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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 | |||||||
| 20917 | 3' | -53.9 | NC_004689.1 | + | 47225 | 0.67 | 0.805684 |
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Target: 5'- gGGGGCaGUCGCGGaucgCGGCGUucCCCu -3' miRNA: 3'- -UCCCGcUAGUGCUg---GUUGCAuuGGGu -5' |
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| 20917 | 3' | -53.9 | NC_004689.1 | + | 21361 | 0.67 | 0.805684 |
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Target: 5'- cGGG-GAUCGCG-CCAACuUGACCg- -3' miRNA: 3'- uCCCgCUAGUGCuGGUUGcAUUGGgu -5' |
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| 20917 | 3' | -53.9 | NC_004689.1 | + | 22248 | 0.67 | 0.796168 |
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Target: 5'- cGGaGCGGUCcacguaguuGCGACCGGCcagcgGACCCu -3' miRNA: 3'- uCC-CGCUAG---------UGCUGGUUGca---UUGGGu -5' |
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| 20917 | 3' | -53.9 | NC_004689.1 | + | 2926 | 0.68 | 0.746285 |
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Target: 5'- uGGGCGAUUcCGGCUGAUuu-ACCCAu -3' miRNA: 3'- uCCCGCUAGuGCUGGUUGcauUGGGU- -5' |
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| 20917 | 3' | -53.9 | NC_004689.1 | + | 39674 | 0.7 | 0.628495 |
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Target: 5'- --cGCGAUCAUGuCCAACGUGAUCg- -3' miRNA: 3'- uccCGCUAGUGCuGGUUGCAUUGGgu -5' |
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| 20917 | 3' | -53.9 | NC_004689.1 | + | 70407 | 0.71 | 0.585037 |
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Target: 5'- cGGGUGc-CACGACCAugGUcGGCUCAu -3' miRNA: 3'- uCCCGCuaGUGCUGGUugCA-UUGGGU- -5' |
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| 20917 | 3' | -53.9 | NC_004689.1 | + | 51274 | 0.72 | 0.521148 |
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Target: 5'- -cGGCugcugguUCGCGGCCAACGUggUCCAg -3' miRNA: 3'- ucCCGcu-----AGUGCUGGUUGCAuuGGGU- -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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