# FILE CONTENT FORMAT:
# # Has mark optional Comments, as many lines as needed
# # ...
# Extension: 4 letters (not used as only 1 file is now in index)
# MAX_LEN_NO_PATTERN : integer (supposed to be short, around 24)
# isSymmetric : 0=no, 1=yes
# guideLen : size of the guide in nucleotides, integer. All guideLen-combinations are expected
# # Optional Comments, as many lines as needed
# # ...
# tuple isGuider ntadvance comment
# ...
# 	tuple = DNA sequence of the exact length <guideLen>
# 	isGuider = 0 or 1, 1=Guider, 0=no guider. 
# 	If guider, first advance nt then take key.
# 	ntadvance = nucleotides to advance in the sequence when observing the tuple.
# 		    the minimum advance is 1.
# 	comment is any text until end of line (max 900 chars).
#
# Next lines start with extension, maxlennopatrn, issym, guidelen
PAL4
24
1
4
# Next lines start tuples and guiders
#Tuple	isGuider	NT_to_advance	Comment
AAAA	1	4	Index
AAAC	0	1	x
AAAG	0	1	x
AAAT	0	1	x
AACA	0	1	x
AACC	0	1	x
AACG	0	1	x
AACT	0	1	x
AAGA	0	1	x
AAGC	0	1	x
AAGG	0	1	x
AAGT	0	1	x
AATA	0	1	x
AATC	0	1	x
AATG	0	1	x
AATT	0	1	x
ACAA	0	1	x
ACAC	0	1	x
ACAG	0	1	x
ACAT	0	1	x
ACCA	1	4	Index
ACCC	0	1	x
ACCG	0	1	x
ACCT	0	1	x
ACGA	0	1	x
ACGC	0	1	x
ACGG	0	1	x
ACGT	0	1	x
ACTA	0	1	x
ACTC	0	1	x
ACTG	0	1	x
ACTT	0	1	x
AGAA	0	1	x
AGAC	0	1	x
AGAG	0	1	x
AGAT	0	1	x
AGCA	0	1	x
AGCC	0	1	x
AGCG	0	1	x
AGCT	0	1	x
AGGA	1	4	Index
AGGC	0	1	x
AGGG	0	1	x
AGGT	0	1	x
AGTA	0	1	x
AGTC	0	1	x
AGTG	0	1	x
AGTT	0	1	x
ATAA	0	1	x
ATAC	0	1	x
ATAG	0	1	x
ATAT	0	1	x
ATCA	0	1	x
ATCC	0	1	x
ATCG	0	1	x
ATCT	0	1	x
ATGA	0	1	x
ATGC	0	1	x
ATGG	0	1	x
ATGT	0	1	x
ATTA	1	4	Index
ATTC	0	1	x
ATTG	0	1	x
ATTT	0	1	x
CAAA	0	1	x
CAAC	1	4	Index
CAAG	0	1	x
CAAT	0	1	x
CACA	0	1	x
CACC	0	1	x
CACG	0	1	x
CACT	0	1	x
CAGA	0	1	x
CAGC	0	1	x
CAGG	0	1	x
CAGT	0	1	x
CATA	0	1	x
CATC	0	1	x
CATG	0	1	x
CATT	0	1	x
CCAA	0	1	x
CCAC	0	1	x
CCAG	0	1	x
CCAT	0	1	x
CCCA	0	1	x
CCCC	1	4	Index
CCCG	0	1	x
