Starting /dee2/code/volunteer_pipeline.sh SRR11699290
    current disk space = 2469998395392
    free memory = 701647368 
SRR11699290 SRAfilesize
b36298de5744f083d3aaef31e8944f05  SRR11699290.sra
SRR11699290.sra file validated
SRR11699290 is single end
SRR11699290 is conventional basespace
SRR11699290 read1 length is 76 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR11699290_1.fastq
File type	Conventional base calls
Encoding	Sanger / Illumina 1.9
Total Sequences	4000
Sequences flagged as poor quality	0
Sequence length	76
%GC	51
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	31.22025	32.0	32.0	32.0	32.0	32.0
2	31.35825	32.0	32.0	32.0	32.0	32.0
3	31.53475	32.0	32.0	32.0	32.0	32.0
4	31.51025	32.0	32.0	32.0	32.0	32.0
5	31.5645	32.0	32.0	32.0	32.0	32.0
6	35.0005	36.0	36.0	36.0	36.0	36.0
7	35.17225	36.0	36.0	36.0	36.0	36.0
8	35.10075	36.0	36.0	36.0	36.0	36.0
9	34.908	36.0	36.0	36.0	36.0	36.0
10-11	35.090375	36.0	36.0	36.0	36.0	36.0
12-13	35.064125000000004	36.0	36.0	36.0	36.0	36.0
14-15	35.07825	36.0	36.0	36.0	36.0	36.0
16-17	35.049625000000006	36.0	36.0	36.0	36.0	36.0
18-19	35.14875	36.0	36.0	36.0	36.0	36.0
20-21	34.910875000000004	36.0	36.0	36.0	36.0	36.0
22-23	34.941	36.0	36.0	36.0	36.0	36.0
24-25	34.980875	36.0	36.0	36.0	36.0	36.0
26-27	34.783125	36.0	36.0	36.0	34.0	36.0
28-29	34.982749999999996	36.0	36.0	36.0	36.0	36.0
30-31	34.879374999999996	36.0	36.0	36.0	36.0	36.0
32-33	34.780249999999995	36.0	36.0	36.0	34.0	36.0
34-35	34.9255	36.0	36.0	36.0	36.0	36.0
36-37	34.878125	36.0	36.0	36.0	36.0	36.0
38-39	34.90475	36.0	36.0	36.0	36.0	36.0
40-41	34.875	36.0	36.0	36.0	36.0	36.0
42-43	34.829499999999996	36.0	36.0	36.0	34.0	36.0
44-45	34.788	36.0	36.0	36.0	32.0	36.0
46-47	34.80225	36.0	36.0	36.0	34.0	36.0
48-49	34.669625	36.0	36.0	36.0	34.0	36.0
50-51	34.20325	36.0	36.0	36.0	32.0	36.0
52-53	34.229	36.0	36.0	36.0	32.0	36.0
54-55	34.00075	36.0	36.0	36.0	32.0	36.0
56-57	33.387874999999994	36.0	36.0	36.0	27.0	36.0
58-59	32.957750000000004	36.0	36.0	36.0	14.0	36.0
60-61	32.773250000000004	36.0	36.0	36.0	14.0	36.0
62-63	31.971375000000002	36.0	32.0	36.0	14.0	36.0
64-65	31.349125	36.0	32.0	36.0	14.0	36.0
66-67	30.4705	36.0	27.0	36.0	14.0	36.0
68-69	30.407249999999998	36.0	27.0	36.0	14.0	36.0
70-71	30.419375000000002	36.0	27.0	36.0	14.0	36.0
72-73	30.610500000000002	36.0	29.5	36.0	14.0	36.0
74-75	30.7135	36.0	29.5	36.0	14.0	36.0
76	26.32	32.0	14.0	36.0	14.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
21	2.0
22	6.0
23	8.0
24	6.0
25	29.0
26	35.0
27	61.0
28	77.0
29	108.0
30	159.0
31	236.0
32	335.0
33	514.0
34	1065.0
35	1359.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	23.825	29.725	24.125	22.325
2	25.674999999999997	26.5	25.025	22.8
3	26.25	30.225	20.25	23.275000000000002
4	29.4	31.924999999999997	19.075	19.6
5	23.775	24.9	24.625	26.700000000000003
6	27.675	25.224999999999998	26.8	20.3
7	34.1	32.975	18.025	14.899999999999999
8	23.150000000000002	27.325	32.05	17.474999999999998
9	22.575	34.425	19.075	23.925
10-11	32.887499999999996	27.775	22.325	17.0125
12-13	21.275	23.05	24.962500000000002	30.7125
14-15	29.6625	36.65	18.224999999999998	15.462500000000002
16-17	23.1125	22.5	34.4625	19.925
18-19	37.8	21.875	23.5	16.825000000000003
20-21	23.1125	33.7375	24.95	18.2
22-23	31.125000000000004	36.65	15.6	16.625
24-25	28.537499999999998	37.5375	15.174999999999999	18.75
26-27	27.675	31.7	19.35	21.275
28-29	28.1125	27.287499999999998	18.7	25.900000000000002
30-31	34.2625	32.9125	12.4	20.424999999999997
32-33	27.6125	36.4875	14.1125	21.7875
34-35	30.8	30.7	15.299999999999999	23.200000000000003
36-37	26.737499999999997	35.4875	11.65	26.125
