miRNA: 3'- caCGUCGC-AC-CUGA-UGACGcCGGACG- -5'
miRNA: 3'- caCGUCGCacCUGA-UGACGCCGgaCG- -5'
miRNA: 3'- caCGUCGCA-CC-----UGAUGACGC--------CGGACG- -5'
miRNA: 3'- -CACGUCGCACCUGAUGACGCCGGACG- -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 | |||||||
| 12166 | 5' | -57.9 | NC_003309.1 | + | 4616 | 0.66 | 0.517381 |
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Target: 5'- -gGCAGCGaUGcGAUUgAUUGCuGCCUGUg -3' miRNA: 3'- caCGUCGC-AC-CUGA-UGACGcCGGACG- -5' |
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| 12166 | 5' | -57.9 | NC_003309.1 | + | 32391 | 0.68 | 0.417633 |
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Target: 5'- -aGCGGCGacGGCUcGCUGCGGCg-GCc -3' miRNA: 3'- caCGUCGCacCUGA-UGACGCCGgaCG- -5' |
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| 12166 | 5' | -57.9 | NC_003309.1 | + | 15335 | 0.71 | 0.270987 |
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Target: 5'- -cGCAGCGUcGGcgaugGCUGCUGCGcgucggauGUCUGCu -3' miRNA: 3'- caCGUCGCA-CC-----UGAUGACGC--------CGGACG- -5' |
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| 12166 | 5' | -57.9 | NC_003309.1 | + | 39466 | 1.11 | 0.000312 |
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Target: 5'- cGUGCAGCGUGGACUACUGCGGCCUGCu -3' miRNA: 3'- -CACGUCGCACCUGAUGACGCCGGACG- -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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