miRNA: 3'- uugaaCAUUUuCUGCaUGCUCCGGaG- -5'
miRNA: 3'- uugaACaUUUUCUgCAugCUCCGGag -5'
miRNA: 3'- -UUGAACaUUUUCUgCAUGCUC-CGGAg -5'
miRNA: 3'- uugaacAUUUUCUGCA--UGCUCCGGag -5'
miRNA: 3'- uUGAaCAUUUUCUGCA--UGC-UCCGGag -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 | |||||||
| 2746 | 3' | -48 | NC_001491.2 | + | 66976 | 0.66 | 0.998707 |
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Target: 5'- ----aGUGGAuGACGcACGAGGCC-Cg -3' miRNA: 3'- uugaaCAUUUuCUGCaUGCUCCGGaG- -5' |
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| 2746 | 3' | -48 | NC_001491.2 | + | 101710 | 0.67 | 0.998427 |
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Target: 5'- ---cUGcGAGAGGgGUugGAGGCCg- -3' miRNA: 3'- uugaACaUUUUCUgCAugCUCCGGag -5' |
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| 2746 | 3' | -48 | NC_001491.2 | + | 30280 | 0.67 | 0.997714 |
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Target: 5'- gAAUUUGaGGAGGA-GUACGAGcGCCUg -3' miRNA: 3'- -UUGAACaUUUUCUgCAUGCUC-CGGAg -5' |
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| 2746 | 3' | -48 | NC_001491.2 | + | 117720 | 0.69 | 0.991676 |
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Target: 5'- -----cUGGAGGGCGUccGCGAGGCCa- -3' miRNA: 3'- uugaacAUUUUCUGCA--UGCUCCGGag -5' |
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| 2746 | 3' | -48 | NC_001491.2 | + | 37696 | 0.69 | 0.987453 |
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Target: 5'- uGCUgGUGGGAGGCGUccACGgGGGCCg- -3' miRNA: 3'- uUGAaCAUUUUCUGCA--UGC-UCCGGag -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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