miRNA: 3'- -CGUGAUu--UCGuuCCGGa-CGGGUGGUG- -5'
miRNA: 3'- -CGUGAUUUCGU--------------UCCGGaCGGG------UGGUg -5'
miRNA: 3'- -CGUGau--UUCGUUCCGGacgGGUGGUG- -5'
miRNA: 3'- -CGUGAUUUCGUUCCGGACGGGUGGUG- -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 | |||||||
| 260 | 5' | -54.4 | AC_000008.1 | + | 17621 | 0.72 | 0.259265 |
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Target: 5'- uGCACUGccuGGUu-GGCCagGUCCACCACc -3' miRNA: 3'- -CGUGAUu--UCGuuCCGGa-CGGGUGGUG- -5' |
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| 260 | 5' | -54.4 | AC_000008.1 | + | 23295 | 0.73 | 0.230476 |
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Target: 5'- cGCGCUGAAGCAgcgcgucguagaccAGGCCgGCCUcgucggGCCGg -3' miRNA: 3'- -CGUGAUUUCGU--------------UCCGGaCGGG------UGGUg -5' |
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| 260 | 5' | -54.4 | AC_000008.1 | + | 19659 | 0.77 | 0.135058 |
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Target: 5'- uGCGCgguuAAGCAGGGCCg--CCGCCGCg -3' miRNA: 3'- -CGUGau--UUCGUUCCGGacgGGUGGUG- -5' |
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| 260 | 5' | -54.4 | AC_000008.1 | + | 18443 | 1.11 | 0.000419 |
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Target: 5'- gGCACUAAAGCAAGGCCUGCCCACCACc -3' miRNA: 3'- -CGUGAUUUCGUUCCGGACGGGUGGUG- -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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