38-39	24.05	35.1875	13.462499999999999	27.3
40-41	26.3	28.9	16.3875	28.4125
42-43	29.4375	27.8875	18.212500000000002	24.462500000000002
44-45	23.7125	34.699999999999996	15.4875	26.1
46-47	24.3	33.725	12.950000000000001	29.025000000000002
48-49	17.5375	30.6375	15.1	36.725
50-51	17.825	29.3875	16.5625	36.225
52-53	21.8125	27.825	16.8375	33.525
54-55	21.2875	26.150000000000002	20.200000000000003	32.3625
56-57	17.175	29.0875	17.275	36.4625
58-59	19.925	33.0125	14.124999999999998	32.9375
60-61	24.7375	29.825000000000003	16.8625	28.575
62-63	27.474999999999998	24.8125	18.675	29.037499999999998
64-65	21.987499999999997	24.7	22.2125	31.1
66-67	20.1125	20.1625	27.537499999999998	32.1875
68-69	20.849999999999998	21.3	26.625	31.225
70-71	22.6	22.5875	27.250000000000004	27.5625
72-73	25.75	21.525	25.2	27.525
74-75	29.912499999999998	14.8375	25.8625	29.3875
76	19.175	14.674999999999999	34.975	31.175000000000004
>>END_MODULE
>>Per sequence GC content	fail
#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	0.5
29	1.0
30	0.5
31	0.0
32	0.0
33	0.0
34	0.0
35	0.0
36	0.0
37	0.0
38	1.0
39	2.0
40	6.5
41	10.5
42	10.0
43	16.5
44	49.5
45	107.0
46	138.0
47	179.5
48	338.5
49	677.5
50	899.0
51	780.0
52	605.0
53	477.5
54	406.0
55	311.0
56	180.0
57	106.5
58	69.0
59	71.5
60	46.0
61	13.5
62	9.0
63	6.0
64	4.0
65	3.5
66	1.0
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	1.0
90	1.0
91	0.5
92	1.0
93	1.0
94	0.5
95	0.0
96	0.0
97	0.0
98	0.0
99	0.5
100	1.0
>>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	0.0
40-41	0.0
42-43	0.0
44-45	0.0
46-47	0.0
48-49	0.0
50-51	0.0
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	0.0
>>END_MODULE
>>Sequence Length Distribution	pass
#Length	Count
76	4000.0
>>END_MODULE
>>Sequence Duplication Levels	warn
#Total Deduplicated Percentage	65.4
#Duplication Level	Percentage of deduplicated	Percentage of total
1	89.41131498470948	58.475
2	4.778287461773701	6.25
3	1.7584097859327217	3.45
4	0.9938837920489296	2.6
5	0.4969418960244648	1.625
6	0.4969418960244648	1.95
7	0.2675840978593272	1.225
8	0.2675840978593272	1.4000000000000001
9	0.191131498470948	1.125
>10	1.261467889908257	15.45
>50	0.0382262996941896	1.4000000000000001
>100	0.0382262996941896	5.050000000000001
>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	202	5.050000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGAGATCGGAAGAGCAC	56	1.4000000000000001	No Hit
CTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCA	46	1.15	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
ATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAAC	46	1.15	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTAGATCGGAAGAGCA	37	0.9249999999999999	No Hit
CTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAG	34	0.8500000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCAGATCGGAAGAGCACAC	25	0.625	No Hit
TCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACT	23	0.575	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TCCGTTGTAGTCTAGCTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	23	0.575	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
ACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	22	0.5499999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
CCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCT	20	0.5	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
AACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAG	20	0.5	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
CCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGT	19	0.475	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
TGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGC	19	0.475	No Hit
AGGGCTATAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAA	19	0.475	TruSeq Adapter, Index 2 (97% over 36bp)
GAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	19	0.475	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
GCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAA	17	0.42500000000000004	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
AACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAAG	16	0.4	TruSeq Adapter, Index 2 (97% over 36bp)
GATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAAGGGA	15	0.375	TruSeq Adapter, Index 2 (97% over 36bp)
TAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCA	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
CAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCAC	15	0.375	No Hit
AAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	14	0.35000000000000003	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
ATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAAGGGAT	13	0.325	TruSeq Adapter, Index 2 (97% over 36bp)
TAATTCATGATCTGGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TCCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTC	13	0.325	No Hit
GGGGATGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAA	13	0.325	TruSeq Adapter, Index 2 (97% over 36bp)
TGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGT	12	0.3	No Hit
CTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTG	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
GGAGGTCCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCAC	12	0.3	No Hit
ATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACT	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
ATCCTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTC	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTGTAGATCGGAAGAGCA	11	0.27499999999999997	No Hit
AACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
AGGGATGTAGCGCAGCTTGGTAGCGCTTTTGTTTTAGATCGGAAGAGCAC	11	0.27499999999999997	No Hit
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTGAGATCGGAAGAGCAC	10	0.25	No Hit
AAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAACTCCAG	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GCGAGCGTAGTTCAGTGGTAAAACATCTCCTTGCCAAGGAGAGATCGGAA	9	0.22499999999999998	No Hit
GCCGCCATGGTGAAATTGGTAGACACGCTGCTCTTAGATCGGAAGAGCAC	9	0.22499999999999998	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTAGATCGGAAGAGCACA	9	0.22499999999999998	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTAGATCGGAAGAGCA	9	0.22499999999999998	No Hit
AGGGATGTAGCGCAGCTTGGTAGCGCTTTTGTTAGATCGGAAGAGCACAC	8	0.2	No Hit
ATACTGTAGGGGAGGTCCTGCGGCAAAATAGCTCGATGCCAGAATAGATC	8	0.2	No Hit
TATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGA	8	0.2	No Hit
CATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
GGGGATGTAGCTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCA	8	0.2	TruSeq Adapter, Index 7 (100% over 35bp)
GATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGG	8	0.2	No Hit
TATTCTGGTGTCCTAGGCGTAGAGGAACCACAAGATCGGAAGAGCACACG	8	0.2	No Hit
TATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAGATCGGAAGAGCACA	7	0.17500000000000002	No Hit
TACCTGGTTGATCCTGCCAGTAGTCATATGCTTGTCTCAAGATCGGAAGA	7	0.17500000000000002	No Hit
TATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAATCAGATCGGAAGAG	7	0.17500000000000002	No Hit
AACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGT	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTAGATCGGAAGAGCACA	7	0.17500000000000002	No Hit
GAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTC	7	0.17500000000000002	No Hit
TCCGTTGTAGTCTAGTTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	7	0.17500000000000002	No Hit
