miRNA: 3'- -GUUG-UCaCUaCUGGCGCA----CGCCCACa -5'
miRNA: 3'- guuGUCACuACUGGc-GCACG-CCCACA- -5'
miRNA: 3'- gUUGUCAC-------UACUGGC-G---------------CACGCCCACa -5'
miRNA: 3'- -GUUGUCaCUACUGGCGcaCGCCCAca -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 | |||||||
| 23451 | 3' | -55.1 | NC_005259.1 | + | 54683 | 0.66 | 0.786672 |
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Target: 5'- uCGGCgAGcGA-GACCGUGUcgagGCGGGUGg -3' miRNA: 3'- -GUUG-UCaCUaCUGGCGCA----CGCCCACa -5' |
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| 23451 | 3' | -55.1 | NC_005259.1 | + | 33450 | 0.66 | 0.776845 |
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Target: 5'- --uCGGUG-UGACCcaCGUGCcGGGUGUc -3' miRNA: 3'- guuGUCACuACUGGc-GCACG-CCCACA- -5' |
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| 23451 | 3' | -55.1 | NC_005259.1 | + | 14425 | 0.67 | 0.739295 |
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Target: 5'- gGGCGGUGccacagcAUGACCGaCaucaucgacgccccuGUGCGGGUGc -3' miRNA: 3'- gUUGUCAC-------UACUGGC-G---------------CACGCCCACa -5' |
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| 23451 | 3' | -55.1 | NC_005259.1 | + | 26014 | 0.74 | 0.335051 |
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Target: 5'- gCAGCGG-GAUGGCCGCaaGCGGGUu- -3' miRNA: 3'- -GUUGUCaCUACUGGCGcaCGCCCAca -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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