miRNA: 3'- -CACCGGCG--UAGCU---CCguCGuUGGa--GG- -5'
miRNA: 3'- caCCGGCGUa-GcUCCGUC---GUUGGaGG- -5'
miRNA: 3'- caCCGGCGUAGcUCCGUCgU--UGGa---GG- -5'
miRNA: 3'- cACCGGCGuaGCUCCG------UCGUUGGagg -5'
miRNA: 3'- caCCGgCGUaGCuCCGUCGUUGGa--GG- -5'
Results 41 - 45 of 45 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 | |||||||
| 7279 | 5' | -57.9 | NC_001900.1 | + | 6745 | 0.66 | 0.517506 |
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Target: 5'- uGUGGCCGUcgGUCGAgaaGGguGUcGCCgagCUg -3' miRNA: 3'- -CACCGGCG--UAGCU---CCguCGuUGGa--GG- -5' |
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| 7279 | 5' | -57.9 | NC_001900.1 | + | 19598 | 0.66 | 0.528045 |
|
Target: 5'- -cGGCCGCGagCaGGGCGGgcuCAACC-CCa -3' miRNA: 3'- caCCGGCGUa-GcUCCGUC---GUUGGaGG- -5' |
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| 7279 | 5' | -57.9 | NC_001900.1 | + | 47307 | 0.66 | 0.528045 |
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Target: 5'- -cGGUCGCGUCcGGGCAGgAgaACCcuugCCc -3' miRNA: 3'- caCCGGCGUAGcUCCGUCgU--UGGa---GG- -5' |
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| 7279 | 5' | -57.9 | NC_001900.1 | + | 34161 | 0.66 | 0.538662 |
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Target: 5'- aUGGCCGC--UGAGGUcgacagAGCGGCCg-- -3' miRNA: 3'- cACCGGCGuaGCUCCG------UCGUUGGagg -5' |
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| 7279 | 5' | -57.9 | NC_001900.1 | + | 38179 | 0.66 | 0.538662 |
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Target: 5'- -cGGUgGCA-CG-GGCGGCAACCcggCUg -3' miRNA: 3'- caCCGgCGUaGCuCCGUCGUUGGa--GG- -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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