miRNA: 3'- -UCC-UCCGGAUacCAGG--UCGGAgUGUc -5'
miRNA: 3'- uCCUCCgGAUACC-------AGGUCGGAG--UGUC- -5'
miRNA: 3'- -UCCUcCGGa----UACCaGGUCGGAgUGUC- -5'
miRNA: 3'- -UCCUCCGGAUACCAGGUCGGAGUGUC- -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 | |||||||
| 30553 | 3' | -57.7 | NC_006548.1 | + | 8697 | 0.66 | 0.461651 |
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Target: 5'- cGGGcGGGCCUGgaGUCCcuGGCCUgGCAc -3' miRNA: 3'- -UCC-UCCGGAUacCAGG--UCGGAgUGUc -5' |
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| 30553 | 3' | -57.7 | NC_006548.1 | + | 26542 | 0.67 | 0.392502 |
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Target: 5'- cGGAGGgCUAUGGcgugccaUUCGGCUUCgaGCAGu -3' miRNA: 3'- uCCUCCgGAUACC-------AGGUCGGAG--UGUC- -5' |
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| 30553 | 3' | -57.7 | NC_006548.1 | + | 17946 | 0.72 | 0.191336 |
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Target: 5'- uGGGA-GCCggaggGUGG-CCAGCCUgGCGGg -3' miRNA: 3'- -UCCUcCGGa----UACCaGGUCGGAgUGUC- -5' |
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| 30553 | 3' | -57.7 | NC_006548.1 | + | 28048 | 1.07 | 0.00039 |
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Target: 5'- cAGGAGGCCUAUGGUCCAGCCUCACAGc -3' miRNA: 3'- -UCCUCCGGAUACCAGGUCGGAGUGUC- -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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