miRNA: 3'- -UGUAGUG-GAGCAGCgGGGGUaa--CCGG- -5'
miRNA: 3'- -UGUA--GUGGa--GCa--GCGGGGGuaACCGG- -5'
miRNA: 3'- ugUAGugGAGCaGC-GGGGGUaaCCGg -5'
miRNA: 3'- -UGUAGUGGa--------------GCAGCGGG-GGUa-ACCGG- -5'
miRNA: 3'- uGUAGUGG-AGCA-GCGGGGgUAacCGG- -5'
Results 21 - 25 of 25 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 | |||||||
| 12396 | 3' | -57.1 | NC_003324.1 | + | 19117 | 0.66 | 0.634855 |
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Target: 5'- gGCAUUGCgCUUGUCGaUCCCGgucaGGCCc -3' miRNA: 3'- -UGUAGUG-GAGCAGCgGGGGUaa--CCGG- -5' |
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| 12396 | 3' | -57.1 | NC_003324.1 | + | 39640 | 0.66 | 0.645683 |
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Target: 5'- gACGUggCGCCaggCGggaCGCUCCCcgUGGUCg -3' miRNA: 3'- -UGUA--GUGGa--GCa--GCGGGGGuaACCGG- -5' |
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| 12396 | 3' | -57.1 | NC_003324.1 | + | 19765 | 0.66 | 0.645683 |
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Target: 5'- -gGUCugUUCG-CGuCCCCCGgcGGCa -3' miRNA: 3'- ugUAGugGAGCaGC-GGGGGUaaCCGg -5' |
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| 12396 | 3' | -57.1 | NC_003324.1 | + | 27537 | 0.66 | 0.646766 |
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Target: 5'- cGCAUCGCCgcaucccgauagcccCGUUGCCUaUCAgaUGGCCa -3' miRNA: 3'- -UGUAGUGGa--------------GCAGCGGG-GGUa-ACCGG- -5' |
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| 12396 | 3' | -57.1 | NC_003324.1 | + | 29745 | 0.66 | 0.656499 |
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Target: 5'- uCAUCGCCuUCGUaCGCCUCgAUgcGCCc -3' miRNA: 3'- uGUAGUGG-AGCA-GCGGGGgUAacCGG- -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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