miRNA: 3'- -UGaGACACGGCGaGGauguACUACCU- -5'
miRNA: 3'- uGAGACAC-GGCGAGgaUGUACU-ACCU- -5'
miRNA: 3'- -UGAG-ACa-----CGGCG----AGGAUGUACUACCu -5'
miRNA: 3'- -UGAGACACGGCGAGGAUGUACUACCU- -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 | |||||||
| 13030 | 3' | -53.7 | NC_003390.1 | + | 44139 | 0.66 | 0.709862 |
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Target: 5'- aGC-CUGUGCCGC-CC----UGGUGGAu -3' miRNA: 3'- -UGaGACACGGCGaGGauguACUACCU- -5' |
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| 13030 | 3' | -53.7 | NC_003390.1 | + | 39882 | 0.69 | 0.574364 |
|
Target: 5'- cUUCUGUGcCCGCUC--ACGUGGcUGGAc -3' miRNA: 3'- uGAGACAC-GGCGAGgaUGUACU-ACCU- -5' |
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| 13030 | 3' | -53.7 | NC_003390.1 | + | 13186 | 0.75 | 0.258343 |
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Target: 5'- gACUCuUGguacugGCCGCguauUCCUACGUGAUGGc -3' miRNA: 3'- -UGAG-ACa-----CGGCG----AGGAUGUACUACCu -5' |
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| 13030 | 3' | -53.7 | NC_003390.1 | + | 22661 | 1.09 | 0.001115 |
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Target: 5'- aACUCUGUGCCGCUCCUACAUGAUGGAu -3' miRNA: 3'- -UGAGACACGGCGAGGAUGUACUACCU- -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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