Starting /dee2/code/volunteer_pipeline.sh SRR23332742
    current disk space = 1458891928
    free memory = 58063076 
SRR23332742 SRAfilesize
c27795cac6ba3b486db5d3ac4e80a3f2  SRR23332742.sra
SRR23332742.sra file validated
SRR23332742 is paired end
SRR23332742 is conventional basespace
SRR23332742 read1 length is 41 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR23332742_1.fastq
File type	Conventional base calls
Encoding	Sanger / Illumina 1.9
Total Sequences	4000
Sequences flagged as poor quality	0
Sequence length	41
%GC	53
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	36.478	37.0	37.0	37.0	37.0	37.0
2	36.6	37.0	37.0	37.0	37.0	37.0
3	36.3525	37.0	37.0	37.0	37.0	37.0
4	36.3875	37.0	37.0	37.0	37.0	37.0
5	36.426	37.0	37.0	37.0	37.0	37.0
6	36.385	37.0	37.0	37.0	37.0	37.0
7	36.331	37.0	37.0	37.0	37.0	37.0
8	36.386	37.0	37.0	37.0	37.0	37.0
9	36.5455	37.0	37.0	37.0	37.0	37.0
10	36.458	37.0	37.0	37.0	37.0	37.0
11	36.463	37.0	37.0	37.0	37.0	37.0
12	36.4755	37.0	37.0	37.0	37.0	37.0
13	36.4975	37.0	37.0	37.0	37.0	37.0
14	36.4945	37.0	37.0	37.0	37.0	37.0
15	36.425	37.0	37.0	37.0	37.0	37.0
16	36.5235	37.0	37.0	37.0	37.0	37.0
17	36.351	37.0	37.0	37.0	37.0	37.0
18	36.3475	37.0	37.0	37.0	37.0	37.0
19	36.361	37.0	37.0	37.0	37.0	37.0
20	36.33	37.0	37.0	37.0	37.0	37.0
21	36.451	37.0	37.0	37.0	37.0	37.0
22	36.2685	37.0	37.0	37.0	37.0	37.0
23	36.3415	37.0	37.0	37.0	37.0	37.0
24	36.382	37.0	37.0	37.0	37.0	37.0
25	36.449	37.0	37.0	37.0	37.0	37.0
26	36.3655	37.0	37.0	37.0	37.0	37.0
27	36.4005	37.0	37.0	37.0	37.0	37.0
28	36.4065	37.0	37.0	37.0	37.0	37.0
29	36.338	37.0	37.0	37.0	37.0	37.0
30	36.298	37.0	37.0	37.0	37.0	37.0
31	36.424	37.0	37.0	37.0	37.0	37.0
32	36.458	37.0	37.0	37.0	37.0	37.0
33	36.436	37.0	37.0	37.0	37.0	37.0
34	36.3125	37.0	37.0	37.0	37.0	37.0
35	36.298	37.0	37.0	37.0	37.0	37.0
36	36.1595	37.0	37.0	37.0	37.0	37.0
37	36.317	37.0	37.0	37.0	37.0	37.0
38	36.2545	37.0	37.0	37.0	37.0	37.0
39	36.111	37.0	37.0	37.0	37.0	37.0
40	36.2655	37.0	37.0	37.0	37.0	37.0
41	36.168	37.0	37.0	37.0	37.0	37.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
23	1.0
24	1.0
25	0.0
26	3.0
27	4.0
28	12.0
29	20.0
30	23.0
31	32.0
32	56.0
33	99.0
34	126.0
35	251.0
36	1182.0
37	2190.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	23.849999999999998	22.725	43.9	9.525
2	30.4	21.275	28.449999999999996	19.875
3	34.0	23.3	24.625	18.075
4	21.65	22.675	35.55	20.125
5	34.325	24.8	20.25	20.625
6	34.25	24.95	19.7	21.099999999999998
7	22.375	35.199999999999996	19.375	23.05
8	38.65	19.55	18.95	22.85
9	25.924999999999997	15.4	19.675	39.0
10	25.650000000000002	16.3	32.45	25.6
11	38.525	16.375	17.599999999999998	27.500000000000004
12	38.2	17.849999999999998	18.7	25.25
13	25.525	18.675	17.75	38.05
14	38.425	19.2	19.8	22.575
15	38.25	20.674999999999997	18.925	22.15
16	40.375	22.675	19.925	17.025000000000002
17	24.425	34.675	22.725	18.175
18	37.225	22.975	22.05	17.75
19	24.8	20.525	35.625	19.05
20	24.125	21.025	33.900000000000006	20.95
21	39.0	22.95	17.75	20.3
22	24.4	34.375	18.775	22.45
23	22.975	33.324999999999996	19.7	24.0
24	23.825	21.125	18.725	36.325
25	26.974999999999998	18.025	19.775000000000002	35.225
26	23.200000000000003	18.15	22.2	36.449999999999996
27	37.45	20.625	19.325	22.6
28	23.125	17.525	21.5	37.85
29	36.525	18.925	21.15	23.400000000000002
30	22.400000000000002	19.625	35.5	22.475
31	23.05	19.8	21.4	35.75
32	23.425	21.825	20.075000000000003	34.675
33	36.9	22.5	20.275000000000002	20.325
34	22.35	34.8	20.5	22.35
35	22.125	34.825	23.05	20.0
36	21.175	35.075	21.925	21.825
37	22.175	20.5	34.875	22.45
38	22.15	20.25	34.0	23.599999999999998
39	23.175	20.424999999999997	19.675	36.725
40	23.1	22.575	19.15	35.175
41	21.025	21.725	33.875	23.375
>>END_MODULE
>>Per sequence GC content	fail
#GC Content	Count
0	1.0
1	0.5
2	0.0
3	0.0
4	0.0
5	0.0
6	0.0
7	0.0
8	0.0
9	0.0
10	0.0
11	0.0
12	0.0
13	0.0
14	0.0
15	0.0
16	0.0
17	0.0
18	0.5
19	1.0
20	1.0
21	1.5
22	2.0
23	2.0
24	2.0
25	2.0
26	4.0
27	6.0
28	8.5
29	11.0
30	14.0
31	17.0
32	17.0
33	26.5
34	36.0
35	35.5
36	35.0
37	35.0
38	62.5
39	90.0
40	121.5
41	153.0
42	153.0
43	184.5
44	216.0
45	260.0
46	304.0
47	304.0
48	359.5
49	415.0
50	425.0
51	435.0
52	464.0
53	493.0
54	493.0
55	421.0
56	349.0
57	334.5
58	320.0
59	320.0
60	591.5
61	863.0
62	496.5
63	130.0
64	130.0
65	101.5
66	73.0
67	50.0
68	27.0
69	27.0
70	21.0
71	15.0
72	10.5
73	6.0
74	3.0
75	0.0
76	0.0
77	0.0
78	0.0
79	0.0
80	0.0
81	0.0
82	0.0
83	0.0
84	0.0
85	0.0
86	0.0
87	0.0
88	0.0
89	0.0
90	0.0
91	0.0
92	0.0
93	0.0
94	0.0
95	0.0
96	0.0
97	0.0
98	0.0
99	0.0
100	0.0
>>END_MODULE
>>Per base N content	pass
#Base	N-Count
1	0.0
2	0.0
3	0.0
4	0.0
5	0.0
6	0.0
7	0.0
8	0.0
9	0.0
10	0.0
11	0.0
12	0.0
13	0.0
14	0.0
15	0.0
16	0.0
17	0.0
18	0.0
19	0.0
20	0.0
21	0.0
22	0.0
23	0.0
24	0.0
25	0.0
26	0.0
27	0.0
28	0.0
29	0.0
30	0.0
31	0.0
32	0.0
33	0.0
34	0.0
35	0.0
36	0.0
37	0.0
38	0.0
39	0.0
40	0.0
41	0.0
>>END_MODULE
>>Sequence Length Distribution	pass
#Length	Count
41	4000.0
>>END_MODULE
>>Sequence Duplication Levels	warn
#Total Deduplicated Percentage	61.1
#Duplication Level	Percentage of deduplicated	Percentage of total
1	79.050736497545	48.3
2	14.607201309328968	17.849999999999998
3	3.641571194762684	6.675000000000001
4	1.0229132569558101	2.5
5	0.4500818330605565	1.375
6	0.2864157119476268	1.05
7	0.2864157119476268	1.225
8	0.04091653027823241	0.2
9	0.08183306055646482	0.44999999999999996
>10	0.4500818330605565	5.1
>50	0.04091653027823241	1.525
>100	0.0	0.0
>500	0.04091653027823241	13.750000000000002
>1k	0.0	0.0
>5k	0.0	0.0
>10k+	0.0	0.0
>>END_MODULE
>>Overrepresented sequences	fail
#Sequence	Count	Percentage	Possible Source
TGGTGGAGCTGGCGGGAGTTGAACCCGCGTCCGAAATTCCT	550	13.750000000000002	No Hit
GTGGAGCTGGCGGGAGTTGAACCCGCGTCCGAAATTCCTAC	61	1.525	No Hit
GGTGGAGCTGGCGGGAGTTGAACCCGCGTCCGAAATTCCTA	39	0.975	No Hit
AAAAATAAGCCCGTGTAAGGGAGATTACACAGGCTAAGGAG	32	0.8	No Hit
AAGGTTAAGCCTCACGGTTCATTAGTACCGTGTCTCCCCCC	26	0.65	No Hit
AAAAAATAAGCCCGTGTAAGGGAGATTACACAGGCTAAGGA	21	0.525	No Hit
AGGTGAAACTGACCGATAAGCCGGGTTCTGTCGTGGACAGT	16	0.4	No Hit
AAAAAACGCGCCCGAAGGCGCGTTGGCGATACACTCAATAT	14	0.35000000000000003	No Hit
TTTGCCTGGAAAATCAAGGCTGAGGCGTGATGACGAGGCAC	13	0.325	No Hit
AAGGTTAAGCCTCACGGTTCATTAGTACGAGAGGACCGGGA	12	0.3	No Hit
AAAAAAGGGAGCACTGTATTCACAGCGCTCCCGGTTCGTTT	11	0.27499999999999997	No Hit
GGGAATCTCCGAGATGCCGCCGCAGGCTGTAACCCTTGAAC	10	0.25	No Hit
TGGAGCTGGCGGGAGTTGAACCCGCGTCCGAAATTCCTACA	10	0.25	No Hit
GGAGCTGGCGGGAGTTGAACCCGCGTCCGAAATTCCTACAT	9	0.22499999999999998	No Hit
GACGTCATCATGGCCCTTACGACCAGGGCTACACACGTGCT	9	0.22499999999999998	No Hit
AAGGTTAAGCCTCACGGTTCATTAGTACCGGTTAGCTCCCC	8	0.2	No Hit
AAAAAAGGCACATCAGTAGATGCGCCCTTGAACTTCGTCAC	7	0.17500000000000002	No Hit
AAAAAGGGAGCACTGTATTCACAGCGCTCCCGGTTCGTTTC	7	0.17500000000000002	No Hit
GGTGAAACTGACCGATAAGCCGGGTTCTGTCGTGGACAGTC	7	0.17500000000000002	No Hit
GTGTACAAGGTAACCGTAGGGGAACCTGCGGTTGGATCACC	7	0.17500000000000002	No Hit
TTTACGGCGTGGATCAGAATGCCACGGTGAATACGTTCCCG	7	0.17500000000000002	No Hit
AGGGAATCTCCGAGATGCCGCCGCAGGCTGTAACCCTTGAA	7	0.17500000000000002	No Hit
AAAAAAGGGCCCGCAGGCCCTTTGTTCGATATCAATCGAGA	7	0.17500000000000002	No Hit
AAAATAAGCCCGTGTAAGGGAGATTACACAGGCTAAGGAGG	6	0.15	No Hit
GCCTGGAAAATCAAGGCTGAGGCGTGATGACGAGGCACTAC	6	0.15	No Hit
GGGAAAGCCTCTCCCGGAGAAGAGGGCTTTTAATAAGGAAA	6	0.15	No Hit
