miRNA: 3'- -GAUGACCuUGACC-------------CGUUCGGcCAAUA- -5'
miRNA: 3'- gaUGACCUUga-CCCGU---UCGGCCAaua -5'
miRNA: 3'- gaUGACCUugACCCGU---UCGGCCAaua -5'
miRNA: 3'- gaUGACCUUGaCCCGUUC-GGCCAaua -5'
miRNA: 3'- -GAUGACCUUGACCCGUUCGGCCAAUA- -5'
Results 1 - 5 of 5 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 | |||||||
| 21870 | 3' | -53 | NC_004902.1 | + | 35025 | 0.67 | 0.667376 |
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Target: 5'- gCUGCUGGcGCUGGagacccaggcggaGCAGGCUuGUUGUg -3' miRNA: 3'- -GAUGACCuUGACC-------------CGUUCGGcCAAUA- -5' |
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| 21870 | 3' | -53 | NC_004902.1 | + | 43986 | 0.68 | 0.599278 |
|
Target: 5'- -cACUGGAGuggGGGCAagaAGCUGGUa-- -3' miRNA: 3'- gaUGACCUUga-CCCGU---UCGGCCAaua -5' |
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| 21870 | 3' | -53 | NC_004902.1 | + | 18508 | 0.74 | 0.307656 |
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Target: 5'- -aGCUGGA--UGGGCAuacAGCCGGUg-- -3' miRNA: 3'- gaUGACCUugACCCGU---UCGGCCAaua -5' |
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| 21870 | 3' | -53 | NC_004902.1 | + | 38757 | 0.74 | 0.291977 |
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Target: 5'- -aGCUGGGACcGGGCAGGuCUGGUc-- -3' miRNA: 3'- gaUGACCUUGaCCCGUUC-GGCCAaua -5' |
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| 21870 | 3' | -53 | NC_004902.1 | + | 35327 | 1.06 | 0.001705 |
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Target: 5'- aCUACUGGAACUGGGCAAGCCGGUUAUu -3' miRNA: 3'- -GAUGACCUUGACCCGUUCGGCCAAUA- -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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