CCCT	0	1	x
CCGA	0	1	x
CCGC	0	1	x
CCGG	0	1	x
CCGT	0	1	x
CCTA	0	1	x
CCTC	0	1	x
CCTG	0	1	x
CCTT	0	1	x
CGAA	0	1	x
CGAC	0	1	x
CGAG	0	1	x
CGAT	0	1	x
CGCA	0	1	x
CGCC	0	1	x
CGCG	0	1	x
CGCT	0	1	x
CGGA	0	1	x
CGGC	1	4	Index
CGGG	0	1	x
CGGT	0	1	x
CGTA	0	1	x
CGTC	0	1	x
CGTG	0	1	x
CGTT	0	1	x
CTAA	0	1	x
CTAC	0	1	x
CTAG	0	1	x
CTAT	0	1	x
CTCA	0	1	x
CTCC	0	1	x
CTCG	0	1	x
CTCT	0	1	x
CTGA	0	1	x
CTGC	0	1	x
CTGG	0	1	x
CTGT	0	1	x
CTTA	0	1	x
CTTC	1	4	Index
CTTG	0	1	x
CTTT	0	1	x
GAAA	0	1	x
GAAC	0	1	x
GAAG	1	4	Index
GAAT	0	1	x
GACA	0	1	x
GACC	0	1	x
GACG	0	1	x
GACT	0	1	x
GAGA	0	1	x
GAGC	0	1	x
GAGG	0	1	x
GAGT	0	1	x
GATA	0	1	x
GATC	0	1	x
GATG	0	1	x
GATT	0	1	x
GCAA	0	1	x
GCAC	0	1	x
GCAG	0	1	x
GCAT	0	1	x
GCCA	0	1	x
GCCC	0	1	x
GCCG	1	4	Index
GCCT	0	1	x
GCGA	0	1	x
GCGC	0	1	x
GCGG	0	1	x
GCGT	0	1	x
GCTA	0	1	x
GCTC	0	1	x
GCTG	0	1	x
GCTT	0	1	x
GGAA	0	1	x
GGAC	0	1	x
GGAG	0	1	x
GGAT	0	1	x
GGCA	0	1	x
GGCC	0	1	x
GGCG	0	1	x
GGCT	0	1	x
GGGA	0	1	x
GGGC	0	1	x
GGGG	1	4	Index
GGGT	0	1	x
GGTA	0	1	x
GGTC	0	1	x
GGTG	0	1	x
GGTT	0	1	x
GTAA	0	1	x
GTAC	0	1	x
GTAG	0	1	x
GTAT	0	1	x
GTCA	0	1	x
GTCC	0	1	x
GTCG	0	1	x
GTCT	0	1	x
GTGA	0	1	x
GTGC	0	1	x
GTGG	0	1	x
GTGT	0	1	x
GTTA	0	1	x
GTTC	0	1	x
GTTG	1	4	Index
GTTT	0	1	x
TAAA	0	1	x
TAAC	0	1	x
TAAG	0	1	x
TAAT	1	4	Index
TACA	0	1	x
TACC	0	1	x
TACG	0	1	x
TACT	0	1	x
TAGA	0	1	x
TAGC	0	1	x
TAGG	0	1	x
TAGT	0	1	x
TATA	0	1	x
TATC	0	1	x
TATG	0	1	x
TATT	0	1	x
TCAA	0	1	x
TCAC	0	1	x
TCAG	0	1	x
TCAT	0	1	x
TCCA	0	1	x
TCCC	0	1	x
TCCG	0	1	x
TCCT	1	4	Index
TCGA	0	1	x
TCGC	0	1	x
TCGG	0	1	x
TCGT	0	1	x
TCTA	0	1	x
TCTC	0	1	x
TCTG	0	1	x
TCTT	0	1	x
TGAA	0	1	x
TGAC	0	1	x
TGAG	0	1	x
TGAT	0	1	x
TGCA	0	1	x
TGCC	0	1	x
TGCG	0	1	x
TGCT	0	1	x
TGGA	0	1	x
TGGC	0	1	x
TGGG	0	1	x
TGGT	1	4	Index
TGTA	0	1	x
TGTC	0	1	x
TGTG	0	1	x
TGTT	0	1	x
TTAA	0	1	x
TTAC	0	1	x
TTAG	0	1	x
TTAT	0	1	x
TTCA	0	1	x
TTCC	0	1	x
TTCG	0	1	x
TTCT	0	1	x
TTGA	0	1	x
TTGC	0	1	x
TTGG	0	1	x
TTGT	0	1	x
TTTA	0	1	x
TTTC	0	1	x
TTTG	0	1	x
TTTT	1	4	Index