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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 | |||||||
| MIMAT0002180 | kshv-miR-K12-10b | -53.9 | NC_003409.1 | + | 95559 | 0.66 | 0.880589 |
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Target: 5'- cGCCGCUgGGGGGcagcuggugacagaGGCAGCGuCCu -3' miRNA: 3'- -CGGUGAgCCCCC--------------CUGUUGU-GGu -5' |
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| MIMAT0002180 | kshv-miR-K12-10b | -53.9 | NC_003409.1 | - | 128599 | 0.66 | 0.875232 |
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Target: 5'- gGUgACaUUGGGGGGugGGCgACCAg -3' miRNA: 3'- -CGgUG-AGCCCCCCugUUG-UGGU- -5' |
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| MIMAT0002180 | kshv-miR-K12-10b | -53.9 | NC_003409.1 | + | 88387 | 0.66 | 0.859262 |
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Target: 5'- -gCAUUgGGGGGGACAACAg-- -3' miRNA: 3'- cgGUGAgCCCCCCUGUUGUggu -5' |
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| MIMAT0002180 | kshv-miR-K12-10b | -53.9 | NC_003409.1 | + | 70884 | 0.67 | 0.815361 |
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Target: 5'- --aGCUUGGGGGGGCAgagaugGCGCUAc -3' miRNA: 3'- cggUGAGCCCCCCUGU------UGUGGU- -5' |
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| MIMAT0002180 | kshv-miR-K12-10b | -53.9 | NC_003409.1 | - | 19292 | 0.67 | 0.80597 |
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Target: 5'- cGCCACgUGGGGcGGGCAuACGCUg -3' miRNA: 3'- -CGGUGaGCCCC-CCUGU-UGUGGu -5' |
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| MIMAT0002180 | kshv-miR-K12-10b | -53.9 | NC_003409.1 | - | 111127 | 0.67 | 0.80597 |
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Target: 5'- cGCC-CUcagucCGGGGGGGCuggAGCGCCGu -3' miRNA: 3'- -CGGuGA-----GCCCCCCUG---UUGUGGU- -5' |
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| MIMAT0002180 | kshv-miR-K12-10b | -53.9 | NC_003409.1 | + | 87534 | 0.68 | 0.786656 |
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Target: 5'- gGCCGCUUuGGGGGAgCAaucccugugGCGCCAg -3' miRNA: 3'- -CGGUGAGcCCCCCU-GU---------UGUGGU- -5' |
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| MIMAT0002180 | kshv-miR-K12-10b | -53.9 | NC_003409.1 | + | 100039 | 0.68 | 0.786656 |
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Target: 5'- cGUCGCUCuGGuGGGACAGCucCCAa -3' miRNA: 3'- -CGGUGAGcCC-CCCUGUUGu-GGU- -5' |
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| MIMAT0002180 | kshv-miR-K12-10b | -53.9 | NC_003409.1 | - | 71270 | 0.68 | 0.786656 |
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Target: 5'- -aCGCUggcuucccCGGGGGGGCucAACACCAg -3' miRNA: 3'- cgGUGA--------GCCCCCCUG--UUGUGGU- -5' |
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| MIMAT0002180 | kshv-miR-K12-10b | -53.9 | NC_003409.1 | + | 117851 | 0.97 | 0.014665 |
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Target: 5'- gGCCACUCGGGGGGACAACACUAa -3' miRNA: 3'- -CGGUGAGCCCCCCUGUUGUGGU- -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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