Starting /dee2/code/volunteer_pipeline.sh SRR11699482
    current disk space = 2473946374144
    free memory = 434865856 
SRR11699482 SRAfilesize
afc282a58f77b06c52c49e7e33b4b522  SRR11699482.sra
SRR11699482.sra file validated
SRR11699482 is single end
SRR11699482 is conventional basespace
SRR11699482 read1 length is 86 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR11699482_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	31.44275	32.0	32.0	32.0	32.0	32.0
2	31.49925	32.0	32.0	32.0	32.0	32.0
3	31.53375	32.0	32.0	32.0	32.0	32.0
4	31.5625	32.0	32.0	32.0	32.0	32.0
5	31.53075	32.0	32.0	32.0	32.0	32.0
6	35.0225	36.0	36.0	36.0	36.0	36.0
7	35.1425	36.0	36.0	36.0	36.0	36.0
8	35.01375	36.0	36.0	36.0	36.0	36.0
9	34.898	36.0	36.0	36.0	32.0	36.0
10-11	35.058625	36.0	36.0	36.0	36.0	36.0
12-13	35.10875	36.0	36.0	36.0	36.0	36.0
14-15	35.07	36.0	36.0	36.0	36.0	36.0
16-17	35.105500000000006	36.0	36.0	36.0	36.0	36.0
18-19	35.12875	36.0	36.0	36.0	36.0	36.0
20-21	35.052625	36.0	36.0	36.0	36.0	36.0
22-23	35.0275	36.0	36.0	36.0	36.0	36.0
24-25	34.89275	36.0	36.0	36.0	36.0	36.0
26-27	34.82225	36.0	36.0	36.0	34.0	36.0
28-29	34.92725	36.0	36.0	36.0	36.0	36.0
30-31	34.967125	36.0	36.0	36.0	36.0	36.0
32-33	34.814750000000004	36.0	36.0	36.0	36.0	36.0
34-35	34.849000000000004	36.0	36.0	36.0	36.0	36.0
36-37	34.90775	36.0	36.0	36.0	36.0	36.0
38-39	34.942125000000004	36.0	36.0	36.0	36.0	36.0
40-41	34.972875	36.0	36.0	36.0	34.0	36.0
42-43	34.81375	36.0	36.0	36.0	36.0	36.0
44-45	34.774625	36.0	36.0	36.0	34.0	36.0
46-47	34.841125	36.0	36.0	36.0	32.0	36.0
48-49	34.896625	36.0	36.0	36.0	34.0	36.0
50-51	34.712125	36.0	36.0	36.0	32.0	36.0
52-53	34.664	36.0	36.0	36.0	32.0	36.0
54-55	34.280375	36.0	36.0	36.0	32.0	36.0
56-57	33.667125	36.0	36.0	36.0	27.0	36.0
58-59	33.270624999999995	36.0	32.0	36.0	27.0	36.0
60-61	33.096500000000006	36.0	36.0	36.0	24.0	36.0
62-63	33.072	36.0	34.0	36.0	24.0	36.0
64-65	32.28475	36.0	32.0	36.0	14.0	36.0
66-67	31.5505	36.0	32.0	36.0	14.0	36.0
68-69	31.286250000000003	36.0	32.0	36.0	14.0	36.0
70-71	31.049875	36.0	32.0	36.0	14.0	36.0
72-73	31.168374999999997	36.0	29.5	36.0	14.0	36.0
74-75	31.270125	36.0	32.0	36.0	14.0	36.0
76-77	31.528125	36.0	32.0	36.0	14.0	36.0
78-79	31.292499999999997	36.0	32.0	36.0	14.0	36.0
80-81	31.318625	36.0	32.0	36.0	14.0	36.0
82-83	31.55175	36.0	32.0	36.0	14.0	36.0
84-85	31.614625	36.0	32.0	36.0	14.0	36.0
86	28.35825	36.0	14.0	36.0	14.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
21	3.0
22	0.0
23	12.0
24	15.0
25	18.0
26	46.0
27	68.0
28	75.0
29	128.0
30	139.0
31	237.0
32	303.0
33	552.0
34	1109.0
35	1295.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	26.775	26.625	23.549999999999997	23.05
2	25.924999999999997	23.974999999999998	26.424999999999997	23.674999999999997
3	28.7	33.300000000000004	14.549999999999999	23.45
4	28.225	36.125	16.425	19.225
5	19.275000000000002	24.175	25.75	30.8
6	25.6064016004001	22.13053263315829	31.08277069267317	21.180295073768445
7	33.5	34.599999999999994	17.0	14.899999999999999
8	19.475	26.375	35.625	18.525
9	20.925	36.275	17.025000000000002	25.775
10-11	33.074999999999996	25.124999999999996	25.4625	16.3375
12-13	19.2	21.1625	26.025	33.6125
14-15	30.65	40.4125	15.712499999999999	13.225000000000001
16-17	20.674999999999997	22.1375	36.975	20.2125
18-19	39.7375	21.525	23.474999999999998	15.262500000000001
20-21	20.6875	36.2125	25.6	17.5
22-23	32.8625	39.275	12.9	14.9625
24-25	29.975	41.05	15.925	13.05
26-27	26.67833479184898	31.691461432679084	19.08988623577947	22.540317539692463
28-29	36.325	28.037499999999998	13.450000000000001	22.1875
30-31	32.800000000000004	39.574999999999996	8.725	18.9
32-33	30.85	39.35	9.2625	20.5375
34-35	32.8125	31.112499999999997	11.7875	24.2875
