--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/fastq_dir/reads-sample-small.fastq-miRNAs-genome.fastq	Wed Jan 16 08:18:13 2019 -0500
@@ -0,0 +1,252 @@
+@HWI-ST132:678:C1LFKACXX:6:1103:6450:33284
+AACCCGTAAATCCGAACTTG
++
+?@@DD<@DCCABFGF1@GHI
+@HWI-ST132:678:C1LFKACXX:6:1104:7735:58473
+AACCCGTAAATCCGAACTTG
++
+:?@DDDDD@<2CAEFHGGIC
+@HWI-ST132:678:C1LFKACXX:6:1111:8344:28118
+AACCCGTAAATCCGAACTTG
++
+?@@DDADD@B<ADCAEEGGI
+@HWI-ST132:678:C1LFKACXX:6:1201:4901:28957
+AACCCGTAAATCCGAACTTG
++
+@@@FFFFFDAAFHFHGIIJH
+@HWI-ST132:678:C1LFKACXX:6:1201:14858:55180
+AACCCGTAAATCCGAACTTG
++
+?B@FDFFFCAHAFGFHIJJJ
+@HWI-ST132:678:C1LFKACXX:6:1208:10957:88261
+AACCCGTAAATCCGAACTTG
++
+@@@FFFDDFFFDFCE+CFHI
+@HWI-ST132:678:C1LFKACXX:6:1211:4119:82063
+AACCCGTAAATCCGAACTTG
++
+B?@FFFDF@AACFFAEHHJI
+@HWI-ST132:678:C1LFKACXX:6:1301:7756:37290
+AACCCGTAAATCCGAACTTG
++
+=BBDFFFF@<ADFHEGIJJI
+@HWI-ST132:678:C1LFKACXX:6:1315:14080:19805
+AACCCGTAAATCCGAACTTG
++
+?@?DDDDFFDDHHJI;EGIE
+@HWI-ST132:678:C1LFKACXX:6:2106:14523:50358
+AACCCGTAAATCCGAACTTG
++
+BBBFFFFFH:<ADHGIJJJJ
+@HWI-ST132:678:C1LFKACXX:6:2107:6396:35457
+AACCCGTAAATCCGAACTTG
++
+:?BDFFFF<><ADFHIJJJJ
+@HWI-ST132:678:C1LFKACXX:6:1106:15354:26782
+AACCCGTAAATCCGAACTTGTG
++
+BB@DFFDFCAADHGIGGHIII?
+@HWI-ST132:678:C1LFKACXX:6:1206:3893:47334
+AACCCGTAAATCCGAACTTGTG
++
+?@@F@D@DDDDFHGIBCCHEAB
+@HWI-ST132:678:C1LFKACXX:6:1212:8247:60863
+AACCCGTAAATCCGAACTTGTG
++
+?@@FFFDDCA?DFIIGEEHIGH
+@HWI-ST132:678:C1LFKACXX:6:2103:20330:81235
+AACCCGTAAATCCGAACTTGTG
++
+=?BDFFFF<<<<D<CEHIJHAF
+@HWI-ST132:678:C1LFKACXX:6:2105:18756:21094
+AACCCGTAAATCCGAACTTGTG
++
+CCCFFFFFHFHHHJJJJJJJII
+@HWI-ST132:678:C1LFKACXX:6:2108:11590:68948
+AACCCGTAAATCCGAACTTGTG
++
+=?@;DDDD@<ACDGFHHEHAEE
+@HWI-ST132:678:C1LFKACXX:6:2109:7213:21129
+AACCCGTAAATCCGAACTTGTG
++
+:B@DFFFF<<<ADBGEFFHIFH
+@HWI-ST132:678:C1LFKACXX:6:1113:9515:60678
+CAAGACCGGCATTATGGGAGTC
++
+?@;DDFFFDFCFHJJGA8CGEH
+@HWI-ST132:678:C1LFKACXX:6:1211:4033:43798
+CAAGACCGGCATTATGGGAGTC
++
+@CCFFFFFHHHHHJGHIJIJFH
