bio-faster 0.2.2 → 0.4.2

data/test/data/errors/error_qual_unit_sep.fastq

@@ -0,0 +1,20 @@
+@SLXA-B3_649_FC8437_R1_1_1_610_79
+GATGTGCAATACCTTTGTAGAGGAA
++SLXA-B3_649_FC8437_R1_1_1_610_79
+YYYYYYYYYYYYYYYYYYWYWYYSU
+@SLXA-B3_649_FC8437_R1_1_1_397_389
+GGTTTGAGAAAGAGAAATGAGATAA
++SLXA-B3_649_FC8437_R1_1_1_397_389
+YYYYYYYYYWYYYYWWYYYWYWYWW
+@SLXA-B3_649_FC8437_R1_1_1_850_123
+GAGGGTGTTGATCATGATGATGGCG
++SLXA-B3_649_FC8437_R1_1_1_850_123
+YYYYYYYYYYYYWYYWYYSYYYSY
+@SLXA-B3_649_FC8437_R1_1_1_362_549
+GGAAACAAAGTTTTTCTCAACATAG
++SLXA-B3_649_FC8437_R1_1_1_362_549
+YYYYYYYYYYYYYYYYYYWWWWYWY
+@SLXA-B3_649_FC8437_R1_1_1_183_714
+GTATTATTTAATGGCATACACTCAA
++SLXA-B3_649_FC8437_R1_1_1_183_714
+YYYYYYYYYYWYYYYWYWWUWWWQQ

data/test/data/errors/error_qual_vtab.fastq

@@ -0,0 +1,20 @@
+@SLXA-B3_649_FC8437_R1_1_1_610_79
+GATGTGCAATACCTTTGTAGAGGAA
++SLXA-B3_649_FC8437_R1_1_1_610_79
+YYYYYYYYYYYYYYYYYWYWYYSU
+@SLXA-B3_649_FC8437_R1_1_1_397_389
+GGTTTGAGAAAGAGAAATGAGATAA
++SLXA-B3_649_FC8437_R1_1_1_397_389
+YYYYYYYYYWYYYYWWYYYWYWYWW
+@SLXA-B3_649_FC8437_R1_1_1_850_123
+GAGGGTGTTGATCATGATGATGGCG
++SLXA-B3_649_FC8437_R1_1_1_850_123
+YYYYYYYYYYYYYWYYWYYSYYYSY
+@SLXA-B3_649_FC8437_R1_1_1_362_549
+GGAAACAAAGTTTTTCTCAACATAG
++SLXA-B3_649_FC8437_R1_1_1_362_549
+YYYYYYYYYYYYYYYYYYWWWWYWY
+@SLXA-B3_649_FC8437_R1_1_1_183_714
+GTATTATTTAATGGCATACACTCAA
++SLXA-B3_649_FC8437_R1_1_1_183_714
+YYYYYYYYYYWYYYYWYWWUWWWQQ

data/test/data/errors/error_spaces.fastq

@@ -0,0 +1,20 @@
+@SLXA-B3_649_FC8437_R1_1_1_610_79
+GATGTGCAA TACCTTTGTA GAGGAA
++SLXA-B3_649_FC8437_R1_1_1_610_79
+YYYYYYYYY YYYYYYYYYW YWYYSU
+@SLXA-B3_649_FC8437_R1_1_1_397_389
+GGTTTGAGA AAGAGAAATG AGATAA
++SLXA-B3_649_FC8437_R1_1_1_397_389
+YYYYYYYYY WYYYYWWYYY WYWYWW
+@SLXA-B3_649_FC8437_R1_1_1_850_123
+GAGGGTGTT GATCATGATG ATGGCG
++SLXA-B3_649_FC8437_R1_1_1_850_123
+YYYYYYYYY YYYYWYYWYY SYYYSY
+@SLXA-B3_649_FC8437_R1_1_1_362_549
+GGAAACAAA GTTTTTCTCA ACATAG
++SLXA-B3_649_FC8437_R1_1_1_362_549
+YYYYYYYYY YYYYYYYYYW WWWYWY
+@SLXA-B3_649_FC8437_R1_1_1_183_714
+GTATTATTT AATGGCATAC ACTCAA
++SLXA-B3_649_FC8437_R1_1_1_183_714
+YYYYYYYYY YWYYYYWYWW UWWWQQ

data/test/data/errors/error_tabs.fastq

@@ -0,0 +1,21 @@
+@SLXA-B3_649_FC8437_R1_1_1_610_79
+GATGTGCAA	TACCTTTGTA	GAGGAA
++SLXA-B3_649_FC8437_R1_1_1_610_79
+YYYYYYYYY	YYYYYYYYYW	YWYYSU
+@SLXA-B3_649_FC8437_R1_1_1_397_389
+GGTTTGAGA	AAGAGAAATG	AGATAA
++SLXA-B3_649_FC8437_R1_1_1_397_389
+YYYYYYYYY	WYYYYWWYYY	WYWYWW
+@SLXA-B3_649_FC8437_R1_1_1_850_123
+GAGGGTGTT	GATCATGATG	ATGGCG
++SLXA-B3_649_FC8437_R1_1_1_850_123
+YYYYYYYYY	YYYYWYYWYY	SYYYSY
+@SLXA-B3_649_FC8437_R1_1_1_362_549
+GGAAACAAA	GTTTTTCTCA	ACATAG
++SLXA-B3_649_FC8437_R1_1_1_362_549
+YYYYYYYYY	YYYYYYYYYW	WWWYWY
+@SLXA-B3_649_FC8437_R1_1_1_183_714
+GTATTATTT	AATGGCATAC ACTCAA
++SLXA-B3_649_FC8437_R1_1_1_183_714
+YYYYYYYYY	YWYYYYWYWW	UWWWQQ
+

data/test/data/errors/error_trunc_at_qual.fastq

@@ -0,0 +1,19 @@
+@SLXA-B3_649_FC8437_R1_1_1_610_79
+GATGTGCAATACCTTTGTAGAGGAA
++SLXA-B3_649_FC8437_R1_1_1_610_79
+YYYYYYYYYYYYYYYYYYWYWYYSU
+@SLXA-B3_649_FC8437_R1_1_1_397_389
+GGTTTGAGAAAGAGAAATGAGATAA
++SLXA-B3_649_FC8437_R1_1_1_397_389
+YYYYYYYYYWYYYYWWYYYWYWYWW
+@SLXA-B3_649_FC8437_R1_1_1_850_123
+GAGGGTGTTGATCATGATGATGGCG
++SLXA-B3_649_FC8437_R1_1_1_850_123
+YYYYYYYYYYYYYWYYWYYSYYYSY
+@SLXA-B3_649_FC8437_R1_1_1_362_549
+GGAAACAAAGTTTTTCTCAACATAG
++SLXA-B3_649_FC8437_R1_1_1_362_549
+YYYYYYYYYYYYYYYYYYWWWWYWY
+@SLXA-B3_649_FC8437_R1_1_1_183_714
+GTATTATTTAATGGCATACACTCAA
++SLXA-B3_649_FC8437_R1_1_1_183_714

data/test/data/errors/error_trunc_at_seq.fastq

@@ -0,0 +1,18 @@
+@SLXA-B3_649_FC8437_R1_1_1_610_79
+GATGTGCAATACCTTTGTAGAGGAA
++SLXA-B3_649_FC8437_R1_1_1_610_79
+YYYYYYYYYYYYYYYYYYWYWYYSU
+@SLXA-B3_649_FC8437_R1_1_1_397_389
+GGTTTGAGAAAGAGAAATGAGATAA
++SLXA-B3_649_FC8437_R1_1_1_397_389
+YYYYYYYYYWYYYYWWYYYWYWYWW
+@SLXA-B3_649_FC8437_R1_1_1_850_123
+GAGGGTGTTGATCATGATGATGGCG
++SLXA-B3_649_FC8437_R1_1_1_850_123
+YYYYYYYYYYYYYWYYWYYSYYYSY
+@SLXA-B3_649_FC8437_R1_1_1_362_549
+GGAAACAAAGTTTTTCTCAACATAG
++SLXA-B3_649_FC8437_R1_1_1_362_549
+YYYYYYYYYYYYYYYYYYWWWWYWY
+@SLXA-B3_649_FC8437_R1_1_1_183_714
+

