miRNA: 3'- -UCCGGAGguuAUAGGaCGCGAG--AACg -5'
miRNA: 3'- -UCCGGAGguuAUAGGaCGCGAG--AACg -5'
miRNA: 3'- -UCCGGAGGUUa--UAGGACgCGagaACG- -5'
miRNA: 3'- -UCCGGAGGUUAUAGGACGCGAGAACG- -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# |
P value
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| Predicted miRNA align pattern | |||||||
| 2460 | 3' | -53.4 | NC_001436.1 | + | 144 | 0.67 | 0.203315 |
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Target: 5'- cGGGCCUU---UGUCCgGCGCUCccUUGg -3' miRNA: 3'- -UCCGGAGguuAUAGGaCGCGAG--AACg -5' |
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| 2460 | 3' | -53.4 | NC_001436.1 | + | 8415 | 0.67 | 0.203315 |
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Target: 5'- cGGGCCUU---UGUCCgGCGCUCccUUGg -3' miRNA: 3'- -UCCGGAGguuAUAGGaCGCGAG--AACg -5' |
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| 2460 | 3' | -53.4 | NC_001436.1 | + | 4800 | 0.72 | 0.089648 |
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Target: 5'- gGGGCCUCCGAcggGUCUUGgGCa--UGCa -3' miRNA: 3'- -UCCGGAGGUUa--UAGGACgCGagaACG- -5' |
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| 2460 | 3' | -53.4 | NC_001436.1 | + | 4017 | 1.11 | 5.6e-05 |
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Target: 5'- gAGGCCUCCAAUAUCCUGCGCUCUUGCc -3' miRNA: 3'- -UCCGGAGGUUAUAGGACGCGAGAACG- -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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