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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 | |||||||
| 8527 | 3' | -51.5 | NC_002169.1 | + | 131492 | 0.66 | 0.988221 |
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Target: 5'- gUCGAAUggagagucuaCGCUGCUCGAggGU-CGCg -3' miRNA: 3'- aGGCUUA----------GCGACGAGCUagUAuGCGa -5' |
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| 8527 | 3' | -51.5 | NC_002169.1 | + | 68537 | 0.66 | 0.982962 |
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Target: 5'- cUCGAagacuacucGUCGCUGUUCGucaaacagaucGUCAUGgGCUa -3' miRNA: 3'- aGGCU---------UAGCGACGAGC-----------UAGUAUgCGA- -5' |
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| 8527 | 3' | -51.5 | NC_002169.1 | + | 85260 | 0.67 | 0.973416 |
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Target: 5'- aUuuGAAauUCGCUGCUC-AUCGUGCa-- -3' miRNA: 3'- -AggCUU--AGCGACGAGcUAGUAUGcga -5' |
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| 8527 | 3' | -51.5 | NC_002169.1 | + | 89614 | 0.68 | 0.960489 |
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Target: 5'- aUUCGAcaaAUCGCuuUGCUCGAuacUCAgcgGCGCc -3' miRNA: 3'- -AGGCU---UAGCG--ACGAGCU---AGUa--UGCGa -5' |
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| 8527 | 3' | -51.5 | NC_002169.1 | + | 112074 | 0.68 | 0.956677 |
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Target: 5'- cCCGAAUUGCUGC-CGA-CG-ACGUUg -3' miRNA: 3'- aGGCUUAGCGACGaGCUaGUaUGCGA- -5' |
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| 8527 | 3' | -51.5 | NC_002169.1 | + | 111512 | 0.71 | 0.86141 |
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Target: 5'- gUCGAAUCGCUcCUCGAcaaccguuUCGUAUGCc -3' miRNA: 3'- aGGCUUAGCGAcGAGCU--------AGUAUGCGa -5' |
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| 8527 | 3' | -51.5 | NC_002169.1 | + | 4954 | 0.8 | 0.389278 |
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Target: 5'- aUCGAucauaugcaaAUCGCUGC-CGAUCAUACGCa -3' miRNA: 3'- aGGCU----------UAGCGACGaGCUAGUAUGCGa -5' |
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| 8527 | 3' | -51.5 | NC_002169.1 | + | 129531 | 1.09 | 0.00642 |
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Target: 5'- uUCCGAAUCGCUGCUCGAUCAUACGCUg -3' miRNA: 3'- -AGGCUUAGCGACGAGCUAGUAUGCGA- -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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