+@HWI-ST132:678:C1LFKACXX:6:2102:15781:17798
+CAAGACCGGCATTATGGGAGTC
++
+??@DDDDDFFDFFEH<CED:11
+@HWI-ST132:678:C1LFKACXX:6:2105:13568:17777
+CAAGACCGGCATTATGGGAGTC
++
+@BBFBDDD<CFHHHHAGHIJGH
+@HWI-ST132:678:C1LFKACXX:6:1116:7415:45912
+TCCCTGAGACCCTAACTTGTG
++
+=?1=ABDDHHGHGICFCEIFF
+@HWI-ST132:678:C1LFKACXX:6:1312:17503:22366
+TCCCTGAGACCCTAACTTGTG
++
+@@?DFFFFBHHGHIIIJIGHG
+@HWI-ST132:678:C1LFKACXX:6:1101:13208:32198
+TCCCTGAGACCCTAACTTGTGA
++
+CCCFFFEFFHHHHIJJIIJHHI
+@HWI-ST132:678:C1LFKACXX:6:1102:17974:5349
+TCCCTGAGACCCTAACTTGTGA
++
+CCCFFFDFHGHHHGIJJJJHGI
+@HWI-ST132:678:C1LFKACXX:6:1105:10525:58469
+TCCCTGAGACCCTAACTTGTGA
++
+B@CFFFDDDHFHGHIIIGHHIJ
+@HWI-ST132:678:C1LFKACXX:6:1106:11675:95913
+TCCCTGAGACCCTAACTTGTGA
++
+@@@DDDDDFHHHHAFH?G+AFH
+@HWI-ST132:678:C1LFKACXX:6:1107:11700:11209
+TCCCTGAGACCCTAACTTGTGA
++
+?@@DD;==DHFDCGCFEDHHHE
+@HWI-ST132:678:C1LFKACXX:6:1109:4618:19903
+TCCCTGAGACCCTAACTTGTGA
++
+CCCFFFFFHHHHHCGGHIJEHH
+@HWI-ST132:678:C1LFKACXX:6:1111:16886:54124
+TCCCTGAGACCCTAACTTGTGA
++
+CCCFFFFFHHHHHEHIJJFHIJ
+@HWI-ST132:678:C1LFKACXX:6:1113:14917:12939
+TCCCTGAGACCCTAACTTGTGA
++
+CCCFFFFFHHHHHJJJJJIAGH
+@HWI-ST132:678:C1LFKACXX:6:1113:15286:60745
+TCCCTGAGACCCTAACTTGTGA
++
+@@@FFFDD2ADFFBHCGGAHHI
+@HWI-ST132:678:C1LFKACXX:6:1116:10143:61594
+TCCCTGAGACCCTAACTTGTGA
++
+@B=DDFFFHHHHHIHIJJJHIH
+@HWI-ST132:678:C1LFKACXX:6:1201:12358:31858
+TCCCTGAGACCCTAACTTGTGA
++
+:BBFFF24>ADHHIJJJJHAFH
+@HWI-ST132:678:C1LFKACXX:6:1207:19763:6169
+TCCCTGAGACCCTAACTTGTGA
++
+CCCFFFFFHHHHHGIJIJEHHI
+@HWI-ST132:678:C1LFKACXX:6:1208:17227:84730
+TCCCTGAGACCCTAACTTGTGA
++
+CCCFFFFFHHHGHGHIJIH<CH
+@HWI-ST132:678:C1LFKACXX:6:1209:14006:3385
+TCCCTGAGACCCTAACTTGTGA
++
+CCCFFFFFFHHHHEHGHHIFGF
+@HWI-ST132:678:C1LFKACXX:6:1212:19731:4329
+TCCCTGAGACCCTAACTTGTGA
++
+CCCFFFFFHHHHHJIHIIJHHI
+@HWI-ST132:678:C1LFKACXX:6:1212:8981:55837
+TCCCTGAGACCCTAACTTGTGA
++
+@@@D?EFDFFHHHJJIBEGAFC
+@HWI-ST132:678:C1LFKACXX:6:1214:16337:65541
+TCCCTGAGACCCTAACTTGTGA
++
+BC?DDFFFGHHHFIIJJIIFGG
+@HWI-ST132:678:C1LFKACXX:6:1214:9263:76030
+TCCCTGAGACCCTAACTTGTGA
