miRNA: 3'- uaCAGCUCCUGGau-----GCGGUGGC---GGGA- -5'
miRNA: 3'- uacAGCUCCUGGAUGCGG------UGGCgGGa -5'
miRNA: 3'- -UACAGCU-CCU---------------GGAU--GCGGUGGCGGGA- -5'
miRNA: 3'- -UACAGCUCCUGGAUGCGGUGGCGGGA- -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 | |||||||
| 27225 | 3' | -60 | NC_005832.1 | + | 50268 | 0.72 | 0.309626 |
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Target: 5'- -cGUCGAGGGCCaccucucUGCCGCCGuguCCCUg -3' miRNA: 3'- uaCAGCUCCUGGau-----GCGGUGGC---GGGA- -5' |
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| 27225 | 3' | -60 | NC_005832.1 | + | 76406 | 0.73 | 0.262681 |
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Target: 5'- --cUUGAGGACCUGCGCCgggaggACCGgCCa -3' miRNA: 3'- uacAGCUCCUGGAUGCGG------UGGCgGGa -5' |
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| 27225 | 3' | -60 | NC_005832.1 | + | 91970 | 0.74 | 0.235092 |
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Target: 5'- aAUGUCGAuGGGcuccccggacucuauCCUGucUGCCACCGCCCUc -3' miRNA: 3'- -UACAGCU-CCU---------------GGAU--GCGGUGGCGGGA- -5' |
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| 27225 | 3' | -60 | NC_005832.1 | + | 88107 | 1.06 | 0.001278 |
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Target: 5'- cAUGUCGAGGACCUACGCCACCGCCCUg -3' miRNA: 3'- -UACAGCUCCUGGAUGCGGUGGCGGGA- -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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