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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 | |||||||
| 22021 | 3' | -51.5 | NC_004927.1 | + | 720 | 1.14 | 0.001923 |
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Target: 5'- cCUUUUACGCCGGGGAGUAUAUCCCCCg -3' miRNA: 3'- -GAAAAUGCGGCCCCUCAUAUAGGGGG- -5' |
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| 22021 | 3' | -51.5 | NC_004927.1 | + | 3032 | 0.68 | 0.871999 |
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Target: 5'- --cUUACGCuacugaggcccuucCGGGGAGUcgAaCCCCg -3' miRNA: 3'- gaaAAUGCG--------------GCCCCUCAuaUaGGGGg -5' |
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| 22021 | 3' | -51.5 | NC_004927.1 | + | 17674 | 0.69 | 0.832492 |
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Target: 5'- ---aUACGCC-GGGAGaAUuUCUCCCa -3' miRNA: 3'- gaaaAUGCGGcCCCUCaUAuAGGGGG- -5' |
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| 22021 | 3' | -51.5 | NC_004927.1 | + | 31181 | 0.75 | 0.497248 |
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Target: 5'- ---aUACGCCGGGGAcucuccccgGUAU-UCCUCCu -3' miRNA: 3'- gaaaAUGCGGCCCCU---------CAUAuAGGGGG- -5' |
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| 22021 | 3' | -51.5 | NC_004927.1 | + | 32548 | 0.71 | 0.765412 |
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Target: 5'- ----gGCGUCGGGGAagc-GUUCCCCa -3' miRNA: 3'- gaaaaUGCGGCCCCUcauaUAGGGGG- -5' |
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| 22021 | 3' | -51.5 | NC_004927.1 | + | 37714 | 0.71 | 0.755196 |
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Target: 5'- ----cACGCCGGGccGAG----UCCCCCg -3' miRNA: 3'- gaaaaUGCGGCCC--CUCauauAGGGGG- -5' |
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| 22021 | 3' | -51.5 | NC_004927.1 | + | 38877 | 0.68 | 0.896527 |
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Target: 5'- aCUUcgGCaGUCGGGGuGaUGUGUUCCUCg -3' miRNA: 3'- -GAAaaUG-CGGCCCCuC-AUAUAGGGGG- -5' |
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| 22021 | 3' | -51.5 | NC_004927.1 | + | 40885 | 0.66 | 0.957137 |
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Target: 5'- ----gACGagaCCGGGG-GUucaaAUCCCCCc -3' miRNA: 3'- gaaaaUGC---GGCCCCuCAua--UAGGGGG- -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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