data/test/data/errors/error_trunc_in_qual.fastq

@@ -0,0 +1,20 @@
+@SLXA-B3_649_FC8437_R1_1_1_610_79
+GATGTGCAATACCTTTGTAGAGGAA
++SLXA-B3_649_FC8437_R1_1_1_610_79
+YYYYYYYYYYYYYYYYYYWYWYYSU
+@SLXA-B3_649_FC8437_R1_1_1_397_389
+GGTTTGAGAAAGAGAAATGAGATAA
++SLXA-B3_649_FC8437_R1_1_1_397_389
+YYYYYYYYYWYYYYWWYYYWYWYWW
+@SLXA-B3_649_FC8437_R1_1_1_850_123
+GAGGGTGTTGATCATGATGATGGCG
++SLXA-B3_649_FC8437_R1_1_1_850_123
+YYYYYYYYYYYYYWYYWYYSYYYSY
+@SLXA-B3_649_FC8437_R1_1_1_362_549
+GGAAACAAAGTTTTTCTCAACATAG
++SLXA-B3_649_FC8437_R1_1_1_362_549
+YYYYYYYYYYYYYYYYYYWWWWYWY
+@SLXA-B3_649_FC8437_R1_1_1_183_714
+GTATTATTTAATGGCATACACTCAA
++SLXA-B3_649_FC8437_R1_1_1_183_714
+YYYYYYYYYYWYYYYWYWWUWWWQ

data/test/data/errors/error_trunc_in_seq.fastq

@@ -0,0 +1,18 @@
+@SLXA-B3_649_FC8437_R1_1_1_610_79
+GATGTGCAATACCTTTGTAGAGGAA
++SLXA-B3_649_FC8437_R1_1_1_610_79
+YYYYYYYYYYYYYYYYYYWYWYYSU
+@SLXA-B3_649_FC8437_R1_1_1_397_389
+GGTTTGAGAAAGAGAAATGAGATAA
++SLXA-B3_649_FC8437_R1_1_1_397_389
+YYYYYYYYYWYYYYWWYYYWYWYWW
+@SLXA-B3_649_FC8437_R1_1_1_850_123
+GAGGGTGTTGATCATGATGATGGCG
++SLXA-B3_649_FC8437_R1_1_1_850_123
+YYYYYYYYYYYYYWYYWYYSYYYSY
+@SLXA-B3_649_FC8437_R1_1_1_362_549
+GGAAACAAAGTTTTTCTCAACATAG
++SLXA-B3_649_FC8437_R1_1_1_362_549
+YYYYYYYYYYYYYYYYYYWWWWYWY
+@SLXA-B3_649_FC8437_R1_1_1_183_714
+GTATTATTTAATGG

data/test/data/formats/illumina_full_range_as_illumina.fastq

@@ -0,0 +1,8 @@
+@FAKE0005 Original version has PHRED scores from 0 to 62 inclusive (in that order)
+ACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTACG
++
+@ABCDEFGHIJKLMNOPQRSTUVWXYZ[\]^_`abcdefghijklmnopqrstuvwxyz{|}~
+@FAKE0006 Original version has PHRED scores from 62 to 0 inclusive (in that order)
+GCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCA
++
+~}|{zyxwvutsrqponmlkjihgfedcba`_^]\[ZYXWVUTSRQPONMLKJIHGFEDCBA@

data/test/data/formats/illumina_full_range_as_sanger.fastq

@@ -0,0 +1,8 @@
+@FAKE0005 Original version has PHRED scores from 0 to 62 inclusive (in that order)
+ACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTACG
++
+!"#$%&'()*+,-./0123456789:;<=>?@ABCDEFGHIJKLMNOPQRSTUVWXYZ[\]^_
+@FAKE0006 Original version has PHRED scores from 62 to 0 inclusive (in that order)
+GCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCA
++
+_^]\[ZYXWVUTSRQPONMLKJIHGFEDCBA@?>=<;:9876543210/.-,+*)('&%$#"!

data/test/data/formats/illumina_full_range_as_solexa.fastq

@@ -0,0 +1,8 @@
+@FAKE0005 Original version has PHRED scores from 0 to 62 inclusive (in that order)
+ACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTACG
++
+;;>@BCEFGHJKLMNOPQRSTUVWXYZ[\]^_`abcdefghijklmnopqrstuvwxyz{|}~
+@FAKE0006 Original version has PHRED scores from 62 to 0 inclusive (in that order)
+GCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCA
++
+~}|{zyxwvutsrqponmlkjihgfedcba`_^]\[ZYXWVUTSRQPONMLKJHGFECB@>;;

data/test/data/formats/illumina_full_range_original_illumina.fastq

@@ -0,0 +1,8 @@
+@FAKE0005 Original version has PHRED scores from 0 to 62 inclusive (in that order)
+ACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTACG
++
+@ABCDEFGHIJKLMNOPQRSTUVWXYZ[\]^_`abcdefghijklmnopqrstuvwxyz{|}~
+@FAKE0006 Original version has PHRED scores from 62 to 0 inclusive (in that order)
+GCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCA
++
+~}|{zyxwvutsrqponmlkjihgfedcba`_^]\[ZYXWVUTSRQPONMLKJIHGFEDCBA@

