 0.68 0.277906
Target:  5'- ---aGGCCGGcGCGCUgAUccUCGCCGc -3'
miRNA:   3'- gaagCCGGCC-CGCGGgUAcuAGCGGC- -5'
28155 3' -61.2 NC_005887.1 + 2023 0.68 0.271108
Target:  5'- -cUCGGCCgccGGGUucacGaCCCAccGAUCGCCGu -3'
miRNA:   3'- gaAGCCGG---CCCG----C-GGGUa-CUAGCGGC- -5'
28155 3' -61.2 NC_005887.1 + 8862 0.68 0.271108
Target:  5'- ----cGCCGGcGCGCCCGUcgaGAUCGCg- -3'
miRNA:   3'- gaagcCGGCC-CGCGGGUA---CUAGCGgc -5'
28155 3' -61.2 NC_005887.1 + 40824 0.68 0.271108
Target:  5'- --gCGGCgCGcGGCGCgCCAacggcGAUCGCCu -3'
miRNA:   3'- gaaGCCG-GC-CCGCG-GGUa----CUAGCGGc -5'
28155 3' -61.2 NC_005887.1 + 32757 0.68 0.271108
Target:  5'- --gCGcGCCGGcGCGCgCCAUGca-GCCGg -3'
miRNA:   3'- gaaGC-CGGCC-CGCG-GGUACuagCGGC- -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.