Mercurial > repos > jjohnson > scythe

diff test-data/trimmed_sequences.fastq @ 1:b0276d1141fe default tip

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Fix test case
author Jim Johnson <jj@umn.edu>
date Thu, 30 Jan 2014 13:10:12 -0600
parents 08439b004404
children
line wrap: on
line diff
--- a/test-data/trimmed_sequences.fastq	Mon Jan 13 14:57:53 2014 -0500
+++ b/test-data/trimmed_sequences.fastq	Thu Jan 30 13:10:12 2014 -0600
@@ -1,15 +1,15 @@
 @SOLEXA2_0414:3:1:11146:1065#0/1 
-NTGCGATCAAGGGATAAGGGTGGGACACTGCGGGAGATTCAGAGTAACAGTTNTAAGGTCTGGTTTGTCCGGACACTGCGGNAGA
+N
 +
-BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
+B
 @SOLEXA2_0414:3:1:12658:1069#0/1 
-NCTACATACAGTTGTAAGGTCTGGTTTGTCCTAGGCAGAGGACACTGCGGGAGATTCAGAGTATGTAGC
+NCTACATACAGTTGTAAGGTCTGGTTTGTCCTAGGCAGAGGACACTGCGGGAGATTCAGAGTATGTAGCA
 +
-BOIOKPTTTT_________________________________________________TYYYYY____
+BOIOKPTTTT_________________________________________________TYYYYY_____
 @SOLEXA2_0414:3:1:17191:1069#0/1 
-NAGCAATCTATAGTTTGTGTATTGCCAAGTCTGTTGTGAGCCCTTCCACAAGTTTTGTTTAGAGGAGAACGAGCGCCCTCTNGAT
+NAGCAATCTATAGTTTGTGTATTGCCAAGTCTGTTGTGAGCCCTTC
 +
-BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
+BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
 @SOLEXA2_0414:3:1:6993:1073#0/1 
 NTGGATCTCCCGCAGTGTCCTAAATGGACAAACCAGACCTTACAACTGTTACTCTGAATCTCCCGCAGTGTCCTCTGCCTAGGAC
 +
@@ -23,9 +23,9 @@
 +
 BEKEEJOHHHTTVVV_____[[Y[[WWVXXXVXXWRRPTTWXXXWWQQWXWWWTWKKLLLLLLHRVTVVNTTVVT_____YWYYY
 @SOLEXA2_0414:3:1:12624:1071#0/1 
-NTGCGATAGTGTCCTGTGTGCCCCTGCACATGCCTGTGGCTTCCCGGGCTTCTGACCACATCCCCACCATCTTTGTGCCTCCGGA
+NTGCGATAGTGTCCTGTGTGCCCCTGCACATGCCTGTGGCTTCCCGGGCTTCTGACCACATCCCCACCATCTTTGTGC
 +
-BQLLMTTTTT__________YYYYY________b___________BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
+BQLLMTTTTT__________YYYYY________b___________BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
 @SOLEXA2_0414:3:1:13769:1080#0/1 
 NAGCAATCTAAAACCCAAAGTATATAAGAAGGGTATGGTTGATTATGTTTTTCTACATATTATTTGACATACTTCTATCTTCCCA
 +
@@ -39,21 +39,21 @@
 +
 BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
 @SOLEXA2_0414:3:1:16010:1079#0/1 
-NAGCAATTACTCTGAATCTCCCGCAGTGTCCTCTGCCTAGGACAAACCAGACCTTACAACTGTTACTCTGAATCTCCCGCAGTGT
+NAGCAATTACTCTGAATCTCCCGCAGTGTCCTCTGCCTAGGACAAACCAGACCTTACAACTGTTACTCTGAATCTCCCG
 +
-BKJQQVWVVV_______________WYYYY_______________V____Y[[[[_________________________BBBBB
+BKJQQVWVVV_______________WYYYY_______________V____Y[[[[________________________
 @SOLEXA2_0414:3:1:17165:1075#0/1 
-NTGCGATCTAGGACACTGCGGGAGATTCAGAGTACAGTTGTAAGGTCTGGTTTGTCCTGGACACTGCGGGAGATTCAGAGTAACA
+N
 +
-BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
+B
 @SOLEXA2_0414:3:1:19504:1081#0/1 
 NAGCAATACTTCTATCTTCCCATGTTCTTACTATAGTTTGTGTATTGCCAAGTCTGTTGTGAGCCACATAATAAGGTGTCAAAAT
 +
 BJJOJRRQQRYYYYY__b_______[[[[PWWTWWYYYYY[Y[[[YYYYUTTWVVY[YY[_______________VTTTVTVVTV