TCTTCCGGCGAGGCCGAAAGGCGTAGTCGATGGGAAACAGG	6	0.15	No Hit
TCATGGAGTCGAGTTGCTAGTAATCGTGGATCAGAATGCCA	6	0.15	No Hit
GCGAAACCTCCGCAATGCGGAGGTTTCTTTTTAAAGAGACA	6	0.15	No Hit
AGGTTAAGCCTCACGGTTCATTAGTACCGTGTCTCCCCCCA	6	0.15	No Hit
AAGGTTAAGCCTCACGGTTCATTAGTACCGGTTAGCTCAAC	5	0.125	No Hit
TTGCCTGGAAAATCAAGGCTGAGGCGTGATGACGAGGCACT	5	0.125	No Hit
GAGTTCCCGGGCCTTGTACACACCGCCCGTCACACCATGGG	5	0.125	No Hit
TGTACAAGGTAACCGTAGGGGAACCTGCGGTTGGATCACCT	5	0.125	No Hit
ATTCTCATCTCTGAAAACTTCCGGATTGGAGTCTGCAACTC	5	0.125	No Hit
GTTGCAGACTCCATGAAGTCGGAATCGCTAGTAATCGTGGA	5	0.125	No Hit
GACTCCAATCCGGAATCGCTAGTAATCGTGGATCAGAATGC	5	0.125	No Hit
AAAAAAAAGCACCGCAATTAGGCGGTGCTACATTAATCACT	5	0.125	No Hit
TTTAGCTACCGAGATGAGTTCTCCCTGACTCCTTGAGAGTC	5	0.125	No Hit
GTTTCGTGCTTAGATGAGTTCTCCCTGACTCCTTGAGAGTC	5	0.125	No Hit
AAAAAAAGGGAGCACTGTATTCACAGCGCTCCCGGTTCGTT	5	0.125	No Hit
>>END_MODULE
>>Adapter Content	pass
#Position	Illumina Universal Adapter	Illumina Small RNA 3' Adapter	Illumina Small RNA 5' Adapter	Nextera Transposase Sequence	SOLID Small RNA Adapter
1	0.0	0.0	0.0	0.0	0.0
2	0.0	0.0	0.0	0.0	0.0
3	0.025	0.0	0.0	0.0	0.0
4	0.025	0.0	0.0	0.0	0.0
5	0.05	0.0	0.0	0.0	0.0
6	0.05	0.0	0.0	0.0	0.0
7	0.05	0.0	0.0	0.0	0.0
8	0.05	0.0	0.0	0.0	0.0
9	0.05	0.0	0.0	0.0	0.0
10	0.05	0.0	0.0	0.0	0.0
11	0.05	0.0	0.0	0.0	0.0
12	0.125	0.0	0.0	0.0	0.0
13	0.25	0.0	0.0	0.0	0.0
14	0.4	0.0	0.0	0.0	0.0
15	0.5	0.0	0.0	0.0	0.0
16	0.7	0.0	0.0	0.0	0.0
17	0.85	0.0	0.0	0.0	0.0
18	0.975	0.0	0.0	0.0	0.0
19	1.075	0.0	0.0	0.0	0.0
20	1.175	0.0	0.0	0.0	0.0
21	1.225	0.0	0.0	0.0	0.0
22	1.3	0.0	0.0	0.0	0.0
23	1.4	0.0	0.0	0.0	0.0
24	1.425	0.0	0.0	0.0	0.0
25	1.525	0.0	0.0	0.0	0.0
26	1.55	0.0	0.0	0.0	0.0
27	1.575	0.0	0.0	0.0	0.0
28	1.725	0.0	0.0	0.0	0.0
29	1.8	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	fail
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
TGGTGGA	30	9.417061E-6	35.000004	1
GGTGGAG	40	6.740297E-5	26.25	2
GCGGGAG	50	3.0707463E-4	21.0	12
GAAATTC	50	3.0707463E-4	21.0	33
AATTCCT	50	3.0707463E-4	21.0	35
GTCCGAA	50	3.0707463E-4	21.0	29
AACCCGC	50	3.0707463E-4	21.0	22
ACCCGCG	50	3.0707463E-4	21.0	23
TGGAGCT	50	3.0707463E-4	21.0	4
GGGAGTT	50	3.0707463E-4	21.0	14
GAGTTGA	50	3.0707463E-4	21.0	16
CTGGCGG	50	3.0707463E-4	21.0	9
CCCGCGT	50	3.0707463E-4	21.0	24
GAACCCG	50	3.0707463E-4	21.0	21
CGGGAGT	50	3.0707463E-4	21.0	13
GCGTCCG	50	3.0707463E-4	21.0	27
CGAAATT	50	3.0707463E-4	21.0	32
AGTTGAA	50	3.0707463E-4	21.0	17
TTGAACC	50	3.0707463E-4	21.0	19
TGGCGGG	50	3.0707463E-4	21.0	10
>>END_MODULE
SRR23332742 read2 length is 38-50 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR23332742_2.fastq
File type	Conventional base calls
Encoding	Sanger / Illumina 1.9
Total Sequences	4000
Sequences flagged as poor quality	0
Sequence length	38-50
%GC	52
>>END_MODULE
>>Per base sequence quality	fail
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	20.321	11.0	11.0	37.0	11.0	37.0
2	21.8095	11.0	11.0	37.0	11.0	37.0
3	24.82	25.0	11.0	37.0	11.0	37.0
4	35.985	37.0	37.0	37.0	37.0	37.0
5	36.158	37.0	37.0	37.0	37.0	37.0
6	36.0195	37.0	37.0	37.0	37.0	37.0
7	35.955	37.0	37.0	37.0	37.0	37.0
8	35.8665	37.0	37.0	37.0	37.0	37.0
9	35.8765	37.0	37.0	37.0	37.0	37.0
10	35.9745	37.0	37.0	37.0	37.0	37.0
11	35.965	37.0	37.0	37.0	37.0	37.0
12	36.09	37.0	37.0	37.0	37.0	37.0
13	36.081	37.0	37.0	37.0	37.0	37.0
14	36.0545	37.0	37.0	37.0	37.0	37.0
15	35.936	37.0	37.0	37.0	37.0	37.0
16	36.1025	37.0	37.0	37.0	37.0	37.0
17	36.1275	37.0	37.0	37.0	37.0	37.0
18	36.1255	37.0	37.0	37.0	37.0	37.0
19	36.1475	37.0	37.0	37.0	37.0	37.0
20	36.056	37.0	37.0	37.0	37.0	37.0
21	36.1415	37.0	37.0	37.0	37.0	37.0
22	36.2085	37.0	37.0	37.0	37.0	37.0
23	36.076	37.0	37.0	37.0	37.0	37.0
24	36.224	37.0	37.0	37.0	37.0	37.0
25	36.0925	37.0	37.0	37.0	37.0	37.0
26	36.16825	37.0	37.0	37.0	37.0	37.0
27	36.0355	37.0	37.0	37.0	37.0	37.0
28	36.05375	37.0	37.0	37.0	37.0	37.0
29	36.2305	37.0	37.0	37.0	37.0	37.0
30	36.04025	37.0	37.0	37.0	37.0	37.0
31	36.134	37.0	37.0	37.0	37.0	37.0
32	36.00625	37.0	37.0	37.0	37.0	37.0
33	36.0375	37.0	37.0	37.0	37.0	37.0
34	36.14625	37.0	37.0	37.0	37.0	37.0
35	36.1215	37.0	37.0	37.0	37.0	37.0
36	36.13	37.0	37.0	37.0	37.0	37.0
37	36.168	37.0	37.0	37.0	37.0	37.0
38	35.968	37.0	37.0	37.0	37.0	37.0
39	36.013253313328335	37.0	37.0	37.0	37.0	37.0
40	36.07926981745436	37.0	37.0	37.0	37.0	37.0
41	35.89294647323662	37.0	37.0	37.0	37.0	37.0
42	36.023267450587944	37.0	37.0	37.0	37.0	37.0
43	35.87008760951189	37.0	37.0	37.0	37.0	37.0
44	35.98942065491184	37.0	37.0	37.0	37.0	37.0
45	35.83054393305439	37.0	37.0	37.0	37.0	37.0
46	35.91359325605901	37.0	37.0	37.0	37.0	37.0
47	35.886011745862255	37.0	37.0	37.0	37.0	37.0
48	36.08150555104251	37.0	37.0	37.0	37.0	37.0
49	36.028673835125446	37.0	37.0	37.0	37.0	37.0
50	35.895921237693386	37.0	37.0	37.0	37.0	37.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
15	1.0
16	0.0
17	2.0
18	0.0
19	1.0
20	7.0
21	4.0
22	8.0
23	3.0
24	7.0
25	9.0
26	8.0
27	18.0
28	24.0
29	37.0
30	42.0
31	69.0
32	106.0
33	138.0
34	394.0
35	1756.0
36	1186.0
37	180.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	0.0	42.95	29.799999999999997	27.250000000000004
2	31.3	41.675000000000004	12.9	14.124999999999998
3	25.775	43.575	17.2	13.450000000000001
4	79.675	7.249999999999999	5.425	7.6499999999999995
5	65.47500000000001	16.2	10.4	7.925
6	55.800000000000004	19.975	11.450000000000001	12.775
7	38.375	37.55	11.325000000000001	12.75
8	41.099999999999994	20.275000000000002	14.224999999999998	24.4
9	21.025	37.35	27.975	13.65
10	40.65	23.575	17.875	17.9
11	27.725	40.225	17.474999999999998	14.575
12	22.45	25.324999999999996	28.000000000000004	24.224999999999998
13	34.975	15.0	28.95	21.075
14	32.925	16.075	26.474999999999998	24.525
15	28.075	18.325	42.15	11.450000000000001
16	45.550000000000004	19.950000000000003	21.875	12.625
17	27.325	33.425	18.0	21.25
18	15.475	40.275	26.0	18.25
19	19.675	18.875	35.025	26.424999999999997
20	15.925	22.375	32.9	28.799999999999997
21	19.225	39.6	15.35	25.825
22	38.800000000000004	27.025	16.05	18.125
23	23.150000000000002	31.55	19.025	26.275
24	22.8	25.174999999999997	13.975000000000001	38.05
25	39.15	18.05	13.925	28.875
26	34.858714678669664	22.20555138784696	14.103525881470366	28.832208052013
27	39.7	23.025000000000002	21.9	15.375
28	32.44933700275207	26.294721040780583	26.54490868151113	14.711033274956216
29	24.075	15.925	45.4	14.6
30	20.8656492369277	15.911933950462847	50.21265949462097	13.009757317988491
31	19.175	21.75	38.85	20.225
32	34.92619464598449	14.610958218663997	21.165874405804352	29.29697272954716
33	22.975	13.475000000000001	15.425	48.125
34	27.34550913184889	18.413810357768327	22.141606204653492	32.099074305729296
35	14.374999999999998	33.875	22.625	29.125
36	14.957478739369684	38.669334667333665	27.363681840920464	19.009504752376188
37	16.925	44.425	13.825000000000001	24.825
38	21.625	19.7	12.55	46.125
39	35.033758439609905	16.704176044011003	13.928482120530134	34.33358339584896
40	23.655913978494624	21.43035758939735	17.829457364341085	37.08427106776694
41	18.25912956478239	41.34567283641821	25.26263131565783	15.132566283141571
42	21.240930698023515	30.723042281711283	27.52064048036027	20.515386539904927
43	32.26533166458073	23.153942428035045	17.4468085106383	27.133917396745932
44	39.269521410579344	15.44080604534005	18.110831234256928	27.178841309823675
