--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/rnaseq/cutadapt/test-data/perm_out1.sam	Sat Feb 21 16:33:42 2015 +0100
@@ -0,0 +1,33 @@
+HWI-EAS91_1_30788AAXX:1:1:1761:343/1	65	phiX174	5	255	50M	=	69	64	TTTATCGCTTCCATGACGCAGAAGTTAACACTTTCGGATATTTCTGATGA	IIIIIII""IIIIIIIIIII?I0IIIIHIIIGIIIII0II?I""IIIIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1761:343/1	129	phiX174	69	255	50M	=	5	64	TTGATAAAGCAGGAATTACTACTGCTTGTTTACGAATTAAATCGAAGTGG	IIIIIII""IIIIIII0II?I""IIIIIIIIIIII?I0IIIIHIIIGIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1578:331/1	65	phiX174	209	255	50M	=	268	59	TGTCAAAAACTGACGCGTTGGATGAGGAGAAGTGGCTTAATATGCTTGGC	IIIIIII""IIIIIIIIIIIIIIIIIIIIIIIIII"IIIIIII000IIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1578:331/1	129	phiX174	268	255	50M	=	209	59	AAGGACTGGTTTAGATATGAGTCACATTTTGTTCATGGTAGAGATTCTCT	IIIIIII""IIIIIIIIIIIIIIIIIIIIIIIIII?I0IIIIHIIIGIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1647:512/1	65	phiX174	401	255	50M	=	451	50	TACTGAACAATCCGTACGTTTCCAGACCGCTTTGGCCTCTATTAAGCTCA	IIIIIII""IIIIIIIIIIIIIIIIIIIIIIIIII"IIIIIII000IIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1647:512/1	129	phiX174	451	255	50M	=	401	50	TTCAGGCTTCTGCCGTTTTGGATTTAACCGAAGATGATTTCGATTTTCTG	IIIIIII""IIIIIIIIIIIIIIIIIIIIIIIIII?I0IIIIHIIIGIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1570:620/2	0	phiX174	559	255	50M	*	0	0	CTTGCGTTTATGGTACGCTGGACTTTGTGGGATACCCTCGCTTTCCTGCT	IIIIIII""IIIIIIIIIIIIIBIIIIIIIIIIII?I0IIIIHIIIGIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1599:330/1	65	phiX174	803	255	50M	=	868	65	AGAAGAAAACGTGCGTCAAAAATTACGTGCAGAAGGAGTGATGTAATGTC	IIIIIII""IIIIIIIIIIIIIIIIIII<III@II"IIIIIII000IIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1599:330/1	129	phiX174	868	255	50M	=	803	65	TTCTGGCGCTCGCCCTGGTCGTCCGCAGCCGTTGCGAGGTACTAAAGGCA	IIIIIII""IIIIIIIIIIIIIIIIIII<III@II?I0IIIIHIIIGIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1652:270/2	0	phiX174	973	255	50M	*	0	0	GCTTCGGCCCCTTACTTGAGGATAAATTATGTCTAATATTCAAACTGGCG	IIIIIII""IIIIIIIIIIIIIIIIIIIIIII6II?I0IIIIHIIIGIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1746:351/1	0	phiX174	1218	255	50M	*	0	0	CTCATCGTCACGTTTATGGTGAACAGTGGATTAAGTTCATGAAGGATGGT	IIIIIII""IIIIIIIIIIIIIIIIIIIIIIIIII"IIIIIII000IIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1582:633/1	0	phiX174	1517	255	50M	*	0	0	CCGCTTCCTCCTGAGACTGAGCTTTCTCGCCAAATGACGACTTCTACCAC	IIIIIII""IIIIIIIIIIIIIIIIIIIIIIIIII"IIIIIII000IIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1598:534/1	65	phiX174	1717	255	50M	=	1772	55	GCGCTCTAATCTCTGGGCATCTGGCTATGATGTTGATGGAACTGACCAAA	IIIIIII""IIIIIIIIIIIIIIIIIIIIIIIIII"IIIIIII000IIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1598:534/1	129	phiX174	1772	255	50M	=	1717	55	TTAGGCCAGTTTTCTGGTCGTGTTCAACAGACCTATAAACATTCTGTGCC	IIIIIII""IIIIIIIIIIIIIIIIIIIIIIIIII?I0IIIIHIIIGIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1572:324/2	0	phiX174	1972	255	50M	*	0	0	GCCGCCGCGTGAAATTTCTATGAAGGATGTTTTCCGTTCTGGTGATTCGT	IIIIIII""IIIIIIIIIIIIIIIIIIII+7I05I?I0IIIIHIIIGIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1749:466/1	65	phiX174	2201	255	50M	=	2251	50	TTGCAGTGGAATAGTCAGGTTAAATTTAATGTGACCGTTTATCGCAATCT	IIIIIII""IIIIIIIIIIIIIIIIIIIIIIIIII"IIIIIII000IIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1749:466/1	