miRNA display CGI


Results 1 - 14 of 14 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
1935 3' -50.8 NC_001347.2 + 49 0.66 0.999318
Target:  5'- gUCGgggCGCGGCCGGgugggugugUGCCGg -3'
miRNA:   3'- -GGUaa-GCGCCGGCUaaaagaa--GCGGC- -5'
1935 3' -50.8 NC_001347.2 + 127582 0.66 0.999151
Target:  5'- cCCGUggaCGCGGCCGGcg-----CGCCu -3'
miRNA:   3'- -GGUAa--GCGCCGGCUaaaagaaGCGGc -5'
1935 3' -50.8 NC_001347.2 + 12791 0.66 0.999151
Target:  5'- aCCAggC-CGGCCGGcgUUUUCacuaCGCCGu -3'
miRNA:   3'- -GGUaaGcGCCGGCU--AAAAGaa--GCGGC- -5'
1935 3' -50.8 NC_001347.2 + 174685 0.66 0.99897
Target:  5'- aCCuggugUCGCGGuCCGGUUUccgcggCUUCGUg- -3'
miRNA:   3'- -GGua---AGCGCC-GGCUAAAa-----GAAGCGgc -5'
1935 3' -50.8 NC_001347.2 + 96386 0.66 0.998757
Target:  5'- aCCAggCgGCGGCCGugcg-CaUCGCCu -3'
miRNA:   3'- -GGUaaG-CGCCGGCuaaaaGaAGCGGc -5'
1935 3' -50.8 NC_001347.2 + 71655 0.66 0.99871
Target:  5'- uCCGUggcCGCGGCCGGcggccucuugUUUUCGuuGu -3'
miRNA:   3'- -GGUAa--GCGCCGGCUaaa-------AGAAGCggC- -5'
1935 3' -50.8 NC_001347.2 + 222782 0.67 0.997917
Target:  5'- aCCA-UCGgcauguCGGCCGAcaaaucgcagcugUCUUCGCCGc -3'
miRNA:   3'- -GGUaAGC------GCCGGCUaaa----------AGAAGCGGC- -5'
1935 3' -50.8 NC_001347.2 + 97512 0.67 0.997881
Target:  5'- aCCAgggCGCGcgccGCCGAgaUUCgUCGCUGc -3'
miRNA:   3'- -GGUaa-GCGC----CGGCUaaAAGaAGCGGC- -5'
1935 3' -50.8 NC_001347.2 + 135800 0.67 0.996698
Target:  5'- uCCAUUcCGCGGCgGGUggaccgggaagccggCggaggUCGCCGg -3'
miRNA:   3'- -GGUAA-GCGCCGgCUAaaa------------Ga----AGCGGC- -5'
1935 3' -50.8 NC_001347.2 + 193678 0.68 0.996199
Target:  5'- uCCGcUCGCGGCCGcuaccuacgUUCGCUGc -3'
miRNA:   3'- -GGUaAGCGCCGGCuaaaag---AAGCGGC- -5'
1935 3' -50.8 NC_001347.2 + 128976 0.69 0.986366
Target:  5'- aCCAUcUCGCGGaaGAUaccgUCggCGCCGc -3'
miRNA:   3'- -GGUA-AGCGCCggCUAaa--AGaaGCGGC- -5'
1935 3' -50.8 NC_001347.2 + 90794 0.7 0.982816
Target:  5'- uCCGUcguccUCGCGGCCGccaucuUUUccUCUccucUCGCCGc -3'
miRNA:   3'- -GGUA-----AGCGCCGGCu-----AAA--AGA----AGCGGC- -5'
1935 3' -50.8 NC_001347.2 + 105201 0.7 0.97624
Target:  5'- cUCcgUCGCGGCCaGGaUUUCacCGCCGc -3'
miRNA:   3'- -GGuaAGCGCCGG-CUaAAAGaaGCGGC- -5'
1935 3' -50.8 NC_001347.2 + 126016 0.77 0.785932
Target:  5'- ---cUCGCGGCgGGUggcgcccgUCUUCGCCGu -3'
miRNA:   3'- gguaAGCGCCGgCUAaa------AGAAGCGGC- -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.