Dataset Open Access

Supplementary Data of "Introgression between highly divergent sea squirt genomes: an adaptive breakthrough?"

Fraïsse Christelle

Datasets used in the analyses (see Table S5 for a detailed description).

► Dataset #1: phased SNPs with offspring.
joint_bwa_mem_mdup_IR_recal_variants_refine_HQ_denovo_Oad18ad31ad2.clean.biallelic.noindels_filter_phased_phasedBeagle.vcf
► Dataset #2: all SNPs with missing data.
joint_bwa_mem_mdup_IR_recal_variants_refine_HQ_denovo_Oad18ad31ad2.clean.biallelic.noindels_filter_parents_oNA5.vcf
► Dataset #3a: phased SNPs.
joint_bwa_mem_mdup_IR_recal_variants_refine_HQ_denovo_Oad18ad31ad2.clean.biallelic.noindels_filter_phased_phasedBeagle_parents.vcf
► Dataset #3b: CDS version of “phased SNPs”.
joint_bwa_mem_mdup_IR_recal_variants_refine_HQ_denovo_Oad18ad31ad2.clean.biallelic.noindels_filter_phased_phasedBeagle_parents_SNP_CHRall.orf.cds
► Dataset #3c: FASTA version of “phased SNPs”.
joint_bwa_mem_mdup_IR_recal_variants_refine_HQ_denovo_Oad18ad31ad2.clean.biallelic.noindels_filter_phased_phasedBeagle_parents_SNP_chr5.sub_${START}-${END}.fasta
► Dataset #4: ancestry informative phased SNPs.
joint_bwa_mem_mdup_IR_recal_variants_refine_HQ_denovo_Oad18ad31ad2.clean.biallelic.noindels_filter_phased_phasedBeagle_parents.frq.fixed.vcf
► Dataset #5: all SNPs.
joint_bwa_mem_mdup_IR_recal_variants_refine_HQ_denovo_Oad18ad31ad2.clean.biallelic.noindels_filter_parents_oNA.vcf
► Dataset #6: all polarized SNPs.
joint_bwa_mem_mdup_IR_recal_variants_refine_HQ_denovo_Oad18ad31ad2.clean.biallelic.noindels_filter_parents_raw_refine_HQ_edwardsi_oNA3_polar.vcf
► Dataset #7: unfiltered mapping files.
ciona_bwa-mapping_${IND}_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam

