miRNA: 3'- uGCG---ACGGUacagGGCUAGCa--CCAGG- -5'
miRNA: 3'- -UGCGA--CGGUACAGGGCUA---GCA----CCAGg -5'
miRNA: 3'- -UGCg-ACGGUaCa---GGGCUAGC--ACC-AGG- -5'
miRNA: 3'- -UGCG----ACGGUacaGGGCUAGCa-CCAGg -5'
miRNA: 3'- -UGCGACGGUACAGGGCUAGCACCAGG- -5'
Results 1 - 5 of 5 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 | |||||||
| 30691 | 5' | -56.6 | NC_006552.1 | + | 20831 | 0.66 | 0.704775 |
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Target: 5'- uCGUcagUGCCAgcagCCGGUCGgagGGUCCa -3' miRNA: 3'- uGCG---ACGGUacagGGCUAGCa--CCAGG- -5' |
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| 30691 | 5' | -56.6 | NC_006552.1 | + | 44800 | 0.66 | 0.683648 |
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Target: 5'- gGCGCUgcGCCAUGUUCUGGUgcaUGUucucGGUCa -3' miRNA: 3'- -UGCGA--CGGUACAGGGCUA---GCA----CCAGg -5' |
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| 30691 | 5' | -56.6 | NC_006552.1 | + | 7574 | 0.66 | 0.683648 |
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Target: 5'- gACGagUGCCAgGgacgCCCGGUCGgcUGGuUCCa -3' miRNA: 3'- -UGCg-ACGGUaCa---GGGCUAGC--ACC-AGG- -5' |
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| 30691 | 5' | -56.6 | NC_006552.1 | + | 33129 | 0.69 | 0.524384 |
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Target: 5'- cGCGCagaaUGCCAg--CCCGGUCGggGGUUg -3' miRNA: 3'- -UGCG----ACGGUacaGGGCUAGCa-CCAGg -5' |
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| 30691 | 5' | -56.6 | NC_006552.1 | + | 2786 | 1.1 | 0.000808 |
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Target: 5'- aACGCUGCCAUGUCCCGAUCGUGGUCCc -3' miRNA: 3'- -UGCGACGGUACAGGGCUAGCACCAGG- -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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