miRNA: 3'- -AGACGUUaGUa-CGGGUGUA--GgUCUAG- -5'
miRNA: 3'- agACGU---UAGUACGGGUGu-AGgUCUag -5'
miRNA: 3'- -AGAC-GUUAGUA--CGGGuguAGGUCUAG- -5'
miRNA: 3'- agACGUuAGUACGGGUGu----AGGUCUag -5'
miRNA: 3'- -AGACGUUAGUACGGGUGUAGGUCUAG- -5'
Results 1 - 5 of 5 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 | |||||||
| 723 | 3' | -50.8 | AC_000019.1 | + | 11913 | 0.67 | 0.710692 |
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Target: 5'- cUCUGCAG-CGccGCCCGCAUugCgGGAUCc -3' miRNA: 3'- -AGACGUUaGUa-CGGGUGUA--GgUCUAG- -5' |
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| 723 | 3' | -50.8 | AC_000019.1 | + | 6028 | 0.68 | 0.663572 |
|
Target: 5'- -gUGCAgagGUCAUGCCCGCcuUCgAGAg- -3' miRNA: 3'- agACGU---UAGUACGGGUGu-AGgUCUag -5' |
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| 723 | 3' | -50.8 | AC_000019.1 | + | 23359 | 0.7 | 0.556746 |
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Target: 5'- uUCUGcCAGUCAUccGCCU---UCCAGGUCg -3' miRNA: 3'- -AGAC-GUUAGUA--CGGGuguAGGUCUAG- -5' |
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| 723 | 3' | -50.8 | AC_000019.1 | + | 8833 | 0.76 | 0.272155 |
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Target: 5'- -aUGCAuUCAUGCCCGCcucguUCCAGAc- -3' miRNA: 3'- agACGUuAGUACGGGUGu----AGGUCUag -5' |
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| 723 | 3' | -50.8 | AC_000019.1 | + | 22135 | 1.11 | 0.000956 |
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Target: 5'- aUCUGCAAUCAUGCCCACAUCCAGAUCu -3' miRNA: 3'- -AGACGUUAGUACGGGUGUAGGUCUAG- -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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