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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 | |||||||
| 30886 | 5' | -59.1 | NC_006552.1 | + | 45367 | 0.66 | 0.509909 |
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Target: 5'- cGGCCGGUauCUGGcAGCGCGgccCGGGc -3' miRNA: 3'- aCCGGUCG--GACU-UCGCGCaacGCCUa -5' |
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| 30886 | 5' | -59.1 | NC_006552.1 | + | 5602 | 0.67 | 0.467539 |
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Target: 5'- cGGCCAGgCUGAcggucAGCGCGgcaaccagcacGCGGu- -3' miRNA: 3'- aCCGGUCgGACU-----UCGCGCaa---------CGCCua -5' |
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| 30886 | 5' | -59.1 | NC_006552.1 | + | 25004 | 0.69 | 0.34288 |
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Target: 5'- cUGGCCAGCCgcucGAcAGCGgCGgcaucgucgGCGGAg -3' miRNA: 3'- -ACCGGUCGGa---CU-UCGC-GCaa-------CGCCUa -5' |
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| 30886 | 5' | -59.1 | NC_006552.1 | + | 33568 | 0.69 | 0.34288 |
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Target: 5'- aGGCCAGCgCcGAAauacGCgGCGUccUGCGGAUa -3' miRNA: 3'- aCCGGUCG-GaCUU----CG-CGCA--ACGCCUA- -5' |
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| 30886 | 5' | -59.1 | NC_006552.1 | + | 58938 | 0.69 | 0.334829 |
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Target: 5'- cGGCCAGCCUu--GCcaCGUUGCGGc- -3' miRNA: 3'- aCCGGUCGGAcuuCGc-GCAACGCCua -5' |
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| 30886 | 5' | -59.1 | NC_006552.1 | + | 41037 | 0.69 | 0.319146 |
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Target: 5'- uUGGCUgcGGCCguaggGAAGCGCuc-GCGGAUu -3' miRNA: 3'- -ACCGG--UCGGa----CUUCGCGcaaCGCCUA- -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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