Starting /dee2/code/volunteer_pipeline.sh SRR11699260
    current disk space = 2476470394880
    free memory = 1581701896 
SRR11699260 SRAfilesize
0f57e3bc8f253f756bf66fe38ac952b8  SRR11699260.sra
SRR11699260.sra file validated
SRR11699260 is single end
SRR11699260 is conventional basespace
SRR11699260 read1 length is 76 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR11699260_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	49
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	31.37225	32.0	32.0	32.0	32.0	32.0
2	31.42525	32.0	32.0	32.0	32.0	32.0
3	31.499	32.0	32.0	32.0	32.0	32.0
4	31.48925	32.0	32.0	32.0	32.0	32.0
5	31.50375	32.0	32.0	32.0	32.0	32.0
6	35.06575	36.0	36.0	36.0	36.0	36.0
7	35.10525	36.0	36.0	36.0	36.0	36.0
8	35.217	36.0	36.0	36.0	36.0	36.0
9	34.9355	36.0	36.0	36.0	32.0	36.0
10-11	35.068	36.0	36.0	36.0	36.0	36.0
12-13	35.1145	36.0	36.0	36.0	36.0	36.0
14-15	35.01675	36.0	36.0	36.0	36.0	36.0
16-17	35.145875000000004	36.0	36.0	36.0	36.0	36.0
18-19	35.137875	36.0	36.0	36.0	36.0	36.0
20-21	35.042625	36.0	36.0	36.0	36.0	36.0
22-23	35.018	36.0	36.0	36.0	36.0	36.0
24-25	35.045375	36.0	36.0	36.0	36.0	36.0
26-27	34.897125	36.0	36.0	36.0	34.0	36.0
28-29	34.922250000000005	36.0	36.0	36.0	36.0	36.0
30-31	34.835750000000004	36.0	36.0	36.0	36.0	36.0
32-33	34.873999999999995	36.0	36.0	36.0	36.0	36.0
34-35	34.9075	36.0	36.0	36.0	36.0	36.0
36-37	34.877375	36.0	36.0	36.0	36.0	36.0
38-39	34.899375	36.0	36.0	36.0	36.0	36.0
40-41	34.90475	36.0	36.0	36.0	36.0	36.0
42-43	34.875249999999994	36.0	36.0	36.0	34.0	36.0
44-45	34.772	36.0	36.0	36.0	32.0	36.0
46-47	34.775	36.0	36.0	36.0	36.0	36.0
48-49	34.718625	36.0	36.0	36.0	34.0	36.0
50-51	34.384	36.0	36.0	36.0	32.0	36.0
52-53	34.417249999999996	36.0	36.0	36.0	32.0	36.0
54-55	34.244375000000005	36.0	36.0	36.0	32.0	36.0
56-57	33.89625	36.0	36.0	36.0	32.0	36.0
58-59	33.696	36.0	36.0	36.0	29.5	36.0
60-61	33.90925	36.0	36.0	36.0	32.0	36.0
62-63	33.814750000000004	36.0	36.0	36.0	29.5	36.0
64-65	33.713499999999996	36.0	36.0	36.0	29.5	36.0
66-67	33.2	36.0	32.0	36.0	27.0	36.0
68-69	33.25775	36.0	32.0	36.0	27.0	36.0
70-71	33.156	36.0	34.0	36.0	27.0	36.0
72-73	33.152249999999995	36.0	34.0	36.0	24.0	36.0
74-75	33.54875	36.0	36.0	36.0	29.5	36.0
76	31.11825	36.0	32.0	36.0	14.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
20	2.0
21	3.0
22	2.0
23	4.0
24	7.0
25	13.0
26	27.0
27	38.0
28	51.0
29	85.0
30	114.0
31	120.0
32	194.0
33	296.0
34	905.0
35	2139.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	26.674999999999997	30.349999999999998	22.75	20.225
2	26.025	27.175	23.425	23.375
3	26.25	30.525000000000002	18.825	24.4
4	29.299999999999997	30.625000000000004	18.625	21.45
5	21.475	25.650000000000002	25.650000000000002	27.224999999999998
6	24.05	26.825	27.6	21.525
7	33.1	32.324999999999996	18.4	16.175
8	23.425	24.425	31.75	20.4
9	24.6	33.550000000000004	19.950000000000003	21.9
10-11	31.85	25.775	23.849999999999998	18.525
12-13	22.6375	21.625	25.55	30.1875
14-15	29.5	37.325	17.925	15.25
16-17	23.45	23.4625	32.6	20.4875
18-19	37.875	24.5625	21.512500000000003	16.05
20-21	22.900000000000002	33.0125	25.074999999999996	19.0125
22-23	32.791598949868735	38.14226778347293	14.189273659207402	14.876859607450932
24-25	28.237499999999997	38.4625	15.537500000000001	17.7625
26-27	28.462500000000002	32.887499999999996	17.775	20.875
28-29	30.4625	28.725	16.0125	24.8
30-31	33.862500000000004	33.625	11.3625	21.15
32-33	27.775	35.475	12.862499999999999	23.8875
34-35	29.875	31.137500000000003	14.875	24.1125
36-37	26.0125	35.3875	12.049999999999999	26.55
