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
12131 3' -52.2 NC_003309.1 + 20111 0.66 0.894673
Target:  5'- gCCAUguauUUGU-GGCCGUCGACG-GUCGu -3'
miRNA:   3'- gGGUG----AACAgCUGGUAGCUGCgUAGC- -5'
12131 3' -52.2 NC_003309.1 + 23565 0.66 0.886656
Target:  5'- gCCC-CUUGaUCGACCGcagccgcUCGGC-CAUCu -3'
miRNA:   3'- -GGGuGAAC-AGCUGGU-------AGCUGcGUAGc -5'
12131 3' -52.2 NC_003309.1 + 7623 0.66 0.872063
Target:  5'- gCCC-Cc--UCGGCCucgccgAUCGACGCAUCa -3'
miRNA:   3'- -GGGuGaacAGCUGG------UAGCUGCGUAGc -5'
12131 3' -52.2 NC_003309.1 + 25386 0.67 0.864014
Target:  5'- gCCACUgcgUGUa-GCCGUCGGCGUcgGUCu -3'
miRNA:   3'- gGGUGA---ACAgcUGGUAGCUGCG--UAGc -5'
12131 3' -52.2 NC_003309.1 + 30125 0.67 0.864014
Target:  5'- gCCCACUgaUCGACCAguaCGuGCGCGa-- -3'
miRNA:   3'- -GGGUGAacAGCUGGUa--GC-UGCGUagc -5'
12131 3' -52.2 NC_003309.1 + 48519 0.67 0.864014
Target:  5'- uUCACgguaucgGUCG-UCAUCGACGCuUCGu -3'
miRNA:   3'- gGGUGaa-----CAGCuGGUAGCUGCGuAGC- -5'
12131 3' -52.2 NC_003309.1 + 22182 0.68 0.791525
Target:  5'- aCCCACUgcgGcCGACCGUugucCGACuCGUUGa -3'
miRNA:   3'- -GGGUGAa--CaGCUGGUA----GCUGcGUAGC- -5'
12131 3' -52.2 NC_003309.1 + 19146 0.69 0.761279
Target:  5'- uCCCACg---CGAucaCCAUCGACGUuuUCGa -3'
miRNA:   3'- -GGGUGaacaGCU---GGUAGCUGCGu-AGC- -5'
12131 3' -52.2 NC_003309.1 + 43535 0.69 0.761279
Target:  5'- gCgCACgccGUCGgcgGCCAUCGcGCGCAUCa -3'
miRNA:   3'- -GgGUGaa-CAGC---UGGUAGC-UGCGUAGc -5'
12131 3' -52.2 NC_003309.1 + 15338 0.69 0.750913
Target:  5'- aCCCGCagcGUCGGCgAUgGcugcuGCGCGUCGg -3'
miRNA:   3'- -GGGUGaa-CAGCUGgUAgC-----UGCGUAGC- -5'
12131 3' -52.2 NC_003309.1 + 2294 0.7 0.697481
Target:  5'- aCCC-CUUGaucguagaUCGACUcggaAUCGACGCgAUCGg -3'
miRNA:   3'- -GGGuGAAC--------AGCUGG----UAGCUGCG-UAGC- -5'
12131 3' -52.2 NC_003309.1 + 53022 0.71 0.653506
Target:  5'- uUCCACUUGaCGGCC-UCGuGCGCAUg- -3'
miRNA:   3'- -GGGUGAACaGCUGGuAGC-UGCGUAgc -5'
12131 3' -52.2 NC_003309.1 + 17661 0.71 0.642435
Target:  5'- aCCCGCc-GUCGACCGacaagUCGAuCGCAuagUCGa -3'
miRNA:   3'- -GGGUGaaCAGCUGGU-----AGCU-GCGU---AGC- -5'
12131 3' -52.2 NC_003309.1 + 3573 0.71 0.620276
Target:  5'- cCCCACUggcgccCGACCGcguaggCGGCGUAUCGc -3'
miRNA:   3'- -GGGUGAaca---GCUGGUa-----GCUGCGUAGC- -5'
12131 3' -52.2 NC_003309.1 + 11118 0.71 0.620276
Target:  5'- gCCUGCaUGUCGAUCAagcUCGACGUcgCa -3'
miRNA:   3'- -GGGUGaACAGCUGGU---AGCUGCGuaGc -5'
12131 3' -52.2 NC_003309.1 + 18124 1.12 0.00163
Target:  5'- gCCCACUUGUCGACCAUCGACGCAUCGa -3'
miRNA:   3'- -GGGUGAACAGCUGGUAGCUGCGUAGC- -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.