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
18553 5' -58.9 NC_004682.1 + 23244 0.66 0.487283
Target:  5'- aGGGAGCugagcaCCagCAAGCUCCaGGCGaaccaGCg -3'
miRNA:   3'- -CCUUCG------GGa-GUUCGAGGaCCGCg----CGa -5'
18553 5' -58.9 NC_004682.1 + 28265 0.66 0.457286
Target:  5'- aGGAAG-CCUCAucGGCUUCggggccGGCGUGUc -3'
miRNA:   3'- -CCUUCgGGAGU--UCGAGGa-----CCGCGCGa -5'
18553 5' -58.9 NC_004682.1 + 45980 0.66 0.457286
Target:  5'- cGGAAGCUCUCcAGCgcggacuucaCCUGGuCGaCGUUg -3'
miRNA:   3'- -CCUUCGGGAGuUCGa---------GGACC-GC-GCGA- -5'
18553 5' -58.9 NC_004682.1 + 14325 0.67 0.437848
Target:  5'- cGGcGGUCCUCGaccuccgugcGGCUCUggaGGCGCuGCg -3'
miRNA:   3'- -CCuUCGGGAGU----------UCGAGGa--CCGCG-CGa -5'
18553 5' -58.9 NC_004682.1 + 22970 0.67 0.437848
Target:  5'- cGGAAGCCCUcCGGGCUggCCUu-CGgGCUg -3'
miRNA:   3'- -CCUUCGGGA-GUUCGA--GGAccGCgCGA- -5'
18553 5' -58.9 NC_004682.1 + 20179 0.67 0.437848
Target:  5'- -cAGGCCCagGAacuccGCgUCCUGGCcGCGCUg -3'
miRNA:   3'- ccUUCGGGagUU-----CG-AGGACCG-CGCGA- -5'
18553 5' -58.9 NC_004682.1 + 41954 0.67 0.399534
Target:  5'- cGGcaGAGCCCUugauguaCAAGCUCUgaagUGGUGUGUa -3'
miRNA:   3'- -CC--UUCGGGA-------GUUCGAGG----ACCGCGCGa -5'
18553 5' -58.9 NC_004682.1 + 21342 0.68 0.373761
Target:  5'- ---cGCCUUCGgcGGCUCCUGGCugacGgGCUu -3'
miRNA:   3'- ccuuCGGGAGU--UCGAGGACCG----CgCGA- -5'
18553 5' -58.9 NC_004682.1 + 39266 0.68 0.348312
Target:  5'- uGGggGCUCUCAcGCaCCaacuGCGCGCUu -3'
miRNA:   3'- -CCuuCGGGAGUuCGaGGac--CGCGCGA- -5'
18553 5' -58.9 NC_004682.1 + 20529 0.69 0.324124
Target:  5'- gGGAGGCCgaacggCUCAAGCcgccUCUGGUGCgGCUc -3'
miRNA:   3'- -CCUUCGG------GAGUUCGa---GGACCGCG-CGA- -5'
18553 5' -58.9 NC_004682.1 + 27698 0.7 0.279564
Target:  5'- ---cGCCgCUguGGCUCCUGGC-CGCa -3'
miRNA:   3'- ccuuCGG-GAguUCGAGGACCGcGCGa -5'
18553 5' -58.9 NC_004682.1 + 38009 0.7 0.265833
Target:  5'- uGGggGCCUcugCGGGCUUCUGaGC-CGCUc -3'
miRNA:   3'- -CCuuCGGGa--GUUCGAGGAC-CGcGCGA- -5'
18553 5' -58.9 NC_004682.1 + 50009 0.7 0.265833
Target:  5'- gGGuGGUCagCGGGCUCCUGGCcCGCUa -3'
miRNA:   3'- -CCuUCGGgaGUUCGAGGACCGcGCGA- -5'
18553 5' -58.9 NC_004682.1 + 39796 0.71 0.237552
Target:  5'- uGGAAGCCCUCGaccgcguauAGCgcgccgcccgaugCCUcGGCuGCGCUc -3'
miRNA:   3'- -CCUUCGGGAGU---------UCGa------------GGA-CCG-CGCGA- -5'
18553 5' -58.9 NC_004682.1 + 33420 0.73 0.17028
Target:  5'- uGGggGCCUccuGAGCcgCCUGGgGCGCg -3'
miRNA:   3'- -CCuuCGGGag-UUCGa-GGACCgCGCGa -5'
18553 5' -58.9 NC_004682.1 + 41881 1.1 0.000291
Target:  5'- cGGAAGCCCUCAAGCUCCUGGCGCGCUg -3'
miRNA:   3'- -CCUUCGGGAGUUCGAGGACCGCGCGA- -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.