miRNA: 3'- -UGUGGCA---------CCUGCa-CAuGCGCAGGCCU- -5'
miRNA: 3'- ugUGGCACCUGCacAUGCGCaGGCCu -5'
miRNA: 3'- -UGUGGCaCCUGCACaUGCGC-AgGCCU- -5'
miRNA: 3'- uguGGCACCu---------GCACAugCGCAGGCCU- -5'
miRNA: 3'- -UGUGGCACCUGCACAUGCGCAGGCCU- -5'
Results 21 - 25 of 25 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 | |||||||
| 15926 | 3' | -57 | NC_004065.1 | + | 82607 | 0.73 | 0.612699 |
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Target: 5'- gACGCCGUcgugcugcuGGACGcgGU-UGCGUCCGGGg -3' miRNA: 3'- -UGUGGCA---------CCUGCa-CAuGCGCAGGCCU- -5' |
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| 15926 | 3' | -57 | NC_004065.1 | + | 33479 | 0.74 | 0.602949 |
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Target: 5'- -gGCCGUGGGCGccUACGCG-CCGGc -3' miRNA: 3'- ugUGGCACCUGCacAUGCGCaGGCCu -5' |
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| 15926 | 3' | -57 | NC_004065.1 | + | 168332 | 0.75 | 0.507488 |
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Target: 5'- uACGCCGcGGACGUG-ACGCGcUgCGGAc -3' miRNA: 3'- -UGUGGCaCCUGCACaUGCGC-AgGCCU- -5' |
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| 15926 | 3' | -57 | NC_004065.1 | + | 1829 | 0.76 | 0.453327 |
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Target: 5'- --cCCGUGGugacggugauCGUGUugGUGUCCGGAa -3' miRNA: 3'- uguGGCACCu---------GCACAugCGCAGGCCU- -5' |
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| 15926 | 3' | -57 | NC_004065.1 | + | 5139 | 1.08 | 0.004793 |
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Target: 5'- gACACCGUGGACGUGUACGCGUCCGGAu -3' miRNA: 3'- -UGUGGCACCUGCACAUGCGCAGGCCU- -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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