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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
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R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 12490 | 3' | -53.6 | NC_003324.1 | + | 14679 | 0.66 | 0.794419 |
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Target: 5'- cGACGAACAucAUGGGGcagggcuUCCaaGGUGCGa- -3' miRNA: 3'- -UUGUUUGU--UACCCC-------AGGa-CCACGCgg -5' |
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| 12490 | 3' | -53.6 | NC_003324.1 | + | 28608 | 0.66 | 0.775231 |
|
Target: 5'- cGGCAGGCcucAGUGGucucGGUCCgaaGG-GCGCCc -3' miRNA: 3'- -UUGUUUG---UUACC----CCAGGa--CCaCGCGG- -5' |
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| 12490 | 3' | -53.6 | NC_003324.1 | + | 29947 | 0.7 | 0.544214 |
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Target: 5'- gGACGGGCGAgGGGcGUCCUGcGUaGCGgCg -3' miRNA: 3'- -UUGUUUGUUaCCC-CAGGAC-CA-CGCgG- -5' |
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| 12490 | 3' | -53.6 | NC_003324.1 | + | 42364 | 0.67 | 0.743834 |
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Target: 5'- cAGCAAGCAc----GUUCUGGUGCGUCg -3' miRNA: 3'- -UUGUUUGUuacccCAGGACCACGCGG- -5' |
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| 12490 | 3' | -53.6 | NC_003324.1 | + | 46740 | 0.67 | 0.743834 |
|
Target: 5'- --aGAGCAcgGGGcGcCgaGGUGUGCCc -3' miRNA: 3'- uugUUUGUuaCCC-CaGgaCCACGCGG- -5' |
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| 12490 | 3' | -53.6 | NC_003324.1 | + | 51185 | 0.71 | 0.490539 |
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Target: 5'- uGACGAGCg--GGGGUUCUGaGaUGCGCg -3' miRNA: 3'- -UUGUUUGuuaCCCCAGGAC-C-ACGCGg -5' |
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| 12490 | 3' | -53.6 | NC_003324.1 | + | 53878 | 1 | 0.006267 |
|
Target: 5'- cAACAAACAAUGGGG-CCUGGUGCGCCc -3' miRNA: 3'- -UUGUUUGUUACCCCaGGACCACGCGG- -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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