 @SOLEXA2_0414:3:1:19703:1080#0/1 
-NAGCAATATTGAATTAAATATATGCCAGTGGACTACTAAAACCCAAAGTATATAAGAAGGGTATGGTTGATTATGTTTTTCTACA
+NAGCAATATTGAATTAAATATATGCCAGTGGACTACTAAAACCCAAAGTATATAA
 +
-BIKOIVWVVVY[Y[YVVTVTYYYYY_W___BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
+BIKOIVWVVVY[Y[YVVTVTYYYYY_W___BBBBBBBBBBBBBBBBBBBBBBBBB
 @SOLEXA2_0414:3:1:6962:1084#0/1 
 NTGCGATCTGAATCTCCCGCAGTGTCCGGGTGGGGTCAGAAAAATGGGCAGCTCAACTGCAGGTACACGTAGTGCGACCAGTGCC
 +
@@ -79,45 +79,45 @@
 +
 BHMOGRTTTTY[[[Y__________TVVVTYVYYY____WYYYYRPRWRR[[Y[[_____WWWTWWTWWWYYYYY[R[[YYYYYY
 @SOLEXA2_0414:3:1:18860:1082#0/1 
-NAGCAATACAGTTGTAAGGTCTGGTTTGTCCTCACTCAAATGTCATCTCGAATTGTAGTTCTCATAATGGCCGCATGTTGTGGGA
+NAGCAATACAGTTGTAAGGTCTGGTTTGTCCTCACTCAAATGTCATCTCGAATTGTAGTTCTCATAAT
 +
-BHOKHSWTTT____________________BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
+BHOKHSWTTT____________________BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
 @SOLEXA2_0414:3:1:18912:1089#0/1 
-NTGCGATCATCTGAGGAGGACACTGCGGGAGATTCAGAGTAACAGTTGTAAGGTCTGGTTTGTCCTGGACACTGCGGGAGATTCA
+N
 +
-BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
+B
 @SOLEXA2_0414:3:1:3923:1105#0/1 
-NAGCAATAGTCCAGGGATACAGAACCCACTGATACAGAGGCCCAGCTGTAGTTCTATTATTGCTC
+NAGCAATAGTCCAGGGATACAGAACCCACTGATACAGAGGCCCAGCTGTAGTTCTATTATTGCTCAGATCGGAAGAGCGGTTCAG
 +
-BNNNQVWVVV__bbb__b_bb____b________b__Z_______[[[[YYYYYY_____b___b
+BNNNQVWVVV__bbb__b_bb____b________b__Z_______[[[[YYYYYY_____b___bb____YWWYYVVTVVYYYYY
 @SOLEXA2_0414:3:1:6494:1099#0/1 
-NTGCGATTGGTTTGTCCTAGGCAGAGGACACTGCGGGAGATTCAGAGTACAGTTGTAAGGTCTGGTTTGTCCTAGGCAGAATCGC
+N
 +
-BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
+B
 @SOLEXA2_0414:3:1:8413:1097#0/1 
 NTGCGATCCATACCCTTCTTATATACTTTGGGTTTTAGTAGTCCACTGGCATATATTTAATTCAATACATACTCATTAAGCAATG
 +
 BGIGEMQLNQ_______________VXXXX_____WWXXX[YY[[_____WYRYY___________V___YLYYYYYYPY_____
 @SOLEXA2_0414:3:1:9865:1095#0/1 
-NCTACATTAATTGTTTTAATTTTTATTTATTTATTTTTTTGAGACGGAGTCTCGCTGATGTAGC
+NCTACATTAATTGTTTTAATTTTTATTTATTTATTTTTTTGAGACGGAGTCTCGCTGATGTAGCAGATCGGAAGAGCGGTTCAGC
 +
-BKKJKRTTST_____QQQ_b[[[[[QQQQ_QQQbQQQQQQQ_________bb____________
+BKKJKRTTST_____QQQ_b[[[[[QQQQ_QQQbQQQQQQQ_________bb__________________[[[[Y__________
 @SOLEXA2_0414:3:1:10606:1102#0/1 
 NTGCGATATTTGGAACTTCATGTGTCTTTTGTATTGCTTGATAGCAGCATAGAATATGTGAGGTATTTTTGGCTACTTTGTGAAT
 +
 BMMMMTUTTRTTVWV_____b___b__b_QQQQ__[Y[[YYYYYY_______________[[[[[YYYQQQ____BBBBBBBBBB
 @SOLEXA2_0414:3:1:11267:1102#0/1 
-NCTACATTACTCTGAATCTCCCGCAGTGTCCGAGATCGCACCACTGCACCCCAGCCTGGGCGACATGTAGC
+NCTACATTACTCTGAATCTCCCGCAGTGTCCGAGATCGCACCACTGCACCCCAGCCTGGGCGACATGTAGCA
 +
-BEGGEJLHIK______________RTWWWWY[Y[[________________QM__YYYYYXWJVX_____B
+BEGGEJLHIK______________RTWWWWY[Y[[________________QM__YYYYYXWJVX_____BB
 @SOLEXA2_0414:3:1:13556:1104#0/1 
-NTGCGATTTACAACCGTTACTCTGAATCTCCCGCAGTGTCCAGGACAAACCAGACCTTACAACTGTATCGCAA
