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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 | |||||||
| 12540 | 5' | -57 | NC_003345.1 | + | 32590 | 0.66 | 0.683957 |
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Target: 5'- cGAGUCCGaggucGCUCGGGuggcucaccgcAUCGAGgucggcgucGGGGAAg -3' miRNA: 3'- -CUCAGGC-----UGAGCCU-----------UGGCUC---------UCCCUU- -5' |
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| 12540 | 5' | -57 | NC_003345.1 | + | 65003 | 0.67 | 0.620145 |
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Target: 5'- --uUCCGACUUGGGauucuuacaacAUCGAgGAGGGGAa -3' miRNA: 3'- cucAGGCUGAGCCU-----------UGGCU-CUCCCUU- -5' |
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| 12540 | 5' | -57 | NC_003345.1 | + | 64708 | 0.68 | 0.609491 |
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Target: 5'- cGAGUaCCuGCUUGGucuuACCGGGAaGGGGAa -3' miRNA: 3'- -CUCA-GGcUGAGCCu---UGGCUCU-CCCUU- -5' |
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| 12540 | 5' | -57 | NC_003345.1 | + | 73139 | 0.74 | 0.295939 |
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Target: 5'- aAGUCCGACaagucgCGGAACCuccagcAGAGGGAAg -3' miRNA: 3'- cUCAGGCUGa-----GCCUUGGc-----UCUCCCUU- -5' |
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| 12540 | 5' | -57 | NC_003345.1 | + | 30690 | 1.05 | 0.001898 |
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Target: 5'- gGAGUCCGACUCGGAACCGAGAGGGAAc -3' miRNA: 3'- -CUCAGGCUGAGCCUUGGCUCUCCCUU- -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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