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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 | |||||||
| 30748 | 3' | -58.1 | NC_006552.1 | + | 4812 | 0.66 | 0.578884 |
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Target: 5'- cGGCGggGGCgAUGCGCACGCgcacaggGCgGUc -3' miRNA: 3'- -CUGCa-CCGgUGCGCGUGUGa------CGaCAa -5' |
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| 30748 | 3' | -58.1 | NC_006552.1 | + | 40578 | 0.66 | 0.568128 |
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Target: 5'- --gGUGGCCACGUaccacGCACGCUGg---- -3' miRNA: 3'- cugCACCGGUGCG-----CGUGUGACgacaa -5' |
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| 30748 | 3' | -58.1 | NC_006552.1 | + | 48876 | 0.66 | 0.568128 |
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Target: 5'- ----aGGCCACgccggugcugcuGCGCAacuCACUGCUGUUu -3' miRNA: 3'- cugcaCCGGUG------------CGCGU---GUGACGACAA- -5' |
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| 30748 | 3' | -58.1 | NC_006552.1 | + | 13214 | 0.67 | 0.494654 |
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Target: 5'- cGGCGgucGCCuccccacuGCGCGCGCGCUGCaUGa- -3' miRNA: 3'- -CUGCac-CGG--------UGCGCGUGUGACG-ACaa -5' |
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| 30748 | 3' | -58.1 | NC_006552.1 | + | 15039 | 0.68 | 0.425811 |
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Target: 5'- cGCGgGGCUGCGCaGCAgGCUGUUGg- -3' miRNA: 3'- cUGCaCCGGUGCG-CGUgUGACGACaa -5' |
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| 30748 | 3' | -58.1 | NC_006552.1 | + | 19725 | 0.7 | 0.338115 |
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Target: 5'- cGGCGUcGGCCACguugGCGCugGCcGCUGc- -3' miRNA: 3'- -CUGCA-CCGGUG----CGCGugUGaCGACaa -5' |
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| 30748 | 3' | -58.1 | NC_006552.1 | + | 35867 | 0.7 | 0.330102 |
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Target: 5'- cGACGUcggGGCCucGCcugccgugGCGCGCGCUGCUGc- -3' miRNA: 3'- -CUGCA---CCGG--UG--------CGCGUGUGACGACaa -5' |
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| 30748 | 3' | -58.1 | NC_006552.1 | + | 40982 | 1.05 | 0.000956 |
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Target: 5'- gGACGUGGCCACGCGCACACUGCUGUUg -3' miRNA: 3'- -CUGCACCGGUGCGCGUGUGACGACAA- -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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