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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
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R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 16262 | 3' | -55.1 | NC_004084.1 | + | 1515 | 0.69 | 0.491927 |
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Target: 5'- -cGACGaggacCUCUACACcGCUGUCGAc -3' miRNA: 3'- uaCUGCga---GAGGUGUGuCGACAGCUu -5' |
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| 16262 | 3' | -55.1 | NC_004084.1 | + | 28765 | 0.66 | 0.679684 |
|
Target: 5'- cAUGuaccaGCUgUCCGCGCGGUcGUCGAc -3' miRNA: 3'- -UACug---CGAgAGGUGUGUCGaCAGCUu -5' |
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| 16262 | 3' | -55.1 | NC_004084.1 | + | 29607 | 0.67 | 0.623607 |
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Target: 5'- -cGAUGCUCgcCCACAacggcaccUGGCUGUCGGc -3' miRNA: 3'- uaCUGCGAGa-GGUGU--------GUCGACAGCUu -5' |
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| 16262 | 3' | -55.1 | NC_004084.1 | + | 37545 | 0.66 | 0.657316 |
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Target: 5'- -aGACGCUCgauUCCAuCGcCGGCgcgGUCGAc -3' miRNA: 3'- uaCUGCGAG---AGGU-GU-GUCGa--CAGCUu -5' |
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| 16262 | 3' | -55.1 | NC_004084.1 | + | 39835 | 0.68 | 0.53475 |
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Target: 5'- gAUGGCGCUCgagUCCAUcggcggccGCGGCgccGUCGAGc -3' miRNA: 3'- -UACUGCGAG---AGGUG--------UGUCGa--CAGCUU- -5' |
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| 16262 | 3' | -55.1 | NC_004084.1 | + | 51865 | 1.04 | 0.0018 |
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Target: 5'- cAUGACGCUCUCCACACAGCUGUCGAAa -3' miRNA: 3'- -UACUGCGAGAGGUGUGUCGACAGCUU- -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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