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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 | |||||||
| 12044 | 3' | -51.3 | NC_003298.1 | + | 21921 | 0.66 | 0.824001 |
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Target: 5'- cGCCAgCAGc---UUCUGgaCGCAGACCg -3' miRNA: 3'- -UGGUgGUCuaaaGAGAUg-GCGUCUGG- -5' |
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| 12044 | 3' | -51.3 | NC_003298.1 | + | 2026 | 0.67 | 0.783684 |
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Target: 5'- cGCCGCUAGGg---UCUGCCaGUAGuCCa -3' miRNA: 3'- -UGGUGGUCUaaagAGAUGG-CGUCuGG- -5' |
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| 12044 | 3' | -51.3 | NC_003298.1 | + | 6435 | 0.67 | 0.775257 |
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Target: 5'- uGCCACCAGAUgcccggagcgugUgaacacacugagaacCUC-ACCGCAuGACCu -3' miRNA: 3'- -UGGUGGUCUAa-----------A---------------GAGaUGGCGU-CUGG- -5' |
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| 12044 | 3' | -51.3 | NC_003298.1 | + | 11608 | 0.67 | 0.76026 |
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Target: 5'- cACCACCAcGAgcacccaaggUUCUAUCGUucAGACCu -3' miRNA: 3'- -UGGUGGU-CUaaa-------GAGAUGGCG--UCUGG- -5' |
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| 12044 | 3' | -51.3 | NC_003298.1 | + | 12316 | 0.75 | 0.351174 |
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Target: 5'- aGCCACCcGGUUUCUCUGuuGUAuuCCa -3' miRNA: 3'- -UGGUGGuCUAAAGAGAUggCGUcuGG- -5' |
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| 12044 | 3' | -51.3 | NC_003298.1 | + | 18721 | 1.12 | 0.000971 |
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Target: 5'- cACCACCAGAUUUCUCUACCGCAGACCu -3' miRNA: 3'- -UGGUGGUCUAAAGAGAUGGCGUCUGG- -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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