miRNA: 3'- -UUGAGCAUGAGuUGGUAG--CAUGUGGc -5'
miRNA: 3'- uuGAGCa-----UGaGUUGGUAGCAUGUGGc -5'
miRNA: 3'- uugaGCAUgAGUUGG-UAGCAUGUGGc -5'
miRNA: 3'- -UUGAGCAUGAGUUGGUAGCAUGUGGC- -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 | |||||||
| 32867 | 3' | -49.7 | NC_007383.1 | + | 121365 | 0.66 | 0.995081 |
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Target: 5'- cGACUCGUAUUU-AUCGUCauGUACACUa -3' miRNA: 3'- -UUGAGCAUGAGuUGGUAG--CAUGUGGc -5' |
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| 32867 | 3' | -49.7 | NC_007383.1 | + | 68978 | 0.67 | 0.988405 |
|
Target: 5'- -cUUCGgcguugACaCAAUCAUCGUGCACCu -3' miRNA: 3'- uuGAGCa-----UGaGUUGGUAGCAUGUGGc -5' |
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| 32867 | 3' | -49.7 | NC_007383.1 | + | 112952 | 0.69 | 0.967394 |
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Target: 5'- ---gUGUAgUCGGCCuGUCGUACGCCu -3' miRNA: 3'- uugaGCAUgAGUUGG-UAGCAUGUGGc -5' |
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| 32867 | 3' | -49.7 | NC_007383.1 | + | 67214 | 1.08 | 0.012206 |
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Target: 5'- aAACUCGUACUCAACCAUCGUACACCGa -3' miRNA: 3'- -UUGAGCAUGAGUUGGUAGCAUGUGGC- -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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