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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 | |||||||
| 9030 | 5' | -52.5 | NC_002512.2 | + | 140867 | 0.7 | 0.933528 |
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Target: 5'- gGAGUUcgcUCGGAUCgCGCugcccgacguccccgCGCUCCGGGUc -3' miRNA: 3'- gCUUAA---AGCUUAG-GCG---------------GCGAGGCCUA- -5' |
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| 9030 | 5' | -52.5 | NC_002512.2 | + | 126325 | 0.7 | 0.931513 |
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Target: 5'- uGGAcgaCGAggCCGCCGCgUCCGGGa -3' miRNA: 3'- gCUUaaaGCUuaGGCGGCG-AGGCCUa -5' |
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| 9030 | 5' | -52.5 | NC_002512.2 | + | 135094 | 0.71 | 0.91519 |
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Target: 5'- aCGGAgcagUCG-AUCCaggaGCUGCUCCGGAc -3' miRNA: 3'- -GCUUaa--AGCuUAGG----CGGCGAGGCCUa -5' |
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| 9030 | 5' | -52.5 | NC_002512.2 | + | 28524 | 0.71 | 0.909276 |
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Target: 5'- gGggUgagcugUCGggUCCGCCGCcgCCcGAUg -3' miRNA: 3'- gCuuAa-----AGCuuAGGCGGCGa-GGcCUA- -5' |
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| 9030 | 5' | -52.5 | NC_002512.2 | + | 145412 | 0.72 | 0.876258 |
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Target: 5'- cCGggUcuucUUCGGcucGUCCGCCGCggugCUGGAc -3' miRNA: 3'- -GCuuA----AAGCU---UAGGCGGCGa---GGCCUa -5' |
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| 9030 | 5' | -52.5 | NC_002512.2 | + | 131068 | 0.72 | 0.876258 |
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Target: 5'- cCGGAgg-CcGAUCCGUCGCUCCGGc- -3' miRNA: 3'- -GCUUaaaGcUUAGGCGGCGAGGCCua -5' |
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| 9030 | 5' | -52.5 | NC_002512.2 | + | 158324 | 0.74 | 0.803782 |
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Target: 5'- cCGGcg--CGAGUCCG-CGCUCCGGAc -3' miRNA: 3'- -GCUuaaaGCUUAGGCgGCGAGGCCUa -5' |
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| 9030 | 5' | -52.5 | NC_002512.2 | + | 88483 | 0.75 | 0.738549 |
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Target: 5'- aGGAUcUUCGGguggAUCCgcaGCCGCUCCGGGUg -3' miRNA: 3'- gCUUA-AAGCU----UAGG---CGGCGAGGCCUA- -5' |
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| 9030 | 5' | -52.5 | NC_002512.2 | + | 155063 | 0.77 | 0.628117 |
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Target: 5'- cCGAGUugUUCGuccgCCGCCGCUgCCGGGUg -3' miRNA: 3'- -GCUUA--AAGCuua-GGCGGCGA-GGCCUA- -5' |
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| 9030 | 5' | -52.5 | NC_002512.2 | + | 154581 | 1.05 | 0.016272 |
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Target: 5'- uCGAAUUUCGAAUCCGCCGCUCCGGAUu -3' miRNA: 3'- -GCUUAAAGCUUAGGCGGCGAGGCCUA- -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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