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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
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R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 2164 | 5' | -55.1 | NC_001363.1 | + | 169 | 0.69 | 0.081526 |
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Target: 5'- aGGGCCAAGAACAGAUGagacagcugagugauGggCCaaaCAGGa -3' miRNA: 3'- -CCCGGUUCUUGUCUAC---------------Ca-GGg--GUCUa -5' |
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| 2164 | 5' | -55.1 | NC_001363.1 | + | 245 | 1.08 | 0.000034 |
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Target: 5'- gGGGCCAAGAACAGAUGGUCCCCAGAUg -3' miRNA: 3'- -CCCGGUUCUUGUCUACCAGGGGUCUA- -5' |
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| 2164 | 5' | -55.1 | NC_001363.1 | + | 2651 | 0.68 | 0.086142 |
|
Target: 5'- aGGGUCAGGAG-GGAggucuggggucuUGGUCCCCgAGGUc -3' miRNA: 3'- -CCCGGUUCUUgUCU------------ACCAGGGG-UCUA- -5' |
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| 2164 | 5' | -55.1 | NC_001363.1 | + | 4110 | 0.75 | 0.026167 |
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Target: 5'- cGGGagcCCGAGGAgGaGUGGUCCCCAGGa -3' miRNA: 3'- -CCC---GGUUCUUgUcUACCAGGGGUCUa -5' |
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| 2164 | 5' | -55.1 | NC_001363.1 | + | 5407 | 0.69 | 0.081526 |
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Target: 5'- aGGGCCAAGAACAGAUGagacagcugagugauGggCCaaaCAGGa -3' miRNA: 3'- -CCCGGUUCUUGUCUAC---------------Ca-GGg--GUCUa -5' |
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| 2164 | 5' | -55.1 | NC_001363.1 | + | 5483 | 1.08 | 0.000034 |
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Target: 5'- gGGGCCAAGAACAGAUGGUCCCCAGAUg -3' miRNA: 3'- -CCCGGUUCUUGUCUACCAGGGGUCUA- -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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