The allele frequency, missing rate of all the detected variants in inbred mouse study

1. For the 35 strains and 39 strains, we respectively described the allele frequency (AF) and the missing rate of genotype for each SNP and INDEL variant. For SVs, only the missing rate of genotype was provided. Additionally, the length of each INDEL and SV variant was reported.

2. 35 classical inbred strainsA/J: AJC57BL/10J: B10J    C57L/J: C57LCBA/J: CBADBA/1J: DBA1JDBA/2J: DBA2JFVB/NJ: FVBKK.Cg-Ay/J: KKLP/J: LPNOD/ShiLtJ: NODNOR/LtJ: NORNZB/BlNJ: NZBNZW/LacJ: NZWTALLYHO/JngJ: THAKR/J: AKRB10.D2-Hc1 H2d H2-T18c/nSnJ: B10D2C3H/HeJ: C3HRF/J: RFSJL/J: SJLMRL/MpJ: MRLNZO/HILtJ: NZOSWR/J: SWR129S1/SvlmJ: 129S1BALB/cJ: BALBBTBR T+ Itpr3tf/J: BTBRBUB/BnJ: BUBMA/MyJ: MA/MyC58/J: C58JSM/J: SMJCE/J: CEPL/J: PLSEA/GnJ: SEAI/LnJ: ILNJ2RHJ/LeJ: RH2P/J: PJ

3. 4 wild-derived inbred strainsCAST/EiJ: CASTMOLF/EiJ: MOLFSPRET/EiJ: SPRETWSB/EiJ: WSB

4. s35: 35 classical inbred strains    s39: 35 classical inbred strains + 4 wild-derived inbred strains

5. af: allele frequency    miss: missing rate of genotype    len: length of indel or structural variant (sv)    snp: single nucleotide polymorphisms    indel: insertion-deletion    del: deletion    ins: insertion    dup: duplication    inv: inversion    small: length of structural variant (sv) is between 50 bp and 1000 bp    large: length of structural variant (sv) is greater than 1000 bp

6. The naming convention for ID in structural variation files is: "chr-pos-sv type-sv length", such as "chr1-3101582-DEL-357".