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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 | |||||||
| 11076 | 5' | -45.2 | NC_002794.1 | + | 123827 | 0.66 | 1 |
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Target: 5'- aGGAGcgGcGCCCgucgaUCCGG-AUGCcGGg -3' miRNA: 3'- -CCUUuaUuUGGGa----AGGCCaUACGaUC- -5' |
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| 11076 | 5' | -45.2 | NC_002794.1 | + | 127074 | 0.66 | 1 |
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Target: 5'- uGGAGAgc-GCCCg-CCGGaccgGCUGGa -3' miRNA: 3'- -CCUUUauuUGGGaaGGCCaua-CGAUC- -5' |
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| 11076 | 5' | -45.2 | NC_002794.1 | + | 3772 | 0.66 | 0.999999 |
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Target: 5'- gGGGAGUGAcucagcgggaGCCCUucugauuggUCCGGgucgGUGCc-- -3' miRNA: 3'- -CCUUUAUU----------UGGGA---------AGGCCa---UACGauc -5' |
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| 11076 | 5' | -45.2 | NC_002794.1 | + | 30600 | 0.67 | 0.999998 |
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Target: 5'- ---cGUGAACCCUUCCaacGUGUaGCUGu -3' miRNA: 3'- ccuuUAUUUGGGAAGGc--CAUA-CGAUc -5' |
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| 11076 | 5' | -45.2 | NC_002794.1 | + | 28208 | 0.67 | 0.99999 |
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Target: 5'- aGGAAGUAGACCauucguaggaCCGcGUA-GCUAGa -3' miRNA: 3'- -CCUUUAUUUGGgaa-------GGC-CAUaCGAUC- -5' |
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| 11076 | 5' | -45.2 | NC_002794.1 | + | 4648 | 0.68 | 0.999987 |
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Target: 5'- uGGGAAU---CUCUUCCGGUcgGUgGGg -3' miRNA: 3'- -CCUUUAuuuGGGAAGGCCAuaCGaUC- -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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