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Old 01-18-2016, 09:07 AM   #55
rc630
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Location: USA

Join Date: Jan 2016
Posts: 5
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Quote:
Originally Posted by Brian Bushnell View Post
Sounds like the files are probably misformatted. Can you run "head 1_S1_L001_R1_001.fastq" and "head 1_S1_L001_R2_001.fastq" and post the output here?
Code:
head 1_S1_L001_R1_001.fastq
@M01936:151:000000000-AL2M3:1:1101:16824:1851 1:N:0:1
TCGATCGCTTGGTCATTTAGAGGAAGTAAAAGTCGTAACAAGGTTTCCGTAGGTGAACCTGCGGAAGGATCACTAGAGATATCGCCCTTCGGGGCTCTCATCCCTTCTATCACACCCCTGTGCACTTTGGCCACCGCTTCATTGCGGTGTGTCTT
+
BCCACFCCFCCCGGGGGGGGGGGHGHHHGHGHHHGGGAE53CGHHHHFGHGGGHHHGHHHHHGGGGGGHHHHHFB3335FHHHGGGAEHFA11E/EGHHHHHHGHGFHHHHFHHFDEDFAFGHHHHHHFEGCFFCFGGGGHHHGFFGDDDDHHHH
@M01936:151:000000000-AL2M3:1:1101:18467:1911 1:N:0:1
TCGATCGCTTGGTCATTTAGAGGAAGTAAAAGTCGTAACAAGGTTTCCGTAGGTGAACCTGCGGAAGGATCACTAGAGATATCGCCCTTCGGGGCTCTCATCCCTTCTATCACACCCCTGTGCACTTTGGCCACCGCTTCATTGCGGTGTGTCTT
+
BCCDCFCCFDCDGGGGGGGGGGHHHHHHHHHHHHGGHHGHGHHHHHHHGHHGGHHHHHHHHHGFGGGGHHHHFHHHE35GHHHFGGGGHHEE1E/EHHHHHHFHHGHHHHHHHHHGGCGEGHHHHHHHHGHHHGHGGGGGHHHGHGGGGGGHHHH
@M01936:151:000000000-AL2M3:1:1101:14252:2010 1:N:0:1
TCGATCGCTTGGTCATTTAGAGGAAGTAAAAGTCGTAACAAGGTTTCCGTAGGTGAACCTGCGGAAGGATCACTAGAGATATCGCCCTTCGGGGCTCTCATCCCTTCTATCACACCCCTGTGCACTTTGGCCACCGCTTCATTGCGGTGTGTCTT
Code:
1_S1_L001_R2_001.fastq 
@M01936:151:000000000-AL2M3:1:1101:16824:1851 2:N:0:1
CGGACTTGATGTACGAGCTGCGTTCTTCATCGATGCGAGAACCTAGAGATCCGTTGTTGAAAGTTATTTTAGTTTATAAGTTTTTACATTCAATGACTTGTGTTTATAGGTATGGTATAGTAAAAAGACACACCGCAATGAAGCGGTGGCCAAAG
+
33>>ABFFFFFFGGGGGGGGGFGGGGHGGHGFBGHGGCGFGB2B3333DFFEGFH1AFF555BFHHHHHG53@BF5FGGHHHHHEHDGHHHHBHHFHGGHHFHHHBFHFFHHHHFGFHEGF?GFFGEFHGFFFECCEGDFFGHGG?FCDCFG/FG
@M01936:151:000000000-AL2M3:1:1101:18467:1911 2:N:0:1
CGGACTCGATGTACGAGCTGCGTTCTTCATCGATGCGAGAACCTAGAGATCCGTTGTTGAAAGTTATTTTAGTTTATAAGTTTTTACATTCAATGACTTGTGTTTATAGGTATGGTATAGTAAAAAGACACACCGCAATGAAGCGGTGGCCAAAG
+
3>>AABFCBFFFGGGGGGGGGGGGGGHHHHGHHHHGGGGGGGFHGH335GHHHFHCGHGHG5B5DHHHHHHFHFHGGHGHFHHHGHHHFFHHFHHHHHHHHFHHHHHHHGFGHHHHHHHHBGFHHGEGHHHHGFG?DGCHHHEHGCGGGFHHAGB
@M01936:151:000000000-AL2M3:1:1101:14252:2010 2:N:0:1
CGGACTTGATGTACGAGCTGCGTTCTTCATCGATGCGAGAACCTAGAGATCCGTTGTTGAAAGTTATTTTAGTTTATAAGTTTTTACATTCAATGACTTGTGTTTATAGGTATGGTATAGTAAAAAGACACACCGCAATGAAGCGGTGGCCAAAG

Last edited by Brian Bushnell; 01-18-2016 at 09:47 AM. Reason: Formatting
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