R1 file	R2 file	reference	alias	left flank	right flank	left primer	right primer
HMKV7DMXX_103911-001-001_210_MT-01_Cas9D10A_p358-p359_GFPneg_T280819-JS_L001_R1.fastq.gz	HMKV7DMXX_103911-001-001_210_MT-01_Cas9D10A_p358-p359_GFPneg_T280819-JS_L001_R2.fastq.gz	HPRT-exon3_PacBio_o1540-o1541.txt	Fig2_WT_Cas9D10A	AAGGAGATGGGAGGCCATCA	TGCTGGATTACATTAAAGCA	GGACTGAAAGACTTGCTCGAGAT	ACACAGTAGCTCTTCAGTCTGATAAAA
HMKV7DMXX_103911-001-001_212_MT-03_Cas9D10A_p358-p359_GFPneg_T280819-JS_L001_R1.fastq.gz	HMKV7DMXX_103911-001-001_212_MT-03_Cas9D10A_p358-p359_GFPneg_T280819-JS_L001_R2.fastq.gz	HPRT-exon3_PacBio_o1540-o1541.txt	Fig2_Polq_Cas9D10A	AAGGAGATGGGAGGCCATCA	TGCTGGATTACATTAAAGCA	GGACTGAAAGACTTGCTCGAGAT	ACACAGTAGCTCTTCAGTCTGATAAAA
HMKV7DMXX_103911-001-001_214_MT-05_Cas9D10A_p358-p359_GFPneg_T280819-JS_L001_R1.fastq.gz	HMKV7DMXX_103911-001-001_214_MT-05_Cas9D10A_p358-p359_GFPneg_T280819-JS_L001_R2.fastq.gz	HPRT-exon3_PacBio_o1540-o1541.txt	Fig2_Ku80_Cas9D10A	AAGGAGATGGGAGGCCATCA	TGCTGGATTACATTAAAGCA	GGACTGAAAGACTTGCTCGAGAT	ACACAGTAGCTCTTCAGTCTGATAAAA
HMKV7DMXX_103911-001-001_264_MT-01_Cas9N863A_p181-p182_GFPneg_T140819_L001_R1.fastq.gz	HMKV7DMXX_103911-001-001_264_MT-01_Cas9N863A_p181-p182_GFPneg_T140819_L001_R2.fastq.gz	gfp.txt	Fig2_WT_Cas9N863A	gaagttcatctgcaccaccg	ctacggcgtgcagtgcttca	gacgtaaacggccacaagtt	ggacttgaagaagtcgtgctg
HMKV7DMXX_103911-001-001_266_MT-03_Cas9N863A_p181-p182_GFPneg_T140819_L001_R1.fastq.gz	HMKV7DMXX_103911-001-001_266_MT-03_Cas9N863A_p181-p182_GFPneg_T140819_L001_R2.fastq.gz	gfp.txt	Fig2_Polq_Cas9N863A	gaagttcatctgcaccaccg	ctacggcgtgcagtgcttca	gacgtaaacggccacaagtt	ggacttgaagaagtcgtgctg
HMKV7DMXX_103911-001-001_268_MT-05_Cas9N863A_p181-p182_GFPneg_T140819_L001_R1.fastq.gz	HMKV7DMXX_103911-001-001_268_MT-05_Cas9N863A_p181-p182_GFPneg_T140819_L001_R2.fastq.gz	gfp.txt	Fig2_Ku80_Cas9N863A	gaagttcatctgcaccaccg	ctacggcgtgcagtgcttca	gacgtaaacggccacaagtt	ggacttgaagaagtcgtgctg
PacBio_sgRNA1.fq.gz		HPRT-exon3_PacBio_o1540-o1541.txt	Fig3_PacBio_1	AAGACTTGCTCGAGATGTCA	TGAAGGAGATGGGAGGCCAT		
