miRNA: 3'- caaaaUGAGGacgCCUGUGCCGUACG- -5'
miRNA: 3'- caaaaUGa--GGaCGCCUGUGCC-GUA-CG- -5'
miRNA: 3'- caaaaUGAgGACGCCUGU----GCCGuACG- -5'
miRNA: 3'- -CAAAAugAGGaCGCCUGUG---------CCGuaCG- -5'
miRNA: 3'- -CAAAAUGAGGACGCCUGUGCCGUACG- -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 | |||||||
| 6214 | 3' | -51 | NC_001844.1 | + | 22608 | 0.66 | 0.990915 |
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Target: 5'- ----cACUUUg--GGGCACGGUAUGCu -3' miRNA: 3'- caaaaUGAGGacgCCUGUGCCGUACG- -5' |
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| 6214 | 3' | -51 | NC_001844.1 | + | 122499 | 0.66 | 0.989608 |
|
Target: 5'- ----cGCgaaCCcGCGGACGCGGcCAUcGCc -3' miRNA: 3'- caaaaUGa--GGaCGCCUGUGCC-GUA-CG- -5' |
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| 6214 | 3' | -51 | NC_001844.1 | + | 117704 | 0.68 | 0.967172 |
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Target: 5'- ----cACU-CUGCGGGCAuacuCGGCcUGCg -3' miRNA: 3'- caaaaUGAgGACGCCUGU----GCCGuACG- -5' |
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| 6214 | 3' | -51 | NC_001844.1 | + | 58811 | 0.76 | 0.657062 |
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Target: 5'- cGUUUUugUCCgGCGGGCGCagaacucgaGGCcgGCc -3' miRNA: 3'- -CAAAAugAGGaCGCCUGUG---------CCGuaCG- -5' |
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| 6214 | 3' | -51 | NC_001844.1 | + | 72633 | 1.13 | 0.004063 |
|
Target: 5'- aGUUUUACUCCUGCGGACACGGCAUGCg -3' miRNA: 3'- -CAAAAUGAGGACGCCUGUGCCGUACG- -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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