miRNA: 3'- cUCCAGAUGa-CGugCC-------------UAAAGCUCGU- -5'
miRNA: 3'- cuCCAGAuGACgUGCCUAAAG-CUCGU- -5'
miRNA: 3'- -CUCCAGAUGaCG-------UGC-CUAaAGCUCGU- -5'
miRNA: 3'- -CUCCAGAUGACGUGCCUAAAGCUCGU- -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 | |||||||
| 7572 | 3' | -51.6 | NC_001962.1 | + | 54624 | 0.66 | 0.971286 |
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Target: 5'- uAGGUCUGCgcGUugGGcguuugucaaauaAUUUUGAGCGa -3' miRNA: 3'- cUCCAGAUGa-CGugCC-------------UAAAGCUCGU- -5' |
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| 7572 | 3' | -51.6 | NC_001962.1 | + | 14232 | 0.68 | 0.940308 |
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Target: 5'- -cGGUCU-UUGgGCGGGUUUUgGAGCAa -3' miRNA: 3'- cuCCAGAuGACgUGCCUAAAG-CUCGU- -5' |
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| 7572 | 3' | -51.6 | NC_001962.1 | + | 102931 | 0.7 | 0.861817 |
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Target: 5'- cGAGGUCUGCcGUgaggagaACGuGAUcUCGAGCGu -3' miRNA: 3'- -CUCCAGAUGaCG-------UGC-CUAaAGCUCGU- -5' |
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| 7572 | 3' | -51.6 | NC_001962.1 | + | 126135 | 1.09 | 0.005736 |
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Target: 5'- cGAGGUCUACUGCACGGAUUUCGAGCAc -3' miRNA: 3'- -CUCCAGAUGACGUGCCUAAAGCUCGU- -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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