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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 | |||||||
| 30790 | 5' | -57 | NC_006552.1 | + | 34820 | 0.66 | 0.659305 |
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Target: 5'- uCGGAc-GGCCGAGG-CG-GCGCAg- -3' miRNA: 3'- uGCCUauCCGGUUCCaGCgCGCGUac -5' |
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| 30790 | 5' | -57 | NC_006552.1 | + | 26131 | 0.66 | 0.648499 |
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Target: 5'- -gGuGGUAGGCCAGGGccUCGgagaaGCGCAg- -3' miRNA: 3'- ugC-CUAUCCGGUUCC--AGCg----CGCGUac -5' |
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| 30790 | 5' | -57 | NC_006552.1 | + | 57972 | 0.66 | 0.637678 |
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Target: 5'- -gGGAUGGGCUAccAGGUgGaaugGCGCGUc -3' miRNA: 3'- ugCCUAUCCGGU--UCCAgCg---CGCGUAc -5' |
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| 30790 | 5' | -57 | NC_006552.1 | + | 11938 | 0.66 | 0.626852 |
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Target: 5'- gGCGcGccAGGCUcgcuAGGUCGgaGCGCAUGg -3' miRNA: 3'- -UGC-CuaUCCGGu---UCCAGCg-CGCGUAC- -5' |
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| 30790 | 5' | -57 | NC_006552.1 | + | 21498 | 0.67 | 0.562298 |
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Target: 5'- aGCGGGUAGcUguAGGUCGCuGCGCu-- -3' miRNA: 3'- -UGCCUAUCcGguUCCAGCG-CGCGuac -5' |
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| 30790 | 5' | -57 | NC_006552.1 | + | 14092 | 0.71 | 0.37646 |
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Target: 5'- uACGGcc-GGCCGGGccgcgcuucauGUCGCGCGCAUc -3' miRNA: 3'- -UGCCuauCCGGUUC-----------CAGCGCGCGUAc -5' |
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| 30790 | 5' | -57 | NC_006552.1 | + | 17138 | 1.07 | 0.001099 |
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Target: 5'- cACGGAUAGGCCAAGGUCGCGCGCAUGc -3' miRNA: 3'- -UGCCUAUCCGGUUCCAGCGCGCGUAC- -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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