Table 1. Thirty novel miRNAs in the MHV68 or mouse genomes.
| novel miRNA ID | type | # Readsa | Rankb | location | chrom | start | end | strand |
| mghv-miR-M1-8-AS | virus | 12 | 15* | miR-M1-8 (antisense) | MHV68 | 3813 | 3871 | − |
| mghv-miR-M1-10-AS | virus | 10 | 16* | miR-M1-10 (antisense) | MHV68 | 260 | 321 | − |
| Murine miRNAs | ||||||||
| novel-miR-#1 | canonical | 247 | 227 | HFIC (intron) | chr10 | 80878974 | 80879053 | − |
| novel-miR-#2 | canonical | 34 | 364 | Ncor2 (intron) | chr5 | 125574701 | 125574798 | − |
| novel-miR-#3 | canonical | 343 | 197 | Tmem123 (intron) | chr9 | 7784378 | 7784454 | + |
| sno-miR-#1 | snoRNA-derived | 549 | 179 | SNORA18 (H/AC A) | chr9 | 15118311 | 15118375 | + |
| sno-miR-#2 | snoRNA-derived | 23 | 388 | SNORA76 (H/ACA) | chr11 | 106362626 | 106362688 | + |
| sno-miR-#3 | snoRNA-derived | 1159 | 149 | SNORA7A (H/ACA) | chr6 | 115757994 | 115758062 | − |
| sno-miR-#4 | snoRNA-derived | 150 | 267 | SNORA41 (H/ACA) | chr1 | 63225644 | 63225708 | + |
| sno-miR-#5 | snoRNA-derived | 80 | 312 | SNORA5 (H/ACA) | chr11 | 6519815 | 6519875 | − |
| sno-miR-#6 | snoRNA-derived | 46 | 340 | SNORA25 (H/ACA) | chr13 | 62238357 | 62238421 | + |
| sno-miR-#7 | snoRNA-derived | 577 | 177 | SNORA44 (H/ACA) | chr4 | 131865918 | 131865980 | + |
| sno-miR-#8 | snoRNA-derived | 43 | 345 | SNORA2 (H/ACA) | chr15 | 37988103 | 37988169 | + |
| sno-miR-#9 | snoRNA-derived | 36 | 356 | SNORA1 (H/ACA) | chr9 | 15119701 | 15119764 | + |
| tRNA-miR-#1 | tRNA-derived | 12 | 433 | tRNA-SerAGA | chr13 | 23592811 | 23592912 | − |
| miRtron-#1 | tailed miRtron | 11 | 440 | Snrnp70 | chr7 | 52639256 | 52639324 | − |
| miRtron-#2 | tailed miRtron | 10 | 446 | Kifc1 | chr17 | 27057908 | 27057964 | + |
| miRtron-#3 | tailed miRtron | 135 | 284 | Troap | chr15 | 98911238 | 98911296 | + |
| miRtron-#4 | tailed miRtron | 51 | 333 | Cnot1 | chr8 | 98277051 | 98277114 | − |
| miRtron-#5 | tailed miRtron | 10 | 447 | Ptprf | chr4 | 117883110 | 117883169 | − |
| miRtron-#6 | miRtron | 10 | 448 | Man2c1 | chr9 | 56989723 | 56989801 | + |
| miRtron-#7 | tailed miRtron | 18 | 406 | Supt5h | chr7 | 29114504 | 29114569 | − |
| miRtron-#8 | tailed miRtron | 10 | 449 | Wiz | chr17 | 32499909 | 32499969 | − |
| miRtron-#9 | tailed miRtron | 19 | 404 | Pom121 | chr5 | 135859599 | 135859677 | − |
| miRtron-#10 | tailed miRtron | 10 | 450 | Supt6h | chr11 | 78039600 | 78039669 | − |
| miRtron-#11 | tailed miRtron | 10 | 451 | Dohh | chr10 | 80849094 | 80849157 | + |
| miRtron-#12 | tailed miRtron | 11 | 441 | Dazap1 | chr10 | 79740909 | 79740977 | + |
| miRtron-#13 | miRtron | 15 | 420 | Skiv2l | chr17 | 34982046 | 34982112 | − |
| miRtron-#14 | miRtron | 13 | 430 | Plcb3 | chr19 | 7034708 | 7034781 | − |
| miRtron-#15 | tailed miRtron | 11 | 442 | Dock6 | chr9 | 21614384 | 21614443 | − |
a
The number of reads perfectly mapping to pre-miRNA hairpin sequences in all samples.
b
The rank of miRNAs relative to all known and novel murine miRNAs.
*
The rank of miRNAs relative to all the MHV68 miRNAs.