miRNA: 3'- aCCGCACGC-GAAGUGGauaa-GuuCGU- -5'
miRNA: 3'- aCCGcACGCGAagUGGAUAag--UUCGU- -5'
miRNA: 3'- aCCGC-ACGCGAaGUGGAUAAgUUCGU- -5'
miRNA: 3'- -ACCGCaC-GCGAAGUGGAUAAGUUCGU- -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 | |||||||
| 8444 | 5' | -51.9 | NC_002166.1 | + | 27201 | 0.67 | 0.708498 |
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Target: 5'- aGGUGUGCGaUUUCACCccgggUggGCGu -3' miRNA: 3'- aCCGCACGC-GAAGUGGauaa-GuuCGU- -5' |
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| 8444 | 5' | -51.9 | NC_002166.1 | + | 29104 | 0.68 | 0.638895 |
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Target: 5'- aGGCuUGCGCUg-GCCUGUgauaAAGCGg -3' miRNA: 3'- aCCGcACGCGAagUGGAUAag--UUCGU- -5' |
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| 8444 | 5' | -51.9 | NC_002166.1 | + | 22313 | 0.7 | 0.534701 |
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Target: 5'- cGGCGaUGCGUUgCACUUGUU-GAGCAg -3' miRNA: 3'- aCCGC-ACGCGAaGUGGAUAAgUUCGU- -5' |
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| 8444 | 5' | -51.9 | NC_002166.1 | + | 15287 | 0.93 | 0.017238 |
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Target: 5'- uUGGCG-GuCGCUUCACCUAUUCAAGCAg -3' miRNA: 3'- -ACCGCaC-GCGAAGUGGAUAAGUUCGU- -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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