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miRNA: 3'- aUUGCCGUCG----CCAUuC-GGCCAC-UCac -5'
miRNA: 3'- aUUGCCGUCGCCAUUc--GGCCacUCAC- -5'
miRNA: 3'- auugCCG----UCGCCAUu-CGGCC-ACUCAC- -5'
miRNA: 3'- aUUGCCGUCgCCa------UUCGG-CCACUCAC- -5'
miRNA: 3'- -AUUGCCGUCGCCAUUCGGCCACUCAC- -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#
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P value |
| Predicted miRNA align pattern | |||||||
| 21776 | 5' | -55.9 | NC_004813.1 | + | 40535 | 0.66 | 0.654635 |
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Target: 5'- aGACGGCGGCaaacGGUAuGuCCGGUGcGGg- -3' miRNA: 3'- aUUGCCGUCG----CCAUuC-GGCCAC-UCac -5' |
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| 21776 | 5' | -55.9 | NC_004813.1 | + | 31749 | 0.68 | 0.534046 |
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Target: 5'- cGGCGGUGGCGGUGAucaCCGG--AGUGa -3' miRNA: 3'- aUUGCCGUCGCCAUUc--GGCCacUCAC- -5' |
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| 21776 | 5' | -55.9 | NC_004813.1 | + | 31035 | 0.68 | 0.555595 |
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Target: 5'- ---aGGUgucgGGCGGUGcuGCCGGcUGGGUGg -3' miRNA: 3'- auugCCG----UCGCCAUu-CGGCC-ACUCAC- -5' |
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| 21776 | 5' | -55.9 | NC_004813.1 | + | 41572 | 0.68 | 0.555595 |
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Target: 5'- gGAUGGCGGaGGauuugcaGAGCCuGGUGGGUGc -3' miRNA: 3'- aUUGCCGUCgCCa------UUCGG-CCACUCAC- -5' |
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| 21776 | 5' | -55.9 | NC_004813.1 | + | 45147 | 1.06 | 0.00126 |
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Target: 5'- uUAACGGCAGCGGUAAGCCGGUGAGUGu -3' miRNA: 3'- -AUUGCCGUCGCCAUUCGGCCACUCAC- -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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