miRNA: 3'- -CCUCUGU---AuaCGCuGUCUaaaCAGAc -5'
miRNA: 3'- ccUCUGuauaCGCUGUCUAaaCAGAC- -5'
miRNA: 3'- cCUCUGuauACGCU-GUCUAAACA--GAC- -5'
miRNA: 3'- -CCUCUGUAUACGCUGUCUAAACAGac -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 | |||||||
| 9633 | 5' | -45.8 | NC_002577.1 | + | 143241 | 0.66 | 0.999993 |
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Target: 5'- aGGAGACGcucUcgGCG-CAGAgc-GUCUa -3' miRNA: 3'- -CCUCUGU---AuaCGCuGUCUaaaCAGAc -5' |
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| 9633 | 5' | -45.8 | NC_002577.1 | + | 117402 | 0.66 | 0.999982 |
|
Target: 5'- -uGGAUug--GCGACGGAUccGUCUGa -3' miRNA: 3'- ccUCUGuauaCGCUGUCUAaaCAGAC- -5' |
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| 9633 | 5' | -45.8 | NC_002577.1 | + | 81656 | 0.68 | 0.999814 |
|
Target: 5'- uGGGACuu-UGCGAaCGGAUUUGUggCUGu -3' miRNA: 3'- cCUCUGuauACGCU-GUCUAAACA--GAC- -5' |
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| 9633 | 5' | -45.8 | NC_002577.1 | + | 120213 | 1.06 | 0.047503 |
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Target: 5'- aGGAGACAUAUGCGACAGAUUUGUCa- -3' miRNA: 3'- -CCUCUGUAUACGCUGUCUAAACAGac -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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