38-39	25.0625	32.975	14.6875	27.275
40-41	24.375	28.549999999999997	16.9375	30.1375
42-43	27.750000000000004	28.3125	18.875	25.0625
44-45	21.5625	34.5125	15.512500000000001	28.4125
46-47	21.925	31.387500000000003	15.737499999999999	30.95
48-49	15.137500000000001	29.512500000000003	16.625	38.725
50-51	13.875000000000002	31.35	17.5875	37.1875
52-53	15.214401800225028	28.46605825728216	20.40255031878985	35.91698962370296
54-55	14.124999999999998	27.5125	22.5125	35.85
56-57	10.9125	30.7875	21.512500000000003	36.7875
58-59	9.775	35.075	20.4875	34.6625
60-61	7.387499999999999	33.037499999999994	23.9125	35.6625
62-63	9.6625	32.1	23.1875	35.05
64-65	11.05	30.95	25.412499999999998	32.587500000000006
66-67	13.825000000000001	21.4875	29.8875	34.8
68-69	13.087499999999999	23.45	29.9	33.5625
70-71	15.064383047880986	20.39004875609451	33.266658332291534	31.278909863732967
72-73	15.825	23.3375	29.9875	30.85
74-75	17.575	19.287499999999998	29.275000000000002	33.862500000000004
76	13.350000000000001	18.875	36.3	31.474999999999998
>>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	0.5
19	0.5
20	0.0
21	0.0
22	0.5
23	0.5
24	0.5
25	1.0
26	0.5
27	0.0
28	0.0
29	0.0
30	0.0
31	0.0
32	0.5
33	1.0
34	1.0
35	1.5
36	2.0
37	2.0
38	5.0
39	9.5
40	14.5
41	41.0
42	64.0
43	77.0
44	131.0
45	267.0
46	362.0
47	647.5
48	728.5
49	553.0
50	582.0
51	542.5
52	400.5
53	232.0
54	166.0
55	139.0
56	104.0
57	59.5
58	23.0
59	14.0
60	6.0
61	6.0
62	5.0
63	4.0
64	4.0
65	4.0
66	1.5
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	0.5
92	1.0
93	0.5
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
10-11	0.0
12-13	0.0
14-15	0.0
16-17	0.0
18-19	0.0
20-21	0.0
22-23	0.0125
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	0.0125
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	0.0125
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	64.95
#Duplication Level	Percentage of deduplicated	Percentage of total
1	89.64588144726713	58.225
2	4.541955350269438	5.8999999999999995
3	1.9630484988452657	3.8249999999999997
4	0.7698229407236336	2.0
5	0.6543494996150885	2.125
6	0.4618937644341801	1.7999999999999998
7	0.1924557351809084	0.8750000000000001
8	0.26943802925327176	1.4000000000000001
9	0.26943802925327176	1.575
>10	1.077752117013087	13.55
>50	0.11547344110854503	5.025
>100	0.03849114703618168	3.6999999999999997
>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	148	3.6999999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGAGATCGGAAGAGCAC	79	1.975	No Hit
CTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCA	62	1.55	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
ATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAAC	60	1.5	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TCCGTTGTAGTCTAGCTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	48	1.2	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
GAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	39	0.975	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTAGATCGGAAGAGCA	38	0.95	No Hit
AACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAG	34	0.8500000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
AGGGCTATAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTA	28	0.7000000000000001	TruSeq Adapter, Index 2 (97% over 36bp)
ACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	26	0.65	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
TCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACT	24	0.6	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCAGATCGGAAGAGCACAC	23	0.575	No Hit
AACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTAA	23	0.575	TruSeq Adapter, Index 2 (97% over 36bp)
TAATTCATGATCTGGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	22	0.5499999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GGGGATGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTA	19	0.475	TruSeq Adapter, Index 2 (97% over 36bp)
ATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTAACAAT	18	0.44999999999999996	TruSeq Adapter, Index 2 (97% over 36bp)
CTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAG	17	0.42500000000000004	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCA	16	0.4	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGC	15	0.375	No Hit
TCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTC	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
ATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACT	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
AACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTAACAA	12	0.3	TruSeq Adapter, Index 2 (97% over 36bp)
TGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGT	11	0.27499999999999997	No Hit
TAATTCATGATCTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
CGACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACT	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAA	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
GACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTC	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
AACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGT	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GGAGGTCCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCAC	10	0.25	No Hit
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTAGATCGGAAGAGCACA	10	0.25	No Hit
CGACACGACTCTCGGCAACGAGATCGGAAGAGCACACGTCTGAACTCCAG	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
CAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTC	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
CCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGT	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
AAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
TCCGTTGTAGTCTAGTTGGTCAGGATATTCGGCTCTAGATCGGAAGAGCA	9	0.22499999999999998	No Hit
GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTGAGATCGGAAGAGCACA	9	0.22499999999999998	No Hit
CCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCT	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAGATCGGAAGAGCACA	8	0.2	No Hit
TATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGA	8	0.2	No Hit
GGGTCGATGCCCGAGCGGTTAATGGGGACGGACTGAGATCGGAAGAGCAC	8	0.2	No Hit
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTGAGATCGGAAGAGCAC	8	0.2	No Hit
GCCGCCATGGTGAAATTGGTAGACACGCTGCTCTTAGATCGGAAGAGCAC	8	0.2	No Hit
GAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTC	8	0.2	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTAGATCGGAAGAGCA	8	0.2	No Hit
CACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTCCA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GCGAGCGTAGTTCAGTGGTAAAACATCTCCTTGCCAAGGAGAGATCGGAA	7	0.17500000000000002	No Hit
GGGCCTGTAGCTCAGAGGAAGATCGGAAGAGCACACGTCTGAACTCCAGT	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
ACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCACAAGATCGGAAGAGCACACG	7	0.17500000000000002	No Hit
GCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACAC	6	0.15	No Hit
AACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTAACAATC	6	0.15	TruSeq Adapter, Index 2 (97% over 36bp)
CGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCT	6	0.15	TruSeq Adapter, Index 1 (97% over 35bp)
TTTGGATTGAAGGGAGCTCTGAGATCGGAAGAGCACACGTCTGAACTCCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
CTAACGAACGAACGATTTGAATAGATCGGAAGAGCACACGTCTGAACTCC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
ACGTCTGCCTGGGCGTCACGCAGATCGGAAGAGCACACGTCTGAACTCCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
CGTCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GAGGCATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
TCCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTC	6	0.15	No Hit
GGTTCCATGGTCTAGCGGTTAGGACATTGGACTCTGAGATCGGAAGAGCA	6	0.15	No Hit
CAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCAC	6	0.15	No Hit
AGGGATGTAGCGCAGCTTGGTAGCGCTTTTGTTAGATCGGAAGAGCACAC	5	0.125	No Hit
AGGGATGTAGCGCAGCTTGGTAGCTTTTGTTTTAGATCGGAAGAGCACAC	5	0.125	No Hit
GAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCCAGATCGGAAGAGCACA	5	0.125	No Hit
ACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
CGACACGACTCTCGGCAACGGATATCAGATCGGAAGAGCACACGTCTGAA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
GACACGACTCTCGGCAACGGATATCTCGGCAGATCGGAAGAGCACACGTC	5	0.125	No Hit
GCCCCCATCGTCTAGTGGTTCAGGACATCTCTCTTTAGATCGGAAGAGCA	5	0.125	No Hit
AAAGGCTGACGCGGGCTCTAGATCGGAAGAGCACACGTCTGAACTCCAGT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GCGACCCCAGGTCAGTCGGGACTACCCGCTGAGTAGATCGGAAGAGCACA	5	0.125	No Hit
GGCGGATGTAGCCAAGTGGATCAAGGCAGTGGATTGAGATCGGAAGAGCA	5	0.125	No Hit
GACACGACTCTCGGCAACGGATATCTCGAGATCGGAAGAGCACACGTCTG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
GCGACCCCAGGTCAGTCGGGACTAGATCGGAAGAGCACACGTCTGAACTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTAGATCGGAAGAGCACA	5	0.125	No Hit
AGGGATGTAGCGCAGCTTGGTAGCGCTTTTGTTTTAGATCGGAAGAGCAC	5	0.125	No Hit
CGACACGACTCTCGGCAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTA	5	0.125	TruSeq Adapter, Index 2 (97% over 36bp)
>>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	0.075	0.0	0.0	0.0	0.0
2	0.15	0.0	0.0	0.0	0.0
3	0.175	0.0	0.0	0.0	0.0
4	0.2	0.0	0.0	0.0	0.0
5	0.275	0.0	0.0	0.0	0.0
6	0.35	0.0	0.0	0.0	0.0
7	0.45	0.0	0.0	0.0	0.0
8	0.65	0.0	0.0	0.0	0.0
9	1.25	0.0	0.0	0.0	0.0
10	1.85	0.0	0.0	0.0	0.0
11	2.225	0.0	0.0	0.0	0.0
12	2.975	0.0	0.0	0.0	0.0
13	3.975	0.0	0.0	0.0	0.0
14	6.15	0.0	0.0	0.0	0.0
15	7.35	0.0	0.0	0.0	0.0
16	9.15	0.0	0.0	0.0	0.0
17	12.175	0.0	0.0	0.0	0.0
18	15.325	0.0	0.0	0.0	0.0
19	17.1	0.0	0.0	0.0	0.0
20	20.8	0.0	0.0	0.0	0.0
21	24.525	0.0	0.0	0.0	0.0
22	30.525	0.0	0.0	0.0	0.0
23	37.375	0.0	0.0	0.0	0.0
24	41.05	0.0	0.0	0.0	0.0
25	48.425	0.0	0.0	0.0	0.0
26	51.9	0.0	0.0	0.0	0.0
27	54.6	0.0	0.0	0.0	0.0
28	58.625	0.0	0.0	0.0	0.0
29	60.95	0.0	0.0	0.0	0.0
30	63.825	0.0	0.0	0.0	0.0
31	66.4	0.0	0.0	0.0	0.0
32	68.725	0.0	0.0	0.0	0.0
33	70.775	0.0	0.0	0.0	0.0
34	74.075	0.0	0.0	0.0	0.0
35	77.125	0.0	0.0	0.0	0.0
36	82.575	0.0	0.0	0.0	0.0
37	86.875	0.0	0.0	0.0	0.0
38	88.525	0.0	0.0	0.0	0.0
39	89.4	0.0	0.0	0.0	0.0
40	90.725	0.0	0.0	0.0	0.0
41	91.7	0.0	0.0	0.0	0.0
42	92.35	0.0	0.0	0.0	0.0
43	93.175	0.0	0.0	0.0	0.0
44	93.725	0.0	0.0	0.0	0.0
45	94.1	0.0	0.0	0.0	0.0
46	94.575	0.0	0.0	0.0	0.0
47	95.0	0.0	0.0	0.0	0.0
48	95.325	0.0	0.0	0.0	0.0
49	95.6	0.0	0.0	0.0	0.0
50	95.725	0.0	0.0	0.0	0.0
51	95.775	0.0	0.0	0.0	0.0
52	95.9	0.0	0.0	0.0	0.0
53	95.925	0.0	0.0	0.0	0.0
54	96.025	0.0	0.0	0.0	0.0
55	96.05	0.0	0.0	0.0	0.0
56	96.05	0.0	0.0	0.0	0.0
57	96.05	0.0	0.0	0.0	0.0
58	96.05	0.0	0.0	0.0	0.0
59	96.05	0.0	0.0	0.0	0.0
60	96.05	0.0	0.0	0.0	0.0
61	96.05	0.0	0.0	0.0	0.0
62	96.075	0.0	0.0	0.0	0.0
63	96.075	0.0	0.0	0.0	0.0
