miRNA: 3'- -UGAGCUGUgGCCuaUA-CAG-GGa-CCAG- -5'
miRNA: 3'- -UGaGCUGUGGCCU-----------AUA---------CAGG-GACCAG- -5'
miRNA: 3'- -UGAGCUGuGGCCU-AUACAGGgACCag -5'
miRNA: 3'- -UGAGCUGUGGCCUAUACAGGGACCAG- -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 | |||||||
| 10720 | 5' | -54.6 | NC_002794.1 | + | 116083 | 0.66 | 0.965659 |
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Target: 5'- cGCUCGGCG-CGGcgGUcGUCgCCggGGUCg -3' miRNA: 3'- -UGAGCUGUgGCCuaUA-CAG-GGa-CCAG- -5' |
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| 10720 | 5' | -54.6 | NC_002794.1 | + | 135976 | 0.67 | 0.937898 |
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Target: 5'- aGCcCGGCGCCGGGcuccucuucgcUGUccggguccaGUCCgCUGGUCa -3' miRNA: 3'- -UGaGCUGUGGCCU-----------AUA---------CAGG-GACCAG- -5' |
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| 10720 | 5' | -54.6 | NC_002794.1 | + | 127052 | 0.67 | 0.933016 |
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Target: 5'- uACUCGAC-UCGGGcUAUGUCUgUGGa- -3' miRNA: 3'- -UGAGCUGuGGCCU-AUACAGGgACCag -5' |
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| 10720 | 5' | -54.6 | NC_002794.1 | + | 163321 | 1.1 | 0.004339 |
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Target: 5'- gACUCGACACCGGAUAUGUCCCUGGUCa -3' miRNA: 3'- -UGAGCUGUGGCCUAUACAGGGACCAG- -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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