miRNA: 3'- -CGUUGUa---GAGG-----CGCCGUC-GGauGCUU- -5'
miRNA: 3'- -CGUUGu-AGAGGCGCCGUcGGA---UGCUU- -5'
miRNA: 3'- cGUUgUAGA---GGCGCCGuCGGAUGCUU- -5'
miRNA: 3'- -CGUUGUAGAGGcg-CCGUCGgaUGCUu -5'
Results 21 - 24 of 24 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 | |||||||
| 21245 | 3' | -55.2 | NC_004778.3 | + | 988 | 0.66 | 0.884604 |
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Target: 5'- cGCAGCAgcggCUCCaacgcGUGGCGGuCCgcCGAAa -3' miRNA: 3'- -CGUUGUa---GAGG-----CGCCGUC-GGauGCUU- -5' |
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| 21245 | 3' | -55.2 | NC_004778.3 | + | 6172 | 0.66 | 0.891614 |
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Target: 5'- uGCAGCcuUCUCCGUGGCGaCUUgucGCGGGu -3' miRNA: 3'- -CGUUGu-AGAGGCGCCGUcGGA---UGCUU- -5' |
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| 21245 | 3' | -55.2 | NC_004778.3 | + | 119620 | 0.66 | 0.898384 |
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Target: 5'- cCGAgAUUUgcaCCGUGGC-GCCUACGGAc -3' miRNA: 3'- cGUUgUAGA---GGCGCCGuCGGAUGCUU- -5' |
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| 21245 | 3' | -55.2 | NC_004778.3 | + | 104135 | 0.66 | 0.898384 |
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Target: 5'- uGCAGCGUCUCUuugGGCGGC--GCGAu -3' miRNA: 3'- -CGUUGUAGAGGcg-CCGUCGgaUGCUu -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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