	.file	"599717.c"
	.intel_syntax noprefix
	.text
	.globl	allseqs
	.bss
	.align 32
	.type	allseqs, @object
	.size	allseqs, 504
allseqs:
	.zero	504
	.globl	numseqs
	.align 4
	.type	numseqs, @object
	.size	numseqs, 4
numseqs:
	.zero	4
	.globl	dna_alpha
	.section	.rodata
.LC0:
	.string	"ACGT"
	.section	.data.rel.local,"aw"
	.align 8
	.type	dna_alpha, @object
	.size	dna_alpha, 8
dna_alpha:
	.quad	.LC0
	.globl	valid_alpha
	.section	.rodata
.LC1:
	.string	"ACGTN-"
	.section	.data.rel.local
	.align 8
	.type	valid_alpha, @object
	.size	valid_alpha, 8
valid_alpha:
	.quad	.LC1
	.globl	DNA_PRINT
	.bss
	.align 8
	.type	DNA_PRINT, @object
	.size	DNA_PRINT, 8
DNA_PRINT:
	.zero	8
	.globl	DNA_LET
	.align 8
	.type	DNA_LET, @object
	.size	DNA_LET, 8
DNA_LET:
	.zero	8
	.globl	NUM_ONES
	.align 8
	.type	NUM_ONES, @object
	.size	NUM_ONES, 8
NUM_ONES:
	.zero	8
	.text
	.globl	init_consts
	.type	init_consts, @function
init_consts:
.LFB6:
	.cfi_startproc
	endbr64
	push	rbp
	.cfi_def_cfa_offset 16
	.cfi_offset 6, -16
	mov	rbp, rsp
	.cfi_def_cfa_register 6
	sub	rsp, 16
	mov	edi, 16
	call	malloc@PLT
	mov	QWORD PTR DNA_LET[rip], rax
	mov	edi, 16
	call	malloc@PLT
	mov	QWORD PTR DNA_PRINT[rip], rax
	mov	edi, 16
	call	malloc@PLT
	mov	QWORD PTR NUM_ONES[rip], rax
	mov	DWORD PTR -4[rbp], 0
	jmp	.L2
.L3:
	mov	rdx, QWORD PTR DNA_PRINT[rip]
	mov	eax, DWORD PTR -4[rbp]
	cdqe
	add	rdx, rax
	mov	BYTE PTR [rdx], -1
	mov	rcx, QWORD PTR DNA_LET[rip]
	mov	eax, DWORD PTR -4[rbp]
	cdqe
	add	rax, rcx
	movzx	edx, BYTE PTR [rdx]
	mov	BYTE PTR [rax], dl
	mov	rcx, QWORD PTR NUM_ONES[rip]
	mov	edx, DWORD PTR -4[rbp]
	movsx	rdx, edx
	add	rdx, rcx
	movzx	eax, BYTE PTR [rax]
	mov	BYTE PTR [rdx], al
	add	DWORD PTR -4[rbp], 1
.L2:
	cmp	DWORD PTR -4[rbp], 15
	jle	.L3
	mov	rax, QWORD PTR DNA_LET[rip]
	add	rax, 1
	mov	BYTE PTR [rax], 0
	mov	rax, QWORD PTR DNA_LET[rip]
	add	rax, 2
	mov	BYTE PTR [rax], 1
	mov	rax, QWORD PTR DNA_LET[rip]
	add	rax, 4
	mov	BYTE PTR [rax], 2
	mov	rax, QWORD PTR DNA_LET[rip]
	add	rax, 8
	mov	BYTE PTR [rax], 3
	mov	rax, QWORD PTR DNA_PRINT[rip]
	mov	BYTE PTR [rax], 78
	mov	rax, QWORD PTR DNA_PRINT[rip]
	add	rax, 1
	mov	BYTE PTR [rax], 65
	mov	rax, QWORD PTR DNA_PRINT[rip]
	add	rax, 2
	mov	BYTE PTR [rax], 67
	mov	rax, QWORD PTR DNA_PRINT[rip]
	add	rax, 4
	mov	BYTE PTR [rax], 71
	mov	rax, QWORD PTR DNA_PRINT[rip]
	add	rax, 8
	mov	BYTE PTR [rax], 84
	mov	rax, QWORD PTR DNA_PRINT[rip]
	add	rax, 3
	mov	BYTE PTR [rax], 77
	mov	rax, QWORD PTR DNA_PRINT[rip]
	add	rax, 5
	mov	BYTE PTR [rax], 82
	mov	rax, QWORD PTR DNA_PRINT[rip]
	add	rax, 9
	mov	BYTE PTR [rax], 87
	mov	rax, QWORD PTR DNA_PRINT[rip]
	add	rax, 6
	mov	BYTE PTR [rax], 83
	mov	rax, QWORD PTR DNA_PRINT[rip]
	add	rax, 10
	mov	BYTE PTR [rax], 89
	mov	rax, QWORD PTR DNA_PRINT[rip]
	add	rax, 12
	mov	BYTE PTR [rax], 75
	mov	rax, QWORD PTR DNA_PRINT[rip]
	add	rax, 7
	mov	BYTE PTR [rax], 86
	mov	rax, QWORD PTR DNA_PRINT[rip]
	add	rax, 11
	mov	BYTE PTR [rax], 72
	mov	rax, QWORD PTR DNA_PRINT[rip]
	add	rax, 13
	mov	BYTE PTR [rax], 68
	mov	rax, QWORD PTR DNA_PRINT[rip]
	add	rax, 14
	mov	BYTE PTR [rax], 66
	mov	rax, QWORD PTR DNA_PRINT[rip]
	add	rax, 15
	mov	BYTE PTR [rax], 88
	mov	rax, QWORD PTR NUM_ONES[rip]
	mov	BYTE PTR [rax], 0
	mov	rax, QWORD PTR NUM_ONES[rip]
	add	rax, 1
	mov	BYTE PTR [rax], 1
	mov	rax, QWORD PTR NUM_ONES[rip]
	add	rax, 2
	mov	BYTE PTR [rax], 1
	mov	rax, QWORD PTR NUM_ONES[rip]
	add	rax, 4
	mov	BYTE PTR [rax], 1
	mov	rax, QWORD PTR NUM_ONES[rip]
	add	rax, 8
	mov	BYTE PTR [rax], 1
	mov	rax, QWORD PTR NUM_ONES[rip]
	add	rax, 3
	mov	BYTE PTR [rax], 2
	mov	rax, QWORD PTR NUM_ONES[rip]
	add	rax, 5
	mov	BYTE PTR [rax], 2
	mov	rax, QWORD PTR NUM_ONES[rip]
	add	rax, 9
	mov	BYTE PTR [rax], 2
	mov	rax, QWORD PTR NUM_ONES[rip]
	add	rax, 6
	mov	BYTE PTR [rax], 2
	mov	rax, QWORD PTR NUM_ONES[rip]
	add	rax, 10
	mov	BYTE PTR [rax], 2
	mov	rax, QWORD PTR NUM_ONES[rip]
	add	rax, 12
	mov	BYTE PTR [rax], 2
	mov	rax, QWORD PTR NUM_ONES[rip]
	add	rax, 7
	mov	BYTE PTR [rax], 3
	mov	rax, QWORD PTR NUM_ONES[rip]
	add	rax, 11
	mov	BYTE PTR [rax], 3
	mov	rax, QWORD PTR NUM_ONES[rip]
	add	rax, 13
	mov	BYTE PTR [rax], 3
	mov	rax, QWORD PTR NUM_ONES[rip]
	add	rax, 14
	mov	BYTE PTR [rax], 3
	mov	rax, QWORD PTR NUM_ONES[rip]
	add	rax, 15
	mov	BYTE PTR [rax], 4
	nop
	leave
	.cfi_def_cfa 7, 8
	ret
	.cfi_endproc
.LFE6:
	.size	init_consts, .-init_consts
