miRNA: 3'- acUCCaCCGUGC-GCCaGUCGCAGaac -5'
miRNA: 3'- aCuCCACCGU-----------GCGCCAGUCgCAgaac -5'
miRNA: 3'- acuCCaCCGUGCGCCa--GUCGCagaac -5'
miRNA: 3'- aCuCCACCG--UGCGCCaGU--CGCAGaac -5'
miRNA: 3'- acuC-CACCGUGCGCcAgUCGCAGaac -5'
Results 21 - 25 of 25 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 | |||||||
| 25685 | 5' | -57.1 | NC_005337.1 | + | 98484 | 0.66 | 0.819838 |
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Target: 5'- -cAGG-GGCGCGcCGG-CGGCGUCc-- -3' miRNA: 3'- acUCCaCCGUGC-GCCaGUCGCAGaac -5' |
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| 25685 | 5' | -57.1 | NC_005337.1 | + | 31642 | 0.66 | 0.828383 |
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Target: 5'- cGcGGUGGCAgaucagcgaguCGCGGUCGGgGUa--- -3' miRNA: 3'- aCuCCACCGU-----------GCGCCAGUCgCAgaac -5' |
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| 25685 | 5' | -57.1 | NC_005337.1 | + | 96093 | 0.66 | 0.844924 |
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Target: 5'- --cGG-GGCACGCGGgcgCGGCGg---- -3' miRNA: 3'- acuCCaCCGUGCGCCa--GUCGCagaac -5' |
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| 25685 | 5' | -57.1 | NC_005337.1 | + | 77464 | 0.66 | 0.844924 |
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Target: 5'- cGuGGUGGCguGCGCGG-CGacGCGUCc-- -3' miRNA: 3'- aCuCCACCG--UGCGCCaGU--CGCAGaac -5' |
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| 25685 | 5' | -57.1 | NC_005337.1 | + | 39926 | 0.66 | 0.844924 |
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Target: 5'- --cGuGUGGCGCGCGcUgAGCGUCa-- -3' miRNA: 3'- acuC-CACCGUGCGCcAgUCGCAGaac -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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