miRNA display CGI


Results 1 - 20 of 29 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
5472 3' -56.6 NC_001798.1 + 75184 0.76 0.357807
Target:  5'- gAGACGCUGg-------GGGCCCGCCGc -3'
miRNA:   3'- -UCUGCGACaacaaagaCCCGGGCGGC- -5'
5472 3' -56.6 NC_001798.1 + 93744 0.76 0.365756
Target:  5'- cGACGCUGaUGcggCUgcGGGCCCGCCa -3'
miRNA:   3'- uCUGCGACaACaaaGA--CCCGGGCGGc -5'
5472 3' -56.6 NC_001798.1 + 71628 0.74 0.451663
Target:  5'- cAGACGCUGgcGcgcaUCaUGGGCCCgGCCGu -3'
miRNA:   3'- -UCUGCGACaaCaa--AG-ACCCGGG-CGGC- -5'
5472 3' -56.6 NC_001798.1 + 65575 0.73 0.517909
Target:  5'- aGGGCGCUGaagaUGUUgucgcagcgCUGGGCCuccuCGCCGg -3'
miRNA:   3'- -UCUGCGACa---ACAAa--------GACCCGG----GCGGC- -5'
5472 3' -56.6 NC_001798.1 + 116701 0.72 0.577571
Target:  5'- cGGGCGC-GUcGUcgUCgacGGGCCCGCCa -3'
miRNA:   3'- -UCUGCGaCAaCAa-AGa--CCCGGGCGGc -5'
5472 3' -56.6 NC_001798.1 + 144808 0.71 0.618195
Target:  5'- cGGCGCgucGUUGUUUcCUGGGUguCgGCCGg -3'
miRNA:   3'- uCUGCGa--CAACAAA-GACCCG--GgCGGC- -5'
5472 3' -56.6 NC_001798.1 + 2416 0.71 0.628395
Target:  5'- aGGGCGCcGgcgUGUggCUGGGCCCcggcgGCUGg -3'
miRNA:   3'- -UCUGCGaCa--ACAaaGACCCGGG-----CGGC- -5'
5472 3' -56.6 NC_001798.1 + 26290 0.7 0.669146
Target:  5'- -cGCGCUGggGc--CUGGGCgCGCCGc -3'
miRNA:   3'- ucUGCGACaaCaaaGACCCGgGCGGC- -5'
5472 3' -56.6 NC_001798.1 + 130436 0.69 0.720331
Target:  5'- cGACGCggacucccgUCUGGGCCC-CCGg -3'
miRNA:   3'- uCUGCGacaacaa--AGACCCGGGcGGC- -5'
5472 3' -56.6 NC_001798.1 + 15117 0.69 0.729194
Target:  5'- uGGCGCUGUcGUcguccUCgggGGGUUCGCCGu -3'
miRNA:   3'- uCUGCGACAaCAa----AGa--CCCGGGCGGC- -5'
5472 3' -56.6 NC_001798.1 + 134359 0.69 0.74864
Target:  5'- aGGGCGUcGUg------GGGCCCGCCGg -3'
miRNA:   3'- -UCUGCGaCAacaaagaCCCGGGCGGC- -5'
5472 3' -56.6 NC_001798.1 + 42553 0.68 0.767679
Target:  5'- cGACGgaGUccgGUUcgCUGGGCgUCGCCGc -3'
miRNA:   3'- uCUGCgaCAa--CAAa-GACCCG-GGCGGC- -5'
5472 3' -56.6 NC_001798.1 + 86222 0.68 0.786238
Target:  5'- cGAC-CUGgac---CUGGGCCCGCUGa -3'
miRNA:   3'- uCUGcGACaacaaaGACCCGGGCGGC- -5'
5472 3' -56.6 NC_001798.1 + 134466 0.68 0.795316
Target:  5'- cGGCGCgcgGUUGg--CgUGGGCgCGCCu -3'
miRNA:   3'- uCUGCGa--CAACaaaG-ACCCGgGCGGc -5'
5472 3' -56.6 NC_001798.1 + 77530 0.67 0.821636
Target:  5'- cGAgGCUGgg--UUCggGGGCCUGCUGc -3'
miRNA:   3'- uCUgCGACaacaAAGa-CCCGGGCGGC- -5'
5472 3' -56.6 NC_001798.1 + 134242 0.67 0.825034
Target:  5'- cGGGCGCUGUaugcgUGcgUUCUGGcgGCCCuggagcgccagacggGCCGg -3'
miRNA:   3'- -UCUGCGACA-----ACa-AAGACC--CGGG---------------CGGC- -5'
5472 3' -56.6 NC_001798.1 + 40827 0.67 0.830078
Target:  5'- gGGGcCGCUGguuccgcGUUUUUGGGggccgagcCCCGCCGc -3'
miRNA:   3'- -UCU-GCGACaa-----CAAAGACCC--------GGGCGGC- -5'
5472 3' -56.6 NC_001798.1 + 58299 0.67 0.835881
Target:  5'- gGGGCGCga--GggUCUGacacagcuccgucaGGCCCGCCGc -3'
miRNA:   3'- -UCUGCGacaaCaaAGAC--------------CCGGGCGGC- -5'
5472 3' -56.6 NC_001798.1 + 105730 0.67 0.83834
Target:  5'- cAGGgGCUGUUGUcgggUGGGUgUCGCCGg -3'
miRNA:   3'- -UCUgCGACAACAaag-ACCCG-GGCGGC- -5'
5472 3' -56.6 NC_001798.1 + 92921 0.67 0.83834
Target:  5'- --cUGCUGUUcgaGgcggUCgucGGGCCCGCCGc -3'
miRNA:   3'- ucuGCGACAA---Caa--AGa--CCCGGGCGGC- -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.