	.globl	mk_seq
	.type	mk_seq, @function
mk_seq:
.LFB7:
	.cfi_startproc
	endbr64
	push	rbp
	.cfi_def_cfa_offset 16
	.cfi_offset 6, -16
	mov	rbp, rsp
	.cfi_def_cfa_register 6
	sub	rsp, 16
	mov	edi, 40
	call	malloc@PLT
	mov	QWORD PTR -8[rbp], rax
	mov	rax, QWORD PTR -8[rbp]
	mov	QWORD PTR [rax], 0
	mov	rax, QWORD PTR -8[rbp]
	mov	QWORD PTR 8[rax], 0
	mov	rax, QWORD PTR -8[rbp]
	mov	QWORD PTR 16[rax], 0
	mov	rax, QWORD PTR -8[rbp]
	mov	DWORD PTR 32[rax], -1
	mov	rax, QWORD PTR -8[rbp]
	leave
	.cfi_def_cfa 7, 8
	ret
	.cfi_endproc
.LFE7:
	.size	mk_seq, .-mk_seq
	.section	.rodata
.LC2:
	.string	"2COULDN'T READ ALIGNMENT\n"
	.align 8
.LC3:
	.string	"File is not in FASTA format!!\n"
.LC4:
	.string	"seq %s not found!\n"
	.text
	.globl	read_align
	.type	read_align, @function
read_align:
.LFB8:
	.cfi_startproc
	endbr64
	push	rbp
	.cfi_def_cfa_offset 16
	.cfi_offset 6, -16
	mov	rbp, rsp
	.cfi_def_cfa_register 6
	push	rbx
	sub	rsp, 1096
	.cfi_offset 3, -24
	mov	QWORD PTR -1096[rbp], rdi
	mov	DWORD PTR -1100[rbp], esi
	mov	rax, QWORD PTR fs:40
	mov	QWORD PTR -24[rbp], rax
	xor	eax, eax
	mov	edi, 1
	call	malloc@PLT
	mov	QWORD PTR -1064[rbp], rax
	mov	DWORD PTR -1072[rbp], 1
	mov	DWORD PTR -1068[rbp], 0
	mov	rax, QWORD PTR -1096[rbp]
	mov	rdi, rax
	call	feof@PLT
	test	eax, eax
	je	.L7
	mov	rax, QWORD PTR stderr[rip]
	mov	rcx, rax
	mov	edx, 25
	mov	esi, 1
	lea	rdi, .LC2[rip]
	call	fwrite@PLT
	mov	edi, 2
	call	exit@PLT
.L7:
	mov	rdx, QWORD PTR -1096[rbp]
	lea	rax, -1056[rbp]
	mov	esi, 255
	mov	rdi, rax
	call	fgets@PLT
	movzx	eax, BYTE PTR -1056[rbp]
	cmp	al, 62
	je	.L8
	mov	rax, QWORD PTR stderr[rip]
	mov	rcx, rax
	mov	edx, 30
	mov	esi, 1
	lea	rdi, .LC3[rip]
	call	fwrite@PLT
	mov	edi, 1
	call	exit@PLT
.L8:
	lea	rax, -1056[rbp]
	mov	esi, 10
	mov	rdi, rax
	call	strchr@PLT
	mov	BYTE PTR [rax], 0
	mov	rax, QWORD PTR -1096[rbp]
	mov	rdi, rax
	call	fgetc@PLT
	mov	BYTE PTR -1078[rbp], al
	jmp	.L9
.L13:
	movsx	eax, BYTE PTR -1078[rbp]
	mov	edi, eax
	call	isspace@PLT
	test	eax, eax
	jne	.L10
	movsx	eax, BYTE PTR -1078[rbp]
	mov	edi, eax
	call	toupper@PLT
	mov	BYTE PTR -1077[rbp], al
	movsx	edx, BYTE PTR -1077[rbp]
	mov	rax, QWORD PTR valid_alpha[rip]
	mov	esi, edx
	mov	rdi, rax
	call	strchr@PLT
	test	rax, rax
	jne	.L11
	mov	BYTE PTR -1078[rbp], 78
.L11:
	mov	eax, DWORD PTR -1068[rbp]
	lea	edx, 1[rax]
	mov	DWORD PTR -1068[rbp], edx
	movsx	rdx, eax
	mov	rax, QWORD PTR -1064[rbp]
	add	rdx, rax
	movzx	eax, BYTE PTR -1078[rbp]
	mov	BYTE PTR [rdx], al
	mov	eax, DWORD PTR -1068[rbp]
	cmp	eax, DWORD PTR -1072[rbp]
	jl	.L10
	sal	DWORD PTR -1072[rbp]
	mov	eax, DWORD PTR -1072[rbp]
	movsx	rdx, eax
	mov	rax, QWORD PTR -1064[rbp]
	mov	rsi, rdx
	mov	rdi, rax
	call	realloc@PLT
	mov	QWORD PTR -1064[rbp], rax
.L10:
	mov	rax, QWORD PTR -1096[rbp]
	mov	rdi, rax
	call	fgetc@PLT
	mov	BYTE PTR -1078[rbp], al
.L9:
	cmp	BYTE PTR -1078[rbp], 62
	je	.L12
	cmp	BYTE PTR -1078[rbp], -1
	jne	.L13
.L12:
	cmp	DWORD PTR -1100[rbp], 0
	js	.L14
	lea	rax, -1056[rbp]
	mov	rdi, rax
	call	strlen@PLT
	add	rax, 1
	mov	edx, DWORD PTR -1100[rbp]
	movsx	rdx, edx
	lea	rcx, 0[0+rdx*8]
	lea	rdx, allseqs[rip]
	mov	rbx, QWORD PTR [rcx+rdx]
	mov	rdi, rax
	call	malloc@PLT
	mov	QWORD PTR [rbx], rax
	lea	rax, -1056[rbp]
	mov	rdi, rax
	call	strlen@PLT
	lea	rdx, 1[rax]
	mov	eax, DWORD PTR -1100[rbp]
	cdqe
	lea	rcx, 0[0+rax*8]
	lea	rax, allseqs[rip]
	mov	rax, QWORD PTR [rcx+rax]
	mov	rax, QWORD PTR [rax]
	lea	rcx, -1056[rbp]
	mov	rsi, rcx
	mov	rdi, rax
	call	strncpy@PLT
	mov	eax, DWORD PTR -1100[rbp]
	cdqe
	lea	rdx, 0[0+rax*8]
	lea	rax, allseqs[rip]
	mov	rax, QWORD PTR [rdx+rax]
	mov	rdx, QWORD PTR -1064[rbp]
	mov	QWORD PTR 8[rax], rdx
	mov	eax, DWORD PTR -1100[rbp]
	cdqe
	lea	rdx, 0[0+rax*8]
	lea	rax, allseqs[rip]
	mov	rax, QWORD PTR [rdx+rax]
	mov	edx, DWORD PTR -1068[rbp]
	mov	DWORD PTR 24[rax], edx
	jmp	.L15
.L14:
	mov	DWORD PTR -1076[rbp], 0
	jmp	.L16
.L19:
	lea	rax, -1056[rbp]
	mov	rdi, rax
	call	strlen@PLT
	mov	rdx, rax
	mov	eax, DWORD PTR -1076[rbp]
	cdqe
	lea	rcx, 0[0+rax*8]
	lea	rax, allseqs[rip]
	mov	rax, QWORD PTR [rcx+rax]
	mov	rax, QWORD PTR [rax]
	lea	rcx, -1056[rbp]
	mov	rsi, rcx
	mov	rdi, rax
	call	strncmp@PLT
	test	eax, eax
	jne	.L17
	mov	eax, DWORD PTR -1076[rbp]
	cdqe
	lea	rdx, 0[0+rax*8]
	lea	rax, allseqs[rip]
	mov	rax, QWORD PTR [rdx+rax]
	mov	rdx, QWORD PTR -1064[rbp]
	mov	QWORD PTR 16[rax], rdx
