miRNA: 3'- gGGUAGUACGCG---UAGUUg----UGuUCGGG- -5'
miRNA: 3'- -GGGU---AGUACG-CGuagUUGugUUCGGG- -5'
miRNA: 3'- -GGGUAGU----ACG----CGUAGu---UGUGUUCGGg -5'
miRNA: 3'- -GGGUAGu----ACGcGUAG-UUGuGUUCGGG- -5'
miRNA: 3'- -GGGUAGUACGCGUAGUUGUGUUCGGG- -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 | |||||||
| 4192 | 3' | -50.6 | NC_001672.1 | + | 8081 | 0.66 | 0.514963 |
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Target: 5'- aCUGUCAUGUGUgacAUCGGagagaGC-AGCCCa -3' miRNA: 3'- gGGUAGUACGCG---UAGUUg----UGuUCGGG- -5' |
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| 4192 | 3' | -50.6 | NC_001672.1 | + | 6715 | 0.66 | 0.49077 |
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Target: 5'- gCCCAgcaUCAUGCgGCu--GAUugAAGUCCg -3' miRNA: 3'- -GGGU---AGUACG-CGuagUUGugUUCGGG- -5' |
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| 4192 | 3' | -50.6 | NC_001672.1 | + | 7097 | 0.67 | 0.455515 |
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Target: 5'- aCUUGUCAacagUGCcgugGCAUCugguGCACAGGCCa -3' miRNA: 3'- -GGGUAGU----ACG----CGUAGu---UGUGUUCGGg -5' |
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| 4192 | 3' | -50.6 | NC_001672.1 | + | 8929 | 0.67 | 0.444069 |
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Target: 5'- gCCCAUCuguuuUGCuCAUCuGAC-CAAGCUCc -3' miRNA: 3'- -GGGUAGu----ACGcGUAG-UUGuGUUCGGG- -5' |
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| 4192 | 3' | -50.6 | NC_001672.1 | + | 274 | 1.16 | 0.000104 |
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Target: 5'- cCCCAUCAUGCGCAUCAACACAAGCCCa -3' miRNA: 3'- -GGGUAGUACGCGUAGUUGUGUUCGGG- -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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