36-37	25.1	35.975	9.3	29.625
38-39	24.474999999999998	34.325	11.2375	29.9625
40-41	24.7375	27.962500000000002	17.712500000000002	29.5875
42-43	24.349999999999998	24.837500000000002	22.4375	28.375
44-45	21.9625	33.287499999999994	15.712499999999999	29.037499999999998
46-47	18.0625	30.625000000000004	16.775000000000002	34.5375
48-49	14.9875	23.95	19.400000000000002	41.6625
50-51	16.889611201400175	28.92861607700963	16.927115889486185	37.25465683210401
52-53	21.915239404925615	23.96549568696087	22.515314414301788	31.603950493811727
54-55	15.962499999999999	30.575000000000003	18.025	35.4375
56-57	17.65	24.637500000000003	16.9875	40.725
58-59	26.6625	25.0	16.375	31.9625
60-61	19.162499999999998	34.887499999999996	21.9	24.05
62-63	15.9125	32.887499999999996	27.5875	23.6125
64-65	14.564320540067508	23.92799099887486	30.54131766470809	30.966370796349548
66-67	19.125	17.7625	30.8	32.3125
68-69	20.19002375296912	20.15251906488311	33.429178647330914	26.22827853481685
70-71	20.349999999999998	20.25	36.512499999999996	22.8875
72-73	21.702712839104887	15.676959619952493	31.166395799474934	31.453931741467684
74-75	23.252906613326665	10.888861107638455	32.96662082760345	32.89161145143143
76-77	19.78997374671834	8.426053256657081	39.19239904988123	32.59157394674334
78-79	14.026753344168021	10.563820477559695	46.98087260907614	28.42855356919615
80-81	19.554888722180543	13.190797699424856	40.99774943735934	26.25656414103526
82-83	18.97974493623406	18.65466366591648	33.18329582395599	29.182295573893473
84-85	19.142285571392847	23.030757689422355	37.62190547636909	20.205051262815704
86	20.260130065032516	32.79139569784893	30.890445222611305	16.05802901450725
>>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	0.0
32	0.0
33	0.0
34	0.5
35	1.0
36	1.0
37	2.0
38	2.0
39	2.5
40	5.5
41	12.0
42	30.5
43	44.0
44	96.0
45	198.0
46	295.0
47	452.0
48	609.5
49	611.5
50	566.0
51	511.0
52	421.0
53	321.0
54	192.0
55	104.5
56	63.5
57	46.0
58	36.5
59	18.5
60	7.5
61	3.0
62	1.0
63	1.0
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	0.0
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	0.025
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	0.0125
28-29	0.0
30-31	0.0
32-33	0.0
34-35	0.0
36-37	0.0
38-39	0.0
40-41	0.0
42-43	0.0
44-45	0.0
46-47	0.0
48-49	0.0
50-51	0.0125
52-53	0.0125
54-55	0.0
56-57	0.0
58-59	0.0
60-61	0.0
62-63	0.0
64-65	0.0125
66-67	0.0
68-69	0.0125
70-71	0.0
72-73	0.0125
74-75	0.0125
76-77	0.0125
78-79	0.0125
80-81	0.025
82-83	0.025
84-85	0.025
86	0.05
>>END_MODULE
>>Sequence Length Distribution	pass
#Length	Count
86	4000.0
>>END_MODULE
>>Sequence Duplication Levels	warn
#Total Deduplicated Percentage	60.02499999999999
#Duplication Level	Percentage of deduplicated	Percentage of total
1	87.67180341524364	52.625
2	5.5810079133694295	6.7
3	1.7909204498125781	3.225
4	0.9579341940857976	2.3
5	0.9162848812994586	2.75
6	0.7080383173677633	2.55
7	0.41649312786339027	1.7500000000000002
8	0.3748438150770512	1.7999999999999998
9	0.3748438150770512	2.025
>10	1.0412328196584755	12.675
>50	0.12494793835901709	5.475
>100	0.04164931278633903	6.125
>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	245	6.125	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
CTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCA	96	2.4	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TCCGTTGTAGTCTAGCTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	70	1.7500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
TAATTCATGATCTGGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	53	1.325	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
ATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAAC	47	1.175	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
GGGGATGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCGG	38	0.95	TruSeq Adapter, Index 7 (97% over 36bp)
GCGTCTGTAGTCCAACGGTTAGGATAATTGCCAGATCGGAAGAGCACACG	35	0.8750000000000001	No Hit
AGGGCTATAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCGG	32	0.8	TruSeq Adapter, Index 7 (97% over 36bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGAGATCGGAAGAGCAC	27	0.675	No Hit
GAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	25	0.625	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
CCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGT	22	0.5499999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
CTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAG	22	0.5499999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCAGATCGGAAGAGCACAC	21	0.525	No Hit
AACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	21	0.525	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
AACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAG	21	0.525	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TCCGTTGTAGTCTAGCTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	18	0.44999999999999996	No Hit
GGGATTGTAGTTCAATTAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	17	0.42500000000000004	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
TCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACT	16	0.4	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GGGGATGTAGCTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCG	16	0.4	TruSeq Adapter, Index 2 (100% over 35bp)
TAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCA	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GGGATTGTAGTTCAATTGGTCAGAGCAGATCGGAAGAGCACACGTCTGAA	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
ACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	14	0.35000000000000003	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTAGATCGGAAGAGCACA	14	0.35000000000000003	No Hit
GCGACCCCAGGTCAGTCGGGACTAGATCGGAAGAGCACACGTCTGAACTC	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
ATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACT	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGT	12	0.3	No Hit
GACACGACTCTCGGCAACGGATATCTCGGCAGATCGGAAGAGCACACGTC	12	0.3	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCCAGATCGGAAGAGCACA	11	0.27499999999999997	No Hit
GACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTC	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
AACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
CGACACGACTCTCGGCAACGAGATCGGAAGAGCACACGTCTGAACTCCAG	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
CTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTG	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
AAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
TTTGGATTGAAGGGAGCTCTGAGATCGGAAGAGCACACGTCTGAACTCCA	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCAGATCGGAAGAGCACACGTCT	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
GCGTTTGTAGTCCAACGGTTAGGATAATTGCCAGATCGGAAGAGCACACG	9	0.22499999999999998	No Hit
TCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTC	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTC	9	0.22499999999999998	No Hit
CACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTCCA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
CAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCAGATCGGAAGAGCACACGTC	8	0.2	No Hit
GGGGACGTAGCTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCG	8	0.2	TruSeq Adapter, Index 2 (100% over 35bp)
CACCCCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GGAGGTCCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCAC	8	0.2	No Hit
GGGTGTTTGGTCTAGTGGTATGATTCTCAGATCGGAAGAGCACACGTCTG	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
TAATTCATGATCTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
CAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCAC	8	0.2	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCAGATCGGAAGAGCACACG	7	0.17500000000000002	No Hit
TCCACAGGCTTTCTTGAACTGAGATCGGAAGAGCACACGTCTGAACTCCA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCAGATCGGAAGAGCACAC	7	0.17500000000000002	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCAAGATCGGAAGAGCACACGTCTGA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
CTAACGAACGAACGATTTGAATAGATCGGAAGAGCACACGTCTGAACTCC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TGAGGCATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTC	7	0.17500000000000002	No Hit
GCGTCTGTAGTCCAACGGTTAGGATAATTGCAGATCGGAAGAGCACACGT	7	0.17500000000000002	No Hit
GACACGACTCTCGGCAACGGATATCTCGAGATCGGAAGAGCACACGTCTG	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
AGATCATGTTGCAGCTTCACTAGATCGGAAGAGCACACGTCTGAACTCCA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GCCCCCATCGTCTAGTGGTTCAGGACAAGATCGGAAGAGCACACGTCTGA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
GCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACAC	6	0.15	No Hit
GGTAGTTCGACCGTGGATTAGATCGGAAGAGCACACGTCTGAACTCCAGT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
CGACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAGATCGGAAGAGCACA	6	0.15	No Hit
CGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCG	6	0.15	TruSeq Adapter, Index 2 (100% over 35bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTCAGATCGGAAGAGC	6	0.15	No Hit
GGGATTGTAGTTCAATTGGTCAGAAGATCGGAAGAGCACACGTCTGAACT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GCGAGCGTAGTTCAGTGGTAAAACATCTCCTTGCCAAGGAGAGATCGGAA	6	0.15	No Hit
CCAGCCCCGCGTCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAAC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
AACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCGGA	6	0.15	TruSeq Adapter, Index 7 (97% over 37bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTAGATCGGAAGAGCACA	6	0.15	No Hit
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGAGATCGGAAGAGCACACGT	6	0.15	No Hit
GCGAGCGTAGTTCAGTGGTAAAACATCTCCTTGAGATCGGAAGAGCACAC	6	0.15	No Hit
GCGACCCCAGGTCAGTCGGGAGATCGGAAGAGCACACGTCTGAACTCCAG	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TCCGTTGTAGTCTAGCTGGTCAGGATAGATCGGAAGAGCACACGTCTGAA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
GCGACCCCAGGTCAGTCGGGACTACCCGCTAGATCGGAAGAGCACACGTC	6	0.15	No Hit
TCCGTTGTAGTCTAGTTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	6	0.15	No Hit
CGACACGACTCTCGGCAACGGAGATCGGAAGAGCACACGTCTGAACTCCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
CAGCCCCGCGTCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAACT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTAGATCGGAAGAGCA	5	0.125	No Hit
GGGCATTTGGTCTAGTGGTATGATTCTCGCAGATCGGAAGAGCACACGTC	5	0.125	No Hit
GGGATTGTAGTTCAATCGGAAGAGCACACGTCTGAACTCCAGTCACCGGA	5	0.125	TruSeq Adapter, Index 2 (97% over 35bp)
TTACTAATTCATGATCTGGCAGATCGGAAGAGCACACGTCTGAACTCCAG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TAAGTAGTAAGCCCACCCCAAGATGAGTGCTCTCTCAGATCGGAAGAGCA	5	0.125	No Hit
GGAGAGATGGCTGAGTGGACTAAAGCGGCGGATTGAGATCGGAAGAGCAC	5	0.125	No Hit
ATCCTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
CATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
CACGACTCTCGGCAACGGATATCTCGAGATCGGAAGAGCACACGTCTGAA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
ACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTCC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
CGACACGACTCTCGGCAACGGATATCTCGGCAGATCGGAAGAGCACACGT	5	0.125	No Hit
ATGCAAATCTAACGAAGTGCTCCTGGACGAGATCGGAAGAGCACACGTCT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