	mov	eax, DWORD PTR -1076[rbp]
	cdqe
	lea	rdx, 0[0+rax*8]
	lea	rax, allseqs[rip]
	mov	rax, QWORD PTR [rdx+rax]
	mov	edx, DWORD PTR -1068[rbp]
	mov	DWORD PTR 28[rax], edx
	jmp	.L18
.L17:
	add	DWORD PTR -1076[rbp], 1
.L16:
	mov	eax, DWORD PTR numseqs[rip]
	cmp	DWORD PTR -1076[rbp], eax
	jl	.L19
.L18:
	mov	eax, DWORD PTR numseqs[rip]
	cmp	DWORD PTR -1076[rbp], eax
	jne	.L15
	mov	rax, QWORD PTR stderr[rip]
	lea	rdx, -1056[rbp]
	lea	rsi, .LC4[rip]
	mov	rdi, rax
	mov	eax, 0
	call	fprintf@PLT
	mov	edi, 2
	call	exit@PLT
.L15:
	cmp	BYTE PTR -1078[rbp], 62
	jne	.L20
	movsx	eax, BYTE PTR -1078[rbp]
	mov	rdx, QWORD PTR -1096[rbp]
	mov	rsi, rdx
	mov	edi, eax
	call	ungetc@PLT
	mov	eax, 1
	jmp	.L22
.L20:
	mov	eax, 0
.L22:
	mov	rbx, QWORD PTR -24[rbp]
	sub	rbx, QWORD PTR fs:40
	je	.L23
	call	__stack_chk_fail@PLT
.L23:
	mov	rbx, QWORD PTR -8[rbp]
	leave
	.cfi_def_cfa 7, 8
	ret
	.cfi_endproc
.LFE8:
	.size	read_align, .-read_align
	.section	.rodata
.LC5:
	.string	"r"
.LC6:
	.string	"COULDN'T OPEN ALIGNMENT\n"
	.text
	.globl	read_align_file
	.type	read_align_file, @function
read_align_file:
.LFB9:
	.cfi_startproc
	endbr64
	push	rbp
	.cfi_def_cfa_offset 16
	.cfi_offset 6, -16
	mov	rbp, rsp
	.cfi_def_cfa_register 6
	sub	rsp, 32
	mov	QWORD PTR -24[rbp], rdi
	mov	rax, QWORD PTR -24[rbp]
	lea	rsi, .LC5[rip]
	mov	rdi, rax
	call	fopen@PLT
	mov	QWORD PTR -8[rbp], rax
	cmp	QWORD PTR -8[rbp], 0
	jne	.L27
	mov	rax, QWORD PTR stderr[rip]
	mov	rcx, rax
	mov	edx, 24
	mov	esi, 1
	lea	rdi, .LC6[rip]
	call	fwrite@PLT
	mov	edi, 2
	call	exit@PLT
.L27:
	nop
.L26:
	mov	eax, DWORD PTR numseqs[rip]
	lea	edx, 1[rax]
	mov	DWORD PTR numseqs[rip], edx
	mov	rdx, QWORD PTR -8[rbp]
	mov	esi, eax
	mov	rdi, rdx
	call	read_align
	test	eax, eax
	jne	.L26
	nop
	nop
	leave
	.cfi_def_cfa 7, 8
	ret
	.cfi_endproc
.LFE9:
	.size	read_align_file, .-read_align_file
	.section	.rodata
.LC7:
	.string	"COULDN'T OPEN SEQ %d %s\n"
	.text
	.globl	read_sequences
	.type	read_sequences, @function
read_sequences:
.LFB10:
	.cfi_startproc
	endbr64
	push	rbp
	.cfi_def_cfa_offset 16
	.cfi_offset 6, -16
	mov	rbp, rsp
	.cfi_def_cfa_register 6
	sub	rsp, 48
	mov	DWORD PTR -36[rbp], edi
	mov	QWORD PTR -48[rbp], rsi
	mov	DWORD PTR -32[rbp], 2
	jmp	.L29
.L31:
	mov	eax, DWORD PTR -32[rbp]
	cdqe
	lea	rdx, 0[0+rax*8]
	mov	rax, QWORD PTR -48[rbp]
	add	rax, rdx
	mov	rax, QWORD PTR [rax]
	mov	QWORD PTR -24[rbp], rax
	mov	QWORD PTR -16[rbp], 0
	mov	rax, QWORD PTR -24[rbp]
	lea	rsi, .LC5[rip]
	mov	rdi, rax
	call	fopen@PLT
	mov	QWORD PTR -8[rbp], rax
	cmp	QWORD PTR -8[rbp], 0
	jne	.L30
	mov	eax, DWORD PTR -32[rbp]
	cdqe
	lea	rdx, 0[0+rax*8]
	mov	rax, QWORD PTR -48[rbp]
	add	rax, rdx
	mov	rcx, QWORD PTR [rax]
	mov	rax, QWORD PTR stderr[rip]
	mov	edx, DWORD PTR -32[rbp]
	lea	rsi, .LC7[rip]
	mov	rdi, rax
	mov	eax, 0
	call	fprintf@PLT
	mov	edi, 2
	call	exit@PLT
.L30:
	mov	eax, DWORD PTR -32[rbp]
	sub	eax, 1
	cdqe
	lea	rdx, 0[0+rax*8]
	lea	rax, allseqs[rip]
	mov	rax, QWORD PTR [rdx+rax]
	mov	QWORD PTR -16[rbp], rax
	mov	eax, DWORD PTR -32[rbp]
	lea	edx, -1[rax]
	mov	rax, QWORD PTR -16[rbp]
	mov	DWORD PTR 32[rax], edx
	mov	rax, QWORD PTR -8[rbp]
	mov	esi, -1
	mov	rdi, rax
	call	read_align
	mov	DWORD PTR -28[rbp], eax
	cmp	DWORD PTR -28[rbp], 0
	jne	.L30
	add	DWORD PTR -32[rbp], 1
.L29:
	mov	eax, DWORD PTR -32[rbp]
	cmp	eax, DWORD PTR -36[rbp]
	jl	.L31
	nop
	nop
	leave
	.cfi_def_cfa 7, 8
	ret
	.cfi_endproc
.LFE10:
	.size	read_sequences, .-read_sequences
	.section	.rodata
.LC8:
	.string	"check %d == %d\n"
	.text
	.globl	overlayseq
	.type	overlayseq, @function
overlayseq:
.LFB11:
	.cfi_startproc
	endbr64
	push	rbp
	.cfi_def_cfa_offset 16
	.cfi_offset 6, -16
	mov	rbp, rsp
	.cfi_def_cfa_register 6
	sub	rsp, 32
	mov	DWORD PTR -20[rbp], edi
	mov	DWORD PTR -8[rbp], 0
	mov	DWORD PTR -4[rbp], 0
	jmp	.L33
.L35:
	mov	eax, DWORD PTR -20[rbp]
	cdqe
	lea	rdx, 0[0+rax*8]
	lea	rax, allseqs[rip]
	mov	rax, QWORD PTR [rdx+rax]
	mov	rdx, QWORD PTR 8[rax]
	mov	eax, DWORD PTR -4[rbp]
	cdqe
	add	rax, rdx
	movzx	eax, BYTE PTR [rax]
	cmp	al, 45
	je	.L34
	mov	eax, DWORD PTR -20[rbp]
	cdqe
	lea	rdx, 0[0+rax*8]
	lea	rax, allseqs[rip]
	mov	rax, QWORD PTR [rdx+rax]
	mov	rcx, QWORD PTR 16[rax]
	mov	eax, DWORD PTR -8[rbp]
	lea	edx, 1[rax]
	mov	DWORD PTR -8[rbp], edx
	cdqe
	add	rcx, rax
	mov	eax, DWORD PTR -20[rbp]
	cdqe
	lea	rdx, 0[0+rax*8]
	lea	rax, allseqs[rip]
