Starting /dee2/code/volunteer_pipeline.sh SRR11699526
    current disk space = 2463226621952
    free memory = 1581559740 
SRR11699526 SRAfilesize
1ff121cbbf5c47b36bbffa0705ba4635  SRR11699526.sra
SRR11699526.sra file validated
SRR11699526 is single end
SRR11699526 is conventional basespace
SRR11699526 read1 length is 86 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR11699526_1.fastq
File type	Conventional base calls
Encoding	Sanger / Illumina 1.9
Total Sequences	4000
Sequences flagged as poor quality	0
Sequence length	86
%GC	49
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	31.55675	32.0	32.0	32.0	32.0	32.0
2	31.64525	32.0	32.0	32.0	32.0	32.0
3	31.68025	32.0	32.0	32.0	32.0	32.0
4	31.63975	32.0	32.0	32.0	32.0	32.0
5	31.64425	32.0	32.0	32.0	32.0	32.0
6	35.1355	36.0	36.0	36.0	36.0	36.0
7	35.18825	36.0	36.0	36.0	36.0	36.0
8	35.23825	36.0	36.0	36.0	36.0	36.0
9	35.048	36.0	36.0	36.0	36.0	36.0
10-11	35.256625	36.0	36.0	36.0	36.0	36.0
12-13	35.215	36.0	36.0	36.0	36.0	36.0
14-15	35.237875	36.0	36.0	36.0	36.0	36.0
16-17	35.2445	36.0	36.0	36.0	36.0	36.0
18-19	35.389125	36.0	36.0	36.0	36.0	36.0
20-21	35.156375	36.0	36.0	36.0	36.0	36.0
22-23	35.238	36.0	36.0	36.0	36.0	36.0
24-25	35.24425	36.0	36.0	36.0	36.0	36.0
26-27	35.153999999999996	36.0	36.0	36.0	36.0	36.0
28-29	35.036500000000004	36.0	36.0	36.0	36.0	36.0
30-31	35.158625	36.0	36.0	36.0	36.0	36.0
32-33	35.155249999999995	36.0	36.0	36.0	36.0	36.0
34-35	35.127624999999995	36.0	36.0	36.0	36.0	36.0
36-37	35.083625	36.0	36.0	36.0	36.0	36.0
38-39	35.081625	36.0	36.0	36.0	36.0	36.0
40-41	35.15475	36.0	36.0	36.0	36.0	36.0
42-43	35.087375	36.0	36.0	36.0	36.0	36.0
44-45	34.9205	36.0	36.0	36.0	36.0	36.0
46-47	35.1545	36.0	36.0	36.0	36.0	36.0
48-49	35.13575	36.0	36.0	36.0	36.0	36.0
50-51	34.918375	36.0	36.0	36.0	34.0	36.0
52-53	34.984875	36.0	36.0	36.0	36.0	36.0
54-55	34.76975	36.0	36.0	36.0	36.0	36.0
56-57	34.3985	36.0	36.0	36.0	32.0	36.0
58-59	34.416	36.0	36.0	36.0	32.0	36.0
60-61	34.134125	36.0	36.0	36.0	32.0	36.0
62-63	34.038875000000004	36.0	36.0	36.0	32.0	36.0
64-65	34.01875	36.0	36.0	36.0	32.0	36.0
66-67	34.028875	36.0	36.0	36.0	32.0	36.0
68-69	34.221374999999995	36.0	36.0	36.0	32.0	36.0
70-71	34.230374999999995	36.0	36.0	36.0	32.0	36.0
72-73	34.341499999999996	36.0	36.0	36.0	32.0	36.0
74-75	34.306875000000005	36.0	36.0	36.0	32.0	36.0
76-77	34.49475	36.0	36.0	36.0	32.0	36.0
78-79	34.493375	36.0	36.0	36.0	32.0	36.0
80-81	34.577875	36.0	36.0	36.0	32.0	36.0
82-83	34.56425	36.0	36.0	36.0	32.0	36.0
84-85	34.537625000000006	36.0	36.0	36.0	32.0	36.0
86	33.95275	36.0	36.0	36.0	32.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
21	2.0
22	2.0
23	2.0
24	6.0
25	12.0
26	22.0
27	24.0
28	50.0
29	61.0
30	84.0
31	119.0
32	128.0
33	240.0
34	558.0
35	2690.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	25.8	24.425	28.499999999999996	21.275
2	21.675	23.200000000000003	25.2	29.925
3	23.575	30.85	17.95	27.625
4	29.099999999999998	34.475	17.7	18.725
5	20.1	24.425	26.724999999999998	28.749999999999996
6	25.275	22.7	32.675	19.35
7	37.1	31.474999999999998	16.175	15.25
8	19.525000000000002	24.675	37.175000000000004	18.625
9	22.375	32.775	17.424999999999997	27.425
10-11	35.1375	23.962500000000002	23.962500000000002	16.9375
12-13	19.75	20.875	25.6	33.775
14-15	32.625	38.2625	16.1875	12.925
16-17	22.5	19.4625	35.7625	22.275
18-19	39.6	20.6875	22.2125	17.5
20-21	23.474999999999998	33.8125	27.037499999999998	15.675
22-23	31.4	38.25	15.937499999999998	14.4125
