miRNA: 3'- -CUCUACUACUUGCUCCACCGGGGGGA- -5'
miRNA: 3'- -CUCUACUACUUGCUCCac---CGGg---GGGa -5'
miRNA: 3'- cUCUACUacu------UGCUc--CACCGGGGGGa -5'
miRNA: 3'- cuCUACUACUuGCUCCACcGGGGgga -5'
miRNA: 3'- cUCUACUACU-----UGcu-CCACCGG-GGGGa -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 | |||||||
| 347 | 3' | -57.1 | AC_000011.1 | + | 4936 | 1.07 | 0.00049 |
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Target: 5'- cGAGAUGAUGAACGAGGUGGCCCCCCUc -3' miRNA: 3'- -CUCUACUACUUGCUCCACCGGGGGGA- -5' |
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| 347 | 3' | -57.1 | AC_000011.1 | + | 2846 | 0.7 | 0.284609 |
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Target: 5'- gGGGGUGAUGAGCGAGGgcgaaGCCagaaUCCg -3' miRNA: 3'- -CUCUACUACUUGCUCCac---CGGg---GGGa -5' |
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| 347 | 3' | -57.1 | AC_000011.1 | + | 28342 | 0.69 | 0.315185 |
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Target: 5'- uGGAUGAgcaagcaguACGAuauGUGGCCCCCCa -3' miRNA: 3'- cUCUACUacu------UGCUc--CACCGGGGGGa -5' |
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| 347 | 3' | -57.1 | AC_000011.1 | + | 12524 | 0.67 | 0.392775 |
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Target: 5'- -uGAUGGUGAcCGAGGUG-CCCCa-- -3' miRNA: 3'- cuCUACUACUuGCUCCACcGGGGgga -5' |
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| 347 | 3' | -57.1 | AC_000011.1 | + | 6315 | 0.66 | 0.450947 |
|
Target: 5'- aGGGUGAUGAgguccACacuGGUGGCCaCCUCg -3' miRNA: 3'- cUCUACUACU-----UGcu-CCACCGG-GGGGa -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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