	mov	rax, QWORD PTR [rdx+rax]
	mov	rdx, QWORD PTR 8[rax]
	mov	eax, DWORD PTR -4[rbp]
	cdqe
	add	rdx, rax
	movzx	eax, BYTE PTR [rcx]
	mov	BYTE PTR [rdx], al
.L34:
	add	DWORD PTR -4[rbp], 1
.L33:
	mov	eax, DWORD PTR -20[rbp]
	cdqe
	lea	rdx, 0[0+rax*8]
	lea	rax, allseqs[rip]
	mov	rax, QWORD PTR [rdx+rax]
	mov	eax, DWORD PTR 24[rax]
	cmp	DWORD PTR -4[rbp], eax
	jl	.L35
	mov	eax, DWORD PTR -20[rbp]
	cdqe
	lea	rdx, 0[0+rax*8]
	lea	rax, allseqs[rip]
	mov	rax, QWORD PTR [rdx+rax]
	mov	ecx, DWORD PTR 28[rax]
	mov	rax, QWORD PTR stderr[rip]
	mov	edx, DWORD PTR -8[rbp]
	lea	rsi, .LC8[rip]
	mov	rdi, rax
	mov	eax, 0
	call	fprintf@PLT
	nop
	leave
	.cfi_def_cfa 7, 8
	ret
	.cfi_endproc
.LFE11:
	.size	overlayseq, .-overlayseq
	.globl	overlay
	.type	overlay, @function
overlay:
.LFB12:
	.cfi_startproc
	endbr64
	push	rbp
	.cfi_def_cfa_offset 16
	.cfi_offset 6, -16
	mov	rbp, rsp
	.cfi_def_cfa_register 6
	sub	rsp, 16
	mov	DWORD PTR -4[rbp], 0
	jmp	.L37
.L38:
	mov	eax, DWORD PTR -4[rbp]
	mov	edi, eax
	call	overlayseq
	add	DWORD PTR -4[rbp], 1
.L37:
	mov	eax, DWORD PTR numseqs[rip]
	cmp	DWORD PTR -4[rbp], eax
	jl	.L38
	nop
	nop
	leave
	.cfi_def_cfa 7, 8
	ret
	.cfi_endproc
.LFE12:
	.size	overlay, .-overlay
	.globl	printAlign
	.type	printAlign, @function
printAlign:
.LFB13:
	.cfi_startproc
	endbr64
	push	rbp
	.cfi_def_cfa_offset 16
	.cfi_offset 6, -16
	mov	rbp, rsp
	.cfi_def_cfa_register 6
	sub	rsp, 16
	mov	DWORD PTR -12[rbp], 0
	jmp	.L40
.L44:
	mov	eax, DWORD PTR -12[rbp]
	cdqe
	lea	rdx, 0[0+rax*8]
	lea	rax, allseqs[rip]
	mov	rax, QWORD PTR [rdx+rax]
	mov	QWORD PTR -8[rbp], rax
	mov	rax, QWORD PTR -8[rbp]
	mov	rax, QWORD PTR [rax]
	mov	rdx, QWORD PTR stdout[rip]
	mov	rsi, rdx
	mov	rdi, rax
	call	fputs@PLT
	mov	DWORD PTR -16[rbp], 0
	jmp	.L41
.L43:
	mov	eax, DWORD PTR -16[rbp]
	movsx	rdx, eax
	imul	rdx, rdx, -2004318071
	shr	rdx, 32
	add	edx, eax
	sar	edx, 5
	mov	ecx, eax
	sar	ecx, 31
	sub	edx, ecx
	imul	ecx, edx, 60
	sub	eax, ecx
	mov	edx, eax
	test	edx, edx
	jne	.L42
	mov	rax, QWORD PTR stdout[rip]
	mov	rsi, rax
	mov	edi, 10
	call	fputc@PLT
.L42:
	mov	rax, QWORD PTR -8[rbp]
	mov	rdx, QWORD PTR 8[rax]
	mov	eax, DWORD PTR -16[rbp]
	cdqe
	add	rax, rdx
	movzx	eax, BYTE PTR [rax]
	movsx	eax, al
	mov	rdx, QWORD PTR stdout[rip]
	mov	rsi, rdx
	mov	edi, eax
	call	fputc@PLT
	add	DWORD PTR -16[rbp], 1
.L41:
	mov	rax, QWORD PTR -8[rbp]
	mov	eax, DWORD PTR 24[rax]
	cmp	DWORD PTR -16[rbp], eax
	jl	.L43
	mov	rax, QWORD PTR stdout[rip]
	mov	rsi, rax
	mov	edi, 10
	call	fputc@PLT
	add	DWORD PTR -12[rbp], 1
.L40:
	mov	eax, DWORD PTR numseqs[rip]
	cmp	DWORD PTR -12[rbp], eax
	jl	.L44
	nop
	nop
	leave
	.cfi_def_cfa 7, 8
	ret
	.cfi_endproc
.LFE13:
	.size	printAlign, .-printAlign
	.section	.rodata
	.align 8
.LC9:
	.string	"Usage: overlay align.mfa seq1 [seq2].... > newalign.mfa\n"
	.text
	.globl	main
	.type	main, @function
main:
.LFB14:
	.cfi_startproc
	endbr64
	push	rbp
	.cfi_def_cfa_offset 16
	.cfi_offset 6, -16
	mov	rbp, rsp
	.cfi_def_cfa_register 6
	lea	r11, -16384[rsp]
.LPSRL0:
	sub	rsp, 4096
	or	DWORD PTR [rsp], 0
	cmp	rsp, r11
	jne	.LPSRL0
	sub	rsp, 208
	mov	DWORD PTR -16580[rbp], edi
	mov	QWORD PTR -16592[rbp], rsi
	mov	rax, QWORD PTR fs:40
	mov	QWORD PTR -8[rbp], rax
	xor	eax, eax
	cmp	DWORD PTR -16580[rbp], 2
	jg	.L46
	mov	rax, QWORD PTR stderr[rip]
	mov	rcx, rax
	mov	edx, 56
	mov	esi, 1
	lea	rdi, .LC9[rip]
	call	fwrite@PLT
	mov	edi, 2
	call	exit@PLT
.L46:
	mov	DWORD PTR numseqs[rip], 0
	mov	eax, 0
	call	init_consts
	mov	DWORD PTR -16564[rbp], 0
	jmp	.L47
.L48:
	mov	eax, 0
	call	mk_seq
	mov	edx, DWORD PTR -16564[rbp]
	movsx	rdx, edx
	lea	rcx, 0[0+rdx*8]
	lea	rdx, allseqs[rip]
	mov	QWORD PTR [rcx+rdx], rax
	add	DWORD PTR -16564[rbp], 1
.L47:
	cmp	DWORD PTR -16564[rbp], 62
	jle	.L48
	mov	rax, QWORD PTR -16592[rbp]
	add	rax, 8
	mov	rax, QWORD PTR [rax]
	mov	rdi, rax
	call	read_align_file
	mov	rdx, QWORD PTR -16592[rbp]
	mov	eax, DWORD PTR -16580[rbp]
	mov	rsi, rdx
	mov	edi, eax
	call	read_sequences
	mov	eax, 0
	call	overlay
	mov	eax, 0
	call	printAlign
	mov	eax, 0
	mov	rcx, QWORD PTR -8[rbp]
	sub	rcx, QWORD PTR fs:40
	je	.L50
	call	__stack_chk_fail@PLT
.L50:
	leave
	.cfi_def_cfa 7, 8
	ret
	.cfi_endproc
.LFE14:
	.size	main, .-main
	.ident	"GCC: (Ubuntu 10.5.0-1ubuntu1~20.04) 10.5.0"
	.section	.note.GNU-stack,"",@progbits
	.section	.note.gnu.property,"a"
	.align 8