64	96.075	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	fail
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
CTGAGAT	30	7.878043E-8	70.00001	33
GATATTC	15	0.0020658788	70.00001	24
AGGATAT	15	0.0020658788	70.00001	22
GGATATT	15	0.0020658788	70.00001	23
ATTCGGC	15	0.0020658788	70.00001	27
TATTCGG	15	0.0020658788	70.00001	26
TTGGTCA	30	7.878043E-8	70.00001	16
ATATTCG	15	0.0020658788	70.00001	25
TCTAGCT	20	7.003785E-5	70.0	11
CGCCCTG	25	2.3570374E-6	70.0	29
TTCAATT	25	2.3570374E-6	70.0	11
GCTGGTC	20	7.003785E-5	70.0	15
ATTGGTC	25	2.3570374E-6	70.0	15
CCGCCCT	25	2.3570374E-6	70.0	28
CACCGCC	25	2.3570374E-6	70.0	26
TAGCTGG	20	7.003785E-5	70.0	13
GGATTGT	25	2.3570374E-6	70.0	2
ACCGCCC	25	2.3570374E-6	70.0	27
CAATTGG	25	2.3570374E-6	70.0	13
TCAATTG	25	2.3570374E-6	70.0	12
>>END_MODULE
Rejected 221417 READS because READLEN < 1
Read 221417 spots for SRR11699260.sra
Written 221417 spots for SRR11699260.sra
Rejected 221417 READS because READLEN < 1
Read 221417 spots for SRR11699260.sra
Written 221417 spots for SRR11699260.sra
Rejected 221417 READS because READLEN < 1
Read 221417 spots for SRR11699260.sra
Written 221417 spots for SRR11699260.sra
Rejected 221417 READS because READLEN < 1
Read 221417 spots for SRR11699260.sra
Written 221417 spots for SRR11699260.sra
Rejected 221417 READS because READLEN < 1
Read 221417 spots for SRR11699260.sra
Written 221417 spots for SRR11699260.sra
Rejected 221417 READS because READLEN < 1
Read 221417 spots for SRR11699260.sra
Written 221417 spots for SRR11699260.sra
Rejected 221417 READS because READLEN < 1
Read 221417 spots for SRR11699260.sra
Written 221417 spots for SRR11699260.sra
Rejected 221417 READS because READLEN < 1
Read 221417 spots for SRR11699260.sra
Written 221417 spots for SRR11699260.sra
Rejected 221417 READS because READLEN < 1
Read 221417 spots for SRR11699260.sra
Written 221417 spots for SRR11699260.sra
Rejected 221417 READS because READLEN < 1
Read 221417 spots for SRR11699260.sra
Written 221417 spots for SRR11699260.sra
Rejected 221417 READS because READLEN < 1
Read 221417 spots for SRR11699260.sra
Written 221417 spots for SRR11699260.sra
Rejected 221417 READS because READLEN < 1
Read 221417 spots for SRR11699260.sra
Written 221417 spots for SRR11699260.sra
Rejected 221417 READS because READLEN < 1
Read 221417 spots for SRR11699260.sra
Written 221417 spots for SRR11699260.sra
Rejected 221417 READS because READLEN < 1
Read 221417 spots for SRR11699260.sra
Written 221417 spots for SRR11699260.sra
Rejected 221423 READS because READLEN < 1
Read 221423 spots for SRR11699260.sra
Written 221423 spots for SRR11699260.sra
Rejected 221417 READS because READLEN < 1
Read 221417 spots for SRR11699260.sra
Written 221417 spots for SRR11699260.sra
Rejected 221417 READS because READLEN < 1
Read 221417 spots for SRR11699260.sra
Written 221417 spots for SRR11699260.sra
Rejected 221417 READS because READLEN < 1
Read 221417 spots for SRR11699260.sra
Written 221417 spots for SRR11699260.sra
Rejected 221417 READS because READLEN < 1
Read 221417 spots for SRR11699260.sra
Written 221417 spots for SRR11699260.sra
Rejected 221417 READS because READLEN < 1
Read 221417 spots for SRR11699260.sra
Written 221417 spots for SRR11699260.sra
SRR ids: ['SRR11699260.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_h70pbq0j
SRR11699260.sra spots: 4428346