24-25	32.5125	35.5375	16.025	15.925
26-27	25.587500000000002	33.050000000000004	20.7	20.6625
28-29	31.324999999999996	29.6375	16.8125	22.225
30-31	31.175000000000004	35.9	11.450000000000001	21.475
32-33	31.5125	37.3875	11.575000000000001	19.525000000000002
34-35	30.675	31.525	14.075	23.724999999999998
36-37	28.212500000000002	35.099999999999994	10.274999999999999	26.4125
38-39	25.565695711963997	34.66683335416927	12.176522065258158	27.590948868608578
40-41	27.240905113139142	30.116264533066634	15.426928366045756	27.21590198774847
42-43	26.950000000000003	28.849999999999998	17.675	26.525
44-45	22.162499999999998	33.550000000000004	14.725	29.562500000000004
46-47	19.8375	30.4875	15.4875	34.1875
48-49	16.6375	26.525	18.3	38.5375
50-51	16.377047130891363	27.84098012251531	20.165020627578446	35.616952119014876
52-53	21.6875	22.5	23.3125	32.5
54-55	16.225	27.875	21.0625	34.8375
56-57	16.662499999999998	23.0375	21.6	38.7
58-59	18.325	26.924999999999997	21.9	32.85
60-61	22.2125	21.4125	29.175	27.200000000000003
62-63	17.8	23.325000000000003	30.662499999999998	28.212500000000002
64-65	16.400000000000002	20.6375	30.6375	32.324999999999996
66-67	20.2875	16.2	32.1	31.412499999999998
68-69	20.1625	17.4625	35.199999999999996	27.175
70-71	22.7125	16.900000000000002	36.762499999999996	23.625
72-73	21.2625	14.9375	35.0125	28.787499999999998
74-75	23.2625	10.25	36.125	30.362499999999997
76-77	20.075000000000003	9.9	39.050000000000004	30.975
78-79	16.225	12.612499999999999	44.3375	26.825
80-81	21.5625	13.1375	38.725	26.575
82-83	19.662499999999998	17.599999999999998	33.4875	29.25
84-85	21.025	20.3125	36.8875	21.775
86	21.6	26.674999999999997	29.849999999999998	21.875
>>END_MODULE
>>Per sequence GC content	warn
#GC Content	Count
0	0.0
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	0.5
32	0.5
33	0.0
34	0.0
35	0.0
36	0.0
37	0.5
38	2.5
39	4.5
40	5.5
41	9.5
42	29.0
43	45.0
44	68.5
45	148.5
46	242.0
47	403.0
48	590.0
49	653.0
50	653.0
51	561.0
52	427.5
53	325.5
54	194.0
55	115.0
56	97.5
57	88.0
58	67.0
59	32.5
60	11.0
61	2.0
62	2.5
63	2.5
64	1.0
65	1.0
66	0.5
67	0.0
68	0.0
69	0.0
70	0.0
71	0.0
72	0.0
73	0.0
74	0.0
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	0.5
96	1.0
97	0.5
98	0.5
99	0.5
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
10-11	0.0
12-13	0.0
14-15	0.0
16-17	0.0
18-19	0.0
20-21	0.0
22-23	0.0
24-25	0.0
26-27	0.0
28-29	0.0
30-31	0.0
32-33	0.0
34-35	0.0
36-37	0.0
38-39	0.0125
40-41	0.0125
42-43	0.0
44-45	0.0
46-47	0.0
48-49	0.0
50-51	0.0125
52-53	0.0
54-55	0.0
56-57	0.0
58-59	0.0
60-61	0.0
62-63	0.0
64-65	0.0
66-67	0.0
68-69	0.0
70-71	0.0
72-73	0.0
74-75	0.0
76-77	0.0
78-79	0.0
80-81	0.0
82-83	0.0
84-85	0.0
86	0.0
>>END_MODULE
>>Sequence Length Distribution	pass
#Length	Count
86	4000.0
>>END_MODULE
>>Sequence Duplication Levels	warn
#Total Deduplicated Percentage	60.324999999999996
#Duplication Level	Percentage of deduplicated	Percentage of total
1	86.69705760464153	52.300000000000004
2	5.63613758806465	6.800000000000001
3	1.9063406547865727	3.45
4	1.6162453377538335	3.9
5	0.9946125155408205	3.0
6	0.6216328222130129	2.25
7	0.45586406962287607	1.925
8	0.29009531703273933	1.4000000000000001
9	0.24865312888520513	1.35
>10	1.4090343970161625	15.575
>50	0.08288437629506838	2.8000000000000003
>100	0.04144218814753419	5.25
>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
CTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCC	210	5.25	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
CTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCA	60	1.5	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
ATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAAC	52	1.3	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TCCATTGTCGTCTAGTCCGGTTAGGATAAGATCGGAAGAGCACACGTCTG	38	0.95	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
TCCGTTGTAGTCTAGCTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	36	0.8999999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
GAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	32	0.8	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
TCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACT	29	0.7250000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GCGTCTGTAGTCCAACGGTTAGGATAATTGCCAGATCGGAAGAGCACACG	28	0.7000000000000001	No Hit
AGGGCTATAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCGA	26	0.65	TruSeq Adapter, Index 2 (100% over 36bp)
AACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAG	25	0.625	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCAGATCGGAAGAGCACACGTC	22	0.5499999999999999	No Hit
CTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAG	20	0.5	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GGGGATGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCGA	20	0.5	TruSeq Adapter, Index 2 (100% over 36bp)
TCCATTGTCGTCTAGTCCGGTTAGGATATCTGGCTAGATCGGAAGAGCAC	20	0.5	No Hit
ACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	20	0.5	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
TAATTCATGATCTGGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	20	0.5	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGAGATCGGAAGAGCAC	20	0.5	No Hit
TCCGTTGTAGTCTAGCTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	20	0.5	No Hit
TCCGTTGTAGTCTAGTCGGTTAGGATACTCAGATCGGAAGAGCACACGTC	19	0.475	No Hit
TCCATTGTCGTCTAGTCCGGTTAGGATATCTAGATCGGAAGAGCACACGT	18	0.44999999999999996	No Hit
TAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCA	18	0.44999999999999996	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
CCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGT	16	0.4	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCAGATCGGAAGAGCACAC	15	0.375	No Hit
CGACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACT	14	0.35000000000000003	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TCCGTTGTAGTCTAGTTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	14	0.35000000000000003	No Hit
TATTCTGGTGTCCTAGGCGTAGAGGAACCACAAGATCGGAAGAGCACACG	14	0.35000000000000003	No Hit
TCCATTGTCGTCTAGTCCGGTTAGGATATCTGGCAGATCGGAAGAGCACA	13	0.325	No Hit
AACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCGAT	12	0.3	TruSeq Adapter, Index 2 (100% over 37bp)
GCGACCCCAGGTCAGTCGGGACTAGATCGGAAGAGCACACGTCTGAACTC	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
ATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACT	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TCCATTGTCGTCTAGTCCGGTTAGGATAGATCGGAAGAGCACACGTCTGA	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAGATCGGAAGAGCACA	10	0.25	No Hit
AAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
GAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
CTAACGAACGAACGATTTGAATAGATCGGAAGAGCACACGTCTGAACTCC	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GCCGCCATGGTGAAATTGGTAGACACGCTGCTCTTAGATCGGAAGAGCAC	10	0.25	No Hit
AACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
CACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTCCA	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGT	9	0.22499999999999998	No Hit
TCAAAAGAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGATCGGAA	9	0.22499999999999998	No Hit
TGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGC	9	0.22499999999999998	No Hit
GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTGAGATCGGAAGAGCACA	9	0.22499999999999998	No Hit
CCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCT	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
GCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACAC	8	0.2	No Hit
TCCGTTGTAGTCTAGGTGGTTAGGATACTCAGATCGGAAGAGCACACGTC	8	0.2	No Hit
AGGGCTATAGCTCAGTTCGGTAGAGCAAGATCGGAAGAGCACACGTCTGA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
TTTGGATTGAAGGGAGCTCTGAGATCGGAAGAGCACACGTCTGAACTCCA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GGAGGTCCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCAC	8	0.2	No Hit
GCGACCCCAGGTCAGTCGGGACTACCCGCTAGATCGGAAGAGCACACGTC	8	0.2	No Hit
AGGGATGTAGCGCAGCTTGGTAGCGCTTTTGTTTTAGATCGGAAGAGCAC	8	0.2	No Hit
GCGAGCGTAGTTCAGTGGTAAAACATCTCCAGATCGGAAGAGCACACGTC	7	0.17500000000000002	No Hit
CGTCTGCCTGGGCGTCACGCAGATCGGAAGAGCACACGTCTGAACTCCAG	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
CAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
GCGAGCGTAGTTCAGTGGTAAAACATCTCCTTGCCAAGGAGAGATCGGAA	7	0.17500000000000002	No Hit
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCAGATCGGAAGAGCACAC	7	0.17500000000000002	No Hit
TCCATTGTCGTCCAGCCCGGTTAGGATACCTAGATCGGAAGAGCACACGT	7	0.17500000000000002	No Hit
GGGGATATGGCGAAATCGGTAGACGCTAGATCGGAAGAGCACACGTCTGA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTAGATCGGAAGAGCACA	7	0.17500000000000002	No Hit
GTCGTTGTAGTATAGTGGTGAGTATTCCCAGATCGGAAGAGCACACGTCT	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
TAATTCATGATCTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTC	7	0.17500000000000002	No Hit
CAGCCCCGCGTCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAACT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTAGATCGGAAGAGCA	6	0.15	No Hit
ATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCGATGTAT	6	0.15	TruSeq Adapter, Index 2 (100% over 41bp)
AACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
CATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
ACGTCTGCCTGGGCGTCACGCAGATCGGAAGAGCACACGTCTGAACTCCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GGGTGTTTGGTCTAGTGGTATGATTCTCAGATCGGAAGAGCACACGTCTG	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
GCGTTTGTAGTCCAACGGTTAGGATAATTGCCAGATCGGAAGAGCACACG	6	0.15	No Hit
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGAGATCGGAAGAGCACACGT	6	0.15	No Hit
CGACACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCAGATCGGAAG	6	0.15	No Hit
GACACGACTCTCGGCAACGGATATCTCGAGATCGGAAGAGCACACGTCTG	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
GTCGTTGTAGTATAGTGGTGAGTATTCCCGCCAGATCGGAAGAGCACACG	6	0.15	No Hit
TACCTGGTTGATCCTGCCAGTAGTCATATGCTTGTCTAGATCGGAAGAGC	6	0.15	No Hit
GCGTCTGTAGTCCAACGGTTAGGATAATTGCTAGATCGGAAGAGCACACG	6	0.15	No Hit
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGAGATCGGAAGAGCACACG	5	0.125	No Hit
CTAACGAACGAACGATTTGAACAAATCGGAAGAGCACACGTCTGAACTCC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (96% over 28bp)
AGGGATGTAGCGCAGCTTGGTAGCTTTTGTTTTAGATCGGAAGAGCACAC	5	0.125	No Hit
AAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAACTCCAG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCGATGTA	5	0.125	TruSeq Adapter, Index 2 (100% over 40bp)
