miRNA: 3'- -UGCGCUGC--CUGUGUgaCUACUUGGAG- -5'
miRNA: 3'- -UGCGCUGCCUGUG---UGaCUaCUUgGAg -5'
miRNA: 3'- -UGCGCUGCCU---GUGUGACua--CUUGGAg -5'
miRNA: 3'- -UGCGCUGCCUGUGUGAcuaCUUGGAG- -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 | |||||||
| 1220 | 3' | -53.3 | NC_001266.1 | + | 104685 | 0.66 | 0.969362 |
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Target: 5'- aAUGCGAUGucGAUACAaaGAUGAACUUUu -3' miRNA: 3'- -UGCGCUGC--CUGUGUgaCUACUUGGAG- -5' |
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| 1220 | 3' | -53.3 | NC_001266.1 | + | 33365 | 0.66 | 0.969362 |
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Target: 5'- aACGCGACGGACACgugGCaGAaGAAaCUa -3' miRNA: 3'- -UGCGCUGCCUGUG---UGaCUaCUUgGAg -5' |
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| 1220 | 3' | -53.3 | NC_001266.1 | + | 14647 | 0.69 | 0.90438 |
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Target: 5'- aACGUGGCGGAacaCGCAUUGuaucGGGCCUg -3' miRNA: 3'- -UGCGCUGCCU---GUGUGACua--CUUGGAg -5' |
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| 1220 | 3' | -53.3 | NC_001266.1 | + | 138525 | 0.93 | 0.059615 |
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Target: 5'- gACGCGACGGACACACUuagGAACCUCg -3' miRNA: 3'- -UGCGCUGCCUGUGUGAcuaCUUGGAG- -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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