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Acc. No. | Name | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
MIMAT0002183 | kshv-miR-K12-2 | -46.9 | NC_003409.1 | - | 49331 | 0.66 | 0.998382 |
Target: 5'- gCGGugcaugUGACCCGGcCUGCGGUc -3' miRNA: 3'- -GUCua----GCUGGGCCuGAUGUCAa -5' |
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MIMAT0002183 | kshv-miR-K12-2 | -46.9 | NC_003409.1 | + | 42546 | 0.69 | 0.984441 |
Target: 5'- aAGGUgGGCUCGGGCUGCAu-- -3' miRNA: 3'- gUCUAgCUGGGCCUGAUGUcaa -5' |
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MIMAT0002183 | kshv-miR-K12-2 | -46.9 | NC_003409.1 | - | 115664 | 0.69 | 0.989632 |
Target: 5'- gCAGAaugUGGCCCGGGCUAguucCGGUa -3' miRNA: 3'- -GUCUa--GCUGGGCCUGAU----GUCAa -5' |
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MIMAT0002183 | kshv-miR-K12-2 | -46.9 | NC_003409.1 | - | 115803 | 0.7 | 0.977478 |
Target: 5'- gGGAUgCGACCaCGGAUUugAGUUc -3' miRNA: 3'- gUCUA-GCUGG-GCCUGAugUCAA- -5' |
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MIMAT0002183 | kshv-miR-K12-2 | -46.9 | NC_003409.1 | + | 121607 | 1.01 | 0.038966 |
Target: 5'- uCAGAUCGACCCGGACUACAGUUa -3' miRNA: 3'- -GUCUAGCUGGGCCUGAUGUCAA- -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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