miRNA: 3'- gcaaACAa-ACa-GCCCgUACCAUUUCU- -5'
miRNA: 3'- -GCAAACAaa-------CaGCCCGUACCAUU----UCU- -5'
miRNA: 3'- -GCaaACAA-ACA--GCCCGUACC-AUUUCU- -5'
miRNA: 3'- -GCAAACAAACAGCCCGUACCAuUUCU- -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 | |||||||
| 10307 | 3' | -45.6 | NC_002687.1 | + | 213613 | 0.67 | 1 |
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Target: 5'- ---cUGUccUGcgCGGGgGUGGUAAAGAa -3' miRNA: 3'- gcaaACAa-ACa-GCCCgUACCAUUUCU- -5' |
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| 10307 | 3' | -45.6 | NC_002687.1 | + | 99717 | 0.68 | 0.999998 |
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Target: 5'- gCGUUUGUcuucgaaggGaCGGGUAUGGUGAcaguGGAg -3' miRNA: 3'- -GCAAACAaa-------CaGCCCGUACCAUU----UCU- -5' |
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| 10307 | 3' | -45.6 | NC_002687.1 | + | 247839 | 0.76 | 0.993675 |
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Target: 5'- uCGggUGUUaUGUcaCGGGCGUGGcUGAAGAa -3' miRNA: 3'- -GCaaACAA-ACA--GCCCGUACC-AUUUCU- -5' |
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| 10307 | 3' | -45.6 | NC_002687.1 | + | 63161 | 1.02 | 0.157603 |
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Target: 5'- aCGUUUGUUUGUCGGGCAUGGU-AAGAg -3' miRNA: 3'- -GCAAACAAACAGCCCGUACCAuUUCU- -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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