miRNA: 3'- gaACUGCUGG---ACGGGAA--AgCCaGAGG- -5'
miRNA: 3'- gAACUGC-UGGACGGGaaAgcCAGAGG- -5'
miRNA: 3'- gaacuGCUGGa---CGGGAAAGCCaGAGG- -5'
miRNA: 3'- gaaCUGCUGG-ACGGGaa-AGcCAGAGG- -5'
miRNA: 3'- -GAACUGCUGGACGGGAAAGCCAGAGG- -5'
Results 21 - 25 of 25 are showing below:
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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 | |||||||
| 27226 | 3' | -53.3 | NC_005832.1 | + | 80504 | 0.7 | 0.771747 |
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Target: 5'- -cUGACGACCcccUGUCCUUccUgGG-CUCCa -3' miRNA: 3'- gaACUGCUGG---ACGGGAA--AgCCaGAGG- -5' |
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| 27226 | 3' | -53.3 | NC_005832.1 | + | 36555 | 0.72 | 0.690699 |
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Target: 5'- gUUGGCGuACCUGCUCagUauGUCUCCc -3' miRNA: 3'- gAACUGC-UGGACGGGaaAgcCAGAGG- -5' |
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| 27226 | 3' | -53.3 | NC_005832.1 | + | 98444 | 0.73 | 0.595714 |
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Target: 5'- ----cUGACCcgagGCCCUUUCGGcCUCCc -3' miRNA: 3'- gaacuGCUGGa---CGGGAAAGCCaGAGG- -5' |
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| 27226 | 3' | -53.3 | NC_005832.1 | + | 26358 | 0.76 | 0.463629 |
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Target: 5'- --cGAUGACCgUGCCCccgUCaGUCUCCa -3' miRNA: 3'- gaaCUGCUGG-ACGGGaa-AGcCAGAGG- -5' |
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| 27226 | 3' | -53.3 | NC_005832.1 | + | 89314 | 1.13 | 0.002207 |
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Target: 5'- aCUUGACGACCUGCCCUUUCGGUCUCCu -3' miRNA: 3'- -GAACUGCUGGACGGGAAAGCCAGAGG- -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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