CGACACGACTCTCGGCAACGGAGATCGGAAGAGCACACGTCTGAACTCCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
CGACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
CAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
ACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
CGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCA	6	0.15	TruSeq Adapter, Index 7 (100% over 35bp)
CTAACGAACGAACGATTTGAATAGATCGGAAGAGCACACGTCTGAACTCC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTAGATCGGAAGAGCACA	6	0.15	No Hit
GGGTCGATGCCCGAGCGGTTAATGGGGACGGACTGAGATCGGAAGAGCAC	6	0.15	No Hit
GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTGAGATCGGAAGAGCACA	6	0.15	No Hit
TACCTGGTTGATCCTGCCAGTAGTCATATGCTTGTCTAGATCGGAAGAGC	6	0.15	No Hit
GCGACCCCAGGTCAGTCGGGACTAGATCGGAAGAGCACACGTCTGAACTC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TCCGTTGTAGTCTAGCTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	6	0.15	No Hit
ACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TCCGTTGTAGTCTAGGTGGTTAGGATACTCAGATCGGAAGAGCACACGTC	5	0.125	No Hit
GGGTCGATGCCCGAGCGGTTAATGGGGACGGACTGTAGATCGGAAGAGCA	5	0.125	No Hit
CGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAAGGG	5	0.125	TruSeq Adapter, Index 2 (97% over 36bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCCAGATCGGAAGAGCACA	5	0.125	No Hit
GAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GACACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCAGATCGGAAGA	5	0.125	No Hit
ATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAG	5	0.125	No Hit
TAATTCATGATCTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TATCGAGTAGACCCTGTCGTTGTGAGAATTAGATCGGAAGAGCACACGTC	5	0.125	No Hit
TCCTCAGTAGCTCAGTGGTAGAGCGGTCGGCTGAGATCGGAAGAGCACAC	5	0.125	No Hit
CGACACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCAGATCGGAAG	5	0.125	No Hit
AGCGGAGTAGAGCAGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCA	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	0.15	0.0	0.0	0.0	0.0
2	0.25	0.0	0.0	0.0	0.0
3	0.325	0.0	0.0	0.0	0.0
4	0.325	0.0	0.0	0.0	0.0
5	0.425	0.0	0.0	0.0	0.0
6	0.425	0.0	0.0	0.0	0.0
7	0.575	0.0	0.0	0.0	0.0
8	0.825	0.0	0.0	0.0	0.0
9	1.375	0.0	0.0	0.0	0.0
10	2.0	0.0	0.0	0.0	0.0
11	2.275	0.0	0.0	0.0	0.0
12	2.5	0.0	0.0	0.0	0.0
13	3.425	0.0	0.0	0.0	0.0
14	5.025	0.0	0.0	0.0	0.0
15	6.3	0.0	0.0	0.0	0.0
16	7.525	0.0	0.0	0.0	0.0
17	9.3	0.0	0.0	0.0	0.0
18	11.275	0.0	0.0	0.0	0.0
19	12.775	0.0	0.0	0.0	0.0
20	15.275	0.0	0.0	0.0	0.0
21	18.6	0.0	0.0	0.0	0.0
22	22.7	0.0	0.0	0.0	0.0
23	30.875	0.0	0.0	0.0	0.0
24	34.05	0.0	0.0	0.0	0.0
25	42.95	0.0	0.0	0.0	0.0
26	46.525	0.0	0.0	0.0	0.0
27	49.25	0.0	0.0	0.0	0.0
28	52.1	0.0	0.0	0.0	0.0
29	54.9	0.0	0.0	0.0	0.0
30	57.375	0.0	0.0	0.0	0.0
31	60.7	0.0	0.0	0.0	0.0
32	63.2	0.0	0.0	0.0	0.0
33	65.55	0.0	0.0	0.0	0.0
34	69.375	0.0	0.0	0.0	0.0
35	72.75	0.0	0.0	0.0	0.0
36	78.025	0.0	0.0	0.0	0.0
37	82.225	0.0	0.0	0.0	0.0
38	84.525	0.0	0.0	0.0	0.0
39	86.225	0.0	0.0	0.0	0.0
40	87.75	0.0	0.0	0.0	0.0
41	88.65	0.0	0.0	0.0	0.0
42	90.05	0.0	0.0	0.0	0.0
43	90.775	0.0	0.0	0.0	0.0
44	91.675	0.0	0.0	0.0	0.0
45	92.375	0.0	0.0	0.0	0.0
46	93.175	0.0	0.0	0.0	0.0
47	93.55	0.0	0.0	0.0	0.0
48	93.975	0.0	0.0	0.0	0.0
49	94.3	0.0	0.0	0.0	0.0
50	94.525	0.0	0.0	0.0	0.0
51	94.625	0.0	0.0	0.0	0.0
52	94.7	0.0	0.0	0.0	0.0
53	94.75	0.0	0.0	0.0	0.0
54	94.775	0.0	0.0	0.0	0.0
55	94.775	0.0	0.0	0.0	0.0
56	94.8	0.0	0.0	0.0	0.0
57	94.825	0.0	0.0	0.0	0.0
58	94.875	0.0	0.0	0.0	0.0
59	94.95	0.0	0.0	0.0	0.0
60	94.975	0.0	0.0	0.0	0.0
61	94.975	0.0	0.0	0.0	0.0
62	94.975	0.0	0.0	0.0	0.0
63	94.975	0.0	0.0	0.0	0.0
64	94.975	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	fail
