miRNA: 3'- guUCCCGUUCGa--GGCGCGGuu--CCCGg -5'
miRNA: 3'- gUUCC-CGUUCGAGgCgCGgUUCCCGg -5'
miRNA: 3'- guuCCCGUUCGa-----GGCGCgGUUCCCGG- -5'
miRNA: 3'- gUUCCCGU--UCGAGgCGCGGU-----UCCCGg -5'
miRNA: 3'- -GUUCCCGUUCGAGGCGCGGUUCCCGG- -5'
Results 21 - 25 of 25 are showing below:
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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 | |||||||
| 92 | 3' | -59.6 | AC_000006.1 | + | 13129 | 0.73 | 0.11507 |
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Target: 5'- -cAGGGUGAGCcggCCGCGCUugcuGGGCg -3' miRNA: 3'- guUCCCGUUCGa--GGCGCGGuu--CCCGg -5' |
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| 92 | 3' | -59.6 | AC_000006.1 | + | 1172 | 0.74 | 0.094148 |
|
Target: 5'- uGAGGcGCGAGCUCaGgGCgGAGGGCa -3' miRNA: 3'- gUUCC-CGUUCGAGgCgCGgUUCCCGg -5' |
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| 92 | 3' | -59.6 | AC_000006.1 | + | 10882 | 0.74 | 0.09147 |
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Target: 5'- --cGGGCGGGCagggagCUGCG-CGAGGGCCu -3' miRNA: 3'- guuCCCGUUCGa-----GGCGCgGUUCCCGG- -5' |
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| 92 | 3' | -59.6 | AC_000006.1 | + | 20317 | 0.79 | 0.040228 |
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Target: 5'- gAAGGGCAugAGCUCgGCGCCGaccacGGGGUa -3' miRNA: 3'- gUUCCCGU--UCGAGgCGCGGU-----UCCCGg -5' |
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| 92 | 3' | -59.6 | AC_000006.1 | + | 29765 | 1.11 | 0.000115 |
|
Target: 5'- cCAAGGGCAAGCUCCGCGCCAAGGGCCa -3' miRNA: 3'- -GUUCCCGUUCGAGGCGCGGUUCCCGG- -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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