Spreadsheet: c98a72c0-8b05-4d09-9176-74a188eecd80
Sheet: Sheet1

Table S1. Details on the 79 coding polymorphisms. For each of the 79 coding polymorphisms discovered by massively parallel sequencing the read depth and the various allele counts are given in the case (red) and control (green). Empty cells in the control animal are due to missing coverage from the illumina sequences. For each of these polymorphisms it was subsequently confirmed by [NAME] sequencing that the control animal had exactly the same genotype as the case animal. The SUOX mutation causing arachnomelia in cattle is shown in bold. | Unnamed: 1 | Unnamed: 2 | Unnamed: 3 | Unnamed: 4 | Unnamed: 5 | Unnamed: 6 | Unnamed: 7 | Unnamed: 8 | Unnamed: 9 | Unnamed: 10 | Unnamed: 11 | Unnamed: 12 | Unnamed: 13 | Unnamed: 14 | Unnamed: 15 | Unnamed: 16 | Unnamed: 17 | Unnamed: 18
 |  |  |  |  | CASE--> |  |  |  |  |  |  | CONTROL-->
Position | Gene | Type | RefBase | Variant base | [NAME] | Depth | ACnt | CCnt | GCnt | TCnt | Deletion | [NAME] | Depth | ACnt | CCnt | GCnt | TCnt | Deletion
1619183 | LRIG3 | SNP | C | T | 1 | 27 | 0 | - | 0 | 27 | 0 | 1 | 10 | 0 | - | 0 | 10 | 0
1632222 | LRIG3 | SNP | A | G | 1 | 32 | - | 0 | 32 | 0 | 0 | 1 | 2 | - | 0 | 2 | 0 | 0
1633545 | LRIG3 | SNP | A | G | 1 | 82 | - | 0 | 82 | 0 | 0 | 1 | 15 | - | 0 | 15 | 0 | 0
1633563 | LRIG3 | SNP | A | G | 1 | 75 | - | 0 | 75 | 0 | 0 | 1 | 8 | - | 0 | 8 | 0 | 0
1633593 | LRIG3 | SNP | C | T | 1 | 40 | 0 | - | 0 | 40 | 0 | 1 | 5 | 0 | - | 0 | 5 | 0
1633632 | LRIG3 | SNP | A | G | 1 | 37 | - | 0 | 37 | 0 | 0 | 0.933 | 15 | - | 0 | 14 | 0 | 0
1633686 | LRIG3 | SNP | C | T | 1 | 60 | 0 | - | 0 | 60 | 0 | 0.963 | 27 | 0 | - | 0 | 26 | 0
1633776 | LRIG3 | SNP | C | T | 1 | 46 | 0 | - | 0 | 46 | 0 | 1 | 3 | 0 | - | 0 | 3 | 0
1636849 | LRIG3 | SNP | T | C | 1 | 4 | 0 | 4 | 0 | - | 0 | 1 | 5 | 0 | 5 | 0 | - | 0
2681755 | CTDSP2 | SNP | C | T | 1 | 15 | 0 | - | 0 | 15 | 0
2699774 | AVIL | SNP | A | G | 1 | 91 | - | 0 | 91 | 0 | 0 | 0.9 | 20 | - | 0 | 18 | 0 | 0
2706709 | TSFM | SNP | C | T | 1 | 43 | 0 | - | 0 | 43 | 0 | 1 | 24 | 0 | - | 0 | 24 | 0
2731965 | CYP27B1 | SNP | C | G | 1 | 89 | 0 | - | 89 | 0 | 0 | 1 | 17 | 0 | - | 17 | 0 | 0
2736374 | [NAME] | SNP | G | A | 1 | 12 | 12 | 0 | - | 0 | 0 | 1 | 6 | 6 | 0 | - | 0 | 0
2778316 | OS9_v4 | SNP | C | T | 1 | 52 | 0 | - | 0 | 52 | 0 | 0.857 | 14 | 0 | - | 0 | 12 | 0
2778611 | OS9_v4 | SNP | G | A | 1 | 83 | 83 | 0 | - | 0 | 0 | 1 | 24 | 24 | 0 | - | 0 | 0
2914796 | GEFT_v1 | SNP | A | G | 0.96 | 25 | - | 0 | 24 | 0 | 0 | 1 | 31 | - | 0 | 31 | 0 | 0
2923598 | GEFT_v1 | SNP | A | G | 1 | 55 | - | 0 | 55 | 0 | 0 | 1 | 17 | - | 0 | 17 | 0 | 0