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
TGGTCAG	30	7.878043E-8	70.00001	17
AGCTCAG	15	0.0020658788	70.00001	9
TTCAATT	15	0.0020658788	70.00001	11
TTGTAGT	30	7.878043E-8	70.00001	5
ATTGGTC	15	0.0020658788	70.00001	15
CACCGCC	15	0.0020658788	70.00001	26
ACCGCCC	15	0.0020658788	70.00001	27
CAATTGG	15	0.0020658788	70.00001	13
TCAATTG	15	0.0020658788	70.00001	12
CCGTTGT	15	0.0020658788	70.00001	2
TAGTCTA	15	0.0020658788	70.00001	8
GGTCAGG	15	0.0020658788	70.00001	18
GTTCAAT	15	0.0020658788	70.00001	10
GATTGTA	15	0.0020658788	70.00001	3
TAGTTCA	15	0.0020658788	70.00001	8
CAGAGCA	15	0.0020658788	70.00001	21
GAGCACC	15	0.0020658788	70.00001	23
ATTGTAG	15	0.0020658788	70.00001	4
CTCAGTT	15	0.0020658788	70.00001	11
TCAGAGC	15	0.0020658788	70.00001	20
>>END_MODULE
Rejected 239947 READS because READLEN < 1
Read 239947 spots for SRR11699290.sra
Written 239947 spots for SRR11699290.sra
Rejected 239947 READS because READLEN < 1
Read 239947 spots for SRR11699290.sra
Written 239947 spots for SRR11699290.sra
Rejected 239947 READS because READLEN < 1
Read 239947 spots for SRR11699290.sra
Written 239947 spots for SRR11699290.sra
Rejected 239947 READS because READLEN < 1
Read 239947 spots for SRR11699290.sra
Written 239947 spots for SRR11699290.sra
Rejected 239947 READS because READLEN < 1
Read 239947 spots for SRR11699290.sra
Written 239947 spots for SRR11699290.sra
Rejected 239947 READS because READLEN < 1
Read 239947 spots for SRR11699290.sra
Written 239947 spots for SRR11699290.sra
Rejected 239947 READS because READLEN < 1
Read 239947 spots for SRR11699290.sra
Written 239947 spots for SRR11699290.sra
Rejected 239947 READS because READLEN < 1
Read 239947 spots for SRR11699290.sra
Written 239947 spots for SRR11699290.sra
Rejected 239947 READS because READLEN < 1
Read 239947 spots for SRR11699290.sra
Written 239947 spots for SRR11699290.sra
Rejected 239947 READS because READLEN < 1
Read 239947 spots for SRR11699290.sra
Written 239947 spots for SRR11699290.sra
Rejected 239947 READS because READLEN < 1
Read 239947 spots for SRR11699290.sra
Written 239947 spots for SRR11699290.sra
Rejected 239947 READS because READLEN < 1
Read 239947 spots for SRR11699290.sra
Written 239947 spots for SRR11699290.sra
Rejected 239947 READS because READLEN < 1
Read 239947 spots for SRR11699290.sra
Written 239947 spots for SRR11699290.sra
Rejected 239947 READS because READLEN < 1
Read 239947 spots for SRR11699290.sra
Written 239947 spots for SRR11699290.sra
Rejected 239947 READS because READLEN < 1
Read 239947 spots for SRR11699290.sra
Written 239947 spots for SRR11699290.sra
Rejected 239947 READS because READLEN < 1
Read 239947 spots for SRR11699290.sra
Written 239947 spots for SRR11699290.sra
Rejected 239962 READS because READLEN < 1
Read 239962 spots for SRR11699290.sra
Written 239962 spots for SRR11699290.sra
Rejected 239947 READS because READLEN < 1
Read 239947 spots for SRR11699290.sra
Written 239947 spots for SRR11699290.sra
Rejected 239947 READS because READLEN < 1
Read 239947 spots for SRR11699290.sra
Written 239947 spots for SRR11699290.sra
Rejected 239947 READS because READLEN < 1
Read 239947 spots for SRR11699290.sra
Written 239947 spots for SRR11699290.sra
SRR ids: ['SRR11699290.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_e7_24l56
SRR11699290.sra spots: 4798955
blocks: [[1, 239947], [239948, 479894], [479895, 719841], [719842, 959788], [959789, 1199735], [1199736, 1439682], [1439683, 1679629], [1679630, 1919576], [1919577, 2159523], [2159524, 2399470], [2399471, 2639417], [2639418, 2879364], [2879365, 3119311], [3119312, 3359258], [3359259, 3599205], [3599206, 3839152], [3839153, 4079099], [4079100, 4319046], [4319047, 4558993], [4558994, 4798955]]