++
+@@@FFFFFHFHDHEEHIIHAFH
+@HWI-ST132:678:C1LFKACXX:6:1215:7321:50488
+TCCCTGAGACCCTAACTTGTGA
++
+@C@DDFDDFFHBDHIIBE@FEH
+@HWI-ST132:678:C1LFKACXX:6:1302:17139:90749
+TCCCTGAGACCCTAACTTGTGA
++
+CCCFFFFFHHHGHGIJHIIHHI
+@HWI-ST132:678:C1LFKACXX:6:1302:8853:99407
+TCCCTGAGACCCTAACTTGTGA
++
+B@BFFFFFHFHHHBFHHIHAFH
+@HWI-ST132:678:C1LFKACXX:6:1304:2649:24602
+TCCCTGAGACCCTAACTTGTGA
++
+CCCFFFFDHHHHHGHIJJJFGI
+@HWI-ST132:678:C1LFKACXX:6:1304:17263:52290
+TCCCTGAGACCCTAACTTGTGA
++
+@CCFFFFFDHHHH@GIIIIHHI
+@HWI-ST132:678:C1LFKACXX:6:1312:12615:9458
+TCCCTGAGACCCTAACTTGTGA
++
+CCCFFFFFGHHHH@FIJIF<CH
+@HWI-ST132:678:C1LFKACXX:6:1314:17779:75206
+TCCCTGAGACCCTAACTTGTGA
++
+CCCFFFFFGHHHHEHJJJJFHJ
+@HWI-ST132:678:C1LFKACXX:6:1315:9929:42151
+TCCCTGAGACCCTAACTTGTGA
++
+@@@DDF?D8FHHHGHHIIJEGI
+@HWI-ST132:678:C1LFKACXX:6:2103:13958:97727
+TCCCTGAGACCCTAACTTGTGA
++
+@CCFFFFF<FHHHIIJJJJHHJ
+@HWI-ST132:678:C1LFKACXX:6:2104:10613:2992
+TCCCTGAGACCCTAACTTGTGA
++
+CCCFFFFFHHHHHJJJJJJFHI
+@HWI-ST132:678:C1LFKACXX:6:2106:15153:40613
+TCCCTGAGACCCTAACTTGTGA
++
+CCCFFFFFHHHHHJJIIIICGI
+@HWI-ST132:678:C1LFKACXX:6:2106:15768:75632
+TCCCTGAGACCCTAACTTGTGA
++
+CCCFFFFFFHHHHJJJJJ4CFH
+@HWI-ST132:678:C1LFKACXX:6:2109:16865:57940
+TCCCTGAGACCCTAACTTGTGA
++
+CCCFFFFFHHHHHIIIJJ<FHH
+@HWI-ST132:678:C1LFKACXX:6:2109:18750:76156
+TCCCTGAGACCCTAACTTGTGA
++
+@@@DFFFDFFHHH>GHJHCHHG
+@HWI-ST132:678:C1LFKACXX:6:1204:12959:93444
+TCCCTGAGACCCTAACTTGTGACT
++
+CCCFFFFFGHHHHJJJJI:AFHIJ
+@HWI-ST132:678:C1LFKACXX:6:1113:14924:44339
+CCCTGAGACCCTAACTTGTGAC
++
+??@DD;B?DDFHBED?CHGHII
+@HWI-ST132:678:C1LFKACXX:6:1107:1375:15117
+TCACAAGTTTTGATCTCCGGTAT
++
+=??D:2A2=?DDCEHBHIJICCG
+@HWI-ST132:678:C1LFKACXX:6:2105:17358:56431
+CACAAGTTTTGATCTCCGGTAT
++
+@@@DADDDHH>FHGIGEB@<@F
+@HWI-ST132:678:C1LFKACXX:6:1102:6534:83469
+ACAAGTTTTGATCTCCGGTAT
++
+@@CDDDDFHHHHHJJIJJHGI
+@HWI-ST132:678:C1LFKACXX:6:1212:17825:83469
+ACAAGTTTTGATCTCCGGTAT
++
+@@@FFFFFHHDFHIJJJIFDH
+@HWI-ST132:678:C1LFKACXX:6:1304:1702:48389
+ACAAGTTTTGATCTCCGGTAT
++
+@@@B?=DDHDGFFIIIGGF>E