3003510 | MARS | SNP | T | C | 1 | 14 | 0 | 14 | 0 | - | 0 | 1 | 33 | 0 | 33 | 0 | - | 0
3043641 | INHBC | SNP | G | A | 1 | 34 | 34 | 0 | - | 0 | 0 | 0.933 | 30 | 28 | 0 | - | 0 | 0
3043888 | INHBC | SNP | C | T | 1 | 20 | 0 | - | 0 | 20 | 0 | 1 | 11 | 0 | - | 0 | 11 | 0
3053612 | INHBC | SNP | G | T | 1 | 36 | 0 | 0 | - | 36 | 0 | 1 | 2 | 0 | 0 | - | 2 | 0
3205840 | R3HDM2 | Indel | - | T | 0.984 | 61 | 0 | 0 | 0 | 60 | 1
3205847 | R3HDM2 | SNP | T | G | 1 | 55 | 0 | 0 | 55 | - | 0 | 1 | 9 | 0 | 0 | 9 | - | 0
3205849 | R3HDM2 | SNP | A | T | 1 | 53 | - | 0 | 0 | 53 | 0 | 1 | 7 | 0 | 0 | 0 | 7 | 0
3205849 | R3HDM2 | SNP | A | T | 1 | 53 | - | 0 | 0 | 53 | 0 | 1 | 7 | - | 7 | 0 | 0 | 0
3205850 | R3HDM2 | Indel | - | C | 1 | 54 | 0 | 54 | 0 | 0 | 0
3205851 | R3HDM2 | SNP | G | C | 1 | 53 | 0 | 53 | - | 0 | 0 | 1 | 6 | 0 | 6 | - | 0 | 0
3299923 | LRP1 | Indel | C | - | 1 | 39 | 0 | - | 0 | 0 | 39 | 1 | 38 | 0 | - | 0 | 0 | 38
3299927 | LRP1 | SNP | T | C | 1 | 34 | 0 | 34 | 0 | - | 0 | 1 | 41 | 0 | 41 | 0 | - | 0
3299928 | LRP1 | SNP | T | A | 1 | 35 | 35 | 0 | 0 | - | 0 | 1 | 42 | 42 | 0 | 0 | - | 0
3308225 | LRP1 | SNP | G | A | 1 | 14 | 14 | 0 | - | 0 | 0 | 1 | 9 | 9 | 0 | - | 0 | 0
3311612 | LRP1 | SNP | A | C | 1 | 7 | - | 7 | 0 | 0 | 0 | 0.8 | 10 | - | 8 | 0 | 0 | 0
3367793 | STAT6 | SNP | C | T | 1 | 12 | 0 | - | 0 | 12 | 0 | 1 | 11 | 0 | - | 0 | 11 | 0
3400650 | TMEM194A | SNP | C | T | 1 | 17 | 0 | - | 0 | 17 | 0 | 1 | 8 | 0 | - | 0 | 8 | 0
3431299 | MYO1A | SNP | G | A | 1 | 115 | 115 | 0 | - | 0 | 0 | 1 | 25 | 25 | 0 | - | 0 | 0
3469620 | ZBTB39 | SNP | T | C | 1 | 5 | 0 | 5 | 0 | - | 0 | 1 | 11 | 0 | 11 | 0 | - | 0
3719733 | HSD17B6 | SNP | T | C | 1 | 10 | 0 | 10 | 0 | - | 0 | 1 | 11 | 0 | 11 | 0 | - | 0
3771969 | NACA_v1 | SNP | T | C | 1 | 5 | 0 | 5 | 0 | - | 0 | 1 | 3 | 0 | 3 | 0 | - | 0
3859629 | BAZ2A | Indel | - | A | 0.795 | 44 | 35 | 0 | 0 | 0 | 9
3996249 | TIMELESS | SNP | A | G | 0.968 | 94 | - | 0 | 91 | 0 | 0 | 1 | 6 | - | 0 | 6 | 0 | 0
4110234 | ANKRD52 | SNP | C | T | 1 | 88 | 0 | - | 0 | 88 | 0 | 0.857 | 14 | 0 | - | 0 | 12 | 0
4112788 | ANKRD52 | SNP | A | G | 1 | 17 | - | 0 | 17 | 0 | 0 | 1 | 13 | - | 0 | 13 | 0 | 0
4181786 | SMARCC2_v3 | SNP | A | G | 1 | 68 | - | 0 | 68 | 0 | 0 | 1 | 24 | - | 0 | 24 | 0 | 0
4245509 | ERBB3_v1 | SNP | T | C | 1 | 34 | 0 | 34 | 0 | - | 0 | 1 | 10 | 0 | 10 | 0 | - | 0
4258369 | ERBB3_v1 | SNP | T | C | 1 | 24 | 0 | 24 | 0 | - | 0 | 1 | 4 | 0 | 4 | 0 | - | 0
4259099 | ERBB3_v1 | SNP | G | A | 1 | 156 | 156 | 0 | - | 0 | 0 | 0.8 | 20 | 16 | 0 | - | 0 | 0
4344577 | SUOX | SNP | T | C | 1 | 71 | 0 | 71 | 0 | - | 0 | 1 | 5 | 0 | 5 | 0 | - | 0
4344795 | SUOX | Indel | - | C | 0.946 | 37 | 0 | 35 | 0 | 0 | 2 | 0.5 | 10 | 0 | 5 | 0 | 0 | 5
