miRNA: 3'- auuCACGAUG----UCAGCacu-CGUCUAGU- -5'
miRNA: 3'- auuCACGAUG----UCAGCacu-CGUCUAGU- -5'
miRNA: 3'- aUUCACGAUG-------UC-AGCACU-CGUC-UAGU- -5'
miRNA: 3'- -AUUCACGAUGUCAGCACUCGUCUAGU- -5'
miRNA: 3'- -AUUCACGAUGUCAGCACUCGUCUAGU- -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 | |||||||
| 8618 | 5' | -50 | NC_002229.2 | + | 134474 | 0.67 | 0.991866 |
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Target: 5'- --uGUGCUGCugagAGUCGcaauGCGGAUCAu -3' miRNA: 3'- auuCACGAUG----UCAGCacu-CGUCUAGU- -5' |
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| 8618 | 5' | -50 | NC_002229.2 | + | 4237 | 0.67 | 0.991866 |
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Target: 5'- --uGUGCUGCugagAGUCGcaauGCGGAUCAu -3' miRNA: 3'- auuCACGAUG----UCAGCacu-CGUCUAGU- -5' |
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| 8618 | 5' | -50 | NC_002229.2 | + | 72718 | 0.67 | 0.989162 |
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Target: 5'- aAAGUGCUAUuuuacuuAGaUCGUGAaGCAGgAUCGu -3' miRNA: 3'- aUUCACGAUG-------UC-AGCACU-CGUC-UAGU- -5' |
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| 8618 | 5' | -50 | NC_002229.2 | + | 3748 | 1.08 | 0.012164 |
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Target: 5'- cUAAGUGCUACAGUCGUGAGCAGAUCAa -3' miRNA: 3'- -AUUCACGAUGUCAGCACUCGUCUAGU- -5' |
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| 8618 | 5' | -50 | NC_002229.2 | + | 134963 | 1.08 | 0.012164 |
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Target: 5'- cUAAGUGCUACAGUCGUGAGCAGAUCAa -3' miRNA: 3'- -AUUCACGAUGUCAGCACUCGUCUAGU- -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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