CGACACGACTCTCGGCAACGGATATCTCGAGATCGGAAGAGCACACGTCT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
ACCCCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
AGGGATGTAGCGCAGCTTGGTAGCGCTTTTGTTTTGAGATCGGAAGAGCA	5	0.125	No Hit
AGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACA	5	0.125	No Hit
TAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
CCAGCCCCGCGTCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAAC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
GGGGATGTAGCTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCG	5	0.125	TruSeq Adapter, Index 2 (100% over 35bp)
CGACACGACTCTCGGCAACGGATATCTCGGCAGATCGGAAGAGCACACGT	5	0.125	No Hit
TCAAAAGAGGAAAGGCTTGCGGTGGATAGATCGGAAGAGCACACGTCTGA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
GGAGAGATGGCTGAGTGGACTAAAGCGGCGGATTAGATCGGAAGAGCACA	5	0.125	No Hit
GGGCATTTGGTCTAGTGGTATGATTCTCGAGATCGGAAGAGCACACGTCT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
GTCAGGATAGCTCAGTTGGTAGAGCAAGATCGGAAGAGCACACGTCTGAA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTAGATCGGAAGAGCACA	5	0.125	No Hit
CATATCGGGTAGGTTGTGGTATTTCATTGCTAGATCGGAAGAGCACACGT	5	0.125	No Hit
CACGACTCTCGGCAACGGATATCTCGGCAGATCGGAAGAGCACACGTCTG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
GCGACCCCAGGTCAGTCGGGAGATCGGAAGAGCACACGTCTGAACTCCAG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TCCATTGTCGTCTAGTCCGGTTAGGATATCTGGAGATCGGAAGAGCACAC	5	0.125	No Hit
GCACCAGTGGTCTAGTGGTAGAATAGTACCCAGATCGGAAGAGCACACGT	5	0.125	No Hit
CACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCAGATCGGAAGAGC	5	0.125	No Hit
>>END_MODULE
>>Adapter Content	fail
#Position	Illumina Universal Adapter	Illumina Small RNA 3' Adapter	Illumina Small RNA 5' Adapter	Nextera Transposase Sequence	SOLID Small RNA Adapter
1	0.05	0.0	0.0	0.0	0.0
2	0.05	0.0	0.0	0.0	0.0
3	0.1	0.0	0.0	0.0	0.0
4	0.1	0.0	0.0	0.0	0.0
5	0.15	0.0	0.0	0.0	0.0
6	0.325	0.0	0.0	0.0	0.0
7	0.375	0.0	0.0	0.0	0.0
8	0.475	0.0	0.0	0.0	0.0
9	0.725	0.0	0.0	0.0	0.0
10	0.925	0.0	0.0	0.0	0.0
11	1.25	0.0	0.0	0.0	0.0
12	1.8	0.0	0.0	0.0	0.0
13	2.575	0.0	0.0	0.0	0.0
14	4.8	0.0	0.0	0.0	0.0
15	6.125	0.0	0.0	0.0	0.0
16	7.175	0.0	0.0	0.0	0.0
17	9.575	0.0	0.0	0.0	0.0
18	12.1	0.0	0.0	0.0	0.0
19	13.85	0.0	0.0	0.0	0.0
20	16.8	0.0	0.0	0.0	0.0
21	20.65	0.0	0.0	0.0	0.0
22	26.225	0.0	0.0	0.0	0.0
23	36.175	0.0	0.0	0.0	0.0
24	39.125	0.0	0.0	0.0	0.0
25	45.875	0.0	0.0	0.0	0.0
26	50.15	0.0	0.0	0.0	0.0
27	53.675	0.0	0.0	0.0	0.0
28	57.425	0.0	0.0	0.0	0.0
29	61.125	0.0	0.0	0.0	0.0
30	64.1	0.0	0.0	0.0	0.0
31	69.45	0.0	0.0	0.0	0.0
32	73.8	0.0	0.0	0.0	0.0
33	77.675	0.0	0.0	0.0	0.0
34	80.7	0.0	0.0	0.0	0.0
35	84.15	0.0	0.0	0.0	0.0
36	88.225	0.0	0.0	0.0	0.0
37	89.975	0.0	0.0	0.0	0.0
38	91.4	0.0	0.0	0.0	0.0
39	92.15	0.0	0.0	0.0	0.0
40	92.925	0.0	0.0	0.0	0.0
41	93.7	0.0	0.0	0.0	0.0
42	94.6	0.0	0.0	0.0	0.0
43	94.925	0.0	0.0	0.0	0.0
44	95.175	0.0	0.0	0.0	0.0
45	95.25	0.0	0.0	0.0	0.0
46	95.375	0.0	0.0	0.0	0.0
47	95.45	0.0	0.0	0.0	0.0
48	95.45	0.0	0.0	0.0	0.0
49	95.6	0.0	0.0	0.0	0.0
50	95.675	0.0	0.0	0.0	0.0
51	95.725	0.0	0.0	0.0	0.0
52	95.725	0.0	0.0	0.0	0.0
53	95.75	0.0	0.0	0.0	0.0
54	95.75	0.0	0.0	0.0	0.0
55	95.75	0.0	0.0	0.0	0.0
56	95.75	0.0	0.0	0.0	0.0
57	95.75	0.0	0.0	0.0	0.0
58	95.75	0.0	0.0	0.0	0.0
59	95.75	0.0	0.0	0.0	0.0
60	95.75	0.0	0.0	0.0	0.0
61	95.75	0.0	0.0	0.0	0.0
62	95.75	0.0	0.0	0.0	0.0
63	95.75	0.0	0.0	0.0	0.0
64	95.75	0.0	0.0	0.0	0.0
65	95.75	0.0	0.0	0.0	0.0