Files (7.4 GB)
Name Size
ciona_bwa-mapping_ad10_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:a4357b539cb95fc9a0613c290490172e
25.5 MB Download
ciona_bwa-mapping_ad11_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:3ca5337c817dbb501292807c3be59a70
21.1 MB Download
ciona_bwa-mapping_ad12_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:b9beafd921f12d77777f48dbb5295ca3
17.3 MB Download
ciona_bwa-mapping_ad13_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:ad03882566adb172555b5b493714199c
16.8 MB Download
ciona_bwa-mapping_ad15_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:b5f4f166f5496e0b395d4ab791791349
17.1 MB Download
ciona_bwa-mapping_ad16_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:c51f936c08c484dae9d706caae4fc067
13.7 MB Download
ciona_bwa-mapping_ad19_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:5d0bc20f70e7606ed4bc07e860b2fa6a
18.7 MB Download
ciona_bwa-mapping_ad22_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:adca8f7ae4513b9c38b6f189a64af5c5
48.9 MB Download
ciona_bwa-mapping_ad23_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:2234204217d4449b6ccf6cfaafa79481
18.5 MB Download
ciona_bwa-mapping_ad24_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:70dc472371866b308176f26e68208e3e
22.2 MB Download
ciona_bwa-mapping_ad25_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:0e0d5675f375f89017c7756dd013316e
20.8 MB Download
ciona_bwa-mapping_ad26_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:502e998da16bca6f06814a83a0a26d96
24.0 MB Download
ciona_bwa-mapping_ad27_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:8a1b90cab8f9a75a0bf16dac341e2126
17.5 MB Download
ciona_bwa-mapping_ad29_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:a77db681e80c03ab0994c0c0d7f48206
17.7 MB Download
ciona_bwa-mapping_ad30_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:b3f3086700762be5731484241d52491d
15.7 MB Download
ciona_bwa-mapping_ad32_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:ce5a402188330d7ce6a6ec8700f7585e
28.6 MB Download
ciona_bwa-mapping_ad33_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:b254c83472b369e4f3b99b861f045478
21.4 MB Download
ciona_bwa-mapping_ad34_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:3077ea2cebd977c0b6adbd9cf7e0f285
20.8 MB Download
ciona_bwa-mapping_ad35_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:0857bca8856d510938bfeeb9b440ec08
14.3 MB Download
ciona_bwa-mapping_ad3_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:bcec34b3b93131537c32db62d1e11a0f
22.7 MB Download
ciona_bwa-mapping_ad4_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:03cfe209a8b6d5388ceabff1f8efc218
19.4 MB Download
ciona_bwa-mapping_ad6_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:f4d62bde62d9383e3b666424a7e0b84e
13.3 MB Download
ciona_bwa-mapping_ad7_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:f2873f276d0f3f08f61b2409bfe19dec
23.3 MB Download
ciona_bwa-mapping_ad9_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:8c57005c8fdc02064903c91b85a2251d
14.5 MB Download
ciona_bwa-mapping_cr4_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:9db5419083521b1ac428ef6caf5aae04
23.6 MB Download
ciona_bwa-mapping_cr5_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:999874de776b198bbdb7e99cb495c201
19.7 MB Download
ciona_bwa-mapping_cr6_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:5b5668e6e83ba5795e9ad69d96cd2f66
22.8 MB Download
ciona_bwa-mapping_cr7_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:20f9bed97ee455b6b067bc942396d744
18.3 MB Download
ciona_bwa-mapping_cr8_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
md5:f89d60a991325525906f757dec09489b
17.5 MB Download
joint_bwa_mem_mdup_IR_recal_variants_refine_HQ_denovo_Oad18ad31ad2.clean.biallelic.noindels_filter_parents_oNA.vcf
md5:2ea2a1a69b90948832d29eb96c43e3f8
1.1 GB Download
joint_bwa_mem_mdup_IR_recal_variants_refine_HQ_denovo_Oad18ad31ad2.clean.biallelic.noindels_filter_parents_oNA5.vcf
md5:26738fb04dfa0dfb3a76422cdaac983d
4.3 GB Download
joint_bwa_mem_mdup_IR_recal_variants_refine_HQ_denovo_Oad18ad31ad2.clean.biallelic.noindels_filter_parents_raw_refine_HQ_edwardsi_oNA3_polar.vcf
md5:4153fc353906d7c010a666e227e4c5ff
225.7 MB Download
joint_bwa_mem_mdup_IR_recal_variants_refine_HQ_denovo_Oad18ad31ad2.clean.biallelic.noindels_filter_phased_phasedBeagle.vcf
md5:db81ba19f2ba638f01d74f437b8a30a4
398.9 MB Download
joint_bwa_mem_mdup_IR_recal_variants_refine_HQ_denovo_Oad18ad31ad2.clean.biallelic.noindels_filter_phased_phasedBeagle_parents.frq.fixed.vcf
md5:e2d02e02316281d97c1900ff9900dafe
46.8 MB Download
joint_bwa_mem_mdup_IR_recal_variants_refine_HQ_denovo_Oad18ad31ad2.clean.biallelic.noindels_filter_phased_phasedBeagle_parents.vcf
md5:c8bd60a8650e4ca3e0f481663b10052c
268.4 MB Download
joint_bwa_mem_mdup_IR_recal_variants_refine_HQ_denovo_Oad18ad31ad2.clean.biallelic.noindels_filter_phased_phasedBeagle_parents_SNP_chr5.sub_1050000-1100000.fasta
md5:2253cf65e53872d9d28e6b7d112578fb
2.4 MB Download
joint_bwa_mem_mdup_IR_recal_variants_refine_HQ_denovo_Oad18ad31ad2.clean.biallelic.noindels_filter_phased_phasedBeagle_parents_SNP_chr5.sub_950000-1000000.fasta
md5:b838fb28ca292da54d6af663499bd6cd
2.4 MB Download
joint_bwa_mem_mdup_IR_recal_variants_refine_HQ_denovo_Oad18ad31ad2.clean.biallelic.noindels_filter_phased_phasedBeagle_parents_SNP_CHRall.orf.cds
md5:56489e63830b3ab4407d420a1a5c0400
481.3 MB Download
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