WT-p42-6-tg_HNL5GCCXY_S47_L004_R1_001.fastq.gz	WT-p42-6-tg_HNL5GCCXY_S47_L004_R2_001.fastq.gz	HPRT-exon3_PacBio_o1540-o1541.txt	Fig3_Illumina_1	AAGACTTGCTCGAGATGTCA	TGAAGGAGATGGGAGGCCAT	TGTGTCCTGTAAAAGTTTAATGTGTAA	AATCCAGCAGGTCAGCAAAG
PacBio_sgRNA404.fq.gz		HPRT-exon3_PacBio_o1540-o1541.txt	Fig3_PacBio_3	CATCACATTGTGGCCCTCTG	TGTGCTCAAGGGGGGCTATA		
HKWMVDSX2_104722-001-209_wt_#1_sg404_i558_0uM_(1)_L003_R1.fastq.gz	HKWMVDSX2_104722-001-209_wt_#1_sg404_i558_0uM_(1)_L003_R2.fastq.gz	HPRT-exon3_PacBio_o1540-o1541.txt	Fig3_Illumina_3	CATCACATTGTGGCCCTCTG	TGTGCTCAAGGGGGGCTATA	gGACTGAAAGACTTGCTCGAGAT	ACAGTAGCTCTTCAGTCTGATAAAA
H3CHWDMXY_104596-001-001_556_qua2478_XF1520_6_R1.fastq.gz	H3CHWDMXY_104596-001-001_556_qua2478_XF1520_6_R2.fastq.gz	qua2478.txt	Fig2_G4	ttcttttgagtctactacag	ccccccccccccccccccccccccccac	tgagaaatgggaagaaaagttattg	acattttatcatgccctcagc
base_editor.fastq.gz		emx1.txt	Fig2_base_editor_EMX1	GGAGGAGGAAGGGCCTGAGT	CCGAGCAGAAGAAGAAGGGCT		
WT-p41-not-sorted_HNL5GCCXY_S16_L004_R1_001.fastq.gz	WT-p41-not-sorted_HNL5GCCXY_S16_L004_R2_001.fastq.gz	HPRT-FASTA-CR1.txt	Fig1_WT_Cas9WT	TTTGTTTTGTATACCTAATCATTATG	CCGAGGATTTGGAAAAAGTGTTTA	gcagATTAGCGATGATGAACC	TGTCCATAATCAGTCCATGAGG
Polq-p42_HNL5GCCXY_S51_L004_R1_001.fastq.gz	Polq-p42_HNL5GCCXY_S51_L004_R2_001.fastq.gz	HPRT-exon3_PacBio_o1540-o1541.txt	Fig2_Polq_Cas9WT	TGAAAGACTTGCTCGAGATGTCA	TGAAGGAGATGGGAGGCCATCACATT	TGTGTCCTGTAAAAGTTTAATGTGTAA	AATCCAGCAGGTCAGCAAAG
WT-p42-6-tg_HNL5GCCXY_S47_L004_R1_001.fastq.gz	WT-p42-6-tg_HNL5GCCXY_S47_L004_R2_001.fastq.gz	HPRT-exon3_PacBio_o1540-o1541.txt	Fig2_WT_Cas9WT	TGAAAGACTTGCTCGAGATGTCA	TGAAGGAGATGGGAGGCCATCACATT	TGTGTCCTGTAAAAGTTTAATGTGTAA	AATCCAGCAGGTCAGCAAAG
Ku80-p42-581-583-6tg-0uM-558_HW5N5CCXY_S199_L008_R1_001.fastq.gz	Ku80-p42-581-583-6tg-0uM-558_HW5N5CCXY_S199_L008_R2_001.fastq.gz	HPRT-exon3_PacBio_o1540-o1541.txt	Fig2_Ku80_Cas9WT	TGAAAGACTTGCTCGAGATGTCA	TGAAGGAGATGGGAGGCCATCACATT	TGTGTCCTGTAAAAGTTTAATGTGTAA	AATCCAGCAGGTCAGCAAAG