66	95.75	0.0	0.0	0.0	0.0
67	95.75	0.0	0.0	0.0	0.0
68	95.75	0.0	0.0	0.0	0.0
69	95.75	0.0	0.0	0.0	0.0
70	95.75	0.0	0.0	0.0	0.0
71	95.75	0.0	0.0	0.0	0.0
72	95.75	0.0	0.0	0.0	0.0
73	95.75	0.0	0.0	0.0	0.0
74	95.75	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	fail
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
TTGTCGT	40	2.5465852E-11	80.00001	5
CATTGTC	40	2.5465852E-11	80.00001	3
AGCTCAG	15	0.0012159165	80.00001	9
TAGCTCA	15	0.0012159165	80.00001	8
CCGTTGT	20	3.6123936E-5	80.00001	2
TAGTCTA	20	3.6123936E-5	80.00001	8
ATTGTCG	40	2.5465852E-11	80.00001	4
CCATTGT	40	2.5465852E-11	80.00001	2
TGTAGTC	30	3.1202944E-8	80.00001	6
TCCATTG	40	2.5465852E-11	80.00001	1
TCCGTTG	20	3.6123936E-5	80.00001	1
AGTCTAG	20	3.6123936E-5	80.00001	9
TGTCGTC	40	2.5465852E-11	80.00001	6
GTAGTCT	20	3.6123936E-5	80.00001	7
TTGTAGT	25	1.0653384E-6	80.0	5
GTCGTCT	35	9.076757E-10	80.0	7
TCGTCTA	35	9.076757E-10	80.0	8
CGTTGTA	25	1.0653384E-6	80.0	3
CGTCTAG	35	9.076757E-10	80.0	9
GTTGTAG	25	1.0653384E-6	80.0	4
>>END_MODULE
Rejected 230630 READS because READLEN < 1
Read 230630 spots for SRR11699526.sra
Written 230630 spots for SRR11699526.sra
Rejected 230630 READS because READLEN < 1
Read 230630 spots for SRR11699526.sra
Written 230630 spots for SRR11699526.sra
Rejected 230630 READS because READLEN < 1
Read 230630 spots for SRR11699526.sra
Written 230630 spots for SRR11699526.sra
Rejected 230630 READS because READLEN < 1
Read 230630 spots for SRR11699526.sra
Written 230630 spots for SRR11699526.sra
Rejected 230630 READS because READLEN < 1
Read 230630 spots for SRR11699526.sra
Written 230630 spots for SRR11699526.sra
Rejected 230630 READS because READLEN < 1
Read 230630 spots for SRR11699526.sra
Written 230630 spots for SRR11699526.sra
Rejected 230630 READS because READLEN < 1
Read 230630 spots for SRR11699526.sra
Written 230630 spots for SRR11699526.sra
Rejected 230630 READS because READLEN < 1
Read 230630 spots for SRR11699526.sra
Written 230630 spots for SRR11699526.sra
Rejected 230630 READS because READLEN < 1
Read 230630 spots for SRR11699526.sra
Written 230630 spots for SRR11699526.sra
Rejected 230630 READS because READLEN < 1
Read 230630 spots for SRR11699526.sra
Written 230630 spots for SRR11699526.sra
Rejected 230630 READS because READLEN < 1
Read 230630 spots for SRR11699526.sra
Written 230630 spots for SRR11699526.sra
Rejected 230630 READS because READLEN < 1
Read 230630 spots for SRR11699526.sra
Written 230630 spots for SRR11699526.sra
Rejected 230630 READS because READLEN < 1
Read 230630 spots for SRR11699526.sra
Written 230630 spots for SRR11699526.sra
Rejected 230630 READS because READLEN < 1
Read 230630 spots for SRR11699526.sra
Written 230630 spots for SRR11699526.sra
Rejected 230630 READS because READLEN < 1
Read 230630 spots for SRR11699526.sra
Written 230630 spots for SRR11699526.sra
Rejected 230630 READS because READLEN < 1
Read 230630 spots for SRR11699526.sra
Written 230630 spots for SRR11699526.sra
Rejected 230630 READS because READLEN < 1
Read 230630 spots for SRR11699526.sra
Written 230630 spots for SRR11699526.sra
Rejected 230639 READS because READLEN < 1
Read 230639 spots for SRR11699526.sra
Written 230639 spots for SRR11699526.sra
Rejected 230630 READS because READLEN < 1
Read 230630 spots for SRR11699526.sra
Written 230630 spots for SRR11699526.sra
Rejected 230630 READS because READLEN < 1
Read 230630 spots for SRR11699526.sra
Written 230630 spots for SRR11699526.sra
