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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 | |||||||
| 29165 | 3' | -56.7 | NC_006150.1 | + | 4108 | 0.67 | 0.902658 |
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Target: 5'- uGGGGUAGCgguggUuuuguccggcugcguGUgccuaCGGUCCGUGCGCGc -3' miRNA: 3'- gUCCCAUCGa----A---------------CA-----GCUAGGCGCGCGU- -5' |
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| 29165 | 3' | -56.7 | NC_006150.1 | + | 168924 | 0.67 | 0.893827 |
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Target: 5'- -uGGGccgcuguccUGGCaaGUCGGUCCGC-CGCAc -3' miRNA: 3'- guCCC---------AUCGaaCAGCUAGGCGcGCGU- -5' |
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| 29165 | 3' | -56.7 | NC_006150.1 | + | 147835 | 0.68 | 0.873479 |
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Target: 5'- aAGGGUGGCUgUGUUGuaCCGUgGUGCAa -3' miRNA: 3'- gUCCCAUCGA-ACAGCuaGGCG-CGCGU- -5' |
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| 29165 | 3' | -56.7 | NC_006150.1 | + | 148311 | 0.68 | 0.858879 |
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Target: 5'- gGGGGaGGUgaccgUGAUCCGCGCGUc -3' miRNA: 3'- gUCCCaUCGaaca-GCUAGGCGCGCGu -5' |
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| 29165 | 3' | -56.7 | NC_006150.1 | + | 111288 | 0.69 | 0.793204 |
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Target: 5'- gUAGGGUAGUcUGUCG--CCGUGgGCGc -3' miRNA: 3'- -GUCCCAUCGaACAGCuaGGCGCgCGU- -5' |
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| 29165 | 3' | -56.7 | NC_006150.1 | + | 13350 | 1.07 | 0.004477 |
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Target: 5'- uCAGGGUAGCUUGUCGAUCCGCGCGCAc -3' miRNA: 3'- -GUCCCAUCGAACAGCUAGGCGCGCGU- -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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