miRNA: 3'- aGGGa---CGC-ACAGCUCCuuCaCCagag -5'
miRNA: 3'- agGGACGCACAGCUC--CU-----UCACCaGAG- -5'
miRNA: 3'- aGGG---ACgCACAgCUC---CUUCACCAGag -5'
miRNA: 3'- -AGG-GACGcACAGCUCCUUcACCa---GAG- -5'
miRNA: 3'- -AGGGACGCACAGCUCCUUCACCAGAG- -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 | |||||||
| 18489 | 5' | -55.9 | NC_004681.1 | + | 6377 | 0.66 | 0.768273 |
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Target: 5'- gCCCgaugGCGcUGUCGAGGggGaGGa--- -3' miRNA: 3'- aGGGa---CGC-ACAGCUCCuuCaCCagag -5' |
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| 18489 | 5' | -55.9 | NC_004681.1 | + | 20027 | 0.66 | 0.768273 |
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Target: 5'- -aCCUGCGUGUUGAGcaGGcccgcGGUGGcCUUc -3' miRNA: 3'- agGGACGCACAGCUC--CU-----UCACCaGAG- -5' |
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| 18489 | 5' | -55.9 | NC_004681.1 | + | 54380 | 0.66 | 0.75832 |
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Target: 5'- aCCCagcUGgGUGUgGAGuucGAGGUGGUCg- -3' miRNA: 3'- aGGG---ACgCACAgCUC---CUUCACCAGag -5' |
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| 18489 | 5' | -55.9 | NC_004681.1 | + | 51484 | 0.66 | 0.748245 |
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Target: 5'- uUCUgCUGCaUGUCGAGGAGcUGGggggCUCc -3' miRNA: 3'- -AGG-GACGcACAGCUCCUUcACCa---GAG- -5' |
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| 18489 | 5' | -55.9 | NC_004681.1 | + | 51994 | 1.09 | 0.001328 |
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Target: 5'- cUCCCUGCGUGUCGAGGAAGUGGUCUCc -3' miRNA: 3'- -AGGGACGCACAGCUCCUUCACCAGAG- -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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