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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 | |||||||
| 13588 | 3' | -54 | NC_003444.1 | + | 538 | 0.66 | 0.614957 |
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Target: 5'- --cAGaCGC-UGGCGGCuGCUGggGUCGa -3' miRNA: 3'- auuUC-GUGuACCGCCG-UGACuaCGGC- -5' |
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| 13588 | 3' | -54 | NC_003444.1 | + | 14177 | 0.66 | 0.602159 |
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Target: 5'- ------uCGUGGCGGCACUGAUacuuuucaccacgGCCc -3' miRNA: 3'- auuucguGUACCGCCGUGACUA-------------CGGc -5' |
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| 13588 | 3' | -54 | NC_003444.1 | + | 31507 | 0.67 | 0.580145 |
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Target: 5'- aGGAGCAUcaAUGGCauaGCGC-GGUGCCa -3' miRNA: 3'- aUUUCGUG--UACCGc--CGUGaCUACGGc -5' |
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| 13588 | 3' | -54 | NC_003444.1 | + | 26861 | 0.67 | 0.545765 |
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Target: 5'- --cAGCGCGcGGCuGGCACUcacuacauugcgGAUGCUGu -3' miRNA: 3'- auuUCGUGUaCCG-CCGUGA------------CUACGGC- -5' |
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| 13588 | 3' | -54 | NC_003444.1 | + | 16163 | 0.68 | 0.501021 |
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Target: 5'- --cAGgACcgGGCGGCAacaGUGCCGa -3' miRNA: 3'- auuUCgUGuaCCGCCGUgacUACGGC- -5' |
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| 13588 | 3' | -54 | NC_003444.1 | + | 8462 | 0.68 | 0.501021 |
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Target: 5'- ---uGCACG-GGCGGUACggcuUGCCGc -3' miRNA: 3'- auuuCGUGUaCCGCCGUGacu-ACGGC- -5' |
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| 13588 | 3' | -54 | NC_003444.1 | + | 9046 | 0.68 | 0.479256 |
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Target: 5'- cUAucGCugAccGGCGGCAUUGAggUGCCc -3' miRNA: 3'- -AUuuCGugUa-CCGCCGUGACU--ACGGc -5' |
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| 13588 | 3' | -54 | NC_003444.1 | + | 36886 | 1.08 | 0.000764 |
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Target: 5'- cUAAAGCACAUGGCGGCACUGAUGCCGa -3' miRNA: 3'- -AUUUCGUGUACCGCCGUGACUACGGC- -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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