miRNA: 3'- cACCAGacCUGGCGCC--UGUGGUaaau -5'
miRNA: 3'- caccagaCCUGGCgCCUGUGGUAaau -5'
miRNA: 3'- caCCAGACCUGG----CGCCUGUgGUaaau -5'
miRNA: 3'- caCCAg---ACCUGGCGCCUGuGgUAaau -5'
miRNA: 3'- cACCA-Ga--CCUGGCGCC------UGUGGUaaau -5'
Results 21 - 25 of 25 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 | |||||||
| 5550 | 5' | -54.5 | NC_001806.1 | + | 54774 | 0.66 | 0.935615 |
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Target: 5'- aUGGUU--GGCCGCGGcaGCACCAg--- -3' miRNA: 3'- cACCAGacCUGGCGCC--UGUGGUaaau -5' |
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| 5550 | 5' | -54.5 | NC_001806.1 | + | 28375 | 0.66 | 0.940501 |
|
Target: 5'- ------gGGACCGgGGGCGCCAUg-- -3' miRNA: 3'- caccagaCCUGGCgCCUGUGGUAaau -5' |
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| 5550 | 5' | -54.5 | NC_001806.1 | + | 5076 | 0.66 | 0.945141 |
|
Target: 5'- -cGGUCUGGGCUcgggGUGGGCGgCGg--- -3' miRNA: 3'- caCCAGACCUGG----CGCCUGUgGUaaau -5' |
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| 5550 | 5' | -54.5 | NC_001806.1 | + | 125797 | 0.66 | 0.945141 |
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Target: 5'- -gGGUauggUGGACCGCGGACuCgGUc-- -3' miRNA: 3'- caCCAg---ACCUGGCGCCUGuGgUAaau -5' |
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| 5550 | 5' | -54.5 | NC_001806.1 | + | 132650 | 0.66 | 0.945141 |
|
Target: 5'- cUGGUgCgcgGGGCCGCGGccgcuuACGCCGc--- -3' miRNA: 3'- cACCA-Ga--CCUGGCGCC------UGUGGUaaau -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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