miRNA: 3'- -UGGUUUUGGAUGUA-GAugC-GGAUAcu -5'
miRNA: 3'- -UGGUuuuGGA-UGUAGAUG-------CGGAUACU- -5'
miRNA: 3'- -UGGUUUUGGAUGUaGaUGCGGAUAcu -5'
miRNA: 3'- -UGGUUUugGAUGUagauGCGGAUACU- -5'
miRNA: 3'- -UGGUUUUGGAUGUAGAUGCGGAUACU- -5'
Results 1 - 5 of 5 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 | |||||||
| 31687 | 5' | -46.7 | NC_006883.1 | + | 107534 | 0.66 | 0.999997 |
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Target: 5'- cGCUAAGACCUAUAUgUUugGuCCUAUu- -3' miRNA: 3'- -UGGUUUUGGAUGUA-GAugC-GGAUAcu -5' |
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| 31687 | 5' | -46.7 | NC_006883.1 | + | 225058 | 0.66 | 0.999991 |
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Target: 5'- aACCAuuuUCUaGCAUCUGCucuaguuGCCUGUGGu -3' miRNA: 3'- -UGGUuuuGGA-UGUAGAUG-------CGGAUACU- -5' |
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| 31687 | 5' | -46.7 | NC_006883.1 | + | 190982 | 0.7 | 0.99935 |
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Target: 5'- cAUCGAAACCUACAgCaACGUCUGUa- -3' miRNA: 3'- -UGGUUUUGGAUGUaGaUGCGGAUAcu -5' |
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| 31687 | 5' | -46.7 | NC_006883.1 | + | 214694 | 0.73 | 0.988724 |
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Target: 5'- cACCGAAugCUGCAc---CGCCUAUGGc -3' miRNA: 3'- -UGGUUUugGAUGUagauGCGGAUACU- -5' |
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| 31687 | 5' | -46.7 | NC_006883.1 | + | 109727 | 1.1 | 0.02946 |
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Target: 5'- cACCAAAACCUACAUCUACGCCUAUGAa -3' miRNA: 3'- -UGGUUUUGGAUGUAGAUGCGGAUACU- -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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