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miRNA: 3'- aCUGUGAC-GGCGG---------UUUGUCGuu--CCGU- -5'
miRNA: 3'- aCUGUgaCGGCGGUUUG---------UCGUUCCGU- -5'
miRNA: 3'- aCUGUGACGgcgGUUUGuCGUUCCGU- -5'
miRNA: 3'- -ACUGUGACGGCGGUUUGUCGUUCCGU- -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#
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P value |
| Predicted miRNA align pattern | |||||||
| 21892 | 5' | -54.4 | NC_004902.1 | + | 36103 | 0.72 | 0.325133 |
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Target: 5'- cGACACUGaCCGCCuguacacacGGGCAGUcacuGGCAu -3' miRNA: 3'- aCUGUGAC-GGCGG---------UUUGUCGuu--CCGU- -5' |
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| 21892 | 5' | -54.4 | NC_004902.1 | + | 25640 | 0.73 | 0.278317 |
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Target: 5'- aGACA--GCUGCCAAGCaggcaauuaAGCAAGGCGc -3' miRNA: 3'- aCUGUgaCGGCGGUUUG---------UCGUUCCGU- -5' |
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| 21892 | 5' | -54.4 | NC_004902.1 | + | 33732 | 0.74 | 0.224454 |
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Target: 5'- gGACACUGCa--CAAGC-GCAAGGCAu -3' miRNA: 3'- aCUGUGACGgcgGUUUGuCGUUCCGU- -5' |
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| 21892 | 5' | -54.4 | NC_004902.1 | + | 32933 | 1.09 | 0.000703 |
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Target: 5'- uUGACACUGCCGCCAAACAGCAAGGCAg -3' miRNA: 3'- -ACUGUGACGGCGGUUUGUCGUUCCGU- -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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