miRNA: 3'- ccaaGG-GUGUGGUCa-------------UCCUCAUCAUc -5'
miRNA: 3'- -CC-AAGGGUGuGGUCAu---CCUCAUCAuc -5'
miRNA: 3'- ccaaGGGUGUGGUcaUCCUCa--UCAUC- -5'
miRNA: 3'- -CCAAGGGUGUGGUCAUCCUCAUCAUC- -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 | |||||||
| 22051 | 5' | -50.8 | NC_004927.1 | + | 41113 | 0.66 | 0.954784 |
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Target: 5'- ---aCCaCACACCGGgggauuauaaaacgGGGGGUAGUGu -3' miRNA: 3'- ccaaGG-GUGUGGUCa-------------UCCUCAUCAUc -5' |
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| 22051 | 5' | -50.8 | NC_004927.1 | + | 6114 | 0.67 | 0.943885 |
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Target: 5'- gGGuUUCCCAU-CCAGUccucGGGGUAGUc- -3' miRNA: 3'- -CC-AAGGGUGuGGUCAu---CCUCAUCAuc -5' |
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| 22051 | 5' | -50.8 | NC_004927.1 | + | 38710 | 0.68 | 0.909653 |
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Target: 5'- ---gCCCGCGCCGugGGGAGccgAGUAGu -3' miRNA: 3'- ccaaGGGUGUGGUcaUCCUCa--UCAUC- -5' |
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| 22051 | 5' | -50.8 | NC_004927.1 | + | 28399 | 1.13 | 0.002498 |
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Target: 5'- cGGUUCCCACACCAGUAGGAGUAGUAGa -3' miRNA: 3'- -CCAAGGGUGUGGUCAUCCUCAUCAUC- -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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