	.long	 1f - 0f
	.long	 4f - 1f
	.long	 5
0:
	.string	 "GNU"
1:
	.align 8
	.long	 0xc0000002
	.long	 3f - 2f
2:
	.long	 0x3
3:
	.align 8
4:

	.arch armv5t
	.eabi_attribute 20, 1
	.eabi_attribute 21, 1
	.eabi_attribute 23, 3
	.eabi_attribute 24, 1
	.eabi_attribute 25, 1
	.eabi_attribute 26, 2
	.eabi_attribute 30, 6
	.eabi_attribute 34, 0
	.eabi_attribute 18, 4
	.file	"599717.c"
	.text
	.comm	allseqs,252,4
	.comm	numseqs,4,4
	.global	dna_alpha
	.section	.rodata
	.align	2
.LC0:
	.ascii	"ACGT\000"
	.data
	.align	2
	.type	dna_alpha, %object
	.size	dna_alpha, 4
dna_alpha:
	.word	.LC0
	.global	valid_alpha
	.section	.rodata
	.align	2
.LC1:
	.ascii	"ACGTN-\000"
	.data
	.align	2
	.type	valid_alpha, %object
	.size	valid_alpha, 4
valid_alpha:
	.word	.LC1
	.comm	DNA_PRINT,4,4
	.comm	DNA_LET,4,4
	.comm	NUM_ONES,4,4
	.text
	.align	2
	.global	init_consts
	.syntax unified
	.arm
	.fpu softvfp
	.type	init_consts, %function
init_consts:
	@ args = 0, pretend = 0, frame = 8
	@ frame_needed = 1, uses_anonymous_args = 0
	push	{fp, lr}
	add	fp, sp, #4
	sub	sp, sp, #8
	mov	r0, #16
	bl	malloc
	mov	r3, r0
	mov	r2, r3
	ldr	r3, .L4
	str	r2, [r3]
	mov	r0, #16
	bl	malloc
	mov	r3, r0
	mov	r2, r3
	ldr	r3, .L4+4
	str	r2, [r3]
	mov	r0, #16
	bl	malloc
	mov	r3, r0
	mov	r2, r3
	ldr	r3, .L4+8
	str	r2, [r3]
	mov	r3, #0
	str	r3, [fp, #-8]
	b	.L2
.L3:
	ldr	r3, .L4+4
	ldr	r2, [r3]
	ldr	r3, [fp, #-8]
	add	r2, r2, r3
	mvn	r3, #0
	strb	r3, [r2]
	ldr	r3, .L4
	ldr	r1, [r3]
	ldr	r3, [fp, #-8]
	add	r3, r1, r3
	ldrb	r2, [r2]	@ zero_extendqisi2
	strb	r2, [r3]
	ldr	r2, .L4+8
	ldr	r1, [r2]
	ldr	r2, [fp, #-8]
	add	r2, r1, r2
	ldrb	r3, [r3]	@ zero_extendqisi2
	strb	r3, [r2]
	ldr	r3, [fp, #-8]
	add	r3, r3, #1
	str	r3, [fp, #-8]
.L2:
	ldr	r3, [fp, #-8]
	cmp	r3, #15
	ble	.L3
	ldr	r3, .L4
	ldr	r3, [r3]
	add	r3, r3, #1
	mov	r2, #0
	strb	r2, [r3]
	ldr	r3, .L4
	ldr	r3, [r3]
	add	r3, r3, #2
	mov	r2, #1
	strb	r2, [r3]
	ldr	r3, .L4
	ldr	r3, [r3]
	add	r3, r3, #4
	mov	r2, #2
	strb	r2, [r3]
	ldr	r3, .L4
	ldr	r3, [r3]
	add	r3, r3, #8
	mov	r2, #3
	strb	r2, [r3]
	ldr	r3, .L4+4
	ldr	r3, [r3]
	mov	r2, #78
	strb	r2, [r3]
	ldr	r3, .L4+4
	ldr	r3, [r3]
	add	r3, r3, #1
	mov	r2, #65
	strb	r2, [r3]
	ldr	r3, .L4+4
	ldr	r3, [r3]
	add	r3, r3, #2
	mov	r2, #67
	strb	r2, [r3]
	ldr	r3, .L4+4
	ldr	r3, [r3]
	add	r3, r3, #4
	mov	r2, #71
	strb	r2, [r3]
	ldr	r3, .L4+4
	ldr	r3, [r3]
	add	r3, r3, #8
	mov	r2, #84
	strb	r2, [r3]
	ldr	r3, .L4+4
	ldr	r3, [r3]
	add	r3, r3, #3
	mov	r2, #77
	strb	r2, [r3]
	ldr	r3, .L4+4
	ldr	r3, [r3]
	add	r3, r3, #5
	mov	r2, #82
	strb	r2, [r3]
	ldr	r3, .L4+4
	ldr	r3, [r3]
	add	r3, r3, #9
	mov	r2, #87
	strb	r2, [r3]
	ldr	r3, .L4+4
	ldr	r3, [r3]
	add	r3, r3, #6
	mov	r2, #83
	strb	r2, [r3]
	ldr	r3, .L4+4
	ldr	r3, [r3]
	add	r3, r3, #10
	mov	r2, #89
	strb	r2, [r3]
	ldr	r3, .L4+4
	ldr	r3, [r3]
	add	r3, r3, #12
	mov	r2, #75
	strb	r2, [r3]
	ldr	r3, .L4+4
	ldr	r3, [r3]
	add	r3, r3, #7
	mov	r2, #86
	strb	r2, [r3]
	ldr	r3, .L4+4
	ldr	r3, [r3]
	add	r3, r3, #11
	mov	r2, #72
	strb	r2, [r3]
	ldr	r3, .L4+4
	ldr	r3, [r3]
	add	r3, r3, #13
	mov	r2, #68
	strb	r2, [r3]
	ldr	r3, .L4+4
	ldr	r3, [r3]
	add	r3, r3, #14
	mov	r2, #66
	strb	r2, [r3]
	ldr	r3, .L4+4
	ldr	r3, [r3]
	add	r3, r3, #15
	mov	r2, #88
	strb	r2, [r3]
	ldr	r3, .L4+8
	ldr	r3, [r3]
	mov	r2, #0
	strb	r2, [r3]
	ldr	r3, .L4+8
	ldr	r3, [r3]
	add	r3, r3, #1
	mov	r2, #1
	strb	r2, [r3]
	ldr	r3, .L4+8
	ldr	r3, [r3]
	add	r3, r3, #2
	mov	r2, #1
	strb	r2, [r3]
	ldr	r3, .L4+8
	ldr	r3, [r3]
	add	r3, r3, #4
	mov	r2, #1
	strb	r2, [r3]
	ldr	r3, .L4+8
	ldr	r3, [r3]
	add	r3, r3, #8
	mov	r2, #1
	strb	r2, [r3]
	ldr	r3, .L4+8
	ldr	r3, [r3]
	add	r3, r3, #3
	mov	r2, #2
	strb	r2, [r3]
	ldr	r3, .L4+8
	ldr	r3, [r3]
	add	r3, r3, #5
	mov	r2, #2
	strb	r2, [r3]
	ldr	r3, .L4+8
	ldr	r3, [r3]
	add	r3, r3, #9
	mov	r2, #2
	strb	r2, [r3]
	ldr	r3, .L4+8
	ldr	r3, [r3]
	add	r3, r3, #6
	mov	r2, #2
	strb	r2, [r3]
	ldr	r3, .L4+8
	ldr	r3, [r3]
	add	r3, r3, #10
	mov	r2, #2
	strb	r2, [r3]
	ldr	r3, .L4+8
	ldr	r3, [r3]
	add	r3, r3, #12
	mov	r2, #2
	strb	r2, [r3]
	ldr	r3, .L4+8
	ldr	r3, [r3]
	add	r3, r3, #7
	mov	r2, #3
	strb	r2, [r3]
	ldr	r3, .L4+8
	ldr	r3, [r3]
	add	r3, r3, #11
	mov	r2, #3
	strb	r2, [r3]
	ldr	r3, .L4+8
	ldr	r3, [r3]
	add	r3, r3, #13
	mov	r2, #3
	strb	r2, [r3]
	ldr	r3, .L4+8
	ldr	r3, [r3]
	add	r3, r3, #14
	mov	r2, #3
	strb	r2, [r3]
	ldr	r3, .L4+8
	ldr	r3, [r3]
	add	r3, r3, #15
	mov	r2, #4
	strb	r2, [r3]
