miRNA: 3'- -GCgCUUGUGGAuUGUCa--AACACUugu -5'
miRNA: 3'- -GCGCUUGUGGAUUGUCa---AAC-ACUUGU- -5'
miRNA: 3'- -GCGCUUGUGGa----UUGUCA------AACACUUGU- -5'
miRNA: 3'- -GCGCUUGUGGAUUGUCAAACACUUGU- -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 | |||||||
| 33184 | 5' | -45.8 | NC_007501.1 | + | 17284 | 0.67 | 0.976175 |
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Target: 5'- cCGgGAACACCUuGCGGaccUUGUGGc-- -3' miRNA: 3'- -GCgCUUGUGGAuUGUCa--AACACUugu -5' |
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| 33184 | 5' | -45.8 | NC_007501.1 | + | 26321 | 0.67 | 0.966103 |
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Target: 5'- aUGUGGACACUUGAUGGacacUUGaUGGACAg -3' miRNA: 3'- -GCGCUUGUGGAUUGUCa---AAC-ACUUGU- -5' |
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| 33184 | 5' | -45.8 | NC_007501.1 | + | 6146 | 0.76 | 0.606694 |
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Target: 5'- aCGCGGACACUcacccAGCAGUacacgcUUGUGGGCAc -3' miRNA: 3'- -GCGCUUGUGGa----UUGUCA------AACACUUGU- -5' |
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| 33184 | 5' | -45.8 | NC_007501.1 | + | 30208 | 1.11 | 0.004873 |
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Target: 5'- uCGCGAACACCUAACAGUUUGUGAACAa -3' miRNA: 3'- -GCGCUUGUGGAUUGUCAAACACUUGU- -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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