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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 361 | 3' | -52.1 | AC_000011.1 | + | 3042 | 0.67 | 0.733121 |
|
Target: 5'- -cUGUUC-CCGCCGGCGCaggUCAg-- -3' miRNA: 3'- gaACAAGaGGUGGUCGCGca-AGUgcu -5' |
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| 361 | 3' | -52.1 | AC_000011.1 | + | 3685 | 0.69 | 0.572573 |
|
Target: 5'- ----aUCUgCCGCCAGCGCcGUgCGCGGa -3' miRNA: 3'- gaacaAGA-GGUGGUCGCG-CAaGUGCU- -5' |
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| 361 | 3' | -52.1 | AC_000011.1 | + | 5771 | 0.71 | 0.462238 |
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Target: 5'- --cGUUgUCCACCAGCGgGUcCACc- -3' miRNA: 3'- gaaCAAgAGGUGGUCGCgCAaGUGcu -5' |
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| 361 | 3' | -52.1 | AC_000011.1 | + | 8321 | 0.67 | 0.710709 |
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Target: 5'- aCUUGaUCUCCACC-GCGCcauuggUgGCGAc -3' miRNA: 3'- -GAACaAGAGGUGGuCGCGca----AgUGCU- -5' |
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| 361 | 3' | -52.1 | AC_000011.1 | + | 8775 | 0.71 | 0.451795 |
|
Target: 5'- uCUUGaaggUCUCCgcgGCCGGCGCGcucCACGGu -3' miRNA: 3'- -GAACa---AGAGG---UGGUCGCGCaa-GUGCU- -5' |
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| 361 | 3' | -52.1 | AC_000011.1 | + | 12304 | 1.09 | 0.001176 |
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Target: 5'- cCUUGUUCUCCACCAGCGCGUUCACGAu -3' miRNA: 3'- -GAACAAGAGGUGGUCGCGCAAGUGCU- -5' |
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| 361 | 3' | -52.1 | AC_000011.1 | + | 12355 | 0.67 | 0.710709 |
|
Target: 5'- --cGcgCUCCAgCAGCGCGUUgUACa- -3' miRNA: 3'- gaaCaaGAGGUgGUCGCGCAA-GUGcu -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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