SRR ids: ['SRR11699526.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_rj9qhrjm
SRR11699526.sra spots: 4612609
blocks: [[1, 230630], [230631, 461260], [461261, 691890], [691891, 922520], [922521, 1153150], [1153151, 1383780], [1383781, 1614410], [1614411, 1845040], [1845041, 2075670], [2075671, 2306300], [2306301, 2536930], [2536931, 2767560], [2767561, 2998190], [2998191, 3228820], [3228821, 3459450], [3459451, 3690080], [3690081, 3920710], [3920711, 4151340], [4151341, 4381970], [4381971, 4612609]]
SRR11699526 file size 966298
SRR11699526 completed basic pipeline successfully
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	skewer -f sanger -l 18 -q 10 -k inf -t 20 -o SRR11699526 SRR11699526_1.fastq
Input file:	SRR11699526_1.fastq
trimmed:	SRR11699526-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	AGATCGGAAGAGCACACGTCTGAACTCCAGTCAC
-- 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 
-- minimum overlap length for adapter detection (-k):	inf
-- number of concurrent threads (-t):	20
Fri Jun 20 16:47:28 2025 >> started

Fri Jun 20 16:47:30 2025 >> done (2.325s)
4612609 reads processed; of these:
 585659 (12.70%) short reads filtered out after trimming by size control
   2805 ( 0.06%) empty reads filtered out after trimming by size control
4024145 (87.24%) reads available; of these:
4009962 (99.65%) trimmed reads available after processing
  14183 ( 0.35%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  97136	  2.41%
 19	 153737	  3.82%
 20	 176697	  4.39%
 21	 289535	  7.19%
 22	 529849	 13.17%
 23	 155716	  3.87%
 24	 291870	  7.25%
 25	 191078	  4.75%
 26	 155830	  3.87%
 27	 201472	  5.01%
 28	 186659	  4.64%
 29	 140169	  3.48%
 30	 257331	  6.39%
 31	 180590	  4.49%
 32	 149663	  3.72%
 33	 137986	  3.43%
 34	 145123	  3.61%
 35	 195663	  4.86%
 36	  96938	  2.41%
 37	  64418	  1.60%
 38	  43522	  1.08%
 39	  37160	  0.92%
 40	  25893	  0.64%
 41	  37660	  0.94%
 42	  17692	  0.44%
 43	  14161	  0.35%
 44	   9074	  0.23%
 45	   9161	  0.23%
 46	   5326	  0.13%
 47	   3552	  0.09%
 48	   4390	  0.11%
 49	   1884	  0.05%
 50	   1164	  0.03%
 51	    814	  0.02%
 52	    435	  0.01%
 53	    370	  0.01%
 54	    240	  0.01%
 55	      0	  0.00%
 56	      0	  0.00%
 57	      0	  0.00%
 58	      0	  0.00%
 59	      0	  0.00%
 60	      0	  0.00%
 61	      0	  0.00%
 62	      0	  0.00%
 63	      0	  0.00%
 64	      0	  0.00%
 65	      0	  0.00%
 66	      0	  0.00%
 67	      0	  0.00%
 68	      0	  0.00%
 69	      0	  0.00%
 70	      0	  0.00%
 71	      0	  0.00%
 72	      0	  0.00%
 73	      0	  0.00%
 74	      0	  0.00%
 75	      0	  0.00%
 76	      0	  0.00%
 77	      0	  0.00%
 78	      0	  0.00%
 79	      0	  0.00%
 80	      0	  0.00%
 81	      0	  0.00%
 82	      0	  0.00%
 83	      0	  0.00%
 84	      0	  0.00%
 85	      4	  0.00%
 86	  14183	  0.35%
4024145 reads passed initial QC


criterion=sequence-density
sequence-density=5.31
sequence-density-rank=1
fanout-score=1.00
fanout-score-rank=11
prefix-density=0.01
prefix-fanout=1.0
sequence=TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTCACCCGAA


criterion=fanout-score
sequence-density=0.43
sequence-density-rank=22
fanout-score=41.69
fanout-score-rank=1
prefix-density=6.40
prefix-fanout=2.8
sequence=GGTTAGGATACCTGGCTTT
Potential 3prime adapter identified. Now checking if in reference sequence
Warning: gzbuffer added in zlib v1.2.3.5. Unable to change buffer size from default of 8192.
