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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 | |||||||
| 27451 | 3' | -56.9 | NC_005869.1 | + | 5484 | 0.66 | 0.464972 |
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Target: 5'- --cGC-GGAGCUUGCCGGgGCCgcGGUGc -3' miRNA: 3'- agaUGaCCUCGGACGGCC-UGGa-CUAC- -5' |
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| 27451 | 3' | -56.9 | NC_005869.1 | + | 11394 | 0.66 | 0.454697 |
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Target: 5'- gCUGCUGGuGCUgGCCGacaACCUGGg- -3' miRNA: 3'- aGAUGACCuCGGaCGGCc--UGGACUac -5' |
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| 27451 | 3' | -56.9 | NC_005869.1 | + | 11205 | 0.67 | 0.383685 |
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Target: 5'- gCUGCUG-AGCCUgggcgcgcccgagaGCCgcuggcugguGGACCUGGUGa -3' miRNA: 3'- aGAUGACcUCGGA--------------CGG----------CCUGGACUAC- -5' |
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| 27451 | 3' | -56.9 | NC_005869.1 | + | 10558 | 0.68 | 0.34203 |
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Target: 5'- cCUGCUGGAGCCUGgCaGGCUUc--- -3' miRNA: 3'- aGAUGACCUCGGACgGcCUGGAcuac -5' |
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| 27451 | 3' | -56.9 | NC_005869.1 | + | 4902 | 0.69 | 0.309228 |
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Target: 5'- cUUGCcGGAGCCgGUgGGACCguaGAUGa -3' miRNA: 3'- aGAUGaCCUCGGaCGgCCUGGa--CUAC- -5' |
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| 27451 | 3' | -56.9 | NC_005869.1 | + | 14694 | 1.08 | 0.000401 |
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Target: 5'- gUCUACUGGAGCCUGCCGGACCUGAUGc -3' miRNA: 3'- -AGAUGACCUCGGACGGCCUGGACUAC- -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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