GGGCATTTGGTCTAGTGGTATGATTCTCGAGATCGGAAGAGCACACGTCT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
GCGAGCGTAGTTCAGTGGTAAAACATCTCAGATCGGAAGAGCACACGTCT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
GGGCCTGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCGG	5	0.125	TruSeq Adapter, Index 7 (97% over 36bp)
GACACGACTCTCGGCAACGGATATCTCGGCTAGATCGGAAGAGCACACGT	5	0.125	No Hit
CGACACGACTCTCGGCAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GCGTCTGTAGTCCAACGGTTAGGATAAGATCGGAAGAGCACACGTCTGAA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCACAAGATCGGAAGAGCACACG	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	0.025	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	0.125	0.0	0.0	0.0	0.0
5	0.125	0.0	0.0	0.0	0.0
6	0.125	0.0	0.0	0.0	0.0
7	0.15	0.0	0.0	0.0	0.0
8	0.175	0.0	0.0	0.0	0.0
9	0.3	0.0	0.0	0.0	0.0
10	0.375	0.0	0.0	0.0	0.0
11	0.475	0.0	0.0	0.0	0.0
12	0.825	0.0	0.0	0.0	0.0
13	1.35	0.0	0.0	0.0	0.0
14	4.0	0.0	0.0	0.0	0.0
15	5.575	0.0	0.0	0.0	0.0
16	7.025	0.0	0.0	0.0	0.0
17	10.55	0.0	0.0	0.0	0.0
18	13.45	0.0	0.0	0.0	0.0
19	15.375	0.0	0.0	0.0	0.0
20	18.475	0.0	0.0	0.0	0.0
21	22.4	0.0	0.0	0.0	0.0
22	30.125	0.0	0.0	0.0	0.0
23	43.225	0.0	0.0	0.0	0.0
24	47.6	0.0	0.0	0.0	0.0
25	55.825	0.0	0.0	0.0	0.0
26	59.6	0.0	0.0	0.0	0.0
27	62.85	0.0	0.0	0.0	0.0
28	67.525	0.0	0.0	0.0	0.0
29	70.65	0.0	0.0	0.0	0.0
30	73.7	0.0	0.0	0.0	0.0
31	77.35	0.0	0.0	0.0	0.0
32	80.175	0.0	0.0	0.0	0.0
33	82.925	0.0	0.0	0.0	0.0
34	85.25	0.0	0.0	0.0	0.0
35	87.725	0.0	0.0	0.0	0.0
36	90.3	0.0	0.0	0.0	0.0
37	91.625	0.0	0.0	0.0	0.0
38	92.625	0.0	0.0	0.0	0.0
39	93.4	0.0	0.0	0.0	0.0
40	93.8	0.0	0.0	0.0	0.0
41	94.1	0.0	0.0	0.0	0.0
42	94.475	0.0	0.0	0.0	0.0
43	94.675	0.0	0.0	0.0	0.0
44	94.825	0.0	0.0	0.0	0.0
45	94.9	0.0	0.0	0.0	0.0
46	94.975	0.0	0.0	0.0	0.0
47	94.975	0.0	0.0	0.0	0.0
48	95.025	0.0	0.0	0.0	0.0
49	95.05	0.0	0.0	0.0	0.0
50	95.05	0.0	0.0	0.0	0.0
51	95.075	0.0	0.0	0.0	0.0
52	95.1	0.0	0.0	0.0	0.0
53	95.1	0.0	0.0	0.0	0.0
54	95.125	0.0	0.0	0.0	0.0
55	95.125	0.0	0.0	0.0	0.0
56	95.15	0.0	0.0	0.0	0.0
57	95.15	0.0	0.0	0.0	0.0
58	95.15	0.0	0.0	0.0	0.0
59	95.15	0.0	0.0	0.0	0.0
60	95.15	0.0	0.0	0.0	0.0
61	95.15	0.0	0.0	0.0	0.0
62	95.15	0.0	0.0	0.0	0.0
63	95.15	0.0	0.0	0.0	0.0
64	95.15	0.0	0.0	0.0	0.0
65	95.15	0.0	0.0	0.0	0.0
66	95.15	0.0	0.0	0.0	0.0
67	95.15	0.0	0.0	0.0	0.0
68	95.15	0.0	0.0	0.0	0.0
69	95.15	0.0	0.0	0.0	0.0
70	95.15	0.0	0.0	0.0	0.0
71	95.15	0.0	0.0	0.0	0.0
72	95.15	0.0	0.0	0.0	0.0
73	95.15	0.0	0.0	0.0	0.0
74	95.15	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
GGATGTA	15	0.0012159165	80.00001	3
CATGATC	15	0.0012159165	80.00001	6
TTCATGA	15	0.0012159165	80.00001	4
GTGTCCT	15	0.0012159165	80.00001	8
TGTCCTA	15	0.0012159165	80.00001	9
TTGTAGT	20	3.6123936E-5	80.00001	5
AATTCAT	15	0.0012159165	80.00001	2
TGATCTG	15	0.0012159165	80.00001	8
GATGTAG	15	0.0012159165	80.00001	4
GGATTGT	15	0.0012159165	80.00001	2
GATTGTA	15	0.0012159165	80.00001	3
TAGTTCA	20	3.6123936E-5	80.00001	8
ATTGTAG	15	0.0012159165	80.00001	4
GATCTGG	15	0.0012159165	80.00001	9
TGTAGTT	20	3.6123936E-5	80.00001	6
TCATGAT	15	0.0012159165	80.00001	5
GGGATTG	15	0.0012159165	80.00001	1
GGGATGT	15	0.0012159165	80.00001	2
ATGTAGC	15	0.0012159165	80.00001	5
ATTCATG	15	0.0012159165	80.00001	3
>>END_MODULE
Rejected 387859 READS because READLEN < 1
Read 387859 spots for SRR11699482.sra
Written 387859 spots for SRR11699482.sra
Rejected 387859 READS because READLEN < 1
Read 387859 spots for SRR11699482.sra
Written 387859 spots for SRR11699482.sra
Rejected 387859 READS because READLEN < 1
Read 387859 spots for SRR11699482.sra
Written 387859 spots for SRR11699482.sra
Rejected 387859 READS because READLEN < 1
Read 387859 spots for SRR11699482.sra
