miRNA: 3'- -GUAGGa----GCCGGCgCAUCA--GCGU-UGGg -5'
miRNA: 3'- -GUAGGAgcCGGCGCAUCAgc-GUugGG- -5'
miRNA: 3'- guaGGAGCCGGCGcaucaGCGUUGgg -5'
miRNA: 3'- gUAgGAGcCGGCgCAUCAGC-GUUGGG- -5'
miRNA: 3'- -GUAGGAGCCGGCGCAUCAGCGUUGGG- -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 | |||||||
| 8872 | 3' | -56.7 | NC_002484.1 | + | 26125 | 0.66 | 0.659029 |
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Target: 5'- gCAUCCaacugCGGCCG-GUAGUgcCGCGcGCCg -3' miRNA: 3'- -GUAGGa----GCCGGCgCAUCA--GCGU-UGGg -5' |
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| 8872 | 3' | -56.7 | NC_002484.1 | + | 13051 | 0.67 | 0.615802 |
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Target: 5'- uCAUCCUgaGCCGCGUAGUacuCAugCUg -3' miRNA: 3'- -GUAGGAgcCGGCGCAUCAgc-GUugGG- -5' |
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| 8872 | 3' | -56.7 | NC_002484.1 | + | 6722 | 0.68 | 0.551534 |
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Target: 5'- --aCCUCGGCCGCcuug-CGCAGCg- -3' miRNA: 3'- guaGGAGCCGGCGcaucaGCGUUGgg -5' |
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| 8872 | 3' | -56.7 | NC_002484.1 | + | 18430 | 0.68 | 0.530523 |
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Target: 5'- aAUgCUCaGCCG-GUAGUCGuCGAUCCu -3' miRNA: 3'- gUAgGAGcCGGCgCAUCAGC-GUUGGG- -5' |
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| 8872 | 3' | -56.7 | NC_002484.1 | + | 53669 | 1.12 | 0.000501 |
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Target: 5'- cCAUCCUCGGCCGCGUAGUCGCAACCCa -3' miRNA: 3'- -GUAGGAGCCGGCGCAUCAGCGUUGGG- -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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