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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 | |||||||
| 3064 | 3' | -57.7 | NC_001493.1 | + | 21064 | 0.67 | 0.733322 |
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Target: 5'- -cGGCGGGUAcgCUC-CCGCGg---- -3' miRNA: 3'- guCCGCCCGUuaGAGcGGCGCaagaa -5' |
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| 3064 | 3' | -57.7 | NC_001493.1 | + | 52869 | 0.69 | 0.621031 |
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Target: 5'- cCAGGaaaGGGUcGUC-CGCCGCGUcaUCUc -3' miRNA: 3'- -GUCCg--CCCGuUAGaGCGGCGCA--AGAa -5' |
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| 3064 | 3' | -57.7 | NC_001493.1 | + | 42412 | 0.69 | 0.600395 |
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Target: 5'- aGGGCGGaCAGggUCGCCGCGcgUUCUUu -3' miRNA: 3'- gUCCGCCcGUUagAGCGGCGC--AAGAA- -5' |
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| 3064 | 3' | -57.7 | NC_001493.1 | + | 24103 | 0.7 | 0.569637 |
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Target: 5'- gGGGCuGGCGAUguguccgagaUUCGUCGCGUUCa- -3' miRNA: 3'- gUCCGcCCGUUA----------GAGCGGCGCAAGaa -5' |
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| 3064 | 3' | -57.7 | NC_001493.1 | + | 18291 | 0.7 | 0.533274 |
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Target: 5'- -cGGCGGGUucaucccucugagccAAUC-CGUCGCGUUCUc -3' miRNA: 3'- guCCGCCCG---------------UUAGaGCGGCGCAAGAa -5' |
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| 3064 | 3' | -57.7 | NC_001493.1 | + | 133845 | 0.7 | 0.533274 |
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Target: 5'- -cGGCGGGUucaucccucugagccAAUC-CGUCGCGUUCUc -3' miRNA: 3'- guCCGCCCG---------------UUAGaGCGGCGCAAGAa -5' |
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| 3064 | 3' | -57.7 | NC_001493.1 | + | 57654 | 0.73 | 0.398569 |
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Target: 5'- -cGGCgaGGGCGggCUgGCCGCGUUCg- -3' miRNA: 3'- guCCG--CCCGUuaGAgCGGCGCAAGaa -5' |
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| 3064 | 3' | -57.7 | NC_001493.1 | + | 45518 | 1.05 | 0.002886 |
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Target: 5'- aCAGGCGGGCAAUCUCGCCGCGUUCUUc -3' miRNA: 3'- -GUCCGCCCGUUAGAGCGGCGCAAGAA- -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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