data/test/data/formats/longreads_as_illumina.fastq

@@ -0,0 +1,40 @@
+@FSRRS4401BE7HA [length=395] [gc=36.46] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=95]
+tcagTTAAGATGGGATAATATCCTCAGATTGCGTGATGAACTTTGTTCTGGTGGAGGAGAAGGAAGTGCATTCGACGTATGCCCGTTTGTCGATATTTGtatttaaagtaatccgtcacaaatcagtgacataaatattatttagatttcgggagcaactttatttattccacaagcaggtttaaattttaaatttaaattattgcagaagactttaaattaacctcgttgtcggagtcatttgttcggttattggtcgaaagtaaccncgggaagtgccgaaaactaacaaacaaaagaagatagtgaaattttaattaaaanaaatagccaaacgtaactaactaaaacggacccgtcgaggaactgccaacggacgacacagggagtagnnn
++
+eeeccccccc`UUU^UWWeegffhhhhhhhhhhhhhhhhhhggghhhhhhhhhfgfeeeee\\\\ceeeeeeeeeeeeeec^^^YRPOSNVU\YTMMMSMRKKKRUUNNNNS[`aa```\bbeccccccccYUUUbceeee\[`a`\ZYRRRPPP[\\\XXZaWWXeeeeeeccacaccc\WWSSQRPMMKKKLKKKKKKKKPPRRMMLLLPVPPPKKKKKQQTTTPRPPQPMLLMKRRRPPKMKKRLLKKMKKLLKRTPPPQRMMLL@KKKKLLKLLLLXKKKKW\KKLKKKLKKKKLLLQUYXYTLMMPKKKKPPNNKKKK@KKPXPVLLKKKKLRMKLLKKPVKKKKLLLJPPPPRMOROOOOKKKOSSSOOORUZXUUUQMNNZV][Z@@@
+@FSRRS4401BRRTC [length=145] [gc=38.62] [flows=800] [phred_min=0] [phred_max=38] [trimmed_length=74]
+tcagCCAGCAATTCCGACTTAATTGTTCTTCTTCCATCATTCATCTCGACTAACAGTTCTACGATTAATGAGTTTGGCtttaatttgttgttcattattgtcacaattacactactgagactgccaaggcacncagggataggnn
++
+eeeeeeeeecccceeeefecccca`````\[SSSS__a\TTTYaaaaa__^WYW[^[WXWXW[WSSSQZ\\RKKKTPSKKKPPKKKMKKQPVVVTTTTPRKMMLLPPPTVTWMNNRSSWW][[ZZZZXXSSN@NSKKKTVWTT@@
+@FSRRS4401B64ST [length=382] [gc=40.58] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=346]
+tcagTTTTCTTAAATTACTTGAATCTGTTGAAGTGGATGTCCACTTTTGTATGCCAAATATGCCCAGCGTATACGATCTTGGCCACATCTCCACATAATCATCAGTCGGATGCAAAAAGCGATTAAACTAAAAATGAATGCGTTTTTAGATGAGTAAATAGGTAATACTTTGTTTAAATAATAAATGTCACAAACAGAACGCGGATTACAGTACCTGAAAATAGTTGTACTGTATCTGTGCCGGCACTTCCTCGGCCCTGAGAAGTTGTCCCGTTGTTTCCATTCGCACCATCCAATGGCCAAAGTTTGCGAAGAATCTGTTCCGTTCCATTACCAATTGTTTTTCCATGctgagactgccaaggcacacaggggataggnn
++
+hhhhbbbbh^^UUUhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhUUUUh`hhhhh^^^hhhhbbbhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhUURRRdhbdYYRRW\NLLLLKW\]]^^YQLNNNNV]bddhdhggghhhhhhhhhdZZXXPPPXXa^^^habghhhhhhggghhggghhhhhhhhhhhhhhhhhhaabbhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhfffhhhhhhhhhc^\\\chhhggghhhhhhhhhggghhhhhhhhhhggghggghhhhhhhhhhhhhhhhhhhhhh^]ZXXWW\\TLLLLM__`dfhhhhhhhhhgg^^^^dhhheeXXXZdhhaa@@
+@FSRRS4401EJ0YH [length=381] [gc=48.29] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=343]
+tcagTTTTTGGAGAATTCCGTCAGGGACGGCATGGCATATTTGTGGGTTCGGCACGGCGTCCTGGCCAAGAAGAAGAAGACGAATTAGCCCGTTAATTTAATGACACCTTCCCCAATTTTGCAGCAATGATTGGTTCATTCTTGGCGGTGCGTTTTTGTGCTTCGTCGAATTGTTGGCCATTTTGGTCCACCGGCCATCATCTTTACGCTATCCGACTGATTGGAAATCACCGCCTAGCATTTTGCCGAAGATTGTTGCGTTGTACGGCCATGTGCTGATTGTTTACATTGGCATTCTTGGCAATTTGTCCTTGGTCGGCTTTGACGGCAAATTTGCGGTGTTAAGTctgagactgccaaggcacacagggggatagggnn
++
+hhhh^^^^^hhhhhhhhhhhhhhggghhhhhhhhhhhhhggghhggghhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhggghhhhhggghhhhhhhhhhh````hh]]]]hhhhhhhhhhhhhhhhhhhhhhhhhhddhddZRRRRRcVhhhhhhhhhhhhhhhhhhhhhbb__gghhhhhhhhhhhhhhhhggghhhhhhhhhhhhhhhhhhhggghhhhhhhhhhhhhaaaahgbcbghhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhggghhhggbbchhhhhhggghhbbbg\bbhhhhhhhhhfffhhhhhhgggggghhhhhhhhhhhhhhhggghhggd^^]]^dedd^NNNNNZYWOLL@@
+@FSRRS4401BK0IB [length=507] [gc=49.31] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=208]
+tcagTTGACCGGCGTTGTGTAACAATAATTCATTATTCTGAGACGATGCCAATGTAATCGACGGTTTATGCCCAATTATTCCCATCTATGCTTAACTGATCAAATACTATTTGCATTACGTCACGAAATTGCGCGAACACCGCCGGCCGACAATAATTTATACCGGACATACCGGAGTTGATGGTAATCGGTAAAGAGTTTTATTTAATTATntattatcnctattaattattgttancaacaatgtgcacgctntgccgcccgccgccgccgtgtcggtaggaccccggacggacccggacccggttcgggtacccgttttcgggttcccggaaccgtttttcgggtacccggttttttcggggggccccccggtaaaaaaccggggaaccccctaaaacgggtaaacgtaccgtaagggaccccctaaacgggggccccgaaaaaccgggacccaaaccggggggaaacggttaaaggggggggaagtaggngnnnnnnnnnnnn
++
+eee`__eeeeeeeeeeggaYYY_aeeeeffghghhhhhhhhhhhhhhhhhhhhhhheeeeeeeee^\a`_PPPWWOPP[[WWZ^``accb^^^cc````c`UUUc^ccc\\\\\``]^]][[[\[PPPWW[[^^^``^XTTT\`aaa__^\]]^__PPPSQYYcc`^^^ceeeeeeeeeeeeea````[[OOOOMQQ\NNNNWKLLPPPPPP@QRLLNQS@RVYUUUU[ZWQQNMMS@SUTQPPVVTTRMLMQR@QRPPQPPPQKKLKKQPP\\TLLLLLLKPQKKKKKKLKKKLPKKKKLKKPTTLLKKKKPRPPPMKKKKKKKKJJPPPMMPPMMPKKKKKKKKKJRKKKKKLLQQLLLLLNNLLLLTTNNIINLLQQLLIIKKKKIIKKKKKKMPMKIKKKKIIIKKKKKKKKKKKKKKKKKKKKKKKHKKLKKKKKKHKKKKKIINNMHKKKNNNKKKKKKKKKKKMHHRRLLLKKKKKKKKKKGOKKK@M@@@@@@@@@@@@
