miRNA: 3'- uUCGCUGU--UGUAG--------------CAGCGCAa--GGGCG- -5'
miRNA: 3'- uUCGCUgU---------UGUAGCa-GCGCaaGGGCG- -5'
miRNA: 3'- uucGCUGUUgUAGCAgCGCA----AGGGCG- -5'
miRNA: 3'- uUCGCUGU---------UGUAGCa-------------GCGCA-------AGGGCG- -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 | |||||||
| 23503 | 5' | -53.5 | NC_005259.1 | + | 48450 | 0.66 | 0.866264 |
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Target: 5'- cAGCGGCAgcGCGUUccaccgcgcgccggGUCGCGUcggCCUGUu -3' miRNA: 3'- uUCGCUGU--UGUAG--------------CAGCGCAa--GGGCG- -5' |
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| 23503 | 5' | -53.5 | NC_005259.1 | + | 11780 | 0.66 | 0.86866 |
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Target: 5'- cGGCGAgGgagucccacACAUCGggCGCGa-CCCGCu -3' miRNA: 3'- uUCGCUgU---------UGUAGCa-GCGCaaGGGCG- -5' |
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| 23503 | 5' | -53.5 | NC_005259.1 | + | 16149 | 0.66 | 0.86866 |
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Target: 5'- --aCGACGAgGUUGUgGUGUccacUCCCGUg -3' miRNA: 3'- uucGCUGUUgUAGCAgCGCA----AGGGCG- -5' |
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| 23503 | 5' | -53.5 | NC_005259.1 | + | 10346 | 0.66 | 0.871034 |
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Target: 5'- cGGCGGCAgcgggcucgACAUCGggcucggaaguaucCGUGUcgauagaUCCCGCa -3' miRNA: 3'- uUCGCUGU---------UGUAGCa-------------GCGCA-------AGGGCG- -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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