miRNA: 3'- -CGCCCGUaGUAGCaCGUG-CUGUG-GUa -5'
miRNA: 3'- -CGCC----CGUAGUAGCaCG-UGCUgUGGUa -5'
miRNA: 3'- -CGc--CCGUAGUAG-CACGuGCUGUGGUA- -5'
miRNA: 3'- -CgCCCGUAGUAGCaCGU-GCUGUGGUa -5'
miRNA: 3'- -CGCCCGUa-GUAgcACGUGCUGUGGUA- -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 | |||||||
| 23359 | 3' | -55.2 | NC_005259.1 | + | 51667 | 0.71 | 0.453208 |
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Target: 5'- cGCGGGCG-CGUCGgGCACgGGCGCgCGa -3' miRNA: 3'- -CGCCCGUaGUAGCaCGUG-CUGUG-GUa -5' |
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| 23359 | 3' | -55.2 | NC_005259.1 | + | 14043 | 0.71 | 0.453208 |
|
Target: 5'- aGCGGcagcGCAUCGUCG-GCgACGAgACCAg -3' miRNA: 3'- -CGCC----CGUAGUAGCaCG-UGCUgUGGUa -5' |
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| 23359 | 3' | -55.2 | NC_005259.1 | + | 23473 | 0.71 | 0.443472 |
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Target: 5'- gGCcucGGCAUUGUCgGUGC-CGACGCCAUg -3' miRNA: 3'- -CGc--CCGUAGUAG-CACGuGCUGUGGUA- -5' |
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| 23359 | 3' | -55.2 | NC_005259.1 | + | 58728 | 0.73 | 0.378818 |
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Target: 5'- cGgGGGUGUCGUUG-GCAcCGGCACCGg -3' miRNA: 3'- -CgCCCGUAGUAGCaCGU-GCUGUGGUa -5' |
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| 23359 | 3' | -55.2 | NC_005259.1 | + | 3107 | 0.76 | 0.23735 |
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Target: 5'- aGCGGGCGgcCAU--UGCGCGGCACCGUg -3' miRNA: 3'- -CGCCCGUa-GUAgcACGUGCUGUGGUA- -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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