miRNA: 3'- gaAGUAGUUu----AAAGAAGAUUGCUACc -5'
miRNA: 3'- gaaGUAGU--UUAAA--GAAGAUUGCUACC- -5'
miRNA: 3'- -GAAGUAGUUUAAAGAAGAUUGCUACC- -5'
Results 1 - 3 of 3 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 13589 | 3' | -38.4 | NC_003445.1 | + | 6681 | 0.69 | 0.961043 |
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Target: 5'- -gUUAUCAAuuguuUUUCUUCUAGUGGUGa -3' miRNA: 3'- gaAGUAGUUu----AAAGAAGAUUGCUACc -5' |
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| 13589 | 3' | -38.4 | NC_003445.1 | + | 3959 | 0.72 | 0.856889 |
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Target: 5'- --gUAUCAugGAUUUgaCUUUUGACGAUGGa -3' miRNA: 3'- gaaGUAGU--UUAAA--GAAGAUUGCUACC- -5' |
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| 13589 | 3' | -38.4 | NC_003445.1 | + | 4785 | 1.14 | 0.003683 |
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Target: 5'- uCUUCAUCAAAUUUCUUCUAACGAUGGc -3' miRNA: 3'- -GAAGUAGUUUAAAGAAGAUUGCUACC- -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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