miRNA: 3'- -AGGaAACGGUGGUucgaaCUGUUAUU- -5'
miRNA: 3'- -AGGAaaCGGUGguUCGAaCUGUUAuu -5'
miRNA: 3'- aGGA--AACGGUGGUUCGaa-CUGUuauu -5'
miRNA: 3'- -AGGAAACGGUGGUUCGAACUGUUAUU- -5'
Results 1 - 4 of 4 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 | |||||||
| 93 | 5' | -47.5 | AC_000006.1 | + | 7827 | 0.66 | 0.936424 |
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Target: 5'- uUCCaUUGCUACCAug---GACAGUGAc -3' miRNA: 3'- -AGGaAACGGUGGUucgaaCUGUUAUU- -5' |
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| 93 | 5' | -47.5 | AC_000006.1 | + | 33921 | 0.67 | 0.878412 |
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Target: 5'- gUCCUggGCCACacAGCU-GACAAUu- -3' miRNA: 3'- -AGGAaaCGGUGguUCGAaCUGUUAuu -5' |
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| 93 | 5' | -47.5 | AC_000006.1 | + | 29528 | 0.72 | 0.65954 |
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Target: 5'- gCCUguUUGUCACCGAGCgcgGACAc--- -3' miRNA: 3'- aGGA--AACGGUGGUUCGaa-CUGUuauu -5' |
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| 93 | 5' | -47.5 | AC_000006.1 | + | 29019 | 1.08 | 0.003362 |
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Target: 5'- cUCCUUUGCCACCAAGCUUGACAAUAAa -3' miRNA: 3'- -AGGAAACGGUGGUUCGAACUGUUAUU- -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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