Supplemental Material for Serrano Negron, Hansen, and Harbison, 2018

Figure
S1. Plot of sequence coverage in SIP lines. Figure S2. Plot of LoFreq score
distributions for known and novel variants. Figure S3. Day sleep in The Sleep
Inbred Panel. Figure S4. Comparison of SIP night sleep and 24-hour sleep with
the longest- and shortest-sleeping lines of the DGRP. Table S1. Analysis of
variance of sleep traits. Table S2. Comparison of variant calls between BWA and
novoalign alignments. Table S3. Mean sleep parameters for each line.Table S4. Comparison
of SIP line sleep phenotypes to progenitor populations by progenitor selection
scheme and replicate population. Table S5. Mean sleep CVE parameters
for each line. Table S6. ANOVA of sleep CVE traits by
progenitor selection scheme and replicate population. Table S7. Standard
deviation across days for each sleep parameter of each line. Table S8. ANOVA of
sleep σ traits by progenitor selection scheme and
replicate population. Table S9. Sequence variant categories. Table S10. Comparison
of actual versus predicted homozygosity on each chromosome arm of the SIP. File
S1. Plot of predicted DGRP founder haplotypes from Hidden Markov Model for
Chromosomes X, 2L, 3L, and 3R. File S2. Sleep Inbred Panel list of
variants and confidence intervals using BWA alignment. File S3. Sleep Inbred
Panel list of variants and confidence intervals using Novoalign alignment. File
S4. Sleep Inbred Panel annotated variant call file using BWA alignment. File
S5. Sleep Inbred Panel annotated variant call file using Novoalign alignment.

图 S1. SIP 线路序列覆盖率的描绘图。图 S2. 已知与新型变异的 LoFreq 分数分布图。图 S3. The Sleep Inbred Panel 的日间睡眠情况。图 S4. SIP 夜间睡眠与 DGRP 最长和最短睡眠线 24 小时睡眠的对比。表 S1. 睡眠性状的方差分析。表 S2. BWA 和 novoalign 对齐中变异调用之间的比较。表 S3. 每条线路的平均睡眠参数。表 S4. 通过亲本选择方案和重复种群，比较 SIP 线路睡眠表型与亲本种群。表 S5. 每条线路的平均睡眠 CVE 参数。表 S6. 通过亲本选择方案和重复种群进行的睡眠 CVE 特征的 ANOVA 分析。表 S7. 每条线路每个睡眠参数每日标准偏差。表 S8. 通过亲本选择方案和重复种群进行的睡眠 σ 特征的 ANOVA 分析。表 S9. 序列变异类别。表 S10. 实际与预测同质性在每个 SIP 染色体臂上的比较。文件 S1. 基于 HMM 对 X、2L、3L 和 3R 染色体的预测 DGRP 创始者单倍型的描绘图。文件 S2. 使用 BWA 对齐的睡眠 Inbred Panel 变异和置信区间列表。文件 S3. 使用 Novoalign 对齐的睡眠 Inbred Panel 变异和置信区间列表。文件 S4. 使用 BWA 对齐的睡眠 Inbred Panel 变异调用注释文件。文件 S5. 使用 Novoalign 对齐的睡眠 Inbred Panel 变异调用注释文件。