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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 | |||||||
| 22426 | 3' | -47.5 | NC_005056.1 | + | 27165 | 0.66 | 0.899584 |
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Target: 5'- -----cGCuCAAUACCGGCGAugGUGUUc -3' miRNA: 3'- uugaaaCG-GUUGUGGCCGUU--UACAAu -5' |
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| 22426 | 3' | -47.5 | NC_005056.1 | + | 1248 | 0.67 | 0.874637 |
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Target: 5'- cAGCggugUGCUGAUACCGGCGgugAGUGg-- -3' miRNA: 3'- -UUGaa--ACGGUUGUGGCCGU---UUACaau -5' |
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| 22426 | 3' | -47.5 | NC_005056.1 | + | 11949 | 0.67 | 0.862917 |
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Target: 5'- cGGCgcggUUGCCGcugccagcuuuacuGCACCGGCAGugGUGa-- -3' miRNA: 3'- -UUGa---AACGGU--------------UGUGGCCGUU--UACaau -5' |
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| 22426 | 3' | -47.5 | NC_005056.1 | + | 26237 | 0.68 | 0.836941 |
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Target: 5'- cAGCaUUUGCCGcagGCACCGGUAAGg---- -3' miRNA: 3'- -UUG-AAACGGU---UGUGGCCGUUUacaau -5' |
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| 22426 | 3' | -47.5 | NC_005056.1 | + | 21677 | 0.68 | 0.836941 |
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Target: 5'- cACUUUGCCGuuACGCCGGUg------- -3' miRNA: 3'- uUGAAACGGU--UGUGGCCGuuuacaau -5' |
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| 22426 | 3' | -47.5 | NC_005056.1 | + | 10743 | 0.72 | 0.614596 |
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Target: 5'- -----cGCCGACACCGGCcguGAUGg-- -3' miRNA: 3'- uugaaaCGGUUGUGGCCGu--UUACaau -5' |
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| 22426 | 3' | -47.5 | NC_005056.1 | + | 8689 | 0.74 | 0.470191 |
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Target: 5'- -----cGCCAGCACCGGCAcAAUGa-- -3' miRNA: 3'- uugaaaCGGUUGUGGCCGU-UUACaau -5' |
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| 22426 | 3' | -47.5 | NC_005056.1 | + | 3500 | 1.05 | 0.00438 |
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Target: 5'- gAACUUUGCCAACACCGGCAAAUGUUAu -3' miRNA: 3'- -UUGAAACGGUUGUGGCCGUUUACAAU- -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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