miRNA: 3'- -UGCCGGU-GGUGCUCa--GACa-------GGUGUUu -5'
miRNA: 3'- ugCCGGUGGUG-CUCAGACAgGUGUUu -5'
miRNA: 3'- -UGCCGGUGGUGCu-CAGac---AGGUGUUU- -5'
miRNA: 3'- -UGCCGGUGGUGCUCAGACaGGUGUUU- -5'
Results 21 - 24 of 24 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 | |||||||
| 6748 | 3' | -55.9 | NC_001875.2 | + | 63453 | 0.73 | 0.495887 |
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Target: 5'- gGCGGCCAgCCGCGAGgcgUUGguuuccagCCACAAu -3' miRNA: 3'- -UGCCGGU-GGUGCUCa--GACa-------GGUGUUu -5' |
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| 6748 | 3' | -55.9 | NC_001875.2 | + | 120542 | 0.74 | 0.429556 |
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Target: 5'- -aGGCCACCAUgGGGUUUGUgCACAAc -3' miRNA: 3'- ugCCGGUGGUG-CUCAGACAgGUGUUu -5' |
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| 6748 | 3' | -55.9 | NC_001875.2 | + | 120984 | 0.77 | 0.29262 |
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Target: 5'- cGCGGCCACCGCGucGUCcaccuUCCACAAAa -3' miRNA: 3'- -UGCCGGUGGUGCu-CAGac---AGGUGUUU- -5' |
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| 6748 | 3' | -55.9 | NC_001875.2 | + | 105850 | 0.92 | 0.031275 |
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Target: 5'- gACGGCCACCACGAGUCUGcUCACAAAc -3' miRNA: 3'- -UGCCGGUGGUGCUCAGACaGGUGUUU- -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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