miRNA: 3'- aaUCU-----UCGCAGCGCGCCGGu----------GGCCua -5'
miRNA: 3'- aauCuuCGCAGcGCGCCGGUGGCCua -5'
miRNA: 3'- aauCUUCGC-----AGCGCGCC-G-GUGGCCUa -5'
miRNA: 3'- aauCuuCGCAGCgCGCCGgUGG-CCUa -5'
miRNA: 3'- -AAUCUUCGCAGCGCGCCGGUGGCCUA- -5'
Results 41 - 45 of 45 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 | |||||||
| 24601 | 5' | -59.4 | NC_005264.1 | + | 157215 | 0.72 | 0.42192 |
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Target: 5'- -gGGAcaccuAGCGUCGCGCGGCCcgauagcggcuCCGGu- -3' miRNA: 3'- aaUCU-----UCGCAGCGCGCCGGu----------GGCCua -5' |
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| 24601 | 5' | -59.4 | NC_005264.1 | + | 34637 | 0.72 | 0.379716 |
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Target: 5'- --cGggGUGUU-CGCGGCCACCGGu- -3' miRNA: 3'- aauCuuCGCAGcGCGCCGGUGGCCua -5' |
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| 24601 | 5' | -59.4 | NC_005264.1 | + | 111037 | 0.73 | 0.355788 |
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Target: 5'- --cGAAGCGguggcUCGCGCGGaCuCGCCGGAc -3' miRNA: 3'- aauCUUCGC-----AGCGCGCC-G-GUGGCCUa -5' |
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| 24601 | 5' | -59.4 | NC_005264.1 | + | 48393 | 0.76 | 0.240733 |
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Target: 5'- --uGggGCGUCGgGCGGCgGCCaGGAg -3' miRNA: 3'- aauCuuCGCAGCgCGCCGgUGG-CCUa -5' |
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| 24601 | 5' | -59.4 | NC_005264.1 | + | 54362 | 1.02 | 0.003552 |
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Target: 5'- cUUAGAAGCGUCGCGCGGCCACCGGAUc -3' miRNA: 3'- -AAUCUUCGCAGCGCGCCGGUGGCCUA- -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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