miRNA: 3'- -GUGGCaaaUGA-CACGUauu--GCUUGGG- -5'
miRNA: 3'- -GUGGCaaAUGACaCGUAUUGCuuGGg -5'
miRNA: 3'- -GUGGCaaa------UGACACGUAUUGCU--------UGGG- -5'
miRNA: 3'- guGgCAAAUGACACGUAUUGCUUGGG- -5'
miRNA: 3'- -GUGGCAAAUGACACGUAUUGCUUGGG- -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 | |||||||
| 21128 | 3' | -46.4 | NC_004775.1 | + | 14826 | 0.68 | 0.943196 |
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Target: 5'- aCGCCGcgcACUgGUGCAgugauUGAACCCu -3' miRNA: 3'- -GUGGCaaaUGA-CACGUauu--GCUUGGG- -5' |
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| 21128 | 3' | -46.4 | NC_004775.1 | + | 17675 | 0.71 | 0.856613 |
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Target: 5'- cCACCGgcUGCUGaGUAUAGCGcuCCa -3' miRNA: 3'- -GUGGCaaAUGACaCGUAUUGCuuGGg -5' |
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| 21128 | 3' | -46.4 | NC_004775.1 | + | 10430 | 0.71 | 0.847429 |
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Target: 5'- cCACCGcugauggucAUUGUGCGUGAUGAuguauugcGCCCg -3' miRNA: 3'- -GUGGCaaa------UGACACGUAUUGCU--------UGGG- -5' |
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| 21128 | 3' | -46.4 | NC_004775.1 | + | 24731 | 0.77 | 0.542545 |
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Target: 5'- -gUgGUUUAUUGUGUAUGAUGAACUCa -3' miRNA: 3'- guGgCAAAUGACACGUAUUGCUUGGG- -5' |
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| 21128 | 3' | -46.4 | NC_004775.1 | + | 24831 | 1.13 | 0.003552 |
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Target: 5'- cCACCGUUUACUGUGCAUAACGAACCCc -3' miRNA: 3'- -GUGGCAAAUGACACGUAUUGCUUGGG- -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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