	nop
	sub	sp, fp, #4
	@ sp needed
	pop	{fp, pc}
.L5:
	.align	2
.L4:
	.word	DNA_LET
	.word	DNA_PRINT
	.word	NUM_ONES
	.size	init_consts, .-init_consts
	.align	2
	.global	mk_seq
	.syntax unified
	.arm
	.fpu softvfp
	.type	mk_seq, %function
mk_seq:
	@ args = 0, pretend = 0, frame = 8
	@ frame_needed = 1, uses_anonymous_args = 0
	push	{fp, lr}
	add	fp, sp, #4
	sub	sp, sp, #8
	mov	r0, #24
	bl	malloc
	mov	r3, r0
	str	r3, [fp, #-8]
	ldr	r3, [fp, #-8]
	mov	r2, #0
	str	r2, [r3]
	ldr	r3, [fp, #-8]
	mov	r2, #0
	str	r2, [r3, #4]
	ldr	r3, [fp, #-8]
	mov	r2, #0
	str	r2, [r3, #8]
	ldr	r3, [fp, #-8]
	mvn	r2, #0
	str	r2, [r3, #20]
	ldr	r3, [fp, #-8]
	mov	r0, r3
	sub	sp, fp, #4
	@ sp needed
	pop	{fp, pc}
	.size	mk_seq, .-mk_seq
	.section	.rodata
	.align	2
.LC2:
	.ascii	"2COULDN'T READ ALIGNMENT\012\000"
	.align	2
.LC3:
	.ascii	"File is not in FASTA format!!\012\000"
	.align	2
.LC4:
	.ascii	"seq %s not found!\012\000"
	.align	2
.LC5:
	.word	__stack_chk_guard
	.text
	.align	2
	.global	read_align
	.syntax unified
	.arm
	.fpu softvfp
	.type	read_align, %function
read_align:
	@ args = 0, pretend = 0, frame = 1056
	@ frame_needed = 1, uses_anonymous_args = 0
	push	{r4, fp, lr}
	add	fp, sp, #8
	sub	sp, sp, #1056
	sub	sp, sp, #4
	str	r0, [fp, #-1064]
	str	r1, [fp, #-1068]
	ldr	r3, .L25
	ldr	r3, [r3]
	str	r3, [fp, #-16]
	mov	r3,#0
	mov	r0, #1
	bl	malloc
	mov	r3, r0
	str	r3, [fp, #-1056]
	mov	r3, #1
	str	r3, [fp, #-1048]
	mov	r3, #0
	str	r3, [fp, #-1044]
	ldr	r0, [fp, #-1064]
	bl	feof
	mov	r3, r0
	cmp	r3, #0
	beq	.L9
	ldr	r3, .L25+4
	ldr	r3, [r3]
	mov	r2, #25
	mov	r1, #1
	ldr	r0, .L25+8
	bl	fwrite
	mov	r0, #2
	bl	exit
.L9:
	sub	r3, fp, #1024
	sub	r3, r3, #12
	sub	r3, r3, #4
	ldr	r2, [fp, #-1064]
	mov	r1, #255
	mov	r0, r3
	bl	fgets
	ldrb	r3, [fp, #-1040]	@ zero_extendqisi2
	cmp	r3, #62
	beq	.L10
	ldr	r3, .L25+4
	ldr	r3, [r3]
	mov	r2, #30
	mov	r1, #1
	ldr	r0, .L25+12
	bl	fwrite
	mov	r0, #1
	bl	exit
.L10:
	sub	r3, fp, #1024
	sub	r3, r3, #12
	sub	r3, r3, #4
	mov	r1, #10
	mov	r0, r3
	bl	strchr
	mov	r3, r0
	mov	r2, #0
	strb	r2, [r3]
	ldr	r0, [fp, #-1064]
	bl	fgetc
	mov	r3, r0
	strb	r3, [fp, #-1058]
	b	.L11
.L14:
	ldrb	r3, [fp, #-1058]	@ zero_extendqisi2
	mov	r0, r3
	bl	isspace
	mov	r3, r0
	cmp	r3, #0
	bne	.L12
	ldrb	r3, [fp, #-1058]	@ zero_extendqisi2
	mov	r0, r3
	bl	toupper
	mov	r3, r0
	strb	r3, [fp, #-1057]
	ldr	r3, .L25+16
	ldr	r3, [r3]
	ldrb	r2, [fp, #-1057]	@ zero_extendqisi2
	mov	r1, r2
	mov	r0, r3
	bl	strchr
	mov	r3, r0
	cmp	r3, #0
	bne	.L13
	mov	r3, #78
	strb	r3, [fp, #-1058]
.L13:
	ldr	r3, [fp, #-1044]
	add	r2, r3, #1
	str	r2, [fp, #-1044]
	mov	r2, r3
	ldr	r3, [fp, #-1056]
	add	r3, r3, r2
	ldrb	r2, [fp, #-1058]
	strb	r2, [r3]
	ldr	r2, [fp, #-1044]
	ldr	r3, [fp, #-1048]
	cmp	r2, r3
	blt	.L12
	ldr	r3, [fp, #-1048]
	lsl	r3, r3, #1
	str	r3, [fp, #-1048]
	ldr	r3, [fp, #-1048]
	mov	r1, r3
	ldr	r0, [fp, #-1056]
	bl	realloc
	str	r0, [fp, #-1056]
.L12:
	ldr	r0, [fp, #-1064]
	bl	fgetc
	mov	r3, r0
	strb	r3, [fp, #-1058]
.L11:
	ldrb	r3, [fp, #-1058]	@ zero_extendqisi2
	cmp	r3, #62
	bne	.L14
	ldr	r3, [fp, #-1068]
	cmp	r3, #0
	blt	.L15
	sub	r3, fp, #1024
	sub	r3, r3, #12
	sub	r3, r3, #4
	mov	r0, r3
	bl	strlen
	mov	r3, r0
	add	r2, r3, #1
	ldr	r1, .L25+20
	ldr	r3, [fp, #-1068]
	ldr	r4, [r1, r3, lsl #2]
	mov	r0, r2
	bl	malloc
	mov	r3, r0
	str	r3, [r4]
	ldr	r2, .L25+20
	ldr	r3, [fp, #-1068]
	ldr	r3, [r2, r3, lsl #2]
	ldr	r4, [r3]
	sub	r3, fp, #1024
	sub	r3, r3, #12
	sub	r3, r3, #4
	mov	r0, r3
	bl	strlen
	mov	r3, r0
	add	r2, r3, #1
	sub	r3, fp, #1024
	sub	r3, r3, #12
	sub	r3, r3, #4
	mov	r1, r3
	mov	r0, r4
	bl	strncpy
	ldr	r2, .L25+20
	ldr	r3, [fp, #-1068]
	ldr	r3, [r2, r3, lsl #2]
	ldr	r2, [fp, #-1056]
	str	r2, [r3, #4]
	ldr	r2, .L25+20
	ldr	r3, [fp, #-1068]
	ldr	r3, [r2, r3, lsl #2]
	ldr	r2, [fp, #-1044]
	str	r2, [r3, #12]
	b	.L16
.L15:
	mov	r3, #0
	str	r3, [fp, #-1052]
	b	.L17
.L20:
	ldr	r2, .L25+20
	ldr	r3, [fp, #-1052]
	ldr	r3, [r2, r3, lsl #2]
	ldr	r4, [r3]
	sub	r3, fp, #1024
	sub	r3, r3, #12
	sub	r3, r3, #4
	mov	r0, r3
	bl	strlen
	mov	r2, r0
	sub	r3, fp, #1024
	sub	r3, r3, #12
	sub	r3, r3, #4
	mov	r1, r3
	mov	r0, r4
	bl	strncmp
	mov	r3, r0
	cmp	r3, #0
	bne	.L18
	ldr	r2, .L25+20
	ldr	r3, [fp, #-1052]
	ldr	r3, [r2, r3, lsl #2]
	ldr	r2, [fp, #-1056]
	str	r2, [r3, #8]
	ldr	r2, .L25+20
	ldr	r3, [fp, #-1052]
	ldr	r3, [r2, r3, lsl #2]
	ldr	r2, [fp, #-1044]
	str	r2, [r3, #16]