45	18.985355648535567	15.768828451882847	35.43410041841004	29.811715481171547
46	31.03266596417281	19.33614330874605	29.87355110642782	19.75763962065332
47	29.799732977303073	18.104138851802404	24.11214953271028	27.983978638184247
48	26.320064987814785	26.672082317898727	25.345247766043865	21.662604928242622
49	30.185295875672445	12.46264196054991	40.25702331141662	17.09503885236103
50	31.399437412095637	13.959212376933896	27.918424753867793	26.72292545710267
>>END_MODULE
>>Per sequence GC content	fail
#GC Content	Count
0	1.0
1	0.5
2	0.0
3	0.5
4	1.0
5	0.5
6	0.0
7	0.0
8	0.0
9	0.5
10	1.0
11	0.5
12	0.0
13	0.0
14	0.0
15	0.0
16	0.0
17	0.0
18	0.0
19	0.0
20	0.0
21	0.0
22	0.5
23	2.0
24	2.5
25	3.5
26	5.0
27	5.0
28	5.5
29	12.5
30	19.0
31	22.5
32	29.0
33	34.0
34	36.0
35	44.0
36	56.0
37	63.5
38	71.0
39	81.5
40	88.5
41	104.5
42	131.5
43	160.5
44	170.0
45	164.0
46	170.5
47	176.5
48	181.0
49	204.0
50	231.5
51	413.5
52	604.5
53	734.5
54	870.0
55	821.0
56	695.0
57	494.5
58	333.0
59	252.5
60	172.0
61	115.5
62	70.5
63	57.0
64	47.0
65	38.0
66	26.5
67	20.0
68	16.0
69	11.0
70	5.5
71	3.5
72	2.5
73	1.5
74	1.5
75	1.5
76	1.0
77	1.0
78	1.0
79	1.0
80	1.0
81	1.0
82	1.0
83	1.0
84	1.0
85	0.5
86	0.0
87	0.5
88	1.0
89	1.5
90	2.0
91	1.0
92	0.0
93	1.0
94	2.0
95	1.0
96	0.0
97	0.0
98	0.0
99	0.0
100	0.0
>>END_MODULE
>>Per base N content	pass
#Base	N-Count
1	0.0
2	0.0
3	0.0
4	0.0
5	0.0
6	0.0
7	0.0
8	0.0
9	0.0
10	0.0
11	0.0
12	0.0
13	0.0
14	0.0
15	0.0
16	0.0
17	0.0
18	0.0
19	0.0
20	0.0
21	0.0
22	0.0
23	0.0
24	0.0
25	0.0
26	0.025
27	0.0
28	0.075
29	0.0
30	0.075
31	0.0
32	0.075
33	0.0
34	0.075
35	0.0
36	0.05
37	0.0
38	0.0
39	0.0
40	0.0
41	0.0
42	0.0
43	0.0
44	0.0
45	0.0
46	0.0
47	0.026695141484249865
48	0.0
49	0.05973715651135006
50	0.0
>>END_MODULE
>>Sequence Length Distribution	warn
#Length	Count
38	1.0
39	0.0
40	1.0
41	1.0
42	2.0
43	25.0
44	146.0
45	28.0
46	50.0
47	53.0
48	345.0
49	504.0
50	2844.0
>>END_MODULE
>>Sequence Duplication Levels	warn
#Total Deduplicated Percentage	63.800000000000004
#Duplication Level	Percentage of deduplicated	Percentage of total
1	88.20532915360502	56.275
2	4.584639498432602	5.8500000000000005
3	1.6065830721003136	3.075
4	1.1755485893416928	3.0
5	0.8228840125391849	2.625
6	0.7836990595611284	3.0
7	0.744514106583072	3.325
8	0.3134796238244514	1.6
9	0.1567398119122257	0.8999999999999999
>10	1.5282131661442007	16.125
>50	0.03918495297805642	1.4500000000000002
>100	0.03918495297805642	2.775
>500	0.0	0.0
>1k	0.0	0.0
>5k	0.0	0.0
>10k+	0.0	0.0
>>END_MODULE
>>Overrepresented sequences	fail
#Sequence	Count	Percentage	Possible Source
AAAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	111	2.775	No Hit
AAAGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	58	1.4500000000000002	No Hit
AAAGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	47	1.175	No Hit
CAAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	39	0.975	No Hit
AAAGGGAGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTGC	36	0.8999999999999999	No Hit
AGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	34	0.8500000000000001	No Hit
TAAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	24	0.6	No Hit
AGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	22	0.5499999999999999	No Hit
CAAGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	21	0.525	No Hit
AGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTGC	20	0.5	No Hit
AATGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	19	0.475	No Hit
TAAGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	18	0.44999999999999996	No Hit
CCAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	17	0.42500000000000004	No Hit
AATGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	17	0.42500000000000004	No Hit
AACGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	16	0.4	No Hit
TATGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	16	0.4	No Hit
TGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	15	0.375	No Hit
ACAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	15	0.375	No Hit
AAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	15	0.375	No Hit
AGAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	14	0.35000000000000003	No Hit
AGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	14	0.35000000000000003	No Hit
AAAGGGAGAAAGGAGGTGATCCAGCCGCACCTTCCGATACGGCTACCTTG	13	0.325	No Hit
CGAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	13	0.325	No Hit
CAAGGGAGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTGC	13	0.325	No Hit
CAAGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	13	0.325	No Hit
TGTGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	12	0.3	No Hit
CTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	12	0.3	No Hit
CGGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	12	0.3	No Hit
AGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	12	0.3	No Hit
ATAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	12	0.3	No Hit
AATGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	11	0.27499999999999997	No Hit
CGCGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	11	0.27499999999999997	No Hit
TACGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	11	0.27499999999999997	No Hit
AAAGCTGAAAAACATAACCCATAAAATGCTAGCTGTACCAGGAACCACCT	11	0.27499999999999997	No Hit
CGCGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	10	0.25	No Hit
CACGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	10	0.25	No Hit
TCAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	10	0.25	No Hit
AGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	10	0.25	No Hit
CATGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	10	0.25	No Hit
CCCGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	10	0.25	No Hit
CAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	10	0.25	No Hit
TTAGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	9	0.22499999999999998	No Hit
AAAGGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCAT	9	0.22499999999999998	No Hit
CCAGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	9	0.22499999999999998	No Hit
AGACACGGTACTAATGAACCGTGAGGCTTAACCTTATACAGATG	9	0.22499999999999998	No Hit
CGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	8	0.2	No Hit
AGGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	8	0.2	No Hit
ACCGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	8	0.2	No Hit
CGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	8	0.2	No Hit
TGGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	8	0.2	No Hit
ACGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	8	0.2	No Hit
CGAGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	8	0.2	No Hit
AGAGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	8	0.2	No Hit
ATGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	7	0.17500000000000002	No Hit
TGTGGGAGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTGC	7	0.17500000000000002	No Hit
AAAGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGCT	7	0.17500000000000002	No Hit
AATGGGAGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTGC	7	0.17500000000000002	No Hit
TTAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	7	0.17500000000000002	No Hit
CGAGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	7	0.17500000000000002	No Hit
CGGGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	7	0.17500000000000002	No Hit
TGAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	7	0.17500000000000002	No Hit
CGGGAGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTGC	7	0.17500000000000002	No Hit
TGAGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	7	0.17500000000000002	No Hit
TAAGGGAGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTGC	7	0.17500000000000002	No Hit
TAAGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	7	0.17500000000000002	No Hit
ACAGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	7	0.17500000000000002	No Hit
ACTGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	7	0.17500000000000002	No Hit
ATAGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	7	0.17500000000000002	No Hit
CGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	7	0.17500000000000002	No Hit
TATGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	7	0.17500000000000002	No Hit
TGGGAGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTGC	7	0.17500000000000002	No Hit
AACGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	7	0.17500000000000002	No Hit
AGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTA	6	0.15	No Hit
AAAGGGAGAGTCCTCGATCGATTAGTATCTGTCAGCTCCATGTGTCGCCA	6	0.15	No Hit
TGGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	6	0.15	No Hit
CAAGGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGT	6	0.15	No Hit
CGGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	6	0.15	No Hit
TTTGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	6	0.15	No Hit
TTGGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	6	0.15	No Hit
CGGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	6	0.15	No Hit
TGGGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	6	0.15	No Hit
CATGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	6	0.15	No Hit
ATTGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	6	0.15	No Hit
ACAGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	6	0.15	No Hit
TGCGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	6	0.15	No Hit
AAGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	6	0.15	No Hit
ACTGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	6	0.15	No Hit
CCCGGGAGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTGC	6	0.15	No Hit
CAGGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	6	0.15	No Hit
CACGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	6	0.15	No Hit
CTGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	6	0.15	No Hit
CTAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	6	0.15	No Hit
TTAGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	5	0.125	No Hit
TGGGAGACACGGTACTAATGAACCGTGAGGCTTAACCTTATACAGATG	5	0.125	No Hit
TGTGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	5	0.125	No Hit
AAAGGGGAGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTG	5	0.125	No Hit
ATGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	5	0.125	No Hit
TGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	5	0.125	No Hit
AAAGGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGT	5	0.125	No Hit
TATGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	5	0.125	No Hit
TATGGGAGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTGC	5	0.125	No Hit
AAGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	5	0.125	No Hit
AGGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	5	0.125	No Hit
CACGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	5	0.125	No Hit
TGGGGGAGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTGC	5	0.125	No Hit
TGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	5	0.125	No Hit
TCTGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	5	0.125	No Hit
CCGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	5	0.125	No Hit
ACAGGGAGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTGC	5	0.125	No Hit
TTGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	5	0.125	No Hit
AACGAATGGCGTAATGATGGCCAGGCTGTCTCCACCCGAGACTCAGTGA	5	0.125	No Hit
AGGGAGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTGC	5	0.125	No Hit
CCGGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	5	0.125	No Hit
>>END_MODULE
>>Adapter Content	pass
#Position	Illumina Universal Adapter	Illumina Small RNA 3' Adapter	Illumina Small RNA 5' Adapter	Nextera Transposase Sequence	SOLID Small RNA Adapter
1	0.0	0.0	0.0	0.0	0.0
2	0.0	0.0	0.0	0.0	0.0
3	0.0	0.0	0.0	0.0	0.0
4	0.0	0.0	0.0	0.0	0.0
5	0.0	0.0	0.0	0.0	0.0
6	0.0	0.0	0.0	0.0	0.0
7	0.0	0.0	0.0	0.0	0.0
8	0.0	0.0	0.0	0.0	0.0
9	0.0	0.0	0.0	0.0	0.0
10	0.0	0.0	0.0	0.0	0.0
11	0.025	0.0	0.0	0.0	0.0
12	0.025	0.0	0.0	0.0	0.0
13	0.025	0.0	0.0	0.0	0.0
14	0.075	0.0	0.0	0.0	0.0
15	0.075	0.0	0.0	0.0	0.0
16	0.125	0.0	0.0	0.0	0.0
17	0.125	0.0	0.0	0.0	0.0
18	0.2	0.0	0.0	0.0	0.0
19	0.275	0.0	0.0	0.0	0.0
20	0.325	0.0	0.0	0.0	0.0
21	0.35	0.0	0.0	0.0	0.0
22	0.525	0.0	0.0	0.0	0.0
23	0.775	0.0	0.0	0.0	0.0
24	0.85	0.0	0.0	0.0	0.0
25	0.925	0.0	0.0	0.0	0.0
26	1.025	0.0	0.0	0.0	0.0
27	1.125	0.0	0.0	0.0	0.0
28	1.225	0.0	0.0	0.0	0.0
29	1.325	0.0	0.0	0.0	0.0
30	1.35	0.0	0.0	0.0	0.0
31	1.35	0.0	0.0	0.0	0.0
32	1.475	0.0	0.0	0.0	0.0
33	1.5	0.0	0.0	0.0	0.0
34	1.55	0.0	0.0	0.0	0.0
35	1.575	0.0	0.0	0.0	0.0
36	1.625	0.0	0.0	0.0	0.0
37	1.75	0.0	0.0	0.0	0.0
38	1.775	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
GTAGTGC	20	1.7399792E-4	57.75	44
CGTAGTG	20	2.8308408E-4	52.500004	43
CCGTAGT	20	4.725916E-4	47.465755	42
CACCGTA	20	5.419977E-4	46.2	40
ACCGTAG	20	5.419977E-4	46.2	41
GCACCGT	20	5.7960954E-4	45.592106	39
GTGCATG	45	7.701601E-8	44.916668	44
GGAGATT	25	4.0562853E-5	43.3125	5
CTTCAGC	20	7.513131E-4	43.3125	34
TGTTGCT	20	7.513131E-4	43.3125	29
AGGGGCT	20	7.513131E-4	43.3125	3
TTGTTGC	20	7.513131E-4	43.3125	28
GGGCATT	20	7.513131E-4	43.3125	22
CAGCACC	20	7.513131E-4	43.3125	37
GAAGCAG	25	4.0562853E-5	43.3125	16
AGGGCAT	20	7.513131E-4	43.3125	21
CATTTGT	20	7.513131E-4	43.3125	25
AAGGGGC	25	4.0562853E-5	43.3125	2
GGGAGAT	25	4.0562853E-5	43.3125	4
TTCCTGG	25	4.0562853E-5	43.3125	10
>>END_MODULE
Read 670195 spots for SRR23332742.sra
Written 670195 spots for SRR23332742.sra
Read 670202 spots for SRR23332742.sra
Written 670202 spots for SRR23332742.sra
Read 670195 spots for SRR23332742.sra
Written 670195 spots for SRR23332742.sra
Read 670195 spots for SRR23332742.sra
Written 670195 spots for SRR23332742.sra
Read 670195 spots for SRR23332742.sra
Written 670195 spots for SRR23332742.sra
Read 670195 spots for SRR23332742.sra
Written 670195 spots for SRR23332742.sra
Read 670195 spots for SRR23332742.sra
Written 670195 spots for SRR23332742.sra
Read 670195 spots for SRR23332742.sra
Written 670195 spots for SRR23332742.sra
SRR ids: ['SRR23332742.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_5scxg2di
SRR23332742.sra spots: 5361567
blocks: [[1, 670195], [670196, 1340390], [1340391, 2010585], [2010586, 2680780], [2680781, 3350975], [3350976, 4021170], [4021171, 4691365], [4691366, 5361567]]
SRR23332742 file size 652320
SRR23332742 completed basic pipeline successfully
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	/usr/local/bin/skewer -f sanger -l 18 -q 10 -k inf -t 8 -o SRR23332742 SRR23332742_1.fastq SRR23332742_2.fastq
Input file:	SRR23332742_1.fastq
Paired file:	SRR23332742_2.fastq
trimmed:	SRR23332742-trimmed-pair1.fastq, SRR23332742-trimmed-pair2.fastq