+NTGCGATTTACAACCGTTACTCTGAATCTCCCGCAGTGTCCAGGACAAAC
 +
-BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
+BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
 @SOLEXA2_0414:3:1:13625:1097#0/1 
-NTGCGATCTTACAACTGTTACTCTGAATCTCCCGCAGTGTCCAGGACAAACCAGACCTTACAACTGTATCGCAA
+NTGCGATCTTACAACTGTTACTCTGAATCTCCCGCAGTGTCCAGGACAAACCAGACCTTACAACTGTATCGCAAA
 +
-BJKJJTUUST___b_b_____b______________________________bW_bb__bb____[[Y[YYYYY
+BJKJJTUUST___b_b_____b______________________________bW_bb__bb____[[Y[YYYYYY
 @SOLEXA2_0414:3:1:14055:1098#0/1 
 NAGCAATCTCTGAATCTCCCGCAGTGTCCAGGACAAACCAGACCTTACAACTGTTACTCTGAATCTCCCGCAGTGTCCAGGACAA
 +
@@ -155,9 +155,9 @@
 +
 BIKOOPTTTT_____QQQQ_YYYYYYYYYY_____YYYYY___________________________________YQYYY___Y_
 @SOLEXA2_0414:3:1:7605:1117#0/1 
-NAGCAATCCTTTAGTTCTAGTGTCTAGGGATATGCAAAGTCAGAAAAAACCAGTCACCACCCAAAAGAAAATAGTGCAGACAAGG
+NAGCAATCCTTTAGTTCTAGTGTCTAGGGATATGCAAAGTCAGAAAAAAC
 +
-BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
+BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
 @SOLEXA2_0414:3:1:13482:1108#0/1 
 NCTACATCTGAATCTCCCGCAGTGTCCGAGATCGCACCACTGCACCCCAGCCTGGGCGACAGCGAGACTCCGTCTCAAAAAAATA
 +
@@ -171,9 +171,9 @@
 +
 BJJOHRTRTT[QQQ[___b____b______[V[[[bbbbb_b___b_b_____________________________________
 @SOLEXA2_0414:3:1:17840:1114#0/1 
-NAGCAATCTCTAGATTACTTATCATACCTAATACAATGTAAATAGTTGTTATACTGTATTGTTTAGGAAATAATGACAAGAAAAA
+NAGCAATCTCTAGATTACTTATCATACCTAATACAATGTAAATAGTTGTTATACTGTATTGTTTAGGAAATAAT
 +
-BOIIIVWWVV_____Y[[[[[[[W[TWTWRYYYYYY[YYY____R_____BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
+BOIIIVWWVV_____Y[[[[[[[W[TWTWRYYYYYY[YYY____R_____BBBBBBBBBBBBBBBBBBBBBBBB
 @SOLEXA2_0414:3:1:18083:1109#0/1 
 NAGCAATTACTCTGAATCTCCCGCAGTGTCCAATACTGTACTTTTTTACATAGTCATTGCTTAATGAATATGTATTGAATTAAAT
 +
@@ -183,18 +183,18 @@
 +
 BIIKHQTTSS[[[Y[_____YYYYYTWVVV_____b___^_________________________YYYYY_____BBBBBBBBBB
 @SOLEXA2_0414:3:1:4029:1119#0/1 
-NAGCAATGGGAGAGTGTTGTTTTTGTCACTTGCCCCAGCAGAGCAGGGGTTTTGGAAGGAGAGGTCTTTAATAGCTTTGAAAATT
+N
 +
-BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
+B
 @SOLEXA2_0414:3:1:10939:1119#0/1 
-NCTACATACAGTTGTAAGGTCTGGTTTGTCCTGGACACTGCGGGAGATTATGTAGC
+NCTACATACAGTTGTAAGGTCTGGTTTGTCCTGGACACTGCGGGAGATTATGTAGCA
 +
-BQKQLVWVWV_____[Y[[[__________BBBBBBBBBBBBBBBBBBBBBBBBBB
+BQKQLVWVWV_____[Y[[[__________BBBBBBBBBBBBBBBBBBBBBBBBBBB
 @SOLEXA2_0414:3:1:11098:1122#0/1 
 NAGCAATGTTGAGTCCAGGGATACAGAACCCACTGATACAGAGGCCCAGCTGTAGTTCTATTACCAAGTTTTGTACCTTTGTAGC
 +
 BEMGGQQORMVVVVTWWWWWOVTVVWRWWW_______________[[T[YTVTTV_____BBBBBBBBBBBBBBBBBBBBBBBBB
 @SOLEXA2_0414:3:1:12110:1126#0/1 
-NTGCGATTGTAAGGTCTGGTTTGTCCTGGACACTGCGGGAGATTCAGATCGCAA
+NTGCGATTGTAAGGTCTGGTTTGTCCTGGACACTGCGGGAGATTCAGATCGCAAAGATCGGAAGAGCGGTTCAGCAGGAATGCCG
 +
-BIIIHQRRRQ[[[[[b__bb_b___YYYYY_____UWWWT[T[[Y__bb_____
+BIIIHQRRRQ[[[[[b__bb_b___YYYYY_____UWWWT[T[[Y__bb_________Y______YYYYYQWWWW___S_BBBBB