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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
13568 | 3' | -52 | NC_003444.1 | + | 13004 | 0.68 | 0.611902 |
Target: 5'- gGGUAaauGGCcggGAGUgGAAUGGCUGGaCAu -3' miRNA: 3'- gUCAU---UCGua-CUCG-CUUACCGACC-GU- -5' |
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13568 | 3' | -52 | NC_003444.1 | + | 28762 | 0.7 | 0.519016 |
Target: 5'- ---gGAGUuUGAGCaGGcAUGGCUGGCAu -3' miRNA: 3'- gucaUUCGuACUCG-CU-UACCGACCGU- -5' |
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13568 | 3' | -52 | NC_003444.1 | + | 34090 | 1 | 0.004701 |
Target: 5'- cCAGUAAGCA-GAGCGAAUGGCUGGCAg -3' miRNA: 3'- -GUCAUUCGUaCUCGCUUACCGACCGU- -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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