miRNA: 3'- -GGUAGu--------GCUCGGCUCACuuaGGCUUc -5'
miRNA: 3'- -GGU--AGU-GCUCGGCUcACUUAGGCUUC- -5'
miRNA: 3'- -GGUAGUgcu-CGGCUCACUuAGGCUUC- -5'
miRNA: 3'- -GGUAGUGCUCGG---CUCaCUUaGGCUUC- -5'
miRNA: 3'- -GGUAGUGCUCGGCUCACUUAGGCUUC- -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 | |||||||
| 12662 | 3' | -50.9 | NC_003345.1 | + | 66519 | 0.72 | 0.731885 |
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Target: 5'- uCCGUCucaacucauCGAGCCGGGUGg--CCGGAu -3' miRNA: 3'- -GGUAGu--------GCUCGGCUCACuuaGGCUUc -5' |
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| 12662 | 3' | -50.9 | NC_003345.1 | + | 38034 | 0.74 | 0.634667 |
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Target: 5'- aUCAcuUCAuCGAGCUGGcUGAGUCCGAGGu -3' miRNA: 3'- -GGU--AGU-GCUCGGCUcACUUAGGCUUC- -5' |
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| 12662 | 3' | -50.9 | NC_003345.1 | + | 26119 | 0.74 | 0.612773 |
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Target: 5'- uCCAUCAagccGCCGGGUGAcUUCGAGGa -3' miRNA: 3'- -GGUAGUgcu-CGGCUCACUuAGGCUUC- -5' |
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| 12662 | 3' | -50.9 | NC_003345.1 | + | 3178 | 0.8 | 0.31409 |
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Target: 5'- cCCAUCACGAGCCaacGAGaGAG-CCGGAGg -3' miRNA: 3'- -GGUAGUGCUCGG---CUCaCUUaGGCUUC- -5' |
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| 12662 | 3' | -50.9 | NC_003345.1 | + | 62625 | 1.1 | 0.004076 |
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Target: 5'- uCCAUCACGAGCCGAGUGAAUCCGAAGc -3' miRNA: 3'- -GGUAGUGCUCGGCUCACUUAGGCUUC- -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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