SRR11699290 file size 911694
SRR11699290 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 SRR11699290 SRR11699290_1.fastq
Input file:	SRR11699290_1.fastq
trimmed:	SRR11699290-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
Wed Jun 18 07:51:41 2025 >> started

Wed Jun 18 07:51:43 2025 >> done (2.171s)
4798955 reads processed; of these:
 632233 (13.17%) short reads filtered out after trimming by size control
   2769 ( 0.06%) empty reads filtered out after trimming by size control
4163953 (86.77%) reads available; of these:
4024551 (96.65%) trimmed reads available after processing
 139402 ( 3.35%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  77350	  1.86%
 19	 122763	  2.95%
 20	 167682	  4.03%
 21	 222922	  5.35%
 22	 410094	  9.85%
 23	 151152	  3.63%
 24	 438123	 10.52%
 25	 171506	  4.12%
 26	 125563	  3.02%
 27	 141677	  3.40%
 28	 122143	  2.93%
 29	 135409	  3.25%
 30	 168250	  4.04%
 31	 133009	  3.19%
 32	 139236	  3.34%
 33	 182815	  4.39%
 34	 191375	  4.60%
 35	 253214	  6.08%
 36	 184113	  4.42%
 37	 109887	  2.64%
 38	  78287	  1.88%
 39	  70444	  1.69%
 40	  57437	  1.38%
 41	  66441	  1.60%
 42	  43325	  1.04%
 43	  34532	  0.83%
 44	  25792	  0.62%
 45	      0	  0.00%
 46	      0	  0.00%
 47	      0	  0.00%
 48	      0	  0.00%
 49	      0	  0.00%
 50	      0	  0.00%
 51	      0	  0.00%
 52	      0	  0.00%
 53	      0	  0.00%
 54	      0	  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	      0	  0.00%
 69	      1	  0.00%
 70	      1	  0.00%
 71	      0	  0.00%
 72	      3	  0.00%
 73	      0	  0.00%
 74	      0	  0.00%
 75	      5	  0.00%
 76	 139402	  3.35%
4163953 reads passed initial QC


criterion=sequence-density
sequence-density=3.77
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=19
prefix-density=0.00
prefix-fanout=1.0
sequence=GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTCAAGGCG


criterion=fanout-score
sequence-density=0.32
sequence-density-rank=20
fanout-score=16.51
fanout-score-rank=1
prefix-density=1.20
prefix-fanout=4.4
sequence=GTCTAGTGGTATGATTCTCGCTT
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:
    1 (100.00%) aligned 0 times
    0 (0.00%) aligned exactly 1 time
    0 (0.00%) aligned >1 times
0.00% overall alignment rate
Adapter seq not found in reference. Now shuffling file before clipping
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	skewer -f sanger -l 18 -t 20 -x GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTCAAGGCG -o SRR11699290 -
Input file:	STDIN
trimmed:	SRR11699290-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTCAAGGCG
-- 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 
-- minimum overlap length for adapter detection (-k):	3
-- number of concurrent threads (-t):	20
Wed Jun 18 07:51:50 2025 >> started

Wed Jun 18 07:51:51 2025 >> done (1.434s)
2081977 reads processed; of these:
   3500 ( 0.17%) short reads filtered out after trimming by size control
  79807 ( 3.83%) empty reads filtered out after trimming by size control
1998670 (96.00%) reads available; of these:
  14984 ( 0.75%) trimmed reads available after processing
1983686 (99.25%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  39197	  1.96%
 19	  61745	  3.09%
 20	  83433	  4.17%
 21	 111795	  5.59%
 22	 204573	 10.24%
 23	  75275	  3.77%
 24	 216686	 10.84%
 25	  86012	  4.30%
 26	  62234	  3.11%
 27	  70570	  3.53%
 28	  61120	  3.06%
 29	  66193	  3.31%
 30	  83896	  4.20%
 31	  66356	  3.32%
 32	  66941	  3.35%
 33	  70742	  3.54%
 34	  83892	  4.20%
 35	  92854	  4.65%
