miRNA: 3'- -UGCCGCGa-GGa--GAGgCGGCaCUaacu -5'
miRNA: 3'- uGCCGCGaGGAgAGGCGGCacuaacu -5'
miRNA: 3'- -UGCCGCgAGGagAGGCGGC--ACUaACU- -5'
miRNA: 3'- ugCCGC-GAGGAGAGgCGGCACuaacu -5'
miRNA: 3'- -UGCCGCGAGGAGAGGCGGCACUAACU- -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 | |||||||
| 32082 | 3' | -57.9 | NC_007016.1 | + | 130327 | 0.66 | 0.818145 |
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Target: 5'- cGCGGCGCcgCCgggCUCgGCCG-GAc--- -3' miRNA: 3'- -UGCCGCGa-GGa--GAGgCGGCaCUaacu -5' |
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| 32082 | 3' | -57.9 | NC_007016.1 | + | 13685 | 0.66 | 0.809467 |
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Target: 5'- uCGGCGCaCCUgUCCGCCGc------ -3' miRNA: 3'- uGCCGCGaGGAgAGGCGGCacuaacu -5' |
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| 32082 | 3' | -57.9 | NC_007016.1 | + | 51227 | 0.66 | 0.791642 |
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Target: 5'- cACGGCGgUCCagUCCGUCGccUGG-UGAc -3' miRNA: 3'- -UGCCGCgAGGagAGGCGGC--ACUaACU- -5' |
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| 32082 | 3' | -57.9 | NC_007016.1 | + | 67688 | 0.69 | 0.644705 |
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Target: 5'- -gGGCGcCUCUUCUCgGCCGUGc---- -3' miRNA: 3'- ugCCGC-GAGGAGAGgCGGCACuaacu -5' |
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| 32082 | 3' | -57.9 | NC_007016.1 | + | 23063 | 1.08 | 0.001964 |
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Target: 5'- aACGGCGCUCCUCUCCGCCGUGAUUGAc -3' miRNA: 3'- -UGCCGCGAGGAGAGGCGGCACUAACU- -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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