129	phiX174	2251	255	50M	=	2201	50	GCCGACCACTCGCGATTCAATCATGACTTCGTGATAAAAGATTGAGTGTG	IIIIIII""IIIIIIIIIIIIIIIIIIIIIIIIII?I0IIIIHIIIGIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1629:446/1	65	phiX174	2301	255	50M	=	2355	54	AGGTTATAACGCCGAAGCGGTAAAAATTTTAATTTTTGCCGCTGAGGGGT	IIIIIII""IIIIIIIIIIIIIIIIIIIIIIIIII"IIIIIII000IIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1629:446/1	129	phiX174	2355	255	50M	=	2301	54	CAAGCGAAGCGCGGTAGGTTTTCTGCTTAGGAGTTTAATCATGTTTCAGA	IIIIIII""IIIIIIIIIIIIIIIIIIIIIIIIII?I0IIIIHIIIGIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1763:587/1	65	phiX174	2501	255	50M	=	2566	65	AAGCTACATCGTCAACGTTATATTTTGATAGTTTGACGGTTAATGCTGGT	IIIIIII""IIIIIIIIIIIIIIIIIIIIIIIIII"IIIIIII000IIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1763:587/1	129	phiX174	2566	255	50M	=	2501	65	CATTGCATTCAGATGGATACATCTGTCAACGCCGCTAATCAGGTTGTTTC	IIIIIII""IIIIIIIIIIIIIIIIIIIIIIIIII?I0IIIIHIIIGIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1616:363/1	65	phiX174	2718	255	50M	=	2773	55	TGTTTATCCTTTGAATGGTCGCCATGATGGTGGTTATTATACCGTCAAGG	IIIIIII""IIIIIIIIIIIIIIIIIIIIIIDIII"IIIIIII000IIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1616:363/1	129	phiX174	2773	255	50M	=	2718	55	GTGACTATTGACGTCCTTCCCCGTACGCCGGGCAATAATGTTTATGTTGG	IIIIIII""IIIIIIIIIIIIIIIIIIIIIIDIII?I0IIIIHIIIGIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1768:715/1	65	phiX174	3118	255	50M	=	3173	55	ACCCTGATGAGGCCGCCCCTAGTTTTGTTTCTGGTGCTATGGCTAAAGCT	IIIIIII""IIIIIIIIIIIIIDIIIIIIIIIIII"IIIIIII000IIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1768:715/1	129	phiX174	3173	255	50M	=	3118	55	AGGACTTCTTGAAGGTACGTTGCAGGCTGGCACTTCTGCCGTTTCTGATA	IIIIIII""IIIIIIIIIIIIIDIIIIIIIIIIII?I0IIIIHIIIGIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1572:270/1	65	phiX174	3518	255	50M	=	3577	59	TGAGATGCTTGCTTATCAACAGAAGGAGTCTACTGCTCGCGTTGCGTCTA	IIIIIII""IIIIIIIIIIIIIIIIIIIIIIIIII"IIIIIII000IIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1572:270/1	129	phiX174	3577	255	50M	=	3518	59	ACACCAATCTTTCCAAGCAACAGCAGGTTTCCGAGATTATGCGCCAAATG	IIIIIII""IIIIIIIIIIIIIIIIIIIIIIIIII?I0IIIIHIIIGIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1785:1272/1	65	phiX174	3818	255	50M	=	3873	55	TATTTTTCATGGTATTGATAAAGCTGTTGCCGATACTTGGAACAATTTCT	III""""""IIIIIIIII""FI"IIII""II+ICI"IIIIIII000IIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1785:1272/1	129	phiX174	3873	255	50M	=	3818	55	GACGGTAAAGCTGATGGTATTGGCTCTAATTTGTCTAGGAAATAACCGTC	III""""""IIIIIIIII""FI"IIII""II+ICI?I0IIIIHIIIGIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1673:514/1	65	phiX174	4018	255	50M	=	4072	54	ATTATTTTGACTTTGAGCGTATCGAGGCTCTTAAACCTGCTATTGAGGCT	IIIIIII""IIIIIIIIIIIIIIIIIIIIIIIII1"IIIIIII000IIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1673:514/1	129	phiX174	4072	255	50M	=	4018	54	GCATTTCTACTCTTTCTCAATCCCCAATGCTTGGCTTCCATAAGCAGATG	IIIIIII""IIIIIIIIIIIIIIIIIIIIIIIII1?I0IIIIHIIIGIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1634:330/1	65	phiX174	4418	255	50M	=	4473	55	GGATATTCGCGATGAGTATAATTACCCCAAAAAGAAAGGTATTAAGGATG	IIIIIII""IIIIIIIIIIIIIIIIIIIIIII8II"IIIIIII000IIII	NM:i:0
+HWI-EAS91_1_30788AAXX:1:1:1634:330/1	129	phiX174	4473	255	50M	=	4418	55	TCAAGATTGCTGGAGGCCTCCACTATGAAATCGCGTAGAGGCTTTACTAT	IIIIIII""IIIIIIIIIIIIIIIIIIIIIII8II?I0IIIIHIIIGIII	NM:i:0