miRNA: 3'- cuUUCGuCU-CCUUUA-----------ACGG-GGCCUUU- -5'
miRNA: 3'- -CUUUCGUCUCCUUuaaCGGG----GCCUuu -5'
miRNA: 3'- cuuUCGUcUCCUuuAACGGGGCCuuu -5'
miRNA: 3'- cuuuCGuCUCCUuua-ACGGGGCCUUu -5'
miRNA: 3'- -CUUUCGUCUCCUUUAACGGGGCCUUU- -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 | |||||||
| 24072 | 3' | -50.5 | NC_005262.1 | + | 29193 | 0.66 | 0.915941 |
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Target: 5'- -cGAGCuGAuGGAGGUcaucggcaagaUGCCgCCGGAGAu -3' miRNA: 3'- cuUUCGuCU-CCUUUA-----------ACGG-GGCCUUU- -5' |
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| 24072 | 3' | -50.5 | NC_005262.1 | + | 52015 | 0.66 | 0.915941 |
|
Target: 5'- uGAGGGUAGAGGAGcgcGCCCagguCGGGc- -3' miRNA: 3'- -CUUUCGUCUCCUUuaaCGGG----GCCUuu -5' |
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| 24072 | 3' | -50.5 | NC_005262.1 | + | 63776 | 0.66 | 0.909263 |
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Target: 5'- --uGGCAuGGGA--UUGCCCCGGc-- -3' miRNA: 3'- cuuUCGUcUCCUuuAACGGGGCCuuu -5' |
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| 24072 | 3' | -50.5 | NC_005262.1 | + | 40188 | 0.68 | 0.836294 |
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Target: 5'- ---cGCuGGGGAcuggUGCCCUGGAAc -3' miRNA: 3'- cuuuCGuCUCCUuua-ACGGGGCCUUu -5' |
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| 24072 | 3' | -50.5 | NC_005262.1 | + | 51621 | 1.06 | 0.004248 |
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Target: 5'- aGAAAGCAGAGGAAAUUGCCCCGGAAAc -3' miRNA: 3'- -CUUUCGUCUCCUUUAACGGGGCCUUU- -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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