miRNA: 3'- -UUGG-GGACCAugaCGUUGGGaAGCUC- -5'
miRNA: 3'- uuGGGGACCaUGA-------CGUUGGGAaGCUC- -5'
miRNA: 3'- -UUGGGGACCAUgaCGuUGGGaAGCUc -5'
miRNA: 3'- uUGGGGaCCAUGaCGUUGGGA---AGCUc -5'
miRNA: 3'- -UUGGGGACCAUGACGUUGGGAAGCUC- -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 | |||||||
| 2923 | 3' | -55.3 | NC_001493.1 | + | 78957 | 0.66 | 0.890617 |
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Target: 5'- uAACCuCCUGGU---GCGACUC-UCGAGg -3' miRNA: 3'- -UUGG-GGACCAugaCGUUGGGaAGCUC- -5' |
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| 2923 | 3' | -55.3 | NC_001493.1 | + | 29696 | 0.66 | 0.875588 |
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Target: 5'- -uCCCCUGGaGCUccgcaacGCGACUCU-CGAGc -3' miRNA: 3'- uuGGGGACCaUGA-------CGUUGGGAaGCUC- -5' |
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| 2923 | 3' | -55.3 | NC_001493.1 | + | 110422 | 0.7 | 0.703339 |
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Target: 5'- gAGCCCCUGGUG--GC-ACCCaUCGAa -3' miRNA: 3'- -UUGGGGACCAUgaCGuUGGGaAGCUc -5' |
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| 2923 | 3' | -55.3 | NC_001493.1 | + | 108989 | 0.75 | 0.403161 |
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Target: 5'- uACCCCaGGUAC-GCAACCCUccaUCGAa -3' miRNA: 3'- uUGGGGaCCAUGaCGUUGGGA---AGCUc -5' |
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| 2923 | 3' | -55.3 | NC_001493.1 | + | 51240 | 1.07 | 0.00339 |
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Target: 5'- gAACCCCUGGUACUGCAACCCUUCGAGa -3' miRNA: 3'- -UUGGGGACCAUGACGUUGGGAAGCUC- -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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