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miRNA: 3'- -AAGACCUGUGCGUCUGGCCGGCUUGG- -5'
miRNA: 3'- aAGACCUGUGCGUCU-GGc----------CGgCUUGG- -5'
miRNA: 3'- aAGACCuGU---------GCGUCUGG---CCGGCUUGG- -5'
miRNA: 3'- -AAGACC----------UGUGCGUCUGGcCG-GCU-----UGG- -5'
Results 1 - 4 of 4 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position |
R_P_ratio#
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P value |
| Predicted miRNA align pattern | |||||||
| 32304 | 3' | -57.2 | NC_007024.1 | + | 9204 | 1.1 | 0.000552 |
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Target: 5'- gUUCUGGACACGCAGACCGGCCGAACCg -3' miRNA: 3'- -AAGACCUGUGCGUCUGGCCGGCUUGG- -5' |
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| 32304 | 3' | -57.2 | NC_007024.1 | + | 7666 | 0.7 | 0.393572 |
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Target: 5'- aUCUGGGCGCGCAGAgCCacauuguugucGCgGAACUc -3' miRNA: 3'- aAGACCUGUGCGUCU-GGc----------CGgCUUGG- -5' |
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| 32304 | 3' | -57.2 | NC_007024.1 | + | 35294 | 0.7 | 0.367238 |
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Target: 5'- cUCUGG-CGaaaucuaugUGCAGGCCaacGGCCGAAUCa -3' miRNA: 3'- aAGACCuGU---------GCGUCUGG---CCGGCUUGG- -5' |
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| 32304 | 3' | -57.2 | NC_007024.1 | + | 55097 | 0.66 | 0.595142 |
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Target: 5'- gUUCUGGccgcgagccgAUGCGCGGACCuGCuCGAaugcgGCCg -3' miRNA: 3'- -AAGACC----------UGUGCGUCUGGcCG-GCU-----UGG- -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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