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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 | |||||||
| 28471 | 5' | -61.7 | NC_005946.1 | + | 69629 | 0.67 | 0.463766 |
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Target: 5'- uGugGUgggcuccgGCGGCGGugGCGGGUCuGGGGgGa -3' miRNA: 3'- -CugCGa-------CGCCGUC--UGUCCAG-CCCCgU- -5' |
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| 28471 | 5' | -61.7 | NC_005946.1 | + | 21976 | 0.68 | 0.427594 |
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Target: 5'- gGACGUccUGgGGaCAGACAGGgucuacUCGGaGGCGg -3' miRNA: 3'- -CUGCG--ACgCC-GUCUGUCC------AGCC-CCGU- -5' |
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| 28471 | 5' | -61.7 | NC_005946.1 | + | 33175 | 0.68 | 0.410145 |
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Target: 5'- cGGCGCUGCGGgguccgcguccgUGGACGuGGaCGGGGUc -3' miRNA: 3'- -CUGCGACGCC------------GUCUGU-CCaGCCCCGu -5' |
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| 28471 | 5' | -61.7 | NC_005946.1 | + | 42553 | 0.72 | 0.24966 |
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Target: 5'- aGACGUagUGCG--AGACGGGcUCGGGGCAc -3' miRNA: 3'- -CUGCG--ACGCcgUCUGUCC-AGCCCCGU- -5' |
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| 28471 | 5' | -61.7 | NC_005946.1 | + | 34719 | 0.79 | 0.082392 |
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Target: 5'- cGACGCUcucaccaggcagcccGUGGCGGGCAGGUCcagggaggGGGGCAu -3' miRNA: 3'- -CUGCGA---------------CGCCGUCUGUCCAG--------CCCCGU- -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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