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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
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Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 21263 | 3' | -52.9 | NC_004778.3 | + | 71435 | 0.67 | 0.949461 |
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Target: 5'- uGUCGgcggGGGCGUAGGCgagGGUGUCGg -3' miRNA: 3'- gCAGCaauaCCUGCGUUUG---CCGCGGU- -5' |
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| 21263 | 3' | -52.9 | NC_004778.3 | + | 71387 | 0.67 | 0.949461 |
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Target: 5'- uGUCGgcggGGGCGUAGGCgagGGUGUCGg -3' miRNA: 3'- gCAGCaauaCCUGCGUUUG---CCGCGGU- -5' |
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| 21263 | 3' | -52.9 | NC_004778.3 | + | 30041 | 0.67 | 0.940348 |
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Target: 5'- uCGUCaGUaGUGaACGCAAACG-CGCCGu -3' miRNA: 3'- -GCAG-CAaUACcUGCGUUUGCcGCGGU- -5' |
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| 21263 | 3' | -52.9 | NC_004778.3 | + | 1660 | 0.67 | 0.940348 |
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Target: 5'- gCGUCGUUGgcaccuucgguuUGGgugcggccagcaGCGCGAGCaGGCGCa- -3' miRNA: 3'- -GCAGCAAU------------ACC------------UGCGUUUG-CCGCGgu -5' |
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| 21263 | 3' | -52.9 | NC_004778.3 | + | 71315 | 0.67 | 0.949461 |
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Target: 5'- uGUCGgcggGGGCGUAGGCgagGGUGUCGg -3' miRNA: 3'- gCAGCaauaCCUGCGUUUG---CCGCGGU- -5' |
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| 21263 | 3' | -52.9 | NC_004778.3 | + | 96871 | 0.68 | 0.93234 |
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Target: 5'- uGUCGUacguaaacgugacgcUAUGcGCGU--ACGGCGCCGu -3' miRNA: 3'- gCAGCA---------------AUACcUGCGuuUGCCGCGGU- -5' |
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| 21263 | 3' | -52.9 | NC_004778.3 | + | 113893 | 0.68 | 0.924804 |
|
Target: 5'- gCG-CGUc--GGGCGaAGGCGGCGCCGc -3' miRNA: 3'- -GCaGCAauaCCUGCgUUUGCCGCGGU- -5' |
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| 21263 | 3' | -52.9 | NC_004778.3 | + | 62793 | 0.68 | 0.919119 |
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Target: 5'- gGUCGUgccgGUGGACaCAAAUGGguggGCCGa -3' miRNA: 3'- gCAGCAa---UACCUGcGUUUGCCg---CGGU- -5' |
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| 21263 | 3' | -52.9 | NC_004778.3 | + | 9199 | 0.69 | 0.886961 |
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Target: 5'- uGUUGUggaaaGUGGACGac-ACGGUGCCc -3' miRNA: 3'- gCAGCAa----UACCUGCguuUGCCGCGGu -5' |
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| 21263 | 3' | -52.9 | NC_004778.3 | + | 6837 | 0.78 | 0.406962 |
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Target: 5'- aCGggCGcccccugUGUGGACGCAGGCGGCGCg- -3' miRNA: 3'- -GCa-GCa------AUACCUGCGUUUGCCGCGgu -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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