miRNA: 3'- -GUGGU--UGUacCUG----UGGUGCGCGUaGG- -5'
miRNA: 3'- gUGGUU---GUACCugUGGUgcgCGUAGg -5'
miRNA: 3'- -GUGGUUGUaCCuGUGGUGC-------GCGUAGg -5'
miRNA: 3'- -GUG-GUUG----UACCUGUGGUGcGCGUAGg -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 | |||||||
| 459 | 5' | -53.3 | AC_000013.1 | + | 30225 | 0.66 | 0.749331 |
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Target: 5'- uCGCCAaaACGcaGACuucuGCCACGCGCG-CCg -3' miRNA: 3'- -GUGGU--UGUacCUG----UGGUGCGCGUaGG- -5' |
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| 459 | 5' | -53.3 | AC_000013.1 | + | 16344 | 0.66 | 0.759923 |
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Target: 5'- aACCAAaguCGUGGugACCAa--GCAUCg -3' miRNA: 3'- gUGGUU---GUACCugUGGUgcgCGUAGg -5' |
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| 459 | 5' | -53.3 | AC_000013.1 | + | 11374 | 0.66 | 0.769339 |
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Target: 5'- gCACCAACGaGGcCAUCACGgacaaccUGCGUCg -3' miRNA: 3'- -GUGGUUGUaCCuGUGGUGC-------GCGUAGg -5' |
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| 459 | 5' | -53.3 | AC_000013.1 | + | 41459 | 0.66 | 0.790825 |
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Target: 5'- gCGCuCGACuucaAUGGAUGCCGC-CGUAUCa -3' miRNA: 3'- -GUG-GUUG----UACCUGUGGUGcGCGUAGg -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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