miRNA: 3'- gACCGUCgaa--AACACauaaCGGAUGU- -5'
miRNA: 3'- -GACCGUCGAaa--ACACauaaCGG-AUGU- -5'
miRNA: 3'- gaCCGUCGAAaACACAuaACGGAUgu -5'
miRNA: 3'- -GACCGUCGAAaa-CA----CAUa---ACGGa--UGU- -5'
miRNA: 3'- -GACCGUCGAAAACACAUAACGGAUGU- -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 | |||||||
| 9439 | 3' | -47.6 | NC_002531.1 | + | 76496 | 0.66 | 0.999056 |
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Target: 5'- uUGGCAGaaaugUUGUG----GCCUGCAg -3' miRNA: 3'- gACCGUCgaa--AACACauaaCGGAUGU- -5' |
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| 9439 | 3' | -47.6 | NC_002531.1 | + | 97416 | 0.66 | 0.998576 |
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Target: 5'- uCUGGCAGCUaaucUGUGgaagGUCaUACAg -3' miRNA: 3'- -GACCGUCGAaa--ACACauaaCGG-AUGU- -5' |
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| 9439 | 3' | -47.6 | NC_002531.1 | + | 27360 | 0.67 | 0.996985 |
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Target: 5'- -aGGUAGCUUgUGUGUugUGUCUGu- -3' miRNA: 3'- gaCCGUCGAAaACACAuaACGGAUgu -5' |
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| 9439 | 3' | -47.6 | NC_002531.1 | + | 83344 | 0.69 | 0.98223 |
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Target: 5'- aCUGGCAGCUUgggGUuaaaGUAcucgUGCCgggACAc -3' miRNA: 3'- -GACCGUCGAAaa-CA----CAUa---ACGGa--UGU- -5' |
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| 9439 | 3' | -47.6 | NC_002531.1 | + | 61990 | 1.1 | 0.011705 |
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Target: 5'- cCUGGCAGCUUUUGUGUAUUGCCUACAc -3' miRNA: 3'- -GACCGUCGAAAACACAUAACGGAUGU- -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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