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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 | |||||||
| 30540 | 5' | -57.7 | NC_006548.1 | + | 2219 | 0.66 | 0.428685 |
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Target: 5'- cGCUGCaagcGGUCCAccaagguagcccguGGAGAUgCUUUCGCg -3' miRNA: 3'- -CGACGa---CCGGGU--------------CCUCUGaGAGAGUG- -5' |
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| 30540 | 5' | -57.7 | NC_006548.1 | + | 29446 | 0.68 | 0.348877 |
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Target: 5'- aGCaGCUGGCCCAGaAGGCaacugCggggCUCAUg -3' miRNA: 3'- -CGaCGACCGGGUCcUCUGa----Ga---GAGUG- -5' |
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| 30540 | 5' | -57.7 | NC_006548.1 | + | 29528 | 0.69 | 0.308042 |
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Target: 5'- uGCUGCUGucaccuccGCCgCAGGAGcGCUUUC-CACc -3' miRNA: 3'- -CGACGAC--------CGG-GUCCUC-UGAGAGaGUG- -5' |
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| 30540 | 5' | -57.7 | NC_006548.1 | + | 22836 | 0.7 | 0.253139 |
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Target: 5'- cGCUGgccuaucuggaagauCUGGUCCAGGAGGaUCUCgaagCGCu -3' miRNA: 3'- -CGAC---------------GACCGGGUCCUCUgAGAGa---GUG- -5' |
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| 30540 | 5' | -57.7 | NC_006548.1 | + | 1188 | 0.7 | 0.243949 |
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Target: 5'- cGUUGCUGGCCgCGcagacGGccAGGCUCgCUCGCg -3' miRNA: 3'- -CGACGACCGG-GU-----CC--UCUGAGaGAGUG- -5' |
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| 30540 | 5' | -57.7 | NC_006548.1 | + | 10193 | 0.71 | 0.213373 |
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Target: 5'- cCUGCUGGCCCAGaGcuaccuccAGACgagcagCUCUUGCu -3' miRNA: 3'- cGACGACCGGGUC-C--------UCUGa-----GAGAGUG- -5' |
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| 30540 | 5' | -57.7 | NC_006548.1 | + | 23771 | 1.1 | 0.000254 |
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Target: 5'- uGCUGCUGGCCCAGGAGACUCUCUCACc -3' miRNA: 3'- -CGACGACCGGGUCCUCUGAGAGAGUG- -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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