miRNA: 3'- ugUCCCAgUACCa--GUGGC-CCGA--------CAGG- -5'
miRNA: 3'- uGUCCCaGUACCAgUGGCCCgaCAGg -5'
miRNA: 3'- uGUCCc--AGUaCCAGUG-GCCCG---ACAGG- -5'
miRNA: 3'- ugUCCCAGuACCAGUGG-------CCCgaC-AGG- -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 | |||||||
| 28472 | 3' | -57.9 | NC_005946.1 | + | 17734 | 0.66 | 0.763662 |
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Target: 5'- -gAGGGUaGUGGgggUACCGuGGCUcaggcccuGUCCa -3' miRNA: 3'- ugUCCCAgUACCa--GUGGC-CCGA--------CAGG- -5' |
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| 28472 | 3' | -57.9 | NC_005946.1 | + | 77319 | 0.67 | 0.694308 |
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Target: 5'- cCGGGGcCGUGGU-GCCGGGa-GUCa -3' miRNA: 3'- uGUCCCaGUACCAgUGGCCCgaCAGg -5' |
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| 28472 | 3' | -57.9 | NC_005946.1 | + | 74653 | 0.67 | 0.684114 |
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Target: 5'- cCAGGaucUCAcGGUCGCuCGGGUcucUGUCCc -3' miRNA: 3'- uGUCCc--AGUaCCAGUG-GCCCG---ACAGG- -5' |
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| 28472 | 3' | -57.9 | NC_005946.1 | + | 97139 | 0.7 | 0.529644 |
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Target: 5'- -gAGGGUC-UGGUCACCcugcccaGGGgaGaUCCg -3' miRNA: 3'- ugUCCCAGuACCAGUGG-------CCCgaC-AGG- -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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