miRNA: 3'- -ACGGa---AGcUCU--UGCAGGGGCGGCUCU- -5'
miRNA: 3'- -ACGGaa-----GCUCUUGCAGgGGCGGCUcu -5'
miRNA: 3'- aCGGa--AGCU-------CUUGCAGGGgCGGCUCu -5'
miRNA: 3'- aCGgaAGCUCUUG------------CAGGGGCGGCUCU- -5'
miRNA: 3'- -ACGGAAGCUCUUGCAGGGGCGGCUCU- -5'
Results 41 - 45 of 45 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 | |||||||
| 16263 | 3' | -57.5 | NC_004084.1 | + | 21945 | 0.75 | 0.203523 |
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Target: 5'- uUGUCggcgUCcGGAcgACGUCUCCGCCGAGAu -3' miRNA: 3'- -ACGGa---AGcUCU--UGCAGGGGCGGCUCU- -5' |
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| 16263 | 3' | -57.5 | NC_004084.1 | + | 374 | 0.75 | 0.188167 |
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Target: 5'- gUGCCgcgagccCGGGGACGUCgCCGCCGAu- -3' miRNA: 3'- -ACGGaa-----GCUCUUGCAGgGGCGGCUcu -5' |
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| 16263 | 3' | -57.5 | NC_004084.1 | + | 14656 | 0.75 | 0.182796 |
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Target: 5'- cGCCcagUCGAugcccgcGAGCGUCCCgGCCGGGu -3' miRNA: 3'- aCGGa--AGCU-------CUUGCAGGGgCGGCUCu -5' |
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| 16263 | 3' | -57.5 | NC_004084.1 | + | 8632 | 0.78 | 0.129315 |
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Target: 5'- cGCgaUCGAGAACaccgaggcuguaGUCCUCGCCGAGGg -3' miRNA: 3'- aCGgaAGCUCUUG------------CAGGGGCGGCUCU- -5' |
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| 16263 | 3' | -57.5 | NC_004084.1 | + | 51629 | 1.08 | 0.000786 |
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Target: 5'- uUGCCUUCGAGAACGUCCCCGCCGAGAc -3' miRNA: 3'- -ACGGAAGCUCUUGCAGGGGCGGCUCU- -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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