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miRNA: 3'- -AGCCCUUCCAUAGUCUGGGGUGUAGG- -5'
miRNA: 3'- aGCCCUUCCa-UAGU----------CUGGGGuGUAGG- -5'
miRNA: 3'- aGCCCU--UCCaUAGU--CugGGGUGU-AGG- -5'
miRNA: 3'- agCCCU----UCCAuAGUCUGGGGuGuAGG- -5'
miRNA: 3'- -AGCCCUUCCa-UAGuCUgGGGugU-AGG- -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#
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P value |
| Predicted miRNA align pattern | |||||||
| 7077 | 3' | -53.4 | NC_001885.1 | + | 2751 | 1.13 | 4.9e-05 |
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Target: 5'- cUCGGGAAGGUAUCAGACCCCACAUCCa -3' miRNA: 3'- -AGCCCUUCCAUAGUCUGGGGUGUAGG- -5' |
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| 7077 | 3' | -53.4 | NC_001885.1 | + | 967 | 0.73 | 0.089103 |
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Target: 5'- gCGGGGAGGccAUCAgcuccuccccGACCCC-CAUCUa -3' miRNA: 3'- aGCCCUUCCa-UAGU----------CUGGGGuGUAGG- -5' |
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| 7077 | 3' | -53.4 | NC_001885.1 | + | 1147 | 0.69 | 0.181861 |
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Target: 5'- cUGGGAccAGGaGUCGccGugCCCGCAgUCCa -3' miRNA: 3'- aGCCCU--UCCaUAGU--CugGGGUGU-AGG- -5' |
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| 7077 | 3' | -53.4 | NC_001885.1 | + | 2191 | 0.68 | 0.206032 |
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Target: 5'- -gGGGAgucaGGGU-UCGGACCCC-C-UCCc -3' miRNA: 3'- agCCCU----UCCAuAGUCUGGGGuGuAGG- -5' |
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| 7077 | 3' | -53.4 | NC_001885.1 | + | 2228 | 0.68 | 0.193616 |
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Target: 5'- uUCGGGGAGGggGUCcGAaCCCugAcUCCc -3' miRNA: 3'- -AGCCCUUCCa-UAGuCUgGGGugU-AGG- -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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