miRNA: 3'- auuagaGCCCCUa----CCCCU-UCaGCCUG- -5'
miRNA: 3'- auuagAGCCCcuaCCCCUUCAGCCuG- -5'
miRNA: 3'- auuagAGCCCC----UACCCCU--UCAGCCuG- -5'
miRNA: 3'- auUAGAGCCCCuaccCCUUCAGCCUg -5'
miRNA: 3'- -AUUagAGCC-CCUACCCCUUCAG---------------CCUG- -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 | |||||||
| 22150 | 5' | -55.2 | NC_004927.1 | + | 443 | 0.66 | 0.795439 |
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Target: 5'- -----aCGGGGAgagacGGGGAgAGaCGGACg -3' miRNA: 3'- auuagaGCCCCUa----CCCCU-UCaGCCUG- -5' |
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| 22150 | 5' | -55.2 | NC_004927.1 | + | 13036 | 0.66 | 0.785797 |
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Target: 5'- ----gUCGGGaa-GGGGGAGUCGG-Ca -3' miRNA: 3'- auuagAGCCCcuaCCCCUUCAGCCuG- -5' |
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| 22150 | 5' | -55.2 | NC_004927.1 | + | 75541 | 0.68 | 0.650292 |
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Target: 5'- ----gUCGGGGucggAUGGGGAggGGUCGG-Cu -3' miRNA: 3'- auuagAGCCCC----UACCCCU--UCAGCCuG- -5' |
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| 22150 | 5' | -55.2 | NC_004927.1 | + | 4853 | 0.73 | 0.386461 |
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Target: 5'- -cAUCUCGGGGucguGGAAGUCGGGa -3' miRNA: 3'- auUAGAGCCCCuaccCCUUCAGCCUg -5' |
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| 22150 | 5' | -55.2 | NC_004927.1 | + | 69798 | 0.73 | 0.372507 |
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Target: 5'- gUAGagUCGGcGGGUGGGGAGGUCaagucccgagagucgGGGCg -3' miRNA: 3'- -AUUagAGCC-CCUACCCCUUCAG---------------CCUG- -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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