miRNA: 3'- -GCGa-CCCGAAGGACGa---CU-----UCGUCGUg -5'
miRNA: 3'- gCGACCCGaAgGACGACuUCGUC-GUG- -5'
miRNA: 3'- -GCGACCCGaa------GGACGACUUCGUCguG- -5'
miRNA: 3'- gCGACCCGAAGGA------CGACuuCGUCGUg -5'
miRNA: 3'- -GCGACCCGAAGGACGACUUCGUCGUG- -5'
Results 41 - 45 of 45 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 | |||||||
| 29398 | 3' | -57.1 | NC_006151.1 | + | 89102 | 0.76 | 0.287001 |
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Target: 5'- cCGCggGGGCUUCCUGCgcgaGAccgagGGCGGCGg -3' miRNA: 3'- -GCGa-CCCGAAGGACGa---CU-----UCGUCGUg -5' |
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| 29398 | 3' | -57.1 | NC_006151.1 | + | 85933 | 0.78 | 0.214066 |
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Target: 5'- gGCUGGGCcUgCUGCUGcAGCAGcCGCa -3' miRNA: 3'- gCGACCCGaAgGACGACuUCGUC-GUG- -5' |
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| 29398 | 3' | -57.1 | NC_006151.1 | + | 85192 | 0.8 | 0.153584 |
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Target: 5'- cCGCUGGGCaucgcggaCCUGCUGGAGCGGguCc -3' miRNA: 3'- -GCGACCCGaa------GGACGACUUCGUCguG- -5' |
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| 29398 | 3' | -57.1 | NC_006151.1 | + | 103722 | 0.84 | 0.083303 |
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Target: 5'- aGCUGGGCUUCCUggagccGCUGgcGCGGCAg -3' miRNA: 3'- gCGACCCGAAGGA------CGACuuCGUCGUg -5' |
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| 29398 | 3' | -57.1 | NC_006151.1 | + | 120412 | 1.09 | 0.001702 |
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Target: 5'- cCGCUGGGCUUCCUGCUGAAGCAGCACc -3' miRNA: 3'- -GCGACCCGAAGGACGACUUCGUCGUG- -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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