Written 387859 spots for SRR11699482.sra
Rejected 387859 READS because READLEN < 1
Read 387859 spots for SRR11699482.sra
Written 387859 spots for SRR11699482.sra
Rejected 387859 READS because READLEN < 1
Read 387859 spots for SRR11699482.sra
Written 387859 spots for SRR11699482.sra
Rejected 387859 READS because READLEN < 1
Read 387859 spots for SRR11699482.sra
Written 387859 spots for SRR11699482.sra
Rejected 387859 READS because READLEN < 1
Read 387859 spots for SRR11699482.sra
Written 387859 spots for SRR11699482.sra
Rejected 387859 READS because READLEN < 1
Read 387859 spots for SRR11699482.sra
Written 387859 spots for SRR11699482.sra
Rejected 387859 READS because READLEN < 1
Read 387859 spots for SRR11699482.sra
Written 387859 spots for SRR11699482.sra
Rejected 387859 READS because READLEN < 1
Read 387859 spots for SRR11699482.sra
Written 387859 spots for SRR11699482.sra
Rejected 387863 READS because READLEN < 1
Read 387863 spots for SRR11699482.sra
Written 387863 spots for SRR11699482.sra
Rejected 387859 READS because READLEN < 1
Read 387859 spots for SRR11699482.sra
Written 387859 spots for SRR11699482.sra
Rejected 387859 READS because READLEN < 1
Read 387859 spots for SRR11699482.sra
Written 387859 spots for SRR11699482.sra
Rejected 387859 READS because READLEN < 1
Read 387859 spots for SRR11699482.sra
Written 387859 spots for SRR11699482.sra
Rejected 387859 READS because READLEN < 1
Read 387859 spots for SRR11699482.sra
Written 387859 spots for SRR11699482.sra
Rejected 387859 READS because READLEN < 1
Read 387859 spots for SRR11699482.sra
Written 387859 spots for SRR11699482.sra
Rejected 387859 READS because READLEN < 1
Read 387859 spots for SRR11699482.sra
Written 387859 spots for SRR11699482.sra
Rejected 387859 READS because READLEN < 1
Read 387859 spots for SRR11699482.sra
Written 387859 spots for SRR11699482.sra
Rejected 387859 READS because READLEN < 1
Read 387859 spots for SRR11699482.sra
Written 387859 spots for SRR11699482.sra
SRR ids: ['SRR11699482.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_qqp__zm9
SRR11699482.sra spots: 7757184
blocks: [[1, 387859], [387860, 775718], [775719, 1163577], [1163578, 1551436], [1551437, 1939295], [1939296, 2327154], [2327155, 2715013], [2715014, 3102872], [3102873, 3490731], [3490732, 3878590], [3878591, 4266449], [4266450, 4654308], [4654309, 5042167], [5042168, 5430026], [5430027, 5817885], [5817886, 6205744], [6205745, 6593603], [6593604, 6981462], [6981463, 7369321], [7369322, 7757184]]
SRR11699482 file size 1626536
SRR11699482 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 SRR11699482 SRR11699482_1.fastq
Input file:	SRR11699482_1.fastq
trimmed:	SRR11699482-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 07:02:26 2025 >> started

Fri Jun 20 07:02:30 2025 >> done (3.240s)
7757184 reads processed; of these:
1099490 (14.17%) short reads filtered out after trimming by size control
   2958 ( 0.04%) empty reads filtered out after trimming by size control
6654736 (85.79%) reads available; of these:
6628238 (99.60%) trimmed reads available after processing
  26498 ( 0.40%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	 174473	  2.62%
 19	 276585	  4.16%
 20	 299956	  4.51%
 21	 634127	  9.53%
 22	 997405	 14.99%
 23	 322541	  4.85%
 24	 700129	 10.52%
 25	 321543	  4.83%
 26	 261496	  3.93%
 27	 378902	  5.69%
 28	 212240	  3.19%
 29	 234597	  3.53%
 30	 343822	  5.17%
 31	 216053	  3.25%
 32	 250489	  3.76%
 33	 200283	  3.01%
 34	 209722	  3.15%
 35	 196710	  2.96%
 36	 111721	  1.68%
 37	  72277	  1.09%
 38	  44218	  0.66%
 39	  37359	  0.56%
 40	  29299	  0.44%
 41	  47214	  0.71%
 42	  14822	  0.22%
 43	  11735	  0.18%
 44	   7596	  0.11%
 45	   5793	  0.09%
