miRNA: 3'- aUUGACCUGu---CGa-CGCUa------GGUGGAGC- -5'
miRNA: 3'- aUUGACCUGU-CG---------ACGCUAG-GuGGAGc -5'
miRNA: 3'- auUGACCUGUCGACGcuaGGUGGagc -5'
miRNA: 3'- -AUUGacCUGUCGACGCUAGGUGGAGC- -5'
miRNA: 3'- -AUUGACCUGUCGACGCUAGGUGGAGC- -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 | |||||||
| 13366 | 5' | -54.6 | NC_003409.1 | + | 109538 | 0.66 | 0.928153 |
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Target: 5'- cAGCUGGACcacuGCcgGCGGacaugcgCCACUUCGc -3' miRNA: 3'- aUUGACCUGu---CGa-CGCUa------GGUGGAGC- -5' |
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| 13366 | 5' | -54.6 | NC_003409.1 | + | 74352 | 0.66 | 0.916843 |
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Target: 5'- cAGCUGGACAcGCcaccgccucUGCGGUCaC-CCUCc -3' miRNA: 3'- aUUGACCUGU-CG---------ACGCUAG-GuGGAGc -5' |
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| 13366 | 5' | -54.6 | NC_003409.1 | + | 101614 | 0.66 | 0.90453 |
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Target: 5'- -uACUGGGCAGCUGCa--CUACCc-- -3' miRNA: 3'- auUGACCUGUCGACGcuaGGUGGagc -5' |
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| 13366 | 5' | -54.6 | NC_003409.1 | + | 109735 | 0.78 | 0.321964 |
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Target: 5'- gUAAUaaGGCAGCUGUGGUCCACCUUGc -3' miRNA: 3'- -AUUGacCUGUCGACGCUAGGUGGAGC- -5' |
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| 13366 | 5' | -54.6 | NC_003409.1 | + | 15002 | 1.06 | 0.004503 |
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Target: 5'- gUAACUGGACAGCUGCGAUCCACCUCGc -3' miRNA: 3'- -AUUGACCUGUCGACGCUAGGUGGAGC- -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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