+@FSRRS4401ARCCB [length=258] [gc=46.90] [flows=800] [phred_min=0] [phred_max=38] [trimmed_length=193]
+tcagTTATTGCAGTCGTTCCGCGCCATCGCCGGTAACCGTCCGCGTGTTATTCTGTGTATCGGCCAACCTTCGTATAACTTCGTATAATGTATGCTATACGAAGTTATTACGATCTATACCGGCGAAACTCAGCCGAAAGGTCTCGCGGTAGAGCCTATGAGCTGCCCGACCGATGCATTTAAATTTCCGGGGATCGtcgctgatctgagactgccaaaggcacactagggggataggnnnnnnnnnnnnnnnnnnnn
++
+eee[WYY_ceeeeeeeffecb`````a__OOOOSU[ZUURQQRUUVUQQSRRSW[[\^^SSSTYY]`a```_[[\\a\YTTTYaac^^\acccceeebbbbbbbeebccceeeeeca``\\WWWWOOOS][[[XXUWWZWWX[WWX^aaaa`\^^^ccaaa__^^WWWWXLLLQRVVVPKKKKKKKKLLPPTQ[[OOPTW`_][[[[[SRQVVVPPKKKLLRV\\\VTKLLLLRSUUU@@@@@@@@@@@@@@@@@@@@
+@FSRRS4401CM938 [length=453] [gc=44.15] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=418]
+tcagGTTTTAAATCGCTTTCCAAGGAATTTGAGTCTAAATCCGGTGGATCCCATCAGTACAAATGCGGCGACAAGGCCGTGAAAACACTGCTTAATTCTTTGCACTTTTTGGCCACCTTTTTGGAAATGTTGTTTTGTGTTCTCAAAATTTTCCATCTCAGAACAAACATTCCATCGGGCTGATGTTGTGGCTTTTGGCGCGCGAAGTGCTGCTACTGCGCGGCAAAATCAGTCGCCAGACCGGTTTTGTTGTGGACGACAAAGTGATCATGCCTGACTTGTACTTCTACCGCGATCCGCAAGCGCGAATTGGTCACATAGTTATAGAATTTTTGAGCCTTTTTCTTGACATAAAAAGTGTGGTTTTAAAAATTTCCTGGCAGGACCCACGCCAACGTTCAGGAATAATATCTTTTAAAAAGctgagactgccaaggcacacaggggataggn
++
+hhhhhbb]]UUUhhhhbbbhhhhhhhhggghhhhhfUUUhhhhhhhhhhggghhhhhhhhbbbhhhhhhhhhhhhhhhhhh____hhhhhhhhhhhhhggghhhh^^^\ZhhddhYYNNNNNVTSSY^haaVQQSSdWddbdab\_______gghhhhhhhhhhaaahhhhhhhhhggghhhhhhhhhhhhhbbbbhhhhhhhhhhhhhhhhhhhhhhhhhhhhUUUUcdhhgda^^c_VVVVVQQQQcWXddhhhhhhhggghhhhhhhhggghhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhggghhhhhhhhhhhhhhh\\^\\hhhhh^^^\ZhURcccWQLLKKKRW\\YYLLLLKKLLLJJJRROUUZ_URWOOOWNYWWX[Yafhhhhhhhhhed[^eTTOOLLLLLTYZZZY]^_b[[VXXXdddddd____ddddd@
+@FSRRS4401EQLIK [length=411] [gc=34.31] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=374]
+tcagTTTAATTTGGTGCTTCCTTTCAATTCCTTAGTTTAAACTTGGCACTGAAGTCTCGCATTTATAACTAGAGCCCGGATTTTAGAGGCTAAAAAGTTTTCCAGATTTCAAAATTTATTTCGAAACTATTTTTCTGATTGTGATGTGACGGATTTCTAAATTAAATCGAAATGATGTGTATTGAACTTAACAAGTGATTTTTATCAGATTTTGTCAATGAATAAATTTTAATTTAAATCTCTTTCTAACACTTTCATGATTAAAATCTAACAAAGCGCGACCAGTATGTGAGAAGAGCAAAAACAACAAAAAGTGCTAGCACTAAAGAAGGTTCGAACCCAACACATAACGTAAGAGTTACCGGGAAGAAAACCACTctgagactgccaaggcacacagggggataggnn
++
+hhh^UUU^^ggghhhhhhhhhfffhhhhhhhhhhhfffggghhhhhhhhhhhhhhhhhhhhfffhhhhhhhhhhggghhh____hhhhdhdPPPPOOLLLLQQ^\WLLLYLLLLLLLKKKKRRLLLTYRKLLLLYPaadddghhhhhhhhhhha^^`PQQOOOMMMY^\OQSfhhhhhhhhhhhhhhhhhhdbbgga\NNLKKQP^^[TLOOQ\Ueaa^YX[\PPNSSSSNNLNNVV^^fdhddgh`bbhhhggghhhhhhhbbb`hhhgggggghhhhhhhhhhhhhhhhhhhhhhddPNNLLWQQZLLLLMVVV_dhhhhhh^^^hhhhhhhhhhhggghhhhhhhhhhhhhhhhhhhhXXSQQVVVTTTT`dZhdddddhhhhh^^XVTT]_\\YRKKKKKRRRRU@@
+@FSRRS4401AOV6A [length=309] [gc=22.98] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=273]
+tcagTTTTCAAATTTTCCGAAATTTGCTGTTTGGTAGAAGGCAAATTATTTGATTGAATTTTGTATTTATTTAAAACAATTTATTTTAAAATAATAATTTTCCATTGACTTTTTACATTTAATTGATTTTATTATGCATTTTATATTTGTTTTCTAAATATTCGTTTGCAAACTCACGTTGAAATTGTATTAAACTCGAAATTAGAGTTTTTGAAATTAATTTTTATGTAGCATAATATTTTAAACATATTGGAATTTTATAAAACATTATATTTTTctgagactgccaaggcacacagggggataggn
++
+hhhhbbbbhZZZbbbbhhh^^^ggghhhhggghhhhhhhhhhggghhhggghhhhhhh____hehbbbhb``ZZZZdc^a__cUUSSTTTT[[[fhh]]``hhhhhhhhZZZYYhhh^^^bbbhhhZZZZheehhhhhbbbahahddcbSSSS^Saaad^dhhhbgghhZZZghhhhhhggZZZgghhhhhZZZhhhhggghhhhhh]]^^]hddaffYYPPPPNSUeaeaa^\Z\`^XVVVPPPXYd```ccacVVVV\NPPPPQQc`__aUWZZZhWgghhhhhZZZZ^]hdbbbaNNNNNZVST\@
+@FSRRS4401EG0ZW [length=424] [gc=23.82] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=389]
+tcagTTTTGATCTTTTAATAATGAATTTTAATGTGTTAAAATGATTGCATTGATGGCATAACCGCATTTAAATTAATTACATGAAGTGTAAGTATGAAATTTTCCTTTCCAAATTGCAAAAACTAAAATTTAAAATTTATCGTAAAAATTAACATATATTTTAAACGATTTTAAGAAACATTTGTAAATTATATTTTTGTGAAGCGTTCAAACAAAAATAAACAATAAAATATTTTTCTATTTAATAGCAAAACATTTGACGATGAAAAGGAAAATGCGGGTTTGAAAATGGGCTTTGCCATGCTATTTTCATAATAACATATTTTTATTATGAATAATAAATTTACATACAATATATACAGTCTTAAATTTATTCATAATATTTTTGAGAATctgagactgccaaggcacacaggggataggn
++
+hh`XSSSTddhh\\\]hhhhhhhhhbbbbhhghhhbbZZZZhhhhhhhhhhhhhhhhhhhhhhhhheZZUUUcchhhhhhhhhhhhhhhhhhhddXSSSQQSS__UUUbb[[acc`\LLLLLQ[KKKKUTXNNOO\\\WbhhhZ]]\\ggZZhhhhhhbb__^^^hhh____hb^UUUghccbh^a^^bb[ddPPPPPaSaccbaZ\_aVVV]NNNNL\RQR^SQRKKKN\PKKKKLYSdZ^^dhhhhhbbbbh]ZZZhhhhhhh[[__^\NNNNV\`XXXWW[[SSTThdddhhhhhhhhhhhhh[XXXghhhhhhhhhhh^^^^^hhhhhhhhhhhb`bZTTTRXdhhhhhhhhhhhhhhhhggXXXgggh`\`ddee_\MMMMM`c___ccddddehhhZZZXVVeebbb_QSSSX^ecc@

