miRNA: 3'- gaCCGCGGUCc-AGUaCC---------UGGCGUAGU- -5'
miRNA: 3'- gaCCGCGGUCCAGUa---CCU----GGCGUagu -5'
miRNA: 3'- -GACCGCGGUCCAgUACCuGGCGuagu -5'
miRNA: 3'- -GACCGCGGUCCAGUACCUGGCGUAGU- -5'
Results 1 - 4 of 4 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 | |||||||
| 634 | 3' | -58 | AC_000017.1 | + | 8788 | 0.66 | 0.410594 |
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Target: 5'- -aGGCGCCAGauUCA-GGagaucaaccGCCGCGUCGu -3' miRNA: 3'- gaCCGCGGUCc-AGUaCC---------UGGCGUAGU- -5' |
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| 634 | 3' | -58 | AC_000017.1 | + | 8386 | 0.69 | 0.277014 |
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Target: 5'- -cGGCGUCAGGUCAggcgGGAgcucCUGCAg-- -3' miRNA: 3'- gaCCGCGGUCCAGUa---CCU----GGCGUagu -5' |
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| 634 | 3' | -58 | AC_000017.1 | + | 27213 | 0.74 | 0.128884 |
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Target: 5'- gCUGGCGCCGGGU-GUGG-CCGCu--- -3' miRNA: 3'- -GACCGCGGUCCAgUACCuGGCGuagu -5' |
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| 634 | 3' | -58 | AC_000017.1 | + | 12391 | 1.08 | 0.000298 |
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Target: 5'- aCUGGCGCCAGGUCAUGGACCGCAUCAu -3' miRNA: 3'- -GACCGCGGUCCAGUACCUGGCGUAGU- -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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