miRNA: 3'- gaUCUCU------UCUGAGAgGGCu---CUGGAGG- -5'
miRNA: 3'- gaUCUCUUCUGAG--------------AGGGcUCUGGa-GG- -5'
miRNA: 3'- gaUCUCuucUGAGaGGGCUCUGGAGG- -5'
miRNA: 3'- gaUCUCU--UCUGaGAGGGCuCUGgAGG- -5'
miRNA: 3'- -GAUCUCUUCUGAGAGGGCUCUGGAGG- -5'
Results 1 - 5 of 5 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 | |||||||
| 491 | 5' | -52.9 | AC_000013.1 | + | 4421 | 0.66 | 0.787299 |
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Target: 5'- -cAGAGAauuaaaAGACUUUgUCGcgucGACCUCCa -3' miRNA: 3'- gaUCUCU------UCUGAGAgGGCu---CUGGAGG- -5' |
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| 491 | 5' | -52.9 | AC_000013.1 | + | 7461 | 0.67 | 0.731753 |
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Target: 5'- -cGGAGAGGACUCggacgaguucgacgUCCC-AGACCggUCg -3' miRNA: 3'- gaUCUCUUCUGAG--------------AGGGcUCUGGa-GG- -5' |
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| 491 | 5' | -52.9 | AC_000013.1 | + | 36349 | 0.7 | 0.567713 |
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Target: 5'- -cGGGGu--GCUC-CUCGGGGCCUCCg -3' miRNA: 3'- gaUCUCuucUGAGaGGGCUCUGGAGG- -5' |
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| 491 | 5' | -52.9 | AC_000013.1 | + | 19642 | 0.72 | 0.430566 |
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Target: 5'- -cGGAGGugAGGC-CUCCCGuGACgUCCu -3' miRNA: 3'- gaUCUCU--UCUGaGAGGGCuCUGgAGG- -5' |
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| 491 | 5' | -52.9 | AC_000013.1 | + | 28478 | 1.13 | 0.000752 |
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Target: 5'- cCUAGAGAAGACUCUCCCGAGACCUCCg -3' miRNA: 3'- -GAUCUCUUCUGAGAGGGCUCUGGAGG- -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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