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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 | |||||||
| 27401 | 5' | -44.6 | NC_005859.1 | + | 51084 | 0.66 | 0.999995 |
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Target: 5'- cGGGcguguAGGuuGAGUAAUUUCAACACa-- -3' miRNA: 3'- -CCU-----UCUucCUCAUUGAAGUUGUGagu -5' |
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| 27401 | 5' | -44.6 | NC_005859.1 | + | 56576 | 0.66 | 0.999995 |
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Target: 5'- --cGGAAGGcucGUAcaccACuUUCAACACUCAa -3' miRNA: 3'- ccuUCUUCCu--CAU----UG-AAGUUGUGAGU- -5' |
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| 27401 | 5' | -44.6 | NC_005859.1 | + | 109866 | 0.66 | 0.999995 |
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Target: 5'- uGGGAGAAGGGGguuuGCaUCAAgugcaaugUACUUAg -3' miRNA: 3'- -CCUUCUUCCUCau--UGaAGUU--------GUGAGU- -5' |
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| 27401 | 5' | -44.6 | NC_005859.1 | + | 78053 | 0.66 | 0.999984 |
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Target: 5'- uGAAGAgauuauGGGuGGUGACUUUcaAACAUUCAc -3' miRNA: 3'- cCUUCU------UCC-UCAUUGAAG--UUGUGAGU- -5' |
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| 27401 | 5' | -44.6 | NC_005859.1 | + | 58769 | 0.68 | 0.9999 |
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Target: 5'- uGGAAGAugauauuuGGGAGUAcACUccaGAUACUCu -3' miRNA: 3'- -CCUUCU--------UCCUCAU-UGAag-UUGUGAGu -5' |
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| 27401 | 5' | -44.6 | NC_005859.1 | + | 103895 | 0.74 | 0.974677 |
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Target: 5'- uGAAGAGGGAGcAGCaUUAACACUUu -3' miRNA: 3'- cCUUCUUCCUCaUUGaAGUUGUGAGu -5' |
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| 27401 | 5' | -44.6 | NC_005859.1 | + | 82501 | 0.77 | 0.921611 |
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Target: 5'- uGGggGguGGGGUccAACUUCAACGC-CAa -3' miRNA: 3'- -CCuuCuuCCUCA--UUGAAGUUGUGaGU- -5' |
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| 27401 | 5' | -44.6 | NC_005859.1 | + | 98437 | 1.14 | 0.017196 |
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Target: 5'- cGGAAGAAGGAGUAACUUCAACACUCAu -3' miRNA: 3'- -CCUUCUUCCUCAUUGAAGUUGUGAGU- -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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