4371205 | CDK2_v1 | SNP | G | A | 1 | 11 | 11 | 0 | - | 0 | 0 | 0.667 | 12 | 8 | 0 | - | 0 | 0
4397035 | DGKA | SNP | G | T | 0.833 | 12 | 0 | 0 | - | 10 | 0
4455152 | MMP19 | SNP | A | G | 1 | 19 | - | 0 | 19 | 0 | 0 | 1 | 21 | - | 0 | 21 | 0 | 0
4589035 | ITGA7_v1 | SNP | T | G | 1 | 61 | 0 | 0 | 61 | - | 0 | 1 | 41 | 0 | 0 | 41 | - | 0
4589037 | ITGA7_v1 | Indel | A | - | 0.983 | 60 | - | 0 | 0 | 0 | 59 | 1 | 39 | - | 0 | 0 | 0 | 39
4589079 | ITGA7_v1 | SNP | A | G | 1 | 41 | - | 0 | 41 | 0 | 0 | 1 | 29 | - | 0 | 29 | 0 | 0
4589080 | ITGA7_v1 | Indel | A | - | 1 | 40 | - | 0 | 0 | 0 | 40 | 1 | 29 | - | 29 | 0 | 0 | 0
4589081 | ITGA7_v1 | SNP | A | C | 1 | 43 | - | 43 | 0 | 0 | 0 | 1 | 28 | - | 0 | 0 | 0 | 28
4598857 | ITGA7_v1 | SNP | T | C | 1 | 6 | 0 | 6 | 0 | - | 0 | 1 | 1 | 0 | 1 | 0 | - | 0
4604509 | METTL7B | SNP | T | C | 1 | 54 | 0 | 54 | 0 | - | 0 | 1 | 6 | 0 | 6 | 0 | - | 0
4656233 | OR10P1 | SNP | C | T | 1 | 32 | 0 | - | 0 | 32 | 0 | 1 | 13 | 0 | - | 0 | 13 | 0
4656314 | OR10P1 | SNP | C | T | 1 | 18 | 0 | - | 0 | 18 | 0 | 1 | 11 | 0 | - | 0 | 11 | 0
4656397 | OR10P1 | SNP | A | G | 1 | 58 | - | 0 | 58 | 0 | 0 | 1 | 26 | - | 0 | 26 | 0 | 0
4656501 | OR10P1 | SNP | G | A | 1 | 101 | 101 | 0 | - | 0 | 0 | 0.938 | 16 | 15 | 0 | - | 0 | 0
4656860 | OR10P1 | SNP | C | T | 1 | 28 | 0 | - | 0 | 28 | 0 | 1 | 15 | 0 | - | 0 | 15 | 0
4657066 | OR10P1 | SNP | T | G | 1 | 56 | 0 | 0 | 56 | - | 0 | 1 | 6 | 0 | 0 | 6 | - | 0
4748554 | OR6C65 | SNP | A | T | 1 | 44 | - | 0 | 0 | 44 | 0 | 1 | 19 | - | 0 | 0 | 19 | 0
4748680 | OR6C65 | SNP | C | T | 0.919 | 86 | 0 | - | 0 | 79 | 0 | 1 | 5 | 0 | - | 0 | 5 | 0
4748833 | OR6C65 | SNP | G | A | 0.813 | 16 | 13 | 0 | - | 0 | 0 | 1 | 4 | 4 | 0 | - | 0 | 0
5321921 | OR6C2 | SNP | C | A | 1 | 23 | 23 | - | 0 | 0 | 0 | 1 | 7 | 7 | - | 0 | 0 | 0
5428629 | OR6C70 | SNP | A | G | 1 | 64 | - | 0 | 64 | 0 | 0 | 1 | 14 | - | 0 | 14 | 0 | 0
5500456 | OR6C68 | SNP | A | C | 0.75 | 8 | - | 6 | 0 | 0 | 0
5500457 | OR6C68 | SNP | A | C | 1 | 9 | - | 9 | 0 | 0 | 0
6076579 | OR6C74 | SNP | C | G | 1 | 103 | 0 | - | 103 | 0 | 0 | 1 | 28 | 0 | - | 28 | 0 | 0
6614923 | OR9K2 | SNP | G | C | 1 | 111 | 0 | 111 | - | 0 | 0 | 0.986 | 69 | 0 | 68 | - | 0 | 0
6633868 | OR9K2 | SNP | A | G | 0.877 | 65 | - | 0 | 57 | 0 | 0 | 0.593 | 27 | - | 0 | 16 | 0 | 0
6633883 | OR9K2 | SNP | C | T | 0.756 | 86 | 0 | - | 0 | 65 | 0
6634562 | OR9K2 | SNP | G | A | 0.941 | 17 | 16 | 0 | - | 0 | 0 | 1 | 7 | 7 | 0 | - | 0 | 0
6634587 | OR9K2 | SNP | G | C | 1 | 20 | 0 | 20 | - | 0 | 0 | 1 | 6 | 0 | 6 | - | 0 | 0
6929387 | NEUROD4 | SNP | C | A | 1 | 28 | 28 | - | 0 | 0 | 0 | 0.909 | 11 | 10 | - | 0 | 0 | 0