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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
24937 | 5' | -49.4 | NC_005284.1 | + | 719 | 0.69 | 0.847055 |
Target: 5'- --gCUGCAAGGUCGUcaagGUGgcgcuUGCAc -3' miRNA: 3'- guaGACGUUCCGGCAaa--CACau---ACGU- -5' |
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24937 | 5' | -49.4 | NC_005284.1 | + | 50357 | 0.7 | 0.777718 |
Target: 5'- -uUCUGCGuGuGCCGg--GUGUGUGCc -3' miRNA: 3'- guAGACGUuC-CGGCaaaCACAUACGu -5' |
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24937 | 5' | -49.4 | NC_005284.1 | + | 24781 | 1.09 | 0.003192 |
Target: 5'- uCAUCUGCAAGGCCGUUUGUGUAUGCAg -3' miRNA: 3'- -GUAGACGUUCCGGCAAACACAUACGU- -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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