miRNA: 3'- -UUuaGCCGGuGCCCG-UGCUCAaaCGC- -5'
miRNA: 3'- -UUuaGCCGGUGCC-CGUGCUcaaaCGc -5'
miRNA: 3'- uuuAGCCgGUGCCCGUGCU----------CAaaCGC- -5'
miRNA: 3'- uuuaGCCGG-------UGCCCGUGCUCaaaCGC- -5'
miRNA: 3'- uuuaGCCGGUGCCCGUGCUCaaaCGC- -5'
Results 21 - 25 of 25 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 | |||||||
| 8062 | 5' | -54.8 | NC_001973.1 | + | 63816 | 0.72 | 0.652613 |
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Target: 5'- cGAcgCGGCC-UGGGCaACGAGUgcGCGu -3' miRNA: 3'- -UUuaGCCGGuGCCCG-UGCUCAaaCGC- -5' |
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| 8062 | 5' | -54.8 | NC_001973.1 | + | 102630 | 0.72 | 0.642262 |
|
Target: 5'- gGAcgCGGCCACGGcGCGCGAcug-GCa -3' miRNA: 3'- -UUuaGCCGGUGCC-CGUGCUcaaaCGc -5' |
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| 8062 | 5' | -54.8 | NC_001973.1 | + | 97971 | 0.73 | 0.600859 |
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Target: 5'- --uUCGGgCACGGGCACGAcgcggucgcgGUcgGCGa -3' miRNA: 3'- uuuAGCCgGUGCCCGUGCU----------CAaaCGC- -5' |
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| 8062 | 5' | -54.8 | NC_001973.1 | + | 152384 | 0.74 | 0.569005 |
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Target: 5'- ---aCGGCCggcgcggGCGGGCGCGGGgcgGCGc -3' miRNA: 3'- uuuaGCCGG-------UGCCCGUGCUCaaaCGC- -5' |
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| 8062 | 5' | -54.8 | NC_001973.1 | + | 27871 | 0.79 | 0.290183 |
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Target: 5'- ---gCGGCCGCGGGCGCGGGc--GCGc -3' miRNA: 3'- uuuaGCCGGUGCCCGUGCUCaaaCGC- -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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