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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 | |||||||
| 27680 | 5' | -52.7 | NC_005882.1 | + | 14032 | 0.66 | 0.797085 |
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Target: 5'- ---cGCUCGUgcagaCCGAGAUGUUCGa -3' miRNA: 3'- cacaUGAGCAaga--GGCUCUGCGAGCc -5' |
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| 27680 | 5' | -52.7 | NC_005882.1 | + | 30456 | 0.66 | 0.797085 |
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Target: 5'- aUGaACUUGUUCgggUCCGuGACGggCGGg -3' miRNA: 3'- cACaUGAGCAAG---AGGCuCUGCgaGCC- -5' |
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| 27680 | 5' | -52.7 | NC_005882.1 | + | 21926 | 0.66 | 0.744969 |
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Target: 5'- -gGUAUUCGUccgggcgCUCCGGGAaguaCUCGGu -3' miRNA: 3'- caCAUGAGCAa------GAGGCUCUgc--GAGCC- -5' |
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| 27680 | 5' | -52.7 | NC_005882.1 | + | 31500 | 0.67 | 0.6898 |
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Target: 5'- cUGU-CUCGUUCgcgaCCGAcaccgacguGACGCUCGu -3' miRNA: 3'- cACAuGAGCAAGa---GGCU---------CUGCGAGCc -5' |
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| 27680 | 5' | -52.7 | NC_005882.1 | + | 21761 | 0.72 | 0.42711 |
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Target: 5'- ---gGCUCGggCgucgCCGGGcCGCUCGGg -3' miRNA: 3'- cacaUGAGCaaGa---GGCUCuGCGAGCC- -5' |
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| 27680 | 5' | -52.7 | NC_005882.1 | + | 22404 | 0.75 | 0.287915 |
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Target: 5'- uGUGUACUCGUggUCUUCG-GGCaGCUCGa -3' miRNA: 3'- -CACAUGAGCA--AGAGGCuCUG-CGAGCc -5' |
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| 27680 | 5' | -52.7 | NC_005882.1 | + | 25943 | 0.98 | 0.007761 |
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Target: 5'- gGUGUA-UCGUUCUCCGAGACGCUCGGg -3' miRNA: 3'- -CACAUgAGCAAGAGGCUCUGCGAGCC- -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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