	b	.L19
.L18:
	ldr	r3, [fp, #-1052]
	add	r3, r3, #1
	str	r3, [fp, #-1052]
.L17:
	ldr	r3, .L25+24
	ldr	r3, [r3]
	ldr	r2, [fp, #-1052]
	cmp	r2, r3
	blt	.L20
.L19:
	ldr	r3, .L25+24
	ldr	r3, [r3]
	ldr	r2, [fp, #-1052]
	cmp	r2, r3
	bne	.L16
	ldr	r3, .L25+4
	ldr	r0, [r3]
	sub	r3, fp, #1024
	sub	r3, r3, #12
	sub	r3, r3, #4
	mov	r2, r3
	ldr	r1, .L25+28
	bl	fprintf
	mov	r0, #2
	bl	exit
.L16:
	ldrb	r3, [fp, #-1058]	@ zero_extendqisi2
	cmp	r3, #62
	bne	.L21
	ldrb	r3, [fp, #-1058]	@ zero_extendqisi2
	ldr	r1, [fp, #-1064]
	mov	r0, r3
	bl	ungetc
	mov	r3, #1
	b	.L23
.L21:
	mov	r3, #0
.L23:
	ldr	r2, .L25
	ldr	r1, [r2]
	ldr	r2, [fp, #-16]
	eors	r1, r2, r1
	mov	r2, #0
	beq	.L24
	bl	__stack_chk_fail
.L24:
	mov	r0, r3
	sub	sp, fp, #8
	@ sp needed
	pop	{r4, fp, pc}
.L26:
	.align	2
.L25:
	.word	.LC5
	.word	stderr
	.word	.LC2
	.word	.LC3
	.word	valid_alpha
	.word	allseqs
	.word	numseqs
	.word	.LC4
	.size	read_align, .-read_align
	.section	.rodata
	.align	2
.LC6:
	.ascii	"r\000"
	.align	2
.LC7:
	.ascii	"COULDN'T OPEN ALIGNMENT\012\000"
	.text
	.align	2
	.global	read_align_file
	.syntax unified
	.arm
	.fpu softvfp
	.type	read_align_file, %function
read_align_file:
	@ args = 0, pretend = 0, frame = 16
	@ frame_needed = 1, uses_anonymous_args = 0
	push	{fp, lr}
	add	fp, sp, #4
	sub	sp, sp, #16
	str	r0, [fp, #-16]
	ldr	r1, .L31
	ldr	r0, [fp, #-16]
	bl	fopen
	str	r0, [fp, #-8]
	ldr	r3, [fp, #-8]
	cmp	r3, #0
	bne	.L30
	ldr	r3, .L31+4
	ldr	r3, [r3]
	mov	r2, #24
	mov	r1, #1
	ldr	r0, .L31+8
	bl	fwrite
	mov	r0, #2
	bl	exit
.L30:
	nop
.L29:
	ldr	r3, .L31+12
	ldr	r3, [r3]
	add	r2, r3, #1
	ldr	r1, .L31+12
	str	r2, [r1]
	mov	r1, r3
	ldr	r0, [fp, #-8]
	bl	read_align
	mov	r3, r0
	cmp	r3, #0
	bne	.L29
	nop
	nop
	sub	sp, fp, #4
	@ sp needed
	pop	{fp, pc}
.L32:
	.align	2
.L31:
	.word	.LC6
	.word	stderr
	.word	.LC7
	.word	numseqs
	.size	read_align_file, .-read_align_file
	.section	.rodata
	.align	2
.LC8:
	.ascii	"COULDN'T OPEN SEQ %d %s\012\000"
	.text
	.align	2
	.global	read_sequences
	.syntax unified
	.arm
	.fpu softvfp
	.type	read_sequences, %function
read_sequences:
	@ args = 0, pretend = 0, frame = 32
	@ frame_needed = 1, uses_anonymous_args = 0
	push	{fp, lr}
	add	fp, sp, #4
	sub	sp, sp, #32
	str	r0, [fp, #-32]
	str	r1, [fp, #-36]
	mov	r3, #2
	str	r3, [fp, #-24]
	b	.L34
.L36:
	ldr	r3, [fp, #-24]
	lsl	r3, r3, #2
	ldr	r2, [fp, #-36]
	add	r3, r2, r3
	ldr	r3, [r3]
	str	r3, [fp, #-20]
	mov	r3, #0
	str	r3, [fp, #-16]
	ldr	r1, .L37
	ldr	r0, [fp, #-20]
	bl	fopen
	str	r0, [fp, #-12]
	ldr	r3, [fp, #-12]
	cmp	r3, #0
	bne	.L35
	ldr	r3, .L37+4
	ldr	r0, [r3]
	ldr	r3, [fp, #-24]
	lsl	r3, r3, #2
	ldr	r2, [fp, #-36]
	add	r3, r2, r3
	ldr	r3, [r3]
	ldr	r2, [fp, #-24]
	ldr	r1, .L37+8
	bl	fprintf
	mov	r0, #2
	bl	exit
.L35:
	ldr	r3, [fp, #-24]
	sub	r3, r3, #1
	ldr	r2, .L37+12
	ldr	r3, [r2, r3, lsl #2]
	str	r3, [fp, #-16]
	ldr	r3, [fp, #-24]
	sub	r2, r3, #1
	ldr	r3, [fp, #-16]
	str	r2, [r3, #20]
	mvn	r1, #0
	ldr	r0, [fp, #-12]
	bl	read_align
	str	r0, [fp, #-8]
	ldr	r3, [fp, #-8]
	cmp	r3, #0
	bne	.L35
	ldr	r3, [fp, #-24]
	add	r3, r3, #1
	str	r3, [fp, #-24]
.L34:
	ldr	r2, [fp, #-24]
	ldr	r3, [fp, #-32]
	cmp	r2, r3
	blt	.L36
	nop
	nop
	sub	sp, fp, #4
	@ sp needed
	pop	{fp, pc}
.L38:
	.align	2
.L37:
	.word	.LC6
	.word	stderr
	.word	.LC8
	.word	allseqs
	.size	read_sequences, .-read_sequences
	.section	.rodata
	.align	2
.LC9:
	.ascii	"check %d == %d\012\000"
	.text
	.align	2
	.global	overlayseq
	.syntax unified
	.arm
	.fpu softvfp
	.type	overlayseq, %function
overlayseq:
	@ args = 0, pretend = 0, frame = 16
	@ frame_needed = 1, uses_anonymous_args = 0
	push	{fp, lr}
	add	fp, sp, #4
	sub	sp, sp, #16
	str	r0, [fp, #-16]
	mov	r3, #0
	str	r3, [fp, #-12]
	mov	r3, #0
	str	r3, [fp, #-8]
	b	.L40
.L42:
	ldr	r2, .L43
	ldr	r3, [fp, #-16]
	ldr	r3, [r2, r3, lsl #2]
	ldr	r2, [r3, #4]
	ldr	r3, [fp, #-8]
	add	r3, r2, r3
	ldrb	r3, [r3]	@ zero_extendqisi2
	cmp	r3, #45
	beq	.L41
	ldr	r2, .L43
	ldr	r3, [fp, #-16]
	ldr	r3, [r2, r3, lsl #2]
	ldr	r2, [r3, #8]
	ldr	r3, [fp, #-12]
	add	r1, r3, #1
	str	r1, [fp, #-12]
	add	r2, r2, r3
	ldr	r1, .L43
	ldr	r3, [fp, #-16]
	ldr	r3, [r1, r3, lsl #2]
	ldr	r1, [r3, #4]
	ldr	r3, [fp, #-8]
	add	r3, r1, r3
	ldrb	r2, [r2]	@ zero_extendqisi2
	strb	r2, [r3]
.L41:
	ldr	r3, [fp, #-8]
	add	r3, r3, #1
	str	r3, [fp, #-8]
.L40:
	ldr	r2, .L43
	ldr	r3, [fp, #-16]
	ldr	r3, [r2, r3, lsl #2]
	ldr	r3, [r3, #12]
