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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 | |||||||
| 21228 | 3' | -50.1 | NC_004778.3 | + | 89400 | 0.66 | 0.987645 |
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Target: 5'- --gGUUUCGCUCGGuGCUGGUGUaCAa -3' miRNA: 3'- auaUAAGGCGAGUU-UGACCGCGaGUc -5' |
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| 21228 | 3' | -50.1 | NC_004778.3 | + | 32291 | 0.67 | 0.982011 |
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Target: 5'- -----gCCGUgUCGGGCUGGUGCUUAa -3' miRNA: 3'- auauaaGGCG-AGUUUGACCGCGAGUc -5' |
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| 21228 | 3' | -50.1 | NC_004778.3 | + | 56913 | 0.68 | 0.971749 |
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Target: 5'- cGUcgUCCGCgcu-GCUGGCGCa--- -3' miRNA: 3'- aUAuaAGGCGaguuUGACCGCGaguc -5' |
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| 21228 | 3' | -50.1 | NC_004778.3 | + | 83672 | 0.7 | 0.923462 |
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Target: 5'- cAUGUUCCGCcggCGAACUGGaGCUa-- -3' miRNA: 3'- aUAUAAGGCGa--GUUUGACCgCGAguc -5' |
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| 21228 | 3' | -50.1 | NC_004778.3 | + | 68254 | 0.71 | 0.890768 |
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Target: 5'- gGUGgaugCUGCguc-GCUGGCGCUCGGg -3' miRNA: 3'- aUAUaa--GGCGaguuUGACCGCGAGUC- -5' |
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| 21228 | 3' | -50.1 | NC_004778.3 | + | 60512 | 0.72 | 0.851597 |
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Target: 5'- -----aCCGCUgGAGCUGGCGCg--- -3' miRNA: 3'- auauaaGGCGAgUUUGACCGCGaguc -5' |
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| 21228 | 3' | -50.1 | NC_004778.3 | + | 87999 | 0.77 | 0.595809 |
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Target: 5'- -----cCCGUUCAAACUGugcGCGCUCAGa -3' miRNA: 3'- auauaaGGCGAGUUUGAC---CGCGAGUC- -5' |
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| 21228 | 3' | -50.1 | NC_004778.3 | + | 61544 | 1.07 | 0.010025 |
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Target: 5'- uUAUAUUCCGCUCAAACUGGCGCUCAGc -3' miRNA: 3'- -AUAUAAGGCGAGUUUGACCGCGAGUC- -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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