 46	   3763	  0.06%
 47	   3023	  0.05%
 48	   4020	  0.06%
 49	   1511	  0.02%
 50	   1010	  0.02%
 51	    730	  0.01%
 52	    501	  0.01%
 53	    338	  0.01%
 54	    225	  0.00%
 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	      1	  0.00%
 69	      0	  0.00%
 70	      0	  0.00%
 71	      2	  0.00%
 72	      0	  0.00%
 73	      1	  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	      1	  0.00%
 83	      0	  0.00%
 84	      1	  0.00%
 85	      4	  0.00%
 86	  26498	  0.40%
6654736 reads passed initial QC


criterion=sequence-density
sequence-density=5.70
sequence-density-rank=1
fanout-score=1.00
fanout-score-rank=10
prefix-density=0.01
prefix-fanout=1.0
sequence=TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTCACCCGAAAGACCCGGGT


criterion=fanout-score
sequence-density=0.01
sequence-density-rank=39
fanout-score=48.74
fanout-score-rank=1
prefix-density=0.26
prefix-fanout=1.0
sequence=AGCCAAGTGTGGAGAGGATAACTGCTGAAAGCATATAAGTAGTAAGCCCACCCCAAGATGAGTGCTCTCTCCTCCGACTTCC
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 07:03:32
                             Started mapping on |	Jun 20 07:03:42
                                    Finished on |	Jun 20 07:04:02
       Mapping speed, Million of reads per hour |	1197.85

                          Number of input reads |	6654736
                      Average input read length |	26
                                    UNIQUE READS:
                   Uniquely mapped reads number |	612837
                        Uniquely mapped reads % |	9.21%
                          Average mapped length |	23.33
                       Number of splices: Total |	13953
            Number of splices: Annotated (sjdb) |	5952
                       Number of splices: GT/AG |	13042
                       Number of splices: GC/AG |	705
                       Number of splices: AT/AC |	4
               Number of splices: Non-canonical |	202
                      Mismatch rate per base, % |	1.11%
                         Deletion rate per base |	0.01%
                        Deletion average length |	1.43
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.13
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	991092
             % of reads mapped to multiple loci |	14.89%
        Number of reads mapped to too many loci |	1701348
             % of reads mapped to too many loci |	25.57%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	3.68%
                     % of reads unmapped: other |	46.65%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	5050807	5050807	5050807
N_multimapping	991092	991092	991092
N_noFeature	494674	518731	585256
N_ambiguous	3594	46	34
UnstrandedReadsAssigned:114569 PositiveStrandReadsAssigned:94060 NegativeStrandReadsAssigned:27547
Dataset is classified unstranded
MeadianReadLen=24 20thPercentileLength=21 echo kmer=19
SRR11699482 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: SRR11699482-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 6,654,736 reads, 1,364,020 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 1,001 rounds

  72540 SRR11699482.ke.tsv
  44303 SRR11699482.se.tsv
 116843 total
==> SRR11699482.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Zm00001eb096110_T001	2067	1968	0	0
Zm00001eb321680_T001	3417	3318	3	0.759631
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	0.0141642	0.00558689
Zm00001eb026490_T003	2220	2121	0.985836	0.390501
Zm00001eb281360_T001	2412	2313	0	0

==> SRR11699482.se.tsv <==
Zm00001eb015280	1
Zm00001eb000610	0
Zm00001eb033210	0
Zm00001eb044610	0
Zm00001eb014360	0
Zm00001eb051320	0
Zm00001eb021860	0
Zm00001eb011690	0
Zm00001eb016840	0
Zm00001eb052060	0
SRR11699482 completed mapping pipeline successfully