Parameters used:
-- 3' end adapter sequence (-x):	AGATCGGAAGAGCACACGTCTGAACTCCAGTCAC
-- paired 3' end adapter sequence (-y):	AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTA
-- maximum error ratio allowed (-r):	0.100
-- maximum indel error ratio allowed (-d):	0.030
-- end quality threshold (-q):		10
-- minimum read length allowed after trimming (-l):	18
-- file format (-f):		Sanger/Illumina 1.8+ FASTQ 
-- number of concurrent threads (-t):	8
Wed Mar 25 03:00:46 2026 >> started

Wed Mar 25 03:00:49 2026 >> done (3.861s)
5361567 read pairs processed; of these:
   4485 ( 0.08%) short read pairs filtered out after trimming by size control
      2 ( 0.00%) empty read pairs filtered out after trimming by size control
5357080 (99.92%) read pairs available; of these:
  46036 ( 0.86%) trimmed read pairs available after processing
5311044 (99.14%) untrimmed read pairs available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	    685	  0.01%
 19	   1147	  0.02%
 20	   1657	  0.03%
 21	   1095	  0.02%
 22	   1061	  0.02%
 23	   1046	  0.02%
 24	   1086	  0.02%
 25	   1569	  0.03%
 26	   1223	  0.02%
 27	   1423	  0.03%
 28	   1062	  0.02%
 29	   1921	  0.04%
 30	   1313	  0.02%
 31	   1406	  0.03%
 32	   1462	  0.03%
 33	   1946	  0.04%
 34	   1973	  0.04%
 35	   2104	  0.04%
 36	   2221	  0.04%
 37	   1997	  0.04%
 38	   3291	  0.06%
 39	   3427	  0.06%
 40	   7351	  0.14%
 41	   5996	  0.11%
 42	 199212	  3.72%
 43	 115230	  2.15%
 44	 452431	  8.45%
 45	4540745	 84.76%
5357080 reads passed initial QC


