miRNA display CGI


Results 1 - 6 of 6 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
2613 3' -54.5 NC_001488.1 + 6387 0.66 0.274953
Target:  5'- aUgUAUC---CGUCCUCCAGGAacgGCCCc -3'
miRNA:   3'- gGgAUAGaauGUAGGGGGUCCU---CGGG- -5'
2613 3' -54.5 NC_001488.1 + 1711 0.66 0.25933
Target:  5'- gCCC-AUCUUACGUUCCCUAGcGuacucaaacGCCa -3'
miRNA:   3'- -GGGaUAGAAUGUAGGGGGUC-Cu--------CGGg -5'
2613 3' -54.5 NC_001488.1 + 2756 0.66 0.25933
Target:  5'- aCCCUcaccUCU--CcUUCCCCAGG-GCCCc -3'
miRNA:   3'- -GGGAu---AGAauGuAGGGGGUCCuCGGG- -5'
2613 3' -54.5 NC_001488.1 + 6833 0.66 0.236556
Target:  5'- aCCCUgaagcaaGUCacaaaaccCAUCaaaaCCCAGGAGUCCu -3'
miRNA:   3'- -GGGA-------UAGaau-----GUAGg---GGGUCCUCGGG- -5'
2613 3' -54.5 NC_001488.1 + 1286 0.68 0.174853
Target:  5'- gCCUguaaGUCUUuCAUCUgCCAGG-GCCUa -3'
miRNA:   3'- gGGA----UAGAAuGUAGGgGGUCCuCGGG- -5'
2613 3' -54.5 NC_001488.1 + 1212 1.13 0.000048
Target:  5'- uCCCUAUCUUACAUCCCCCAGGAGCCCc -3'
miRNA:   3'- -GGGAUAGAAUGUAGGGGGUCCUCGGG- -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.