miRNA display CGI


Results 21 - 36 of 36 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
8081 3' -54.1 NC_001978.2 + 18040 0.66 0.749357
Target:  5'- uGCCCau-GGCCGuaacgauCGGGCUCu-UCGGg -3'
miRNA:   3'- -CGGGccuUCGGCu------GUCUGAGuuAGCC- -5'
8081 3' -54.1 NC_001978.2 + 29174 0.68 0.606403
Target:  5'- -aCCGGAAccguacguauGCCGucgugaacuauCAGugUCAGUCGGc -3'
miRNA:   3'- cgGGCCUU----------CGGCu----------GUCugAGUUAGCC- -5'
8081 3' -54.1 NC_001978.2 + 10912 0.7 0.497541
Target:  5'- gGCCCGGAAGacgucuuccuuCCGAacGGCUCGA-CGGu -3'
miRNA:   3'- -CGGGCCUUC-----------GGCUguCUGAGUUaGCC- -5'
8081 3' -54.1 NC_001978.2 + 20371 0.71 0.426762
Target:  5'- cCCCGGAAGCCGAagcggcgaAGGCcgaAGUCGa -3'
miRNA:   3'- cGGGCCUUCGGCUg-------UCUGag-UUAGCc -5'
8081 3' -54.1 NC_001978.2 + 27094 0.71 0.426762
Target:  5'- -aCCGGAAGCUucgGGCGGAgUCGG-CGGg -3'
miRNA:   3'- cgGGCCUUCGG---CUGUCUgAGUUaGCC- -5'
8081 3' -54.1 NC_001978.2 + 7331 0.72 0.389093
Target:  5'- gGCCCGG-GGUCGACGG-CUCGaagGUCGc -3'
miRNA:   3'- -CGGGCCuUCGGCUGUCuGAGU---UAGCc -5'
8081 3' -54.1 NC_001978.2 + 19878 0.76 0.229305
Target:  5'- -gCCGGggGCCGACGcGAUUCAcgCGc -3'
miRNA:   3'- cgGGCCuuCGGCUGU-CUGAGUuaGCc -5'
8081 3' -54.1 NC_001978.2 + 11666 0.68 0.628723
Target:  5'- aCCCGGuAAGCCG-CuucACUCAGUaCGGc -3'
miRNA:   3'- cGGGCC-UUCGGCuGuc-UGAGUUA-GCC- -5'
8081 3' -54.1 NC_001978.2 + 38535 0.67 0.651056
Target:  5'- cGCgaCGGggGCCGGuuCAGGUUC-GUCGGg -3'
miRNA:   3'- -CGg-GCCuuCGGCU--GUCUGAGuUAGCC- -5'
8081 3' -54.1 NC_001978.2 + 8199 0.67 0.695418
Target:  5'- cGUCCGcGAAgggcGCCGucaucaagGCAGGCUCAG-CGGc -3'
miRNA:   3'- -CGGGC-CUU----CGGC--------UGUCUGAGUUaGCC- -5'
8081 3' -54.1 NC_001978.2 + 24079 0.66 0.717266
Target:  5'- cGCCCGugcGuCCGACGGGaUCAuUCGGa -3'
miRNA:   3'- -CGGGCcuuC-GGCUGUCUgAGUuAGCC- -5'
8081 3' -54.1 NC_001978.2 + 32669 0.66 0.728066
Target:  5'- cGCCCugggGGAAGCCGcCGGGCgu-AUCu- -3'
miRNA:   3'- -CGGG----CCUUCGGCuGUCUGaguUAGcc -5'
8081 3' -54.1 NC_001978.2 + 25976 0.66 0.749357
Target:  5'- aCCCGGGcaaguuccccAGCCGACugcacGACgccgucaAGUCGGc -3'
miRNA:   3'- cGGGCCU----------UCGGCUGu----CUGag-----UUAGCC- -5'
8081 3' -54.1 NC_001978.2 + 21448 0.66 0.749357
Target:  5'- cGCCCcagacgacGGAaugcGGCacagCGGCAGGCUuccCGGUCGGg -3'
miRNA:   3'- -CGGG--------CCU----UCG----GCUGUCUGA---GUUAGCC- -5'
8081 3' -54.1 NC_001978.2 + 27244 0.65 0.755654
Target:  5'- uCCCGGGcgugcucgacgcuGCCGAC-GACUCcgcgauuguGUCGGg -3'
miRNA:   3'- cGGGCCUu------------CGGCUGuCUGAGu--------UAGCC- -5'
8081 3' -54.1 NC_001978.2 + 3425 0.76 0.228696
Target:  5'- uCCCGGAAugaugcuGCCGGguGACUUcGUCGGg -3'
miRNA:   3'- cGGGCCUU-------CGGCUguCUGAGuUAGCC- -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.