miRNA: 3'- gCGAC-CG---------------AUC-GUCCCA-CGa--GGUGCUG- -5'
miRNA: 3'- -GCGaCC-GA--UCGUcCCACGaGGUGCUG- -5'
miRNA: 3'- gCgACCGA---UCGUCCCAcGAgGUGCUG- -5'
miRNA: 3'- gCGACCGA-UCGu----CCC-ACGAGGUGCUG- -5'
miRNA: 3'- -GCGACCGAUCGUCCCACGAGGUGCUG- -5'
Results 1 - 5 of 5 are showing below:
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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 | |||||||
| 21253 | 3' | -59.1 | NC_004778.3 | + | 8922 | 0.66 | 0.726974 |
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Target: 5'- uGCUGcGCcaaauguugggguagUGGaCGGGGUgGCgcgCCACGGCg -3' miRNA: 3'- gCGAC-CG---------------AUC-GUCCCA-CGa--GGUGCUG- -5' |
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| 21253 | 3' | -59.1 | NC_004778.3 | + | 95242 | 0.66 | 0.71308 |
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Target: 5'- cCGC-GGaCUcgGGCAuGGUGCgCCGCGGCg -3' miRNA: 3'- -GCGaCC-GA--UCGUcCCACGaGGUGCUG- -5' |
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| 21253 | 3' | -59.1 | NC_004778.3 | + | 93735 | 0.68 | 0.590935 |
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Target: 5'- uGgUGGCUuuuGGCGGGGUaUUgCACGGCa -3' miRNA: 3'- gCgACCGA---UCGUCCCAcGAgGUGCUG- -5' |
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| 21253 | 3' | -59.1 | NC_004778.3 | + | 18834 | 0.71 | 0.426949 |
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Target: 5'- aGUUGGCUuAGUgucguGGGuUGCUUCGCGGCa -3' miRNA: 3'- gCGACCGA-UCGu----CCC-ACGAGGUGCUG- -5' |
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| 21253 | 3' | -59.1 | NC_004778.3 | + | 96739 | 1.08 | 0.001216 |
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Target: 5'- gCGCUGGCUAGCAGGGUGCUCCACGACc -3' miRNA: 3'- -GCGACCGAUCGUCCCACGAGGUGCUG- -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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