data/test/data/formats/longreads_as_sanger.fastq

@@ -0,0 +1,40 @@
+@FSRRS4401BE7HA [length=395] [gc=36.46] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=95]
+tcagTTAAGATGGGATAATATCCTCAGATTGCGTGATGAACTTTGTTCTGGTGGAGGAGAAGGAAGTGCATTCGACGTATGCCCGTTTGTCGATATTTGtatttaaagtaatccgtcacaaatcagtgacataaatattatttagatttcgggagcaactttatttattccacaagcaggtttaaattttaaatttaaattattgcagaagactttaaattaacctcgttgtcggagtcatttgttcggttattggtcgaaagtaaccncgggaagtgccgaaaactaacaaacaaaagaagatagtgaaattttaattaaaanaaatagccaaacgtaactaactaaaacggacccgtcgaggaactgccaacggacgacacagggagtagnnn
++
+FFFDDDDDDDA666?688FFHGGIIIIIIIIIIIIIIIIIIHHHIIIIIIIIIGHGFFFFF====DFFFFFFFFFFFFFFD???:3104/76=:5...4.3,,,366////4<ABBAAA=CCFDDDDDDDD:666CDFFFF=<ABA=;:333111<===99;B889FFFFFFDDBDBDDD=8844231..,,,-,,,,,,,,1133..---17111,,,,,22555131121.--.,33311,.,,3--,,.,,--,3511123..--!,,,,--,----9,,,,8=,,-,,,-,,,,---26:9:5-..1,,,,11//,,,,!,,1917--,,,,-3.,--,,17,,,,---+11113.030000,,,044400036;96662.//;7><;!!!
+@FSRRS4401BRRTC [length=145] [gc=38.62] [flows=800] [phred_min=0] [phred_max=38] [trimmed_length=74]
+tcagCCAGCAATTCCGACTTAATTGTTCTTCTTCCATCATTCATCTCGACTAACAGTTCTACGATTAATGAGTTTGGCtttaatttgttgttcattattgtcacaattacactactgagactgccaaggcacncagggataggnn
++
+FFFFFFFFFDDDDFFFFGFDDDDBAAAAA=<4444@@B=555:BBBBB@@?8:8<?<89898<84442;==3,,,514,,,11,,,.,,21777555513,..--1115758.//34488><<;;;;9944/!/4,,,57855!!
+@FSRRS4401B64ST [length=382] [gc=40.58] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=346]
+tcagTTTTCTTAAATTACTTGAATCTGTTGAAGTGGATGTCCACTTTTGTATGCCAAATATGCCCAGCGTATACGATCTTGGCCACATCTCCACATAATCATCAGTCGGATGCAAAAAGCGATTAAACTAAAAATGAATGCGTTTTTAGATGAGTAAATAGGTAATACTTTGTTTAAATAATAAATGTCACAAACAGAACGCGGATTACAGTACCTGAAAATAGTTGTACTGTATCTGTGCCGGCACTTCCTCGGCCCTGAGAAGTTGTCCCGTTGTTTCCATTCGCACCATCCAATGGCCAAAGTTTGCGAAGAATCTGTTCCGTTCCATTACCAATTGTTTTTCCATGctgagactgccaaggcacacaggggataggnn
++
+IIIICCCCI??666IIIIIIIIIIIIIIIIIIIIIIIIIIIIII6666IAIIIII???IIIICCCIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII66333EICE::338=/----,8=>>??:2-////7>CEEIEIHHHIIIIIIIIIE;;9911199B???IBCHIIIIIIHHHIIHHHIIIIIIIIIIIIIIIIIIBBCCIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIGGGIIIIIIIIID?===DIIIHHHIIIIIIIIIHHHIIIIIIIIIIHHHIHHHIIIIIIIIIIIIIIIIIIIIII?>;9988==5----.@@AEGIIIIIIIIIHH????EIIIFF999;EIIBB!!
+@FSRRS4401EJ0YH [length=381] [gc=48.29] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=343]
+tcagTTTTTGGAGAATTCCGTCAGGGACGGCATGGCATATTTGTGGGTTCGGCACGGCGTCCTGGCCAAGAAGAAGAAGACGAATTAGCCCGTTAATTTAATGACACCTTCCCCAATTTTGCAGCAATGATTGGTTCATTCTTGGCGGTGCGTTTTTGTGCTTCGTCGAATTGTTGGCCATTTTGGTCCACCGGCCATCATCTTTACGCTATCCGACTGATTGGAAATCACCGCCTAGCATTTTGCCGAAGATTGTTGCGTTGTACGGCCATGTGCTGATTGTTTACATTGGCATTCTTGGCAATTTGTCCTTGGTCGGCTTTGACGGCAAATTTGCGGTGTTAAGTctgagactgccaaggcacacagggggatagggnn
++
+IIII?????IIIIIIIIIIIIIIHHHIIIIIIIIIIIIIHHHIIHHHIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIHHHIIIIIHHHIIIIIIIIIIIAAAAII>>>>IIIIIIIIIIIIIIIIIIIIIIIIIIEEIEE;33333D7IIIIIIIIIIIIIIIIIIIIICC@@HHIIIIIIIIIIIIIIIIHHHIIIIIIIIIIIIIIIIIIIHHHIIIIIIIIIIIIIBBBBIHCDCHIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIHHHIIIHHCCDIIIIIIHHHIICCCH=CCIIIIIIIIIGGGIIIIIIHHHHHHIIIIIIIIIIIIIIIHHHIIHHE??>>?EFEE?/////;:80--!!
+@FSRRS4401BK0IB [length=507] [gc=49.31] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=208]
+tcagTTGACCGGCGTTGTGTAACAATAATTCATTATTCTGAGACGATGCCAATGTAATCGACGGTTTATGCCCAATTATTCCCATCTATGCTTAACTGATCAAATACTATTTGCATTACGTCACGAAATTGCGCGAACACCGCCGGCCGACAATAATTTATACCGGACATACCGGAGTTGATGGTAATCGGTAAAGAGTTTTATTTAATTATntattatcnctattaattattgttancaacaatgtgcacgctntgccgcccgccgccgccgtgtcggtaggaccccggacggacccggacccggttcgggtacccgttttcgggttcccggaaccgtttttcgggtacccggttttttcggggggccccccggtaaaaaaccggggaaccccctaaaacgggtaaacgtaccgtaagggaccccctaaacgggggccccgaaaaaccgggacccaaaccggggggaaacggttaaaggggggggaagtaggngnnnnnnnnnnnn
++
+FFFA@@FFFFFFFFFFHHB:::@BFFFFGGHIHIIIIIIIIIIIIIIIIIIIIIIIFFFFFFFFF?=BA@11188011<<88;?AABDDC???DDAAAADA666D?DDD=====AA>?>><<<=<11188<<???AA?9555=ABBB@@?=>>?@@11142::DDA???DFFFFFFFFFFFFFBAAAA<<0000.22=////8,--111111!23--/24!37:6666<;822/..4!46521177553.-.23!231121112,,-,,211==5------,12,,,,,,-,,,-1,,,,-,,155--,,,,13111.,,,,,,,,++111..11..1,,,,,,,,,+3,,,,,--22-----//----55//**/--22--**,,,,**,,,,,,.1.,*,,,,***,,,,,,,,,,,,,,,,,,,,,,,),,-,,,,,,),,,,,**//.),,,///,,,,,,,,,,,.))33---,,,,,,,,,,(0,,,!.!!!!!!!!!!!!
+@FSRRS4401ARCCB [length=258] [gc=46.90] [flows=800] [phred_min=0] [phred_max=38] [trimmed_length=193]
+tcagTTATTGCAGTCGTTCCGCGCCATCGCCGGTAACCGTCCGCGTGTTATTCTGTGTATCGGCCAACCTTCGTATAACTTCGTATAATGTATGCTATACGAAGTTATTACGATCTATACCGGCGAAACTCAGCCGAAAGGTCTCGCGGTAGAGCCTATGAGCTGCCCGACCGATGCATTTAAATTTCCGGGGATCGtcgctgatctgagactgccaaaggcacactagggggataggnnnnnnnnnnnnnnnnnnnn
++
+FFF<8::@DFFFFFFFGGFDCAAAAAB@@000046<;66322366762243348<<=??4445::>ABAAA@<<==B=:555:BBD??=BDDDDFFFCCCCCCCFFCDDDFFFFFDBAA==88880004><<<99688;889<889?BBBBA=???DDBBB@@??88889---237771,,,,,,,,--1152<<00158A@><<<<<43277711,,,--37===75,----34666!!!!!!!!!!!!!!!!!!!!
+@FSRRS4401CM938 [length=453] [gc=44.15] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=418]
+tcagGTTTTAAATCGCTTTCCAAGGAATTTGAGTCTAAATCCGGTGGATCCCATCAGTACAAATGCGGCGACAAGGCCGTGAAAACACTGCTTAATTCTTTGCACTTTTTGGCCACCTTTTTGGAAATGTTGTTTTGTGTTCTCAAAATTTTCCATCTCAGAACAAACATTCCATCGGGCTGATGTTGTGGCTTTTGGCGCGCGAAGTGCTGCTACTGCGCGGCAAAATCAGTCGCCAGACCGGTTTTGTTGTGGACGACAAAGTGATCATGCCTGACTTGTACTTCTACCGCGATCCGCAAGCGCGAATTGGTCACATAGTTATAGAATTTTTGAGCCTTTTTCTTGACATAAAAAGTGTGGTTTTAAAAATTTCCTGGCAGGACCCACGCCAACGTTCAGGAATAATATCTTTTAAAAAGctgagactgccaaggcacacaggggataggn
++
+IIIIICC>>666IIIICCCIIIIIIIIHHHIIIIIG666IIIIIIIIIIHHHIIIIIIIICCCIIIIIIIIIIIIIIIIII@@@@IIIIIIIIIIIIIHHHIIII???=;IIEEI:://///7544:?IBB72244E8EECEBC=@@@@@@@HHIIIIIIIIIIBBBIIIIIIIIIHHHIIIIIIIIIIIIICCCCIIIIIIIIIIIIIIIIIIIIIIIIIIII6666DEIIHEB??D@777772222D89EEIIIIIIIHHHIIIIIIIIHHHIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIHHHIIIIIIIIIIIIIII==?==IIIII???=;I63DDD82--,,,38==::----,,---+++33066;@6380008/:889<:BGIIIIIIIIIFE<?F5500-----5:;;;:>?@C<<7999EEEEEE@@@@EEEEE!
+@FSRRS4401EQLIK [length=411] [gc=34.31] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=374]
+tcagTTTAATTTGGTGCTTCCTTTCAATTCCTTAGTTTAAACTTGGCACTGAAGTCTCGCATTTATAACTAGAGCCCGGATTTTAGAGGCTAAAAAGTTTTCCAGATTTCAAAATTTATTTCGAAACTATTTTTCTGATTGTGATGTGACGGATTTCTAAATTAAATCGAAATGATGTGTATTGAACTTAACAAGTGATTTTTATCAGATTTTGTCAATGAATAAATTTTAATTTAAATCTCTTTCTAACACTTTCATGATTAAAATCTAACAAAGCGCGACCAGTATGTGAGAAGAGCAAAAACAACAAAAAGTGCTAGCACTAAAGAAGGTTCGAACCCAACACATAACGTAAGAGTTACCGGGAAGAAAACCACTctgagactgccaaggcacacagggggataggnn
++
+III?666??HHHIIIIIIIIIGGGIIIIIIIIIIIGGGHHHIIIIIIIIIIIIIIIIIIIIGGGIIIIIIIIIIHHHIII@@@@IIIIEIE111100----22?=8---:-------,,,,33---5:3,----:1BBEEEHIIIIIIIIIIIB??A122000...:?=024GIIIIIIIIIIIIIIIIIIECCHHB=//-,,21??<5-002=6FBB?:9<=11/4444//-//77??GEIEEHIACCIIIHHHIIIIIIICCCAIIIHHHHHHIIIIIIIIIIIIIIIIIIIIIIEE1//--822;----.777@EIIIIII???IIIIIIIIIIIHHHIIIIIIIIIIIIIIIIIIII994227775555AE;IEEEEEIIIII??9755>@==:3,,,,,33336!!
+@FSRRS4401AOV6A [length=309] [gc=22.98] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=273]
+tcagTTTTCAAATTTTCCGAAATTTGCTGTTTGGTAGAAGGCAAATTATTTGATTGAATTTTGTATTTATTTAAAACAATTTATTTTAAAATAATAATTTTCCATTGACTTTTTACATTTAATTGATTTTATTATGCATTTTATATTTGTTTTCTAAATATTCGTTTGCAAACTCACGTTGAAATTGTATTAAACTCGAAATTAGAGTTTTTGAAATTAATTTTTATGTAGCATAATATTTTAAACATATTGGAATTTTATAAAACATTATATTTTTctgagactgccaaggcacacagggggataggn
++
+IIIICCCCI;;;CCCCIII???HHHIIIIHHHIIIIIIIIIIHHHIIIHHHIIIIIII@@@@IFICCCICAA;;;;ED?B@@D66445555<<<GII>>AAIIIIIIII;;;::III???CCCIII;;;;IFFIIIIICCCBIBIEEDC4444?4BBBE?EIIICHHII;;;HIIIIIIHH;;;HHIIIII;;;IIIIHHHIIIIII>>??>IEEBGG::1111/46FBFBB?=;=A?97771119:EAAADDBD7777=/111122DA@@B68;;;I8HHIIIII;;;;?>IECCCB/////;745=!
+@FSRRS4401EG0ZW [length=424] [gc=23.82] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=389]
+tcagTTTTGATCTTTTAATAATGAATTTTAATGTGTTAAAATGATTGCATTGATGGCATAACCGCATTTAAATTAATTACATGAAGTGTAAGTATGAAATTTTCCTTTCCAAATTGCAAAAACTAAAATTTAAAATTTATCGTAAAAATTAACATATATTTTAAACGATTTTAAGAAACATTTGTAAATTATATTTTTGTGAAGCGTTCAAACAAAAATAAACAATAAAATATTTTTCTATTTAATAGCAAAACATTTGACGATGAAAAGGAAAATGCGGGTTTGAAAATGGGCTTTGCCATGCTATTTTCATAATAACATATTTTTATTATGAATAATAAATTTACATACAATATATACAGTCTTAAATTTATTCATAATATTTTTGAGAATctgagactgccaaggcacacaggggataggn
++
+IIA94445EEII===>IIIIIIIIICCCCIIHIIICC;;;;IIIIIIIIIIIIIIIIIIIIIIIIIF;;666DDIIIIIIIIIIIIIIIIIIIEE94442244@@666CC<<BDDA=-----2<,,,,659//00===8CIII;>>==HH;;IIIIIICC@@???III@@@@IC?666HIDDCI?B??CC<EE11111B4BDDCB;=@B777>////-=323?423,,,/=1,,,,-:4E;??EIIIIICCCCI>;;;IIIIIII<<@@?=////7=A99988<<4455IEEEIIIIIIIIIIIII<999HIIIIIIIIIII?????IIIIIIIIIIICAC;55539EIIIIIIIIIIIIIIIIHH999HHHIA=AEEFF@=.....AD@@@DDEEEEFIII;;;977FFCCC@24449?FDD!

