miRNA: 3'- aCGGU-GACUGGGCcgca-AGa-CCGCAU- -5'
miRNA: 3'- aCG-GUGACUG-GGCC-GCaaGACCGCau -5'
miRNA: 3'- -ACGGUGACUG-GGcCGcaaGACCGCau -5'
miRNA: 3'- aCGGUG----AC-UGGGCCGCAaGa-CCGCAU- -5'
miRNA: 3'- -ACGGUGACUGGGCCGCAAGACCGCAU- -5'
Results 1 - 5 of 5 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 | |||||||
| 16946 | 3' | -59.1 | NC_004313.1 | + | 7897 | 0.66 | 0.410603 |
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Target: 5'- aGCCAgCUGGCCCGuauggUCggGGCGUAc -3' miRNA: 3'- aCGGU-GACUGGGCcgca-AGa-CCGCAU- -5' |
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| 16946 | 3' | -59.1 | NC_004313.1 | + | 2933 | 0.66 | 0.383004 |
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Target: 5'- cGCaCGCUGACgCUGGaCGgaCUGGUGg- -3' miRNA: 3'- aCG-GUGACUG-GGCC-GCaaGACCGCau -5' |
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| 16946 | 3' | -59.1 | NC_004313.1 | + | 16005 | 0.67 | 0.348174 |
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Target: 5'- uUGCCGCUGGCaCCuGUug-CUGGCGg- -3' miRNA: 3'- -ACGGUGACUG-GGcCGcaaGACCGCau -5' |
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| 16946 | 3' | -59.1 | NC_004313.1 | + | 12808 | 0.67 | 0.339827 |
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Target: 5'- aGCCGCgugaUGuACCUGGUGUcCggGGCGUAa -3' miRNA: 3'- aCGGUG----AC-UGGGCCGCAaGa-CCGCAU- -5' |
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| 16946 | 3' | -59.1 | NC_004313.1 | + | 11689 | 1.06 | 0.000389 |
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Target: 5'- gUGCCACUGACCCGGCGUUCUGGCGUAc -3' miRNA: 3'- -ACGGUGACUGGGCCGCAAGACCGCAU- -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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