miRNA: 3'- -GCCG-GGAuuUGGUGuau-CCGGGCAGa -5'
miRNA: 3'- -GCCGGGAuu---UGGUG----------UAUCC---GGGCAGa -5'
miRNA: 3'- -GCCGGGaUUUGGUGUau-CCGGGCAGa -5'
miRNA: 3'- -GCCGG----GAUUUGguGUAUC-CGG-GCAGa -5'
miRNA: 3'- gCCGG-GAUUUG--------GUGUAUCCG-GGCAGa -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 | |||||||
| 22100 | 5' | -55.7 | NC_004927.1 | + | 5091 | 0.66 | 0.76965 |
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Target: 5'- aCGGCuCCU--GCCGCugguGGUUCGUCg -3' miRNA: 3'- -GCCG-GGAuuUGGUGuau-CCGGGCAGa -5' |
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| 22100 | 5' | -55.7 | NC_004927.1 | + | 2543 | 0.66 | 0.749584 |
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Target: 5'- gCGGCCUUuacuuGCCACuacugggacgAUGGGuucCCCGUCg -3' miRNA: 3'- -GCCGGGAuu---UGGUG----------UAUCC---GGGCAGa -5' |
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| 22100 | 5' | -55.7 | NC_004927.1 | + | 12087 | 0.66 | 0.749584 |
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Target: 5'- uCGGUUCcGGGCCACGaacGGCUCGUCc -3' miRNA: 3'- -GCCGGGaUUUGGUGUau-CCGGGCAGa -5' |
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| 22100 | 5' | -55.7 | NC_004927.1 | + | 26317 | 0.67 | 0.718654 |
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Target: 5'- aCGGCUgauaCUGAACguCGUAGaGCCaCGUCa -3' miRNA: 3'- -GCCGG----GAUUUGguGUAUC-CGG-GCAGa -5' |
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| 22100 | 5' | -55.7 | NC_004927.1 | + | 33221 | 0.72 | 0.418655 |
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Target: 5'- aGGCCgUUGAACgccgggaaCACGUAGGCcCCGUCg -3' miRNA: 3'- gCCGG-GAUUUG--------GUGUAUCCG-GGCAGa -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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