data/test/data/formats/longreads_as_solexa.fastq

@@ -0,0 +1,40 @@
+@FSRRS4401BE7HA [length=395] [gc=36.46] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=95]
+tcagTTAAGATGGGATAATATCCTCAGATTGCGTGATGAACTTTGTTCTGGTGGAGGAGAAGGAAGTGCATTCGACGTATGCCCGTTTGTCGATATTTGtatttaaagtaatccgtcacaaatcagtgacataaatattatttagatttcgggagcaactttatttattccacaagcaggtttaaattttaaatttaaattattgcagaagactttaaattaacctcgttgtcggagtcatttgttcggttattggtcgaaagtaaccncgggaagtgccgaaaactaacaaacaaaagaagatagtgaaattttaattaaaanaaatagccaaacgtaactaactaaaacggacccgtcgaggaactgccaacggacgacacagggagtagnnn
++
+eeeccccccc`UUU^UWWeegffhhhhhhhhhhhhhhhhhhggghhhhhhhhhfgfeeeee\\\\ceeeeeeeeeeeeeec^^^YRPOSNVU\YTMMMSMRKKKRUUNNNNS[`aa```\bbeccccccccYUUUbceeee\[`a`\ZYRRRPPP[\\\XXZaWWXeeeeeeccacaccc\WWSSQRPMMKKKLKKKKKKKKPPRRMMLLLPVPPPKKKKKQQTTTPRPPQPMLLMKRRRPPKMKKRLLKKMKKLLKRTPPPQRMMLL;KKKKLLKLLLLXKKKKW\KKLKKKLKKKKLLLQUYXYTLMMPKKKKPPNNKKKK;KKPXPVLLKKKKLRMKLLKKPVKKKKLLLJPPPPRMOROOOOKKKOSSSOOORUZXUUUQMNNZV][Z;;;
+@FSRRS4401BRRTC [length=145] [gc=38.62] [flows=800] [phred_min=0] [phred_max=38] [trimmed_length=74]
+tcagCCAGCAATTCCGACTTAATTGTTCTTCTTCCATCATTCATCTCGACTAACAGTTCTACGATTAATGAGTTTGGCtttaatttgttgttcattattgtcacaattacactactgagactgccaaggcacncagggataggnn
++
+eeeeeeeeecccceeeefecccca`````\[SSSS__a\TTTYaaaaa__^WYW[^[WXWXW[WSSSQZ\\RKKKTPSKKKPPKKKMKKQPVVVTTTTPRKMMLLPPPTVTWMNNRSSWW][[ZZZZXXSSN;NSKKKTVWTT;;
+@FSRRS4401B64ST [length=382] [gc=40.58] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=346]
+tcagTTTTCTTAAATTACTTGAATCTGTTGAAGTGGATGTCCACTTTTGTATGCCAAATATGCCCAGCGTATACGATCTTGGCCACATCTCCACATAATCATCAGTCGGATGCAAAAAGCGATTAAACTAAAAATGAATGCGTTTTTAGATGAGTAAATAGGTAATACTTTGTTTAAATAATAAATGTCACAAACAGAACGCGGATTACAGTACCTGAAAATAGTTGTACTGTATCTGTGCCGGCACTTCCTCGGCCCTGAGAAGTTGTCCCGTTGTTTCCATTCGCACCATCCAATGGCCAAAGTTTGCGAAGAATCTGTTCCGTTCCATTACCAATTGTTTTTCCATGctgagactgccaaggcacacaggggataggnn
++
+hhhhbbbbh^^UUUhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhUUUUh`hhhhh^^^hhhhbbbhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhUURRRdhbdYYRRW\NLLLLKW\]]^^YQLNNNNV]bddhdhggghhhhhhhhhdZZXXPPPXXa^^^habghhhhhhggghhggghhhhhhhhhhhhhhhhhhaabbhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhfffhhhhhhhhhc^\\\chhhggghhhhhhhhhggghhhhhhhhhhggghggghhhhhhhhhhhhhhhhhhhhhh^]ZXXWW\\TLLLLM__`dfhhhhhhhhhgg^^^^dhhheeXXXZdhhaa;;
+@FSRRS4401EJ0YH [length=381] [gc=48.29] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=343]
+tcagTTTTTGGAGAATTCCGTCAGGGACGGCATGGCATATTTGTGGGTTCGGCACGGCGTCCTGGCCAAGAAGAAGAAGACGAATTAGCCCGTTAATTTAATGACACCTTCCCCAATTTTGCAGCAATGATTGGTTCATTCTTGGCGGTGCGTTTTTGTGCTTCGTCGAATTGTTGGCCATTTTGGTCCACCGGCCATCATCTTTACGCTATCCGACTGATTGGAAATCACCGCCTAGCATTTTGCCGAAGATTGTTGCGTTGTACGGCCATGTGCTGATTGTTTACATTGGCATTCTTGGCAATTTGTCCTTGGTCGGCTTTGACGGCAAATTTGCGGTGTTAAGTctgagactgccaaggcacacagggggatagggnn
++
+hhhh^^^^^hhhhhhhhhhhhhhggghhhhhhhhhhhhhggghhggghhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhggghhhhhggghhhhhhhhhhh````hh]]]]hhhhhhhhhhhhhhhhhhhhhhhhhhddhddZRRRRRcVhhhhhhhhhhhhhhhhhhhhhbb__gghhhhhhhhhhhhhhhhggghhhhhhhhhhhhhhhhhhhggghhhhhhhhhhhhhaaaahgbcbghhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhggghhhggbbchhhhhhggghhbbbg\bbhhhhhhhhhfffhhhhhhgggggghhhhhhhhhhhhhhhggghhggd^^]]^dedd^NNNNNZYWOLL;;
+@FSRRS4401BK0IB [length=507] [gc=49.31] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=208]
+tcagTTGACCGGCGTTGTGTAACAATAATTCATTATTCTGAGACGATGCCAATGTAATCGACGGTTTATGCCCAATTATTCCCATCTATGCTTAACTGATCAAATACTATTTGCATTACGTCACGAAATTGCGCGAACACCGCCGGCCGACAATAATTTATACCGGACATACCGGAGTTGATGGTAATCGGTAAAGAGTTTTATTTAATTATntattatcnctattaattattgttancaacaatgtgcacgctntgccgcccgccgccgccgtgtcggtaggaccccggacggacccggacccggttcgggtacccgttttcgggttcccggaaccgtttttcgggtacccggttttttcggggggccccccggtaaaaaaccggggaaccccctaaaacgggtaaacgtaccgtaagggaccccctaaacgggggccccgaaaaaccgggacccaaaccggggggaaacggttaaaggggggggaagtaggngnnnnnnnnnnnn
++
+eee`__eeeeeeeeeeggaYYY_aeeeeffghghhhhhhhhhhhhhhhhhhhhhhheeeeeeeee^\a`_PPPWWOPP[[WWZ^``accb^^^cc````c`UUUc^ccc\\\\\``]^]][[[\[PPPWW[[^^^``^XTTT\`aaa__^\]]^__PPPSQYYcc`^^^ceeeeeeeeeeeeea````[[OOOOMQQ\NNNNWKLLPPPPPP;QRLLNQS;RVYUUUU[ZWQQNMMS;SUTQPPVVTTRMLMQR;QRPPQPPPQKKLKKQPP\\TLLLLLLKPQKKKKKKLKKKLPKKKKLKKPTTLLKKKKPRPPPMKKKKKKKKJJPPPMMPPMMPKKKKKKKKKJRKKKKKLLQQLLLLLNNLLLLTTNNHHNLLQQLLHHKKKKHHKKKKKKMPMKHKKKKHHHKKKKKKKKKKKKKKKKKKKKKKKGKKLKKKKKKGKKKKKHHNNMGKKKNNNKKKKKKKKKKKMGGRRLLLKKKKKKKKKKFOKKK;M;;;;;;;;;;;;
