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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 | |||||||
| 31385 | 3' | -54.5 | NC_006623.1 | + | 20178 | 0.66 | 0.941643 |
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Target: 5'- uGAGggGGCUCCUCCuuuGGAGugguUUCu- -3' miRNA: 3'- uUUCuuCCGGGGAGGu--CUUCu---GAGcc -5' |
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| 31385 | 3' | -54.5 | NC_006623.1 | + | 132790 | 0.67 | 0.91509 |
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Target: 5'- gAAGGggGGCCCUUUC-GAGGcCUCc- -3' miRNA: 3'- -UUUCuuCCGGGGAGGuCUUCuGAGcc -5' |
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| 31385 | 3' | -54.5 | NC_006623.1 | + | 129691 | 0.67 | 0.909039 |
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Target: 5'- -uGGAAGGUgCCUCCGGGAGGaaccaUCc- -3' miRNA: 3'- uuUCUUCCGgGGAGGUCUUCUg----AGcc -5' |
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| 31385 | 3' | -54.5 | NC_006623.1 | + | 127965 | 0.67 | 0.902744 |
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Target: 5'- --cGggGGCCCCgccauuuuugUUCAGGGccaGCUCGGa -3' miRNA: 3'- uuuCuuCCGGGG----------AGGUCUUc--UGAGCC- -5' |
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| 31385 | 3' | -54.5 | NC_006623.1 | + | 135020 | 0.68 | 0.875183 |
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Target: 5'- cGGGGAGaGCCCCUgUuGAguAGGCUUGGg -3' miRNA: 3'- uUUCUUC-CGGGGAgGuCU--UCUGAGCC- -5' |
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| 31385 | 3' | -54.5 | NC_006623.1 | + | 76366 | 0.68 | 0.867718 |
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Target: 5'- --cGAuGGaCCCCUCCuGAGGACUUu- -3' miRNA: 3'- uuuCUuCC-GGGGAGGuCUUCUGAGcc -5' |
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| 31385 | 3' | -54.5 | NC_006623.1 | + | 137159 | 0.71 | 0.693112 |
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Target: 5'- gAGGGGAGcgguGCCCCUCC-GAAGGCaCGGu -3' miRNA: 3'- -UUUCUUC----CGGGGAGGuCUUCUGaGCC- -5' |
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| 31385 | 3' | -54.5 | NC_006623.1 | + | 133389 | 1.09 | 0.003764 |
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Target: 5'- aAAAGAAGGCCCCUCCAGAAGACUCGGa -3' miRNA: 3'- -UUUCUUCCGGGGAGGUCUUCUGAGCC- -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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