 36	  86334	  4.32%
 37	  54342	  2.72%
 38	  38408	  1.92%
 39	  35021	  1.75%
 40	  28023	  1.40%
 41	  32663	  1.63%
 42	  21208	  1.06%
 43	  16923	  0.85%
 44	  12737	  0.64%
 45	      0	  0.00%
 46	      0	  0.00%
 47	      0	  0.00%
 48	      0	  0.00%
 49	      0	  0.00%
 50	      0	  0.00%
 51	      0	  0.00%
 52	      0	  0.00%
 53	      0	  0.00%
 54	      0	  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	      3	  0.00%
 69	      2	  0.00%
 70	     28	  0.00%
 71	    176	  0.01%
 72	    129	  0.01%
 73	   1973	  0.10%
 74	      0	  0.00%
 75	      3	  0.00%
 76	  67183	  3.36%


criterion=sequence-density
sequence-density=3.15
sequence-density-rank=1
fanout-score=1.00
fanout-score-rank=17
prefix-density=0.02
prefix-fanout=1.0
sequence=TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTCACCCGAAAGACCCGGGTT


criterion=fanout-score
sequence-density=0.33
sequence-density-rank=19
fanout-score=16.58
fanout-score-rank=1
prefix-density=1.24
prefix-fanout=4.4
sequence=GTCTAGTGGTATGATTCTCGCTT
                                 Started job on |	Jun 18 07:53:06
                             Started mapping on |	Jun 18 07:53:06
                                    Finished on |	Jun 18 07:53:17
       Mapping speed, Million of reads per hour |	1335.48

                          Number of input reads |	4080646
                      Average input read length |	29
                                    UNIQUE READS:
                   Uniquely mapped reads number |	408135
                        Uniquely mapped reads % |	10.00%
                          Average mapped length |	25.55
                       Number of splices: Total |	8757
            Number of splices: Annotated (sjdb) |	3151
                       Number of splices: GT/AG |	7933
                       Number of splices: GC/AG |	488
                       Number of splices: AT/AC |	5
               Number of splices: Non-canonical |	331
                      Mismatch rate per base, % |	1.36%
                         Deletion rate per base |	0.01%
                        Deletion average length |	1.46
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.15
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	448635
             % of reads mapped to multiple loci |	10.99%
        Number of reads mapped to too many loci |	925835
             % of reads mapped to too many loci |	22.69%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	9.32%
                     % of reads unmapped: other |	47.00%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	3223876	3223876	3223876
N_multimapping	448635	448635	448635
N_noFeature	348802	359616	395506
N_ambiguous	1881	44	29
UnstrandedReadsAssigned:57452 PositiveStrandReadsAssigned:48475 NegativeStrandReadsAssigned:12600
Dataset is classified unstranded
MeadianReadLen=27 20thPercentileLength=22 echo kmer=19
SRR11699290 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: SRR11699290-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 4,080,646 reads, 842,575 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 947 rounds

  72540 SRR11699290.ke.tsv
  44303 SRR11699290.se.tsv
 116843 total
==> SRR11699290.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Zm00001eb096110_T001	2067	1968	0	0
Zm00001eb321680_T001	3417	3318	5	1.95691
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

==> SRR11699290.se.tsv <==
Zm00001eb015280	0
Zm00001eb000610	0
Zm00001eb033210	0
Zm00001eb044610	0
Zm00001eb014360	0
Zm00001eb051320	0
Zm00001eb021860	0
Zm00001eb011690	0
Zm00001eb016840	0
Zm00001eb052060	0
SRR11699290 completed mapping pipeline successfully
