miRNA display CGI


Results 1 - 8 of 8 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
2348 5' -57.1 NC_001416.1 + 14258 1.09 0.000628
Target:  5'- uCCCCCUCCGGCGUGCUUACCACGAAGc -3'
miRNA:   3'- -GGGGGAGGCCGCACGAAUGGUGCUUC- -5'
2348 5' -57.1 NC_001416.1 + 1506 0.73 0.25515
Target:  5'- aCCCCUCCaGCGUGUUUuaucuCUGCGAGc -3'
miRNA:   3'- gGGGGAGGcCGCACGAAu----GGUGCUUc -5'
2348 5' -57.1 NC_001416.1 + 15777 0.69 0.403465
Target:  5'- aUCCCUCCGGCGgagucugcuccUGCUcACCAgccCGGAa -3'
miRNA:   3'- gGGGGAGGCCGC-----------ACGAaUGGU---GCUUc -5'
2348 5' -57.1 NC_001416.1 + 14776 0.68 0.469288
Target:  5'- aCUCCCUCUGGCGUcaccgggcauggcGCgcaucUGCCuuuACGggGa -3'
miRNA:   3'- -GGGGGAGGCCGCA-------------CGa----AUGG---UGCuuC- -5'
2348 5' -57.1 NC_001416.1 + 10158 0.67 0.521283
Target:  5'- aCCCgaCUGGCGUGCcaugcUUGCCGgGAu- -3'
miRNA:   3'- gGGGgaGGCCGCACG-----AAUGGUgCUuc -5'
2348 5' -57.1 NC_001416.1 + 9562 0.67 0.542291
Target:  5'- aCgCCCUCCGGC-UGgaagGCCACGGu- -3'
miRNA:   3'- -GgGGGAGGCCGcACgaa-UGGUGCUuc -5'
2348 5' -57.1 NC_001416.1 + 2363 0.66 0.595876
Target:  5'- uCCCCUUCCGGCGUcaGUgUGaaGCGGu- -3'
miRNA:   3'- -GGGGGAGGCCGCA--CGaAUggUGCUuc -5'
2348 5' -57.1 NC_001416.1 + 46238 0.66 0.628451
Target:  5'- aCCgCCUCCGGCGUGgaUAaugcagccuccCCcCGAc- -3'
miRNA:   3'- -GGgGGAGGCCGCACgaAU-----------GGuGCUuc -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.