criterion=sequence-density
sequence-density=1.21
sequence-density-rank=1
fanout-score=1.97
fanout-score-rank=24
prefix-density=1.03
prefix-fanout=2.0
sequence=GTTCCCGGGCCTTGTACACACCGCCCGTCACACCATGGGAGTGGGTTGCAAAAGAAGTAGGTAGCTTAACCTTCG


criterion=fanout-score
sequence-density=0.78
sequence-density-rank=3
fanout-score=7.37
fanout-score-rank=1
prefix-density=0.83
prefix-fanout=6.9
sequence=CCCCCCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACGTTC


criterion=sequence-density
sequence-density=15.85
sequence-density-rank=1
fanout-score=16.14
fanout-score-rank=8
prefix-density=13.77
prefix-fanout=16.1
sequence=GGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATGCCGAGGGGCGGTTGGCCTCGTAAAAAGCCGCAAAAAATAGTCGCAAACGACGAAAACTACGCTTTAGCAGCTTAATAACCTGCTTAGAGCCCTCTCTCCCTAGCCTCCGCTCTTAGGACGGGGATCAAGAGAGGTCAAACCCAAAAGAGATCGCGTGGAAGCCCTGCCTGGGGTTGAAGCGTTAAAACTTAATCAGGCTAGTTTGTTAGTGGCGTGTCCGTCCGCAGCTGGCAAGCGAATGTAAAGACTGACTAAGCATGTAGTACCGAGGATGTAGGAATTTCGGACGCGGGTTCAACTCCCGCCAGCTCCACCAA


