miRNA display CGI


Results 1 - 7 of 7 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
18540 5' -59.1 NC_004682.1 + 50265 1.09 0.00046
Target:  5'- uCUCCGUAUGGCGGGCCAGUCGUCGGGu -3'
miRNA:   3'- -GAGGCAUACCGCCCGGUCAGCAGCCC- -5'
18540 5' -59.1 NC_004682.1 + 3166 0.7 0.308168
Target:  5'- aCUCgGgcaccacGGCGGGCCAGggCG-CGGGc -3'
miRNA:   3'- -GAGgCaua----CCGCCCGGUCa-GCaGCCC- -5'
18540 5' -59.1 NC_004682.1 + 45560 0.67 0.452596
Target:  5'- -aCCGU-UGGCGuacuccucgguGGCCcggaAGUCGUCGGa -3'
miRNA:   3'- gaGGCAuACCGC-----------CCGG----UCAGCAGCCc -5'
18540 5' -59.1 NC_004682.1 + 22977 0.67 0.452596
Target:  5'- cCUCCGggcUGGCcuucGGGCUGGUC--CGGGg -3'
miRNA:   3'- -GAGGCau-ACCG----CCCGGUCAGcaGCCC- -5'
18540 5' -59.1 NC_004682.1 + 37545 0.67 0.462196
Target:  5'- gCUCCac----CGGGCCGG-CGUCGGGu -3'
miRNA:   3'- -GAGGcauaccGCCCGGUCaGCAGCCC- -5'
18540 5' -59.1 NC_004682.1 + 42636 0.67 0.485662
Target:  5'- -cCCGgcacgccacaagGGCGGuCCAGUCGUUGGa -3'
miRNA:   3'- gaGGCaua---------CCGCCcGGUCAGCAGCCc -5'
18540 5' -59.1 NC_004682.1 + 23680 0.66 0.521875
Target:  5'- -gCCGa---GCaGGGCCacacGGUCGUCGGGu -3'
miRNA:   3'- gaGGCauacCG-CCCGG----UCAGCAGCCC- -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.