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| Acc. No. | Name | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| MIMAT0002188 | kshv-miR-K12-6-5p | -48.5 | NC_003409.1 | + | 121726 | 0.66 | 0.992089 |
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Target: 5'- aCGA-GGGUUgcaggaaacAGGUGCUGCcGGg -3' miRNA: 3'- gGCUaCCUAA---------UCCACGACGaCC- -5' |
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| MIMAT0002188 | kshv-miR-K12-6-5p | -48.5 | NC_003409.1 | - | 23129 | 0.66 | 0.989414 |
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Target: 5'- aCCGcaaGUGGAUUuGGUGCUGUUa- -3' miRNA: 3'- -GGC---UACCUAAuCCACGACGAcc -5' |
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| MIMAT0002188 | kshv-miR-K12-6-5p | -48.5 | NC_003409.1 | - | 116460 | 0.69 | 0.960556 |
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Target: 5'- aUCGGUGGAUgGGGUGCgaagGCccgGGa -3' miRNA: 3'- -GGCUACCUAaUCCACGa---CGa--CC- -5' |
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| MIMAT0002188 | kshv-miR-K12-6-5p | -48.5 | NC_003409.1 | + | 27256 | 0.73 | 0.824113 |
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Target: 5'- -gGAcGGGcggUGGGUGCUGCUGGa -3' miRNA: 3'- ggCUaCCUa--AUCCACGACGACC- -5' |
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| MIMAT0002188 | kshv-miR-K12-6-5p | -48.5 | NC_003409.1 | + | 126866 | 0.74 | 0.774203 |
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Target: 5'- gCCGGUGGAgguaaAGGUGUUGCgGGa -3' miRNA: 3'- -GGCUACCUaa---UCCACGACGaCC- -5' |
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| MIMAT0002188 | kshv-miR-K12-6-5p | -48.5 | NC_003409.1 | + | 120675 | 1.02 | 0.020334 |
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Target: 5'- gCCGAUGGAUUAGGUGCUGCUGGa -3' miRNA: 3'- -GGCUACCUAAUCCACGACGACC- -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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