miRNA: 3'- -CGgCUUCGA--------UGUGaa---UCCU--------------UCGUGUG- -5'
miRNA: 3'- -CGGCUUCGauGugAAU-CCUUCGuGUG- -5'
miRNA: 3'- cGGCUUCGAUgUGaAUCCUUCgUGuG- -5'
miRNA: 3'- -CGGCUUCGAUGUGAAUCCUUCGUGUG- -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 | |||||||
| 4195 | 3' | -49.7 | NC_001672.1 | + | 7696 | 0.67 | 0.475865 |
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Target: 5'- aGCgGAGGCUgaacaacuGCACgagggAGGAauucuuuguguacaGGCGCACc -3' miRNA: 3'- -CGgCUUCGA--------UGUGaa---UCCU--------------UCGUGUG- -5' |
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| 4195 | 3' | -49.7 | NC_001672.1 | + | 7509 | 0.68 | 0.39917 |
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Target: 5'- uGCUGAAGCcuCugUUAuGGAGGC-CACc -3' miRNA: 3'- -CGGCUUCGauGugAAU-CCUUCGuGUG- -5' |
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| 4195 | 3' | -49.7 | NC_001672.1 | + | 6275 | 0.69 | 0.347342 |
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Target: 5'- aUCGAAGCUGgACaUGGGAAGgGC-Cg -3' miRNA: 3'- cGGCUUCGAUgUGaAUCCUUCgUGuG- -5' |
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| 4195 | 3' | -49.7 | NC_001672.1 | + | 4069 | 1.12 | 0.000241 |
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Target: 5'- uGCCGAAGCUACACUUAGGAAGCACACc -3' miRNA: 3'- -CGGCUUCGAUGUGAAUCCUUCGUGUG- -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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