miRNA: 3'- -GGu--GGUGg-CGUCUUcCAAGCCugAGC- -5'
miRNA: 3'- -GGUGGuGGCGUC-UUCCA--AGCC-------UGAGc -5'
miRNA: 3'- ggUGGUGGCGUCuuCcaa------GCCuGAGc -5'
miRNA: 3'- -GGUGGUGgCGUCuUCcaaGCCUGAgC- -5'
Results 21 - 24 of 24 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 | |||||||
| 19588 | 5' | -54.8 | NC_004686.1 | + | 33744 | 0.66 | 0.788017 |
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Target: 5'- gCCuugUCGCgaGCAGAGaGUUCGGugUCGa -3' miRNA: 3'- -GGu--GGUGg-CGUCUUcCAAGCCugAGC- -5' |
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| 19588 | 5' | -54.8 | NC_004686.1 | + | 5031 | 0.66 | 0.796708 |
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Target: 5'- cCCGCC-UCGCGGcGAGGUcgUCGGugaagguGCUCa -3' miRNA: 3'- -GGUGGuGGCGUC-UUCCA--AGCC-------UGAGc -5' |
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| 19588 | 5' | -54.8 | NC_004686.1 | + | 50620 | 0.66 | 0.797665 |
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Target: 5'- -aGCCGCCGCGGggGauuaccaggCGG-CUCa -3' miRNA: 3'- ggUGGUGGCGUCuuCcaa------GCCuGAGc -5' |
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| 19588 | 5' | -54.8 | NC_004686.1 | + | 3736 | 0.66 | 0.797665 |
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Target: 5'- gCCGCCAUgGCGGcGGcggCGGACUgGu -3' miRNA: 3'- -GGUGGUGgCGUCuUCcaaGCCUGAgC- -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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