miRNA: 3'- aaauGUCCGUUUUCGU--------UACCCAC-UGu -5'
miRNA: 3'- -AAAUguCCGUUUUcGUUACC-CACUGU- -5'
miRNA: 3'- -AAAUGU--CCGUuuUCGU---UACCCACUGu -5'
miRNA: 3'- aaaUGUCCGuUUUCGuu--ACCCACUgu -5'
miRNA: 3'- -AAAUGUCCGUUUUCGUUACCCACUGU- -5'
Results 1 - 5 of 5 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 | |||||||
| 8418 | 5' | -47.5 | NC_002166.1 | + | 33155 | 0.66 | 0.948006 |
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Target: 5'- ---gUAGGCGAAGGUAaagaccugGUGGGUGuGCu -3' miRNA: 3'- aaauGUCCGUUUUCGU--------UACCCAC-UGu -5' |
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| 8418 | 5' | -47.5 | NC_002166.1 | + | 7945 | 0.68 | 0.862542 |
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Target: 5'- uUUUGguGGUAAGGuCGAUGGuGUGGCAg -3' miRNA: 3'- -AAAUguCCGUUUUcGUUACC-CACUGU- -5' |
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| 8418 | 5' | -47.5 | NC_002166.1 | + | 18798 | 0.7 | 0.803238 |
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Target: 5'- aUUUGCAgcGGCAc-GGCAuauAUGGGUGGCc -3' miRNA: 3'- -AAAUGU--CCGUuuUCGU---UACCCACUGu -5' |
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| 8418 | 5' | -47.5 | NC_002166.1 | + | 15788 | 0.71 | 0.712429 |
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Target: 5'- --cACAGGCcGAAGCuguuUGGGUGGu- -3' miRNA: 3'- aaaUGUCCGuUUUCGuu--ACCCACUgu -5' |
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| 8418 | 5' | -47.5 | NC_002166.1 | + | 2700 | 1.08 | 0.003966 |
|
Target: 5'- aUUUACAGGCAAAAGCAAUGGGUGACAg -3' miRNA: 3'- -AAAUGUCCGUUUUCGUUACCCACUGU- -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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