| BTAMix | CPYB | CPYB-CCA | MGOB |
---|
A |
Total | 6,068,678 | 344,775 | 297,042 | 1,332,441 |
Intergenic | 4,518,518 | 262,448 | 226,421 | 991,640 |
Intron | 1,501,565 | 80,987 | 69,282 | 327,012 |
5` UTR | 1,337 | 0 | 0 | 27 |
3` UTR | 15,213 | 0 | 0 | 2,780 |
Coding | 32,045 | 1,340 | 1,339 | 10,982 |
B |
Total | 19188 (6374) | 15267 (2915) | 3086 (1929) | 46592 (1735) |
Intergenic | 14829 (4970) | 12187 (2349) | 2476 (1530) | 35292 (1334) |
Intron | 4556 (1474) | 3134 (558) | 605 (392) | 10102 (320) |
5` UTR | 4 (2) | - | - | 2 (0) |
3` UTR | 49 (18) | - | - | 101 (8) |
Coding syn. | 46 (8) | 17 (3) | 1 (1) | 113 (2) |
Coding non-syn. | 44 (15) | 26 (10) | 12 (9) | 103 (12) |
C |
Total | 316 (952) | 23 (118) | 96 (154) | 29 (768) |
Intergenic | 305 (909) | 22 (112) | 91 (148) | 28 (743) |
Intron | 330 (1,019) | 26 (145) | 115 (177) | 32 (1,022) |
5` UTR | 334 (669) | - | - | 14 (-) |
3` UTR | 310 (845) | - | - | 28 (348) |
Coding | 356 (1,393) | 31 (103) | 103 (134) | 51 (732) |
- A. Lengths of cattle genome regions covered by reads. Samples: BTAMix – mixed peak of cattle chromosomes 23, 26, 28 and 29; CPYB – Siberian roe deer B chromosomes (combination of samples CPYB1 and CPYB2); CPYB-CCA – same, but regions not covered by European roe deer contigs are excluded; MGOB – grey brocket deer B chromosomes
- B. Number of total and heterozygous (in brackets) variants called and their annotation. Numbers of variants do not add up due to overlapping annotations and excluded NMD_target_transcript annotation. Intergenic variants also include up/downstream variants; coding non-synonymous variants include missense, stop codon gain/loss, frameshift, inframe indels. Sample descriptions – see 3A, except for CPYB-CCA – CPYB variants excluding the variants observed in Capreolus capreolus genomic contigs
- C. Variant density (bp per 1 variant) calculated as length of sequence covered by reads divided by number of called variants. Numbers are given for all and heterozygous (in brackets) variants. Sample descriptions – see 3B