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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
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Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 22240 | 3' | -55.4 | NC_005045.1 | + | 7376 | 0.75 | 0.195056 |
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Target: 5'- aCGUCCUGGGAUgccagaGCAUgagCCGgggGGGGa -3' miRNA: 3'- -GCAGGACCUUGa-----CGUGaa-GGCa--CCCC- -5' |
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| 22240 | 3' | -55.4 | NC_005045.1 | + | 19489 | 0.66 | 0.6341 |
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Target: 5'- gGUCUgcUGGAGCUGCGCgcggccuaugccUCCGguaaucccgaGGGGu -3' miRNA: 3'- gCAGG--ACCUUGACGUGa-----------AGGCa---------CCCC- -5' |
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| 22240 | 3' | -55.4 | NC_005045.1 | + | 4188 | 1.1 | 0.00066 |
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Target: 5'- gCGUCCUGGAACUGCACUUCCGUGGGGu -3' miRNA: 3'- -GCAGGACCUUGACGUGAAGGCACCCC- -5' |
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| 22240 | 3' | -55.4 | NC_005045.1 | + | 32813 | 0.68 | 0.559057 |
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Target: 5'- aCGUCCUGGAGCgGUGCUgCCGcgaaccUGGa- -3' miRNA: 3'- -GCAGGACCUUGaCGUGAaGGC------ACCcc -5' |
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| 22240 | 3' | -55.4 | NC_005045.1 | + | 32628 | 0.66 | 0.64742 |
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Target: 5'- uGcCCUGGAGCggcuuagGCACcUCggCGUGGGu -3' miRNA: 3'- gCaGGACCUUGa------CGUGaAG--GCACCCc -5' |
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| 22240 | 3' | -55.4 | NC_005045.1 | + | 18901 | 0.66 | 0.68059 |
|
Target: 5'- uGUCCUggcccagguggcGGAGCUGCGCcugCCGUGc-- -3' miRNA: 3'- gCAGGA------------CCUUGACGUGaa-GGCACccc -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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