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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 | |||||||
| 30695 | 5' | -56 | NC_006552.1 | + | 39260 | 0.68 | 0.631395 |
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Target: 5'- aCCU-CGGCAGGGACa-GGACuGCAc- -3' miRNA: 3'- -GGAuGCUGUCCCUGacCCUGcCGUug -5' |
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| 30695 | 5' | -56 | NC_006552.1 | + | 44090 | 0.68 | 0.614178 |
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Target: 5'- aCCagcgGCGACGGGuuauaggucGGCUGcucgcccagguugacGGGCGGCGGCg -3' miRNA: 3'- -GGa---UGCUGUCC---------CUGAC---------------CCUGCCGUUG- -5' |
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| 30695 | 5' | -56 | NC_006552.1 | + | 24321 | 0.69 | 0.546028 |
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Target: 5'- --cACGGCAGGGA-UGGaGcCGGUAACg -3' miRNA: 3'- ggaUGCUGUCCCUgACC-CuGCCGUUG- -5' |
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| 30695 | 5' | -56 | NC_006552.1 | + | 60389 | 0.75 | 0.272968 |
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Target: 5'- aCCUGCGGCGGGGGCgaUGcgcacgcgcacaGGGCGGUcGCg -3' miRNA: 3'- -GGAUGCUGUCCCUG--AC------------CCUGCCGuUG- -5' |
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| 30695 | 5' | -56 | NC_006552.1 | + | 3592 | 1.11 | 0.000838 |
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Target: 5'- gCCUACGACAGGGACUGGGACGGCAACu -3' miRNA: 3'- -GGAUGCUGUCCCUGACCCUGCCGUUG- -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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