criterion=fanout-score
sequence-density=0.85
sequence-density-rank=13
fanout-score=126.58
fanout-score-rank=1
prefix-density=9.91
prefix-fanout=10.8
sequence=GGAGACACGGTACTAATGAACCGTGAGGCTTAACCTTATACAGATG
Potential 3prime adapter identified. Now checking if in reference sequence
/dee2/code/volunteer_pipeline.sh: line 987: -f: command not found
/dee2/code/volunteer_pipeline.sh: line 988: -f: command not found
Adapter seq not found in reference. Now shuffling file before clipping
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	/usr/local/bin/skewer -f sanger -l 18 -t 8 -x GTTCCCGGGCCTTGTACACACCGCCCGTCACACCATGGGAGTGGGTTGCAAAAGAAGTAGGTAGCTTAACCTTCG -y GGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATGCCGAGGGGCGGTTGGCCTCGTAAAAAGCCGCAAAAAATAGTCGCAAACGACGAAAACTACGCTTTAGCAGCTTAATAACCTGCTTAGAGCCCTCTCTCCCTAGCCTCCGCTCTTAGGACGGGGATCAAGAGAGGTCAAACCCAAAAGAGATCGCGTGGAAGCCCTGCCTGGGGTTGAAGCGTTAAAACTTAATCAGGCTAGTTTGTTAGTGGCGTGTCCGTCCGCAGCTGGCAAGCGAATGTAAAGACTGACTAAGCATGTAGTACCGAGGATGTAGGAATTTCGGACGCGGGTTCAACTCCCGCCAGCTCCACCAA -o SRR23332742 SRR23332742_1.fastq SRR23332742_2.fastq
Input file:	SRR23332742_1.fastq
Paired file:	SRR23332742_2.fastq
trimmed:	SRR23332742-trimmed-pair1.fastq, SRR23332742-trimmed-pair2.fastq

Parameters used:
-- 3' end adapter sequence (-x):	GTTCCCGGGCCTTGTACACACCGCCCGTCACACCATGGGAGTGGGTTGCAAAAGAAGTAGGTAG
-- paired 3' end adapter sequence (-y):	GGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATGCCGAGGGGCGGTTGGCC
-- maximum error ratio allowed (-r):	0.100
-- maximum indel error ratio allowed (-d):	0.030
-- minimum read length allowed after trimming (-l):	18
-- file format (-f):		Sanger/Illumina 1.8+ FASTQ 
-- number of concurrent threads (-t):	8
Wed Mar 25 03:01:00 2026 >> started

