miRNA: 3'- ugUgGACGCGGCCGUgUGGCauUUGU- -5'
miRNA: 3'- -UGUGGacGCGGCCG----UGUGGCa---UUUGU- -5'
miRNA: 3'- ugUGGACgCGGCCGu-GUGGCauuUGu -5'
miRNA: 3'- -UGUGGaCGC-GGCCG---------UGUGGCAuuUGU- -5'
Results 21 - 24 of 24 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 19558 | 5' | -55.7 | NC_004686.1 | + | 33491 | 0.7 | 0.454646 |
|
Target: 5'- -uGgCUGCGCUGGCAgGCCG--AGCAc -3' miRNA: 3'- ugUgGACGCGGCCGUgUGGCauUUGU- -5' |
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| 19558 | 5' | -55.7 | NC_004686.1 | + | 33765 | 0.69 | 0.516132 |
|
Target: 5'- uACGCCcaCGCCGGCgggaGCACCGcaugAAGCGg -3' miRNA: 3'- -UGUGGacGCGGCCG----UGUGGCa---UUUGU- -5' |
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| 19558 | 5' | -55.7 | NC_004686.1 | + | 39048 | 0.66 | 0.668795 |
|
Target: 5'- -aACCUG-GCCGGCuuCACCGgu-GCc -3' miRNA: 3'- ugUGGACgCGGCCGu-GUGGCauuUGu -5' |
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| 19558 | 5' | -55.7 | NC_004686.1 | + | 56069 | 0.69 | 0.505635 |
|
Target: 5'- gGCACCcGCGaCCGGUggacccgcgACGCCGU--GCAc -3' miRNA: 3'- -UGUGGaCGC-GGCCG---------UGUGGCAuuUGU- -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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