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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 | |||||||
| 27627 | 3' | -55.1 | NC_005882.1 | + | 12130 | 0.66 | 0.6601 |
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Target: 5'- aCCGUCGAc-UGgaucgCGGGCGCCuauCCGGc- -3' miRNA: 3'- -GGUAGCUauACa----GCUCGCGG---GGCCac -5' |
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| 27627 | 3' | -55.1 | NC_005882.1 | + | 32590 | 0.66 | 0.637684 |
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Target: 5'- -aGUUGAgcuUGUCGAGgGCaUCGGUGg -3' miRNA: 3'- ggUAGCUau-ACAGCUCgCGgGGCCAC- -5' |
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| 27627 | 3' | -55.1 | NC_005882.1 | + | 21928 | 0.66 | 0.626463 |
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Target: 5'- ---cCGGUAUucGUcCGGGCGCUCCGGg- -3' miRNA: 3'- gguaGCUAUA--CA-GCUCGCGGGGCCac -5' |
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| 27627 | 3' | -55.1 | NC_005882.1 | + | 32367 | 0.66 | 0.615247 |
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Target: 5'- aCAUCGAcAUGUCGc-CGCuCCUGGUc -3' miRNA: 3'- gGUAGCUaUACAGCucGCG-GGGCCAc -5' |
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| 27627 | 3' | -55.1 | NC_005882.1 | + | 23239 | 0.66 | 0.604047 |
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Target: 5'- gCAUCGAUGUacgCGAuCGCCCCGa-- -3' miRNA: 3'- gGUAGCUAUAca-GCUcGCGGGGCcac -5' |
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| 27627 | 3' | -55.1 | NC_005882.1 | + | 25251 | 0.66 | 0.604047 |
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Target: 5'- gCCGUCuGGcUGUucaUCGAGuUGCCCUGGUGg -3' miRNA: 3'- -GGUAG-CU-AUAc--AGCUC-GCGGGGCCAC- -5' |
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| 27627 | 3' | -55.1 | NC_005882.1 | + | 22037 | 0.71 | 0.332429 |
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Target: 5'- gCCAUCGAcGUGcUCGAucacguucgcacCGCCCUGGUGg -3' miRNA: 3'- -GGUAGCUaUAC-AGCUc-----------GCGGGGCCAC- -5' |
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| 27627 | 3' | -55.1 | NC_005882.1 | + | 35542 | 1.09 | 0.000672 |
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Target: 5'- uCCAUCGAUAUGUCGAGCGCCCCGGUGu -3' miRNA: 3'- -GGUAGCUAUACAGCUCGCGGGGCCAC- -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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