Wed Mar 25 03:01:02 2026 >> done (2.700s)
4166618 read pairs processed; of these:
  33133 ( 0.80%) short read pairs filtered out after trimming by size control
   4645 ( 0.11%) empty read pairs filtered out after trimming by size control
4128840 (99.09%) read pairs available; of these:
   1602 ( 0.04%) trimmed read pairs available after processing
4127238 (99.96%) untrimmed read pairs available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	    565	  0.01%
 19	    925	  0.02%
 20	   1278	  0.03%
 21	    834	  0.02%
 22	    819	  0.02%
 23	    805	  0.02%
 24	    849	  0.02%
 25	   1225	  0.03%
 26	    922	  0.02%
 27	   1077	  0.03%
 28	    818	  0.02%
 29	   1507	  0.04%
 30	   1026	  0.02%
 31	   1094	  0.03%
 32	   1147	  0.03%
 33	   1550	  0.04%
 34	   1535	  0.04%
 35	   1637	  0.04%
 36	   1758	  0.04%
 37	   1507	  0.04%
 38	   2572	  0.06%
 39	   2616	  0.06%
 40	   5696	  0.14%
 41	   4692	  0.11%
 42	 154328	  3.74%
 43	  89492	  2.17%
 44	 342647	  8.30%
 45	3503919	 84.86%


criterion=sequence-density
sequence-density=1.15
sequence-density-rank=1
fanout-score=2.45
fanout-score-rank=20
prefix-density=1.11
prefix-fanout=2.4
sequence=ACAAGGTAACCGTAGGGGAACCTGCGGTTGGATCACCTCCTCTCCCCCCAG


criterion=fanout-score
sequence-density=0.02
sequence-density-rank=37
fanout-score=10.05
fanout-score-rank=1
prefix-density=0.17
prefix-fanout=1.1
sequence=TTTTTTGCGAAACCTCCGCAATGCGGAGGTTTCTTTTTAAAGAGACAGAATCAGGCCATTACTACCCTGTCCGCCATGGCTTCTCGCCAGCCTCCCAGCCATTGTGACCTTTGATTCAGCGTCTGATAGGGACACATTTCTTTTGAGCGTCCGGCGATGCCGGCCTGATAACCACGTTGATGTGCCCGTTCCAGGCGATCTCGTTTT


criterion=sequence-density
sequence-density=15.25
sequence-density-rank=1
fanout-score=15.86
fanout-score-rank=8
prefix-density=13.45
prefix-fanout=15.9
sequence=GGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATGCCGAGGGGCGGTTGGCCTCGTAAAAAGCCGCAAAAAATAGTCGCAAACGACGAAAACTACGCTTTAGCAGCTTAATAACCTGCTTAGAGCCCTCTCTCCCTAGCCTCCGCTCTTAGGACGGGGATCAAGAGAGGTCAAACCCAAAAGAGATCGCGTGGAAGCCCTGCCTGGGGTTGAAGCGTTAAAACTTAATCAGGCTAGTTTGTTAGTGGCGTGTCCGTCCGCAGCTGGCAAGCGAATGTAAAGACTGACTAAGCATGTAGTACCGAGGATGTAGGAATTTCGGACGCGGGTTCAACTCCCGCCAGCTCCACCAA


criterion=fanout-score
sequence-density=0.85
sequence-density-rank=12
fanout-score=127.04
fanout-score-rank=1
prefix-density=9.92
prefix-fanout=10.9
sequence=GGAGACACGGTACTAATGAACCGTGAGGCTTAACCTTATACAGATG
SRR23332742 testing PE reads STAR mapping to Ensembl genome
                                 Started job on |	Mar 25 03:01:19
                             Started mapping on |	Mar 25 03:01:19
                                    Finished on |	Mar 25 03:03:49
       Mapping speed, Million of reads per hour |	127.66

                          Number of input reads |	5319302
                      Average input read length |	90
                                    UNIQUE READS:
                   Uniquely mapped reads number |	3005155
                        Uniquely mapped reads % |	56.50%
                          Average mapped length |	87.83
                       Number of splices: Total |	154139
            Number of splices: Annotated (sjdb) |	1206
                       Number of splices: GT/AG |	135522
                       Number of splices: GC/AG |	3310
                       Number of splices: AT/AC |	913
               Number of splices: Non-canonical |	14394
                      Mismatch rate per base, % |	0.26%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.40
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.04
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	1004397
             % of reads mapped to multiple loci |	18.88%
        Number of reads mapped to too many loci |	929462
             % of reads mapped to too many loci |	17.47%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	6.74%
                     % of reads unmapped: other |	0.41%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	1309752	1309752	1309752
N_multimapping	1004397	1004397	1004397
N_noFeature	81427	2766466	179695
N_ambiguous	309267	35347	144285
UnstrandedReadsAssigned:2614461 PositiveStrandReadsAssigned:203342 NegativeStrandReadsAssigned:2681175
Dataset is classified negative stranded
MeadianReadLen=41 20thPercentileLength=41 echo kmer=37
SRR23332742 Starting Kallisto paired end mapping to ensembl reference transcriptome

[quant] fragment length distribution will be estimated from the data
[index] k-mer length: 31
[index] number of targets: 4,322
[index] number of k-mers: 3,915,872
[index] number of equivalence classes: 4,486
[quant] running in paired-end mode
[quant] will process pair 1: SRR23332742-trimmed-pair1.fastq
                             SRR23332742-trimmed-pair2.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 5,319,302 reads, 1,177,280 reads pseudoaligned
[quant] estimated average fragment length: 216.824
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 52 rounds

  4323 SRR23332742.ke.tsv
  4497 SRR23332742.se.tsv
  8820 total
==> SRR23332742.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
AAC73112	66	13.3662	103	1848.58
AAC73113	2463	2247.18	121	12.9169
AAC73114	933	717.176	83	27.7628
AAC73115	1287	1071.18	180	40.3108
AAC73116	297	115.187	12	24.9913
AAC73117	777	561.327	54	23.0775
AAC73118	1431	1215.18	84	16.5825
AAC73119	954	738.176	2130	692.197
AAC73120	588	374.044	139	89.1461

==> SRR23332742.se.tsv <==
b0001	156
b0002	113
b0003	76
b0004	176
b0005	13
b0006	62
b0007	84
b0008	2146
b0009	176
b0010	19
SRR23332742 completed mapping pipeline successfully