	ldr	r2, [fp, #-8]
	cmp	r2, r3
	blt	.L42
	ldr	r3, .L43+4
	ldr	r0, [r3]
	ldr	r2, .L43
	ldr	r3, [fp, #-16]
	ldr	r3, [r2, r3, lsl #2]
	ldr	r3, [r3, #16]
	ldr	r2, [fp, #-12]
	ldr	r1, .L43+8
	bl	fprintf
	nop
	sub	sp, fp, #4
	@ sp needed
	pop	{fp, pc}
.L44:
	.align	2
.L43:
	.word	allseqs
	.word	stderr
	.word	.LC9
	.size	overlayseq, .-overlayseq
	.align	2
	.global	overlay
	.syntax unified
	.arm
	.fpu softvfp
	.type	overlay, %function
overlay:
	@ args = 0, pretend = 0, frame = 8
	@ frame_needed = 1, uses_anonymous_args = 0
	push	{fp, lr}
	add	fp, sp, #4
	sub	sp, sp, #8
	mov	r3, #0
	str	r3, [fp, #-8]
	b	.L46
.L47:
	ldr	r0, [fp, #-8]
	bl	overlayseq
	ldr	r3, [fp, #-8]
	add	r3, r3, #1
	str	r3, [fp, #-8]
.L46:
	ldr	r3, .L48
	ldr	r3, [r3]
	ldr	r2, [fp, #-8]
	cmp	r2, r3
	blt	.L47
	nop
	nop
	sub	sp, fp, #4
	@ sp needed
	pop	{fp, pc}
.L49:
	.align	2
.L48:
	.word	numseqs
	.size	overlay, .-overlay
	.align	2
	.global	printAlign
	.syntax unified
	.arm
	.fpu softvfp
	.type	printAlign, %function
printAlign:
	@ args = 0, pretend = 0, frame = 16
	@ frame_needed = 1, uses_anonymous_args = 0
	push	{fp, lr}
	add	fp, sp, #4
	sub	sp, sp, #16
	mov	r3, #0
	str	r3, [fp, #-12]
	b	.L51
.L55:
	ldr	r2, .L56
	ldr	r3, [fp, #-12]
	ldr	r3, [r2, r3, lsl #2]
	str	r3, [fp, #-8]
	ldr	r3, .L56+4
	ldr	r2, [r3]
	ldr	r3, [fp, #-8]
	ldr	r3, [r3]
	mov	r1, r2
	mov	r0, r3
	bl	fputs
	mov	r3, #0
	str	r3, [fp, #-16]
	b	.L52
.L54:
	ldr	r2, [fp, #-16]
	ldr	r3, .L56+8
	smull	r1, r3, r2, r3
	add	r3, r3, r2
	asr	r1, r3, #5
	asr	r3, r2, #31
	sub	r1, r1, r3
	mov	r3, r1
	lsl	r3, r3, #4
	sub	r3, r3, r1
	lsl	r3, r3, #2
	sub	r1, r2, r3
	cmp	r1, #0
	bne	.L53
	ldr	r3, .L56+4
	ldr	r3, [r3]
	mov	r1, r3
	mov	r0, #10
	bl	fputc
.L53:
	ldr	r3, .L56+4
	ldr	r1, [r3]
	ldr	r3, [fp, #-8]
	ldr	r2, [r3, #4]
	ldr	r3, [fp, #-16]
	add	r3, r2, r3
	ldrb	r3, [r3]	@ zero_extendqisi2
	mov	r0, r3
	bl	fputc
	ldr	r3, [fp, #-16]
	add	r3, r3, #1
	str	r3, [fp, #-16]
.L52:
	ldr	r3, [fp, #-8]
	ldr	r3, [r3, #12]
	ldr	r2, [fp, #-16]
	cmp	r2, r3
	blt	.L54
	ldr	r3, .L56+4
	ldr	r3, [r3]
	mov	r1, r3
	mov	r0, #10
	bl	fputc
	ldr	r3, [fp, #-12]
	add	r3, r3, #1
	str	r3, [fp, #-12]
.L51:
	ldr	r3, .L56+12
	ldr	r3, [r3]
	ldr	r2, [fp, #-12]
	cmp	r2, r3
	blt	.L55
	nop
	nop
	sub	sp, fp, #4
	@ sp needed
	pop	{fp, pc}
.L57:
	.align	2
.L56:
	.word	allseqs
	.word	stdout
	.word	-2004318071
	.word	numseqs
	.size	printAlign, .-printAlign
	.section	.rodata
	.align	2
.LC10:
	.ascii	"Usage: overlay align.mfa seq1 [seq2].... > newalign"
	.ascii	".mfa\012\000"
	.align	2
.LC11:
	.word	__stack_chk_guard
	.text
	.align	2
	.global	main
	.syntax unified
	.arm
	.fpu softvfp
	.type	main, %function
main:
	@ args = 0, pretend = 0, frame = 16560
	@ frame_needed = 1, uses_anonymous_args = 0
	push	{fp, lr}
	add	fp, sp, #4
	sub	sp, sp, #16384
	sub	sp, sp, #176
	sub	r3, fp, #16384
	sub	r3, r3, #4
	str	r0, [r3, #-172]
	sub	r3, fp, #16384
	sub	r3, r3, #4
	str	r1, [r3, #-176]
	ldr	r3, .L64
	ldr	r3, [r3]
	str	r3, [fp, #-8]
	mov	r3,#0
	sub	r3, fp, #16384
	sub	r3, r3, #4
	ldr	r3, [r3, #-172]
	cmp	r3, #2
	bgt	.L59
	ldr	r3, .L64+4
	ldr	r3, [r3]
	mov	r2, #56
	mov	r1, #1
	ldr	r0, .L64+8
	bl	fwrite
	mov	r0, #2
	bl	exit
.L59:
	ldr	r3, .L64+12
	mov	r2, #0
	str	r2, [r3]
	bl	init_consts
	sub	r3, fp, #16384
	sub	r3, r3, #4
	mov	r2, r3
	mov	r3, #0
	str	r3, [r2, #-164]
	b	.L60
.L61:
	bl	mk_seq
	mov	r2, r0
	ldr	r1, .L64+16
	sub	r3, fp, #16384
	sub	r3, r3, #4
	ldr	r3, [r3, #-164]
	str	r2, [r1, r3, lsl #2]
	sub	r3, fp, #16384
	sub	r3, r3, #4
	mov	r2, r3
	sub	r3, fp, #16384
	sub	r3, r3, #4
	ldr	r3, [r3, #-164]
	add	r3, r3, #1
	str	r3, [r2, #-164]
.L60:
	sub	r3, fp, #16384
	sub	r3, r3, #4
	ldr	r3, [r3, #-164]
	cmp	r3, #62
	ble	.L61
	sub	r3, fp, #16384
	sub	r3, r3, #4
	ldr	r3, [r3, #-176]
	add	r3, r3, #4
	ldr	r3, [r3]
	mov	r0, r3
	bl	read_align_file
	sub	r3, fp, #16384
	sub	r3, r3, #4
	mov	r2, r3
	sub	r3, fp, #16384
	sub	r3, r3, #4
	ldr	r1, [r2, #-176]
	ldr	r0, [r3, #-172]
	bl	read_sequences
	bl	overlay
	bl	printAlign
	mov	r3, #0
	ldr	r2, .L64
	ldr	r1, [r2]
	ldr	r2, [fp, #-8]
	eors	r1, r2, r1
	mov	r2, #0
	beq	.L63
	bl	__stack_chk_fail
.L63:
	mov	r0, r3
	sub	sp, fp, #4
	@ sp needed
	pop	{fp, pc}
.L65:
	.align	2
.L64:
	.word	.LC11
	.word	stderr
	.word	.LC10
	.word	numseqs
	.word	allseqs
	.size	main, .-main
	.ident	"GCC: (Ubuntu 9.4.0-1ubuntu1~20.04.2) 9.4.0"
	.section	.note.GNU-stack,"",%progbits