+@FSRRS4401ARCCB [length=258] [gc=46.90] [flows=800] [phred_min=0] [phred_max=38] [trimmed_length=193]
+tcagTTATTGCAGTCGTTCCGCGCCATCGCCGGTAACCGTCCGCGTGTTATTCTGTGTATCGGCCAACCTTCGTATAACTTCGTATAATGTATGCTATACGAAGTTATTACGATCTATACCGGCGAAACTCAGCCGAAAGGTCTCGCGGTAGAGCCTATGAGCTGCCCGACCGATGCATTTAAATTTCCGGGGATCGtcgctgatctgagactgccaaaggcacactagggggataggnnnnnnnnnnnnnnnnnnnn
++
+eee[WYY_ceeeeeeeffecb`````a__OOOOSU[ZUURQQRUUVUQQSRRSW[[\^^SSSTYY]`a```_[[\\a\YTTTYaac^^\acccceeebbbbbbbeebccceeeeeca``\\WWWWOOOS][[[XXUWWZWWX[WWX^aaaa`\^^^ccaaa__^^WWWWXLLLQRVVVPKKKKKKKKLLPPTQ[[OOPTW`_][[[[[SRQVVVPPKKKLLRV\\\VTKLLLLRSUUU;;;;;;;;;;;;;;;;;;;;
+@FSRRS4401CM938 [length=453] [gc=44.15] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=418]
+tcagGTTTTAAATCGCTTTCCAAGGAATTTGAGTCTAAATCCGGTGGATCCCATCAGTACAAATGCGGCGACAAGGCCGTGAAAACACTGCTTAATTCTTTGCACTTTTTGGCCACCTTTTTGGAAATGTTGTTTTGTGTTCTCAAAATTTTCCATCTCAGAACAAACATTCCATCGGGCTGATGTTGTGGCTTTTGGCGCGCGAAGTGCTGCTACTGCGCGGCAAAATCAGTCGCCAGACCGGTTTTGTTGTGGACGACAAAGTGATCATGCCTGACTTGTACTTCTACCGCGATCCGCAAGCGCGAATTGGTCACATAGTTATAGAATTTTTGAGCCTTTTTCTTGACATAAAAAGTGTGGTTTTAAAAATTTCCTGGCAGGACCCACGCCAACGTTCAGGAATAATATCTTTTAAAAAGctgagactgccaaggcacacaggggataggn
++
+hhhhhbb]]UUUhhhhbbbhhhhhhhhggghhhhhfUUUhhhhhhhhhhggghhhhhhhhbbbhhhhhhhhhhhhhhhhhh____hhhhhhhhhhhhhggghhhh^^^\ZhhddhYYNNNNNVTSSY^haaVQQSSdWddbdab\_______gghhhhhhhhhhaaahhhhhhhhhggghhhhhhhhhhhhhbbbbhhhhhhhhhhhhhhhhhhhhhhhhhhhhUUUUcdhhgda^^c_VVVVVQQQQcWXddhhhhhhhggghhhhhhhhggghhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhggghhhhhhhhhhhhhhh\\^\\hhhhh^^^\ZhURcccWQLLKKKRW\\YYLLLLKKLLLJJJRROUUZ_URWOOOWNYWWX[Yafhhhhhhhhhed[^eTTOOLLLLLTYZZZY]^_b[[VXXXdddddd____ddddd;
+@FSRRS4401EQLIK [length=411] [gc=34.31] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=374]
+tcagTTTAATTTGGTGCTTCCTTTCAATTCCTTAGTTTAAACTTGGCACTGAAGTCTCGCATTTATAACTAGAGCCCGGATTTTAGAGGCTAAAAAGTTTTCCAGATTTCAAAATTTATTTCGAAACTATTTTTCTGATTGTGATGTGACGGATTTCTAAATTAAATCGAAATGATGTGTATTGAACTTAACAAGTGATTTTTATCAGATTTTGTCAATGAATAAATTTTAATTTAAATCTCTTTCTAACACTTTCATGATTAAAATCTAACAAAGCGCGACCAGTATGTGAGAAGAGCAAAAACAACAAAAAGTGCTAGCACTAAAGAAGGTTCGAACCCAACACATAACGTAAGAGTTACCGGGAAGAAAACCACTctgagactgccaaggcacacagggggataggnn
++
+hhh^UUU^^ggghhhhhhhhhfffhhhhhhhhhhhfffggghhhhhhhhhhhhhhhhhhhhfffhhhhhhhhhhggghhh____hhhhdhdPPPPOOLLLLQQ^\WLLLYLLLLLLLKKKKRRLLLTYRKLLLLYPaadddghhhhhhhhhhha^^`PQQOOOMMMY^\OQSfhhhhhhhhhhhhhhhhhhdbbgga\NNLKKQP^^[TLOOQ\Ueaa^YX[\PPNSSSSNNLNNVV^^fdhddgh`bbhhhggghhhhhhhbbb`hhhgggggghhhhhhhhhhhhhhhhhhhhhhddPNNLLWQQZLLLLMVVV_dhhhhhh^^^hhhhhhhhhhhggghhhhhhhhhhhhhhhhhhhhXXSQQVVVTTTT`dZhdddddhhhhh^^XVTT]_\\YRKKKKKRRRRU;;
+@FSRRS4401AOV6A [length=309] [gc=22.98] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=273]
+tcagTTTTCAAATTTTCCGAAATTTGCTGTTTGGTAGAAGGCAAATTATTTGATTGAATTTTGTATTTATTTAAAACAATTTATTTTAAAATAATAATTTTCCATTGACTTTTTACATTTAATTGATTTTATTATGCATTTTATATTTGTTTTCTAAATATTCGTTTGCAAACTCACGTTGAAATTGTATTAAACTCGAAATTAGAGTTTTTGAAATTAATTTTTATGTAGCATAATATTTTAAACATATTGGAATTTTATAAAACATTATATTTTTctgagactgccaaggcacacagggggataggn
++
+hhhhbbbbhZZZbbbbhhh^^^ggghhhhggghhhhhhhhhhggghhhggghhhhhhh____hehbbbhb``ZZZZdc^a__cUUSSTTTT[[[fhh]]``hhhhhhhhZZZYYhhh^^^bbbhhhZZZZheehhhhhbbbahahddcbSSSS^Saaad^dhhhbgghhZZZghhhhhhggZZZgghhhhhZZZhhhhggghhhhhh]]^^]hddaffYYPPPPNSUeaeaa^\Z\`^XVVVPPPXYd```ccacVVVV\NPPPPQQc`__aUWZZZhWgghhhhhZZZZ^]hdbbbaNNNNNZVST\;
+@FSRRS4401EG0ZW [length=424] [gc=23.82] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=389]
+tcagTTTTGATCTTTTAATAATGAATTTTAATGTGTTAAAATGATTGCATTGATGGCATAACCGCATTTAAATTAATTACATGAAGTGTAAGTATGAAATTTTCCTTTCCAAATTGCAAAAACTAAAATTTAAAATTTATCGTAAAAATTAACATATATTTTAAACGATTTTAAGAAACATTTGTAAATTATATTTTTGTGAAGCGTTCAAACAAAAATAAACAATAAAATATTTTTCTATTTAATAGCAAAACATTTGACGATGAAAAGGAAAATGCGGGTTTGAAAATGGGCTTTGCCATGCTATTTTCATAATAACATATTTTTATTATGAATAATAAATTTACATACAATATATACAGTCTTAAATTTATTCATAATATTTTTGAGAATctgagactgccaaggcacacaggggataggn
++
+hh`XSSSTddhh\\\]hhhhhhhhhbbbbhhghhhbbZZZZhhhhhhhhhhhhhhhhhhhhhhhhheZZUUUcchhhhhhhhhhhhhhhhhhhddXSSSQQSS__UUUbb[[acc`\LLLLLQ[KKKKUTXNNOO\\\WbhhhZ]]\\ggZZhhhhhhbb__^^^hhh____hb^UUUghccbh^a^^bb[ddPPPPPaSaccbaZ\_aVVV]NNNNL\RQR^SQRKKKN\PKKKKLYSdZ^^dhhhhhbbbbh]ZZZhhhhhhh[[__^\NNNNV\`XXXWW[[SSTThdddhhhhhhhhhhhhh[XXXghhhhhhhhhhh^^^^^hhhhhhhhhhhb`bZTTTRXdhhhhhhhhhhhhhhhhggXXXgggh`\`ddee_\MMMMM`c___ccddddehhhZZZXVVeebbb_QSSSX^ecc;

