miRNA: 3'- aagaCGGUGUCCGCGCgacUGUGGGg -5'
miRNA: 3'- aAGA---CGGUGUCCGCGCGA--CUg--UGGgG- -5'
miRNA: 3'- aAGa-----CGGUGuCCGCGcGA-CUGUGGGG- -5'
miRNA: 3'- -AAGACGGUGUCCGCGCGACUGUGGGG- -5'
Results 1 - 4 of 4 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 | |||||||
| 9390 | 5' | -60 | NC_002513.1 | + | 15666 | 0.66 | 0.324522 |
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Target: 5'- ---gGCCAUAGGCGCG---GCGCCUg -3' miRNA: 3'- aagaCGGUGUCCGCGCgacUGUGGGg -5' |
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| 9390 | 5' | -60 | NC_002513.1 | + | 16251 | 0.68 | 0.238146 |
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Target: 5'- cUCUacgGCCACAGGCGCGCUagGAacgAUCgCg -3' miRNA: 3'- aAGA---CGGUGUCCGCGCGA--CUg--UGGgG- -5' |
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| 9390 | 5' | -60 | NC_002513.1 | + | 14555 | 0.68 | 0.213951 |
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Target: 5'- gUCguagggGCCAC-GGCGC-CUaGACGCCCUu -3' miRNA: 3'- aAGa-----CGGUGuCCGCGcGA-CUGUGGGG- -5' |
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| 9390 | 5' | -60 | NC_002513.1 | + | 11270 | 1.09 | 0.000128 |
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Target: 5'- gUUCUGCCACAGGCGCGCUGACACCCCa -3' miRNA: 3'- -AAGACGGUGUCCGCGCGACUGUGGGG- -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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