miRNA: 3'- gaaCGUCUga-CC--CGGGAACGU-CUUGU- -5'
miRNA: 3'- gaaCGUCuGa-CCCGGGAACG-----UCUUGu -5'
miRNA: 3'- gaaCGUCUGacCCGGGAaCGUCuUGU- -5'
miRNA: 3'- -GAACGUCUGACCCGGGAacGUCUUGU- -5'
Results 1 - 4 of 4 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 | |||||||
| 163 | 3' | -54.3 | AC_000007.1 | + | 6479 | 0.66 | 0.582705 |
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Target: 5'- --aGCAGAggcGGccGCCCUUGCGcGAACAg -3' miRNA: 3'- gaaCGUCUga-CC--CGGGAACGU-CUUGU- -5' |
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| 163 | 3' | -54.3 | AC_000007.1 | + | 26186 | 0.66 | 0.582705 |
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Target: 5'- --aGCAGcCgcGGGCCCUUGCuucccAGGAUg -3' miRNA: 3'- gaaCGUCuGa-CCCGGGAACG-----UCUUGu -5' |
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| 163 | 3' | -54.3 | AC_000007.1 | + | 18617 | 0.66 | 0.571197 |
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Target: 5'- --gGCGGAC--GGCCCUgGCAGcACAg -3' miRNA: 3'- gaaCGUCUGacCCGGGAaCGUCuUGU- -5' |
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| 163 | 3' | -54.3 | AC_000007.1 | + | 7690 | 0.93 | 0.00916 |
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Target: 5'- uCUUGCAGACUGGGCCCUguCAGAACAc -3' miRNA: 3'- -GAACGUCUGACCCGGGAacGUCUUGU- -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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