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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 | |||||||
| 28564 | 3' | -55.2 | NC_005946.1 | + | 22886 | 0.66 | 0.881716 |
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Target: 5'- uUCUCCGGuGAGGCUCuuugugaGUgGAGuAUCGGg -3' miRNA: 3'- cAGAGGCU-CUCCGAG-------CAgUUC-UGGUC- -5' |
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| 28564 | 3' | -55.2 | NC_005946.1 | + | 66568 | 0.66 | 0.875107 |
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Target: 5'- cUCUCCcuuuGAGAGGUUCGUgCAcgccGugCAGa -3' miRNA: 3'- cAGAGG----CUCUCCGAGCA-GUu---CugGUC- -5' |
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| 28564 | 3' | -55.2 | NC_005946.1 | + | 72668 | 0.66 | 0.851749 |
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Target: 5'- ---cCCGuGGGGUUCGUgaggGAGGCCAGg -3' miRNA: 3'- cagaGGCuCUCCGAGCAg---UUCUGGUC- -5' |
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| 28564 | 3' | -55.2 | NC_005946.1 | + | 41612 | 0.67 | 0.79955 |
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Target: 5'- -cCUaCCGAcGGGGC-CGgCGGGACCAGa -3' miRNA: 3'- caGA-GGCU-CUCCGaGCaGUUCUGGUC- -5' |
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| 28564 | 3' | -55.2 | NC_005946.1 | + | 82608 | 0.68 | 0.783624 |
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Target: 5'- uGUCUgCCG-GAGGCUgucccaaCGUCcugcccuucaggcccGAGACCAGg -3' miRNA: 3'- -CAGA-GGCuCUCCGA-------GCAG---------------UUCUGGUC- -5' |
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| 28564 | 3' | -55.2 | NC_005946.1 | + | 68581 | 0.69 | 0.700782 |
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Target: 5'- aGUCUUCGucGGGCUCGUCA-GACa-- -3' miRNA: 3'- -CAGAGGCucUCCGAGCAGUuCUGguc -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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