miRNA: 3'- -UAGAGCCUCuu------CCA---------------GUaGGGCCGCAA- -5'
miRNA: 3'- uAGAGCCUCu----UCCAG-UAGGGCcGCAa -5'
miRNA: 3'- uagaGCCUCu-UCCAGUAGGGCCGCaa -5'
miRNA: 3'- uAGAGCCUCU-UCCAguaGGGCCGCaa -5'
miRNA: 3'- -UAGAGCCUCUUCCAGUAGGGCCGCAA- -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 | |||||||
| 19095 | 3' | -56.9 | NC_004684.1 | + | 48362 | 0.67 | 0.587285 |
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Target: 5'- gGUCUCGGAGugcuugccGGUguggugcacgaucagCAcCCCGGCGUUg -3' miRNA: 3'- -UAGAGCCUCuu------CCA---------------GUaGGGCCGCAA- -5' |
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| 19095 | 3' | -56.9 | NC_004684.1 | + | 6513 | 0.67 | 0.561472 |
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Target: 5'- uUCUCGGGGcuggcGGGUCuGUCCCGcCGUg -3' miRNA: 3'- uAGAGCCUCu----UCCAG-UAGGGCcGCAa -5' |
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| 19095 | 3' | -56.9 | NC_004684.1 | + | 58791 | 0.67 | 0.561472 |
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Target: 5'- ---gUGGGGccAGGUUGUCCCGGCGg- -3' miRNA: 3'- uagaGCCUCu-UCCAGUAGGGCCGCaa -5' |
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| 19095 | 3' | -56.9 | NC_004684.1 | + | 60724 | 0.68 | 0.498544 |
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Target: 5'- cUUUCGGGGAgAGGUg--CCCGGCGa- -3' miRNA: 3'- uAGAGCCUCU-UCCAguaGGGCCGCaa -5' |
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| 19095 | 3' | -56.9 | NC_004684.1 | + | 11136 | 1.04 | 0.001749 |
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Target: 5'- gAUCUCGGAGAAGGUCAUCCCGGCGUUg -3' miRNA: 3'- -UAGAGCCUCUUCCAGUAGGGCCGCAA- -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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