data/test/data/formats/misc_dna_as_illumina.fastq

@@ -0,0 +1,16 @@
+@FAKE0007 Original version has lower case unambiguous DNA with PHRED scores from 0 to 40 inclusive (in that order)
+ACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTA
++
+@ABCDEFGHIJKLMNOPQRSTUVWXYZ[\]^_`abcdefgh
+@FAKE0008 Original version has mixed case unambiguous DNA with PHRED scores from 0 to 40 inclusive (in that order)
+gTcatAGcgTcatAGcgTcatAGcgTcatAGcgTcatAGcg
++
+@ABCDEFGHIJKLMNOPQRSTUVWXYZ[\]^_`abcdefgh
+@FAKE0009 Original version has lower case unambiguous DNA with PHRED scores from 0 to 40 inclusive (in that order)
+tcagtcagtcagtcagtcagtcagtcagtcagtcagtcagt
++
+@ABCDEFGHIJKLMNOPQRSTUVWXYZ[\]^_`abcdefgh
+@FAKE0010 Original version has mixed case ambiguous DNA and PHRED scores of 40, 30, 20, 10 (cycled)
+gatcrywsmkhbvdnGATCRYWSMKHBVDN
++
+h^TJh^TJh^TJh^TJh^TJh^TJh^TJh^

data/test/data/formats/misc_dna_as_sanger.fastq

@@ -0,0 +1,16 @@
+@FAKE0007 Original version has lower case unambiguous DNA with PHRED scores from 0 to 40 inclusive (in that order)
+ACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTA
++
+!"#$%&'()*+,-./0123456789:;<=>?@ABCDEFGHI
+@FAKE0008 Original version has mixed case unambiguous DNA with PHRED scores from 0 to 40 inclusive (in that order)
+gTcatAGcgTcatAGcgTcatAGcgTcatAGcgTcatAGcg
++
+!"#$%&'()*+,-./0123456789:;<=>?@ABCDEFGHI
+@FAKE0009 Original version has lower case unambiguous DNA with PHRED scores from 0 to 40 inclusive (in that order)
+tcagtcagtcagtcagtcagtcagtcagtcagtcagtcagt
++
+!"#$%&'()*+,-./0123456789:;<=>?@ABCDEFGHI
+@FAKE0010 Original version has mixed case ambiguous DNA and PHRED scores of 40, 30, 20, 10 (cycled)
+gatcrywsmkhbvdnGATCRYWSMKHBVDN
++
+I?5+I?5+I?5+I?5+I?5+I?5+I?5+I?

data/test/data/formats/misc_dna_as_solexa.fastq

@@ -0,0 +1,16 @@
+@FAKE0007 Original version has lower case unambiguous DNA with PHRED scores from 0 to 40 inclusive (in that order)
+ACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTA
++
+;;>@BCEFGHJKLMNOPQRSTUVWXYZ[\]^_`abcdefgh
+@FAKE0008 Original version has mixed case unambiguous DNA with PHRED scores from 0 to 40 inclusive (in that order)
+gTcatAGcgTcatAGcgTcatAGcgTcatAGcgTcatAGcg
++
+;;>@BCEFGHJKLMNOPQRSTUVWXYZ[\]^_`abcdefgh
+@FAKE0009 Original version has lower case unambiguous DNA with PHRED scores from 0 to 40 inclusive (in that order)
+tcagtcagtcagtcagtcagtcagtcagtcagtcagtcagt
++
+;;>@BCEFGHJKLMNOPQRSTUVWXYZ[\]^_`abcdefgh
+@FAKE0010 Original version has mixed case ambiguous DNA and PHRED scores of 40, 30, 20, 10 (cycled)
+gatcrywsmkhbvdnGATCRYWSMKHBVDN
++
+h^TJh^TJh^TJh^TJh^TJh^TJh^TJh^

data/test/data/formats/misc_dna_original_sanger.fastq

@@ -0,0 +1,16 @@
+@FAKE0007 Original version has lower case unambiguous DNA with PHRED scores from 0 to 40 inclusive (in that order)
+ACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTA
++
+!"#$%&'()*+,-./0123456789:;<=>?@ABCDEFGHI
+@FAKE0008 Original version has mixed case unambiguous DNA with PHRED scores from 0 to 40 inclusive (in that order)
+gTcatAGcgTcatAGcgTcatAGcgTcatAGcgTcatAGcg
++
+!"#$%&'()*+,-./0123456789:;<=>?@ABCDEFGHI
+@FAKE0009 Original version has lower case unambiguous DNA with PHRED scores from 0 to 40 inclusive (in that order)
+tcagtcagtcagtcagtcagtcagtcagtcagtcagtcagt
++
+!"#$%&'()*+,-./0123456789:;<=>?@ABCDEFGHI
+@FAKE0010 Original version has mixed case ambiguous DNA and PHRED scores of 40, 30, 20, 10 (cycled)
+gatcrywsmkhbvdnGATCRYWSMKHBVDN
++
+I?5+I?5+I?5+I?5+I?5+I?5+I?5+I?

data/test/data/formats/misc_rna_as_illumina.fastq

@@ -0,0 +1,16 @@
+@FAKE0011 Original version has lower case unambiguous RNA with PHRED scores from 0 to 40 inclusive (in that order)
+ACGUACGUACGUACGUACGUACGUACGUACGUACGUACGUA
++
+@ABCDEFGHIJKLMNOPQRSTUVWXYZ[\]^_`abcdefgh
+@FAKE0012 Original version has mixed case unambiguous RNA with PHRED scores from 0 to 40 inclusive (in that order)
+gUcauAGcgUcauAGcgUcauAGcgUcauAGcgUcauAGcg
++
+@ABCDEFGHIJKLMNOPQRSTUVWXYZ[\]^_`abcdefgh
+@FAKE0013 Original version has lower case unambiguous RNA with PHRED scores from 0 to 40 inclusive (in that order)
+ucagucagucagucagucagucagucagucagucagucagu
++
+@ABCDEFGHIJKLMNOPQRSTUVWXYZ[\]^_`abcdefgh
+@FAKE0014 Original version has mixed case ambiguous RNA with PHRED scores from 35 to 40 inclusive (cycled)
+gaucrywsmkhbvdnGAUCRYWSMKHBVDN
++
+cdefghcdefghcdefghcdefghcdefgh

data/test/data/formats/misc_rna_as_sanger.fastq

@@ -0,0 +1,16 @@
+@FAKE0011 Original version has lower case unambiguous RNA with PHRED scores from 0 to 40 inclusive (in that order)
+ACGUACGUACGUACGUACGUACGUACGUACGUACGUACGUA
++
+!"#$%&'()*+,-./0123456789:;<=>?@ABCDEFGHI
+@FAKE0012 Original version has mixed case unambiguous RNA with PHRED scores from 0 to 40 inclusive (in that order)
+gUcauAGcgUcauAGcgUcauAGcgUcauAGcgUcauAGcg
++
+!"#$%&'()*+,-./0123456789:;<=>?@ABCDEFGHI
+@FAKE0013 Original version has lower case unambiguous RNA with PHRED scores from 0 to 40 inclusive (in that order)
+ucagucagucagucagucagucagucagucagucagucagu
++
+!"#$%&'()*+,-./0123456789:;<=>?@ABCDEFGHI
+@FAKE0014 Original version has mixed case ambiguous RNA with PHRED scores from 35 to 40 inclusive (cycled)
+gaucrywsmkhbvdnGAUCRYWSMKHBVDN
++
+DEFGHIDEFGHIDEFGHIDEFGHIDEFGHI

data/test/data/formats/misc_rna_as_solexa.fastq

@@ -0,0 +1,16 @@
+@FAKE0011 Original version has lower case unambiguous RNA with PHRED scores from 0 to 40 inclusive (in that order)
+ACGUACGUACGUACGUACGUACGUACGUACGUACGUACGUA
++
+;;>@BCEFGHJKLMNOPQRSTUVWXYZ[\]^_`abcdefgh
+@FAKE0012 Original version has mixed case unambiguous RNA with PHRED scores from 0 to 40 inclusive (in that order)
+gUcauAGcgUcauAGcgUcauAGcgUcauAGcgUcauAGcg
++
+;;>@BCEFGHJKLMNOPQRSTUVWXYZ[\]^_`abcdefgh
+@FAKE0013 Original version has lower case unambiguous RNA with PHRED scores from 0 to 40 inclusive (in that order)
+ucagucagucagucagucagucagucagucagucagucagu
++
+;;>@BCEFGHJKLMNOPQRSTUVWXYZ[\]^_`abcdefgh
+@FAKE0014 Original version has mixed case ambiguous RNA with PHRED scores from 35 to 40 inclusive (cycled)
+gaucrywsmkhbvdnGAUCRYWSMKHBVDN
++
+cdefghcdefghcdefghcdefghcdefgh