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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 | |||||||
| 32003 | 5' | -55.5 | NC_006949.1 | + | 45480 | 0.66 | 0.629807 |
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Target: 5'- cGGaguCUGCCAGUCuggggcgggauGcauuauccacgcugGCGGCGGAGGUGg -3' miRNA: 3'- aCC---GAUGGUCAG-----------U--------------CGUCGCCUUCACa -5' |
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| 32003 | 5' | -55.5 | NC_006949.1 | + | 46482 | 0.67 | 0.540346 |
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Target: 5'- aGGCUGCCAGaCGGUgcugcucuucgauaAGCGGcugacGGUGg -3' miRNA: 3'- aCCGAUGGUCaGUCG--------------UCGCCu----UCACa -5' |
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| 32003 | 5' | -55.5 | NC_006949.1 | + | 33446 | 0.67 | 0.52181 |
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Target: 5'- aUGGC--CCAGccCGGCAGCgauGGAGGUGa -3' miRNA: 3'- -ACCGauGGUCa-GUCGUCG---CCUUCACa -5' |
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| 32003 | 5' | -55.5 | NC_006949.1 | + | 35017 | 0.69 | 0.428564 |
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Target: 5'- cUGGCgACCAGUCAGCGGCa------- -3' miRNA: 3'- -ACCGaUGGUCAGUCGUCGccuucaca -5' |
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| 32003 | 5' | -55.5 | NC_006949.1 | + | 18381 | 0.7 | 0.375741 |
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Target: 5'- aGGCaACCAGUaccaggcuuacccgaUAGCAGUGGAAGg-- -3' miRNA: 3'- aCCGaUGGUCA---------------GUCGUCGCCUUCaca -5' |
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| 32003 | 5' | -55.5 | NC_006949.1 | + | 35098 | 0.7 | 0.36324 |
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Target: 5'- cUGGCgACCAGUCAGCAGCa------- -3' miRNA: 3'- -ACCGaUGGUCAGUCGUCGccuucaca -5' |
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| 32003 | 5' | -55.5 | NC_006949.1 | + | 14218 | 0.7 | 0.354489 |
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Target: 5'- cGGCUACCcauaacAG-CAGCAGCGGcGGUc- -3' miRNA: 3'- aCCGAUGG------UCaGUCGUCGCCuUCAca -5' |
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| 32003 | 5' | -55.5 | NC_006949.1 | + | 34910 | 0.78 | 0.107155 |
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Target: 5'- cUGGCUACCAGUCAGCAGCa------- -3' miRNA: 3'- -ACCGAUGGUCAGUCGUCGccuucaca -5' |
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| 32003 | 5' | -55.5 | NC_006949.1 | + | 34856 | 0.78 | 0.107155 |
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Target: 5'- cUGGCUACCAGUCAGCAGCa------- -3' miRNA: 3'- -ACCGAUGGUCAGUCGUCGccuucaca -5' |
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| 32003 | 5' | -55.5 | NC_006949.1 | + | 34829 | 1.07 | 0.000913 |
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Target: 5'- cUGGCUACCAGUCAGCAGCGGAAGUGUc -3' miRNA: 3'- -ACCGAUGGUCAGUCGUCGCCUUCACA- -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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