miRNA display CGI


Results 1 - 20 of 28 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
20422 3' -62.4 NC_004688.1 + 39709 0.66 0.559409
Target:  5'- -uGGGCCUCCUguUG-GGGgUGGGcCGUCc -3'
miRNA:   3'- guUCCGGAGGG--GCaCCCgAUCC-GCGG- -5'
20422 3' -62.4 NC_004688.1 + 41399 0.66 0.54957
Target:  5'- ----cCCUCCguacguCCGUGGGCgacAGcGCGCCg -3'
miRNA:   3'- guuccGGAGG------GGCACCCGa--UC-CGCGG- -5'
20422 3' -62.4 NC_004688.1 + 24186 0.66 0.54957
Target:  5'- cCGGGGCCcCgCCCGUGGGgauCUcGGGaggaaGCCc -3'
miRNA:   3'- -GUUCCGGaG-GGGCACCC---GA-UCCg----CGG- -5'
20422 3' -62.4 NC_004688.1 + 18218 0.66 0.539786
Target:  5'- -cAGGCCggugauggggCCCGUGGcGCc-GGUGCCg -3'
miRNA:   3'- guUCCGGag--------GGGCACC-CGauCCGCGG- -5'
20422 3' -62.4 NC_004688.1 + 67274 0.66 0.530061
Target:  5'- aGAGGCUgagCUcgaCCG-GGGagaagaUGGGCGCCg -3'
miRNA:   3'- gUUCCGGa--GG---GGCaCCCg-----AUCCGCGG- -5'
20422 3' -62.4 NC_004688.1 + 65564 0.66 0.530061
Target:  5'- --cGGCCaguaaUCCCCGaGGuGCaGGGUGUCa -3'
miRNA:   3'- guuCCGG-----AGGGGCaCC-CGaUCCGCGG- -5'
20422 3' -62.4 NC_004688.1 + 16947 0.66 0.530061
Target:  5'- uCGGGGCCg-CUgGcGGGCUucaacacGGCGCCg -3'
miRNA:   3'- -GUUCCGGagGGgCaCCCGAu------CCGCGG- -5'
20422 3' -62.4 NC_004688.1 + 43737 0.66 0.520401
Target:  5'- -cGGGCCUgccugcguagCCCGcGGGCcagGGGCGCa -3'
miRNA:   3'- guUCCGGAg---------GGGCaCCCGa--UCCGCGg -5'
20422 3' -62.4 NC_004688.1 + 27016 0.66 0.520401
Target:  5'- gAGGGCUauUCCcuCCGUgaccccGGGCcacGGCGCCa -3'
miRNA:   3'- gUUCCGG--AGG--GGCA------CCCGau-CCGCGG- -5'
20422 3' -62.4 NC_004688.1 + 39665 0.66 0.520401
Target:  5'- -cGGGCCUucgCCCCGccGGGC--GGUGUCu -3'
miRNA:   3'- guUCCGGA---GGGGCa-CCCGauCCGCGG- -5'
20422 3' -62.4 NC_004688.1 + 86936 0.67 0.473236
Target:  5'- uCGAGGCCgUCCCaCG-GGGCgcucaguucAGGUGaCCc -3'
miRNA:   3'- -GUUCCGG-AGGG-GCaCCCGa--------UCCGC-GG- -5'
20422 3' -62.4 NC_004688.1 + 109219 0.67 0.473236
Target:  5'- -cAGGCCUCacgaucaCGUcGGGC-GGGCGCa -3'
miRNA:   3'- guUCCGGAGgg-----GCA-CCCGaUCCGCGg -5'
20422 3' -62.4 NC_004688.1 + 95546 0.67 0.464059
Target:  5'- --cGGCCUCCgaaGcuUGGGCUGGGUuccuaggcgGCCa -3'
miRNA:   3'- guuCCGGAGGgg-C--ACCCGAUCCG---------CGG- -5'
20422 3' -62.4 NC_004688.1 + 77227 0.67 0.461324
Target:  5'- --cGGCUUCagCUCGUGGGCgcgGuaucggacgauggcGGCGCCg -3'
miRNA:   3'- guuCCGGAG--GGGCACCCGa--U--------------CCGCGG- -5'
20422 3' -62.4 NC_004688.1 + 77452 0.68 0.437103
Target:  5'- uCAccGCCagCCCCGUGGGCUcaaaGCCg -3'
miRNA:   3'- -GUucCGGa-GGGGCACCCGAuccgCGG- -5'
20422 3' -62.4 NC_004688.1 + 92364 0.68 0.437103
Target:  5'- ---cGCC-CUCCGUGGGCgGGGCGg- -3'
miRNA:   3'- guucCGGaGGGGCACCCGaUCCGCgg -5'
20422 3' -62.4 NC_004688.1 + 25029 0.68 0.41964
Target:  5'- gAAGGCCUCCaCCaG-GGGCaUAGGacaccuGCCc -3'
miRNA:   3'- gUUCCGGAGG-GG-CaCCCG-AUCCg-----CGG- -5'
20422 3' -62.4 NC_004688.1 + 109441 0.68 0.394256
Target:  5'- aUAAGGUcggCUCgCCCGUGGGCgucgauCGCCg -3'
miRNA:   3'- -GUUCCG---GAG-GGGCACCCGaucc--GCGG- -5'
20422 3' -62.4 NC_004688.1 + 26306 0.69 0.346571
Target:  5'- cCGAGGCCgccgCCCUG-GGGCUGccaGCCu -3'
miRNA:   3'- -GUUCCGGa---GGGGCaCCCGAUccgCGG- -5'
20422 3' -62.4 NC_004688.1 + 3380 0.7 0.339036
Target:  5'- uGAGGaa-CUCCGacaUGGGCUggAGGCGCCg -3'
miRNA:   3'- gUUCCggaGGGGC---ACCCGA--UCCGCGG- -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.