1 reads; of these:
  1 (100.00%) were unpaired; of these:
    0 (0.00%) aligned 0 times
    0 (0.00%) aligned exactly 1 time
    1 (100.00%) aligned >1 times
100.00% overall alignment rate
Potential adapter found in reference sequence. Continuing without clipping.
                                 Started job on |	Jun 20 16:48:04
                             Started mapping on |	Jun 20 16:48:04
                                    Finished on |	Jun 20 16:48:22
       Mapping speed, Million of reads per hour |	804.83

                          Number of input reads |	4024145
                      Average input read length |	27
                                    UNIQUE READS:
                   Uniquely mapped reads number |	341307
                        Uniquely mapped reads % |	8.48%
                          Average mapped length |	25.08
                       Number of splices: Total |	6712
            Number of splices: Annotated (sjdb) |	2634
                       Number of splices: GT/AG |	6103
                       Number of splices: GC/AG |	466
                       Number of splices: AT/AC |	4
               Number of splices: Non-canonical |	139
                      Mismatch rate per base, % |	1.00%
                         Deletion rate per base |	0.01%
                        Deletion average length |	1.34
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.24
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	540921
             % of reads mapped to multiple loci |	13.44%
        Number of reads mapped to too many loci |	1046948
             % of reads mapped to too many loci |	26.02%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	4.88%
                     % of reads unmapped: other |	47.18%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	3141917	3141917	3141917
N_multimapping	540921	540921	540921
N_noFeature	288474	297659	330539
N_ambiguous	1615	31	13
UnstrandedReadsAssigned:51218 PositiveStrandReadsAssigned:43617 NegativeStrandReadsAssigned:10755
Dataset is classified unstranded
MeadianReadLen=26 20thPercentileLength=22 echo kmer=19
SRR11699526 Starting Kallisto single end mapping to ensembl reference transcriptome. kmer=19

[quant] fragment length distribution is truncated gaussian with mean = 100, sd = 20
[index] k-mer length: 19
[index] number of targets: 72,539
[index] number of k-mers: 56,563,136
[index] number of equivalence classes: 414,827
[quant] running in single-end mode
[quant] will process file 1: SRR11699526-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 4,024,145 reads, 776,545 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 844 rounds

  72540 SRR11699526.ke.tsv
  44303 SRR11699526.se.tsv
 116843 total
==> SRR11699526.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Zm00001eb096110_T001	2067	1968	0	0
Zm00001eb321680_T001	3417	3318	5	2.16077
Zm00001eb323640_T001	3273	3174	0	0
Zm00001eb314140_T001	893	794	0	0
Zm00001eb080260_T001	3529	3430	0	0
Zm00001eb026490_T001	2433	2334	0	0
Zm00001eb026490_T002	2229	2130	0	0
Zm00001eb026490_T003	2220	2121	0	0
Zm00001eb281360_T001	2412	2313	0	0

==> SRR11699526.se.tsv <==
Zm00001eb015280	0
Zm00001eb000610	0
Zm00001eb033210	0
Zm00001eb044610	0
Zm00001eb014360	0
Zm00001eb051320	1
Zm00001eb021860	0
Zm00001eb011690	0
Zm00001eb016840	0
Zm00001eb052060	0
SRR11699526 completed mapping pipeline successfully