blocks: [[1, 221417], [221418, 442834], [442835, 664251], [664252, 885668], [885669, 1107085], [1107086, 1328502], [1328503, 1549919], [1549920, 1771336], [1771337, 1992753], [1992754, 2214170], [2214171, 2435587], [2435588, 2657004], [2657005, 2878421], [2878422, 3099838], [3099839, 3321255], [3321256, 3542672], [3542673, 3764089], [3764090, 3985506], [3985507, 4206923], [4206924, 4428346]]
SRR11699260 file size 841119
SRR11699260 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 SRR11699260 SRR11699260_1.fastq
Input file:	SRR11699260_1.fastq
trimmed:	SRR11699260-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 04:09:50 2025 >> started

Wed Jun 18 04:09:52 2025 >> done (1.752s)
4428346 reads processed; of these:
 730043 (16.49%) short reads filtered out after trimming by size control
   5430 ( 0.12%) empty reads filtered out after trimming by size control
3692873 (83.39%) reads available; of these:
3589122 (97.19%) trimmed reads available after processing
 103751 ( 2.81%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  98693	  2.67%
 19	 149740	  4.05%
 20	 162711	  4.41%
 21	 248696	  6.73%
 22	 378941	 10.26%
 23	 147550	  4.00%
 24	 337776	  9.15%
 25	 177134	  4.80%
 26	 117858	  3.19%
 27	 173027	  4.69%
 28	  98385	  2.66%
 29	 109753	  2.97%
 30	 119209	  3.23%
 31	 109559	  2.97%
 32	 104914	  2.84%
 33	 135395	  3.67%
 34	 148582	  4.02%
 35	 233083	  6.31%
 36	 195010	  5.28%
 37	  73941	  2.00%
 38	  55957	  1.52%
 39	  50158	  1.36%
 40	  39422	  1.07%
 41	  49506	  1.34%
 42	  30495	  0.83%
 43	  25668	  0.70%
 44	  17955	  0.49%
 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	      0	  0.00%
 70	      0	  0.00%
 71	      0	  0.00%
 72	      1	  0.00%
 73	      0	  0.00%
 74	      0	  0.00%
 75	      3	  0.00%
 76	 103751	  2.81%
3692873 reads passed initial QC


criterion=sequence-density
sequence-density=3.91
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=20
prefix-density=0.00
prefix-fanout=1.0
sequence=GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTCAAGG


criterion=fanout-score
sequence-density=0.23
sequence-density-rank=23
fanout-score=23.95
fanout-score-rank=1
prefix-density=1.22
prefix-fanout=4.5
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 GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTCAAGG -o SRR11699260 -
Input file:	STDIN
trimmed:	SRR11699260-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTCAAGG
-- 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 04:09:57 2025 >> started

Wed Jun 18 04:09:59 2025 >> done (1.191s)
1846437 reads processed; of these:
   4514 ( 0.24%) short reads filtered out after trimming by size control
  73449 ( 3.98%) empty reads filtered out after trimming by size control
1768474 (95.78%) reads available; of these:
  11753 ( 0.66%) trimmed reads available after processing
1756721 (99.34%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  49853	  2.82%
 19	  75195	  4.25%
 20	  80107	  4.53%
 21	 124173	  7.02%
 22	 188819	 10.68%
 23	  73254	  4.14%
 24	 167174	  9.45%
 25	  88308	  4.99%
 26	  58777	  3.32%
 27	  86706	  4.90%
 28	  49078	  2.78%
 29	  54437	  3.08%
 30	  59368	  3.36%
 31	  54763	  3.10%
 32	  51585	  2.92%
 33	  53480	  3.02%
 34	  68249	  3.86%
 35	  70818	  4.00%
 36	  92629	  5.24%
 37	  36749	  2.08%
 38	  27814	  1.57%
 39	  24883	  1.41%
 40	  19685	  1.11%
 41	  24541	  1.39%
 42	  14828	  0.84%
 43	  12639	  0.71%
 44	   8864	  0.50%
 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	      0	  0.00%
 70	      0	  0.00%
 71	      0	  0.00%
 72	      1	  0.00%
 73	   1325	  0.07%
 74	      0	  0.00%
 75	      3	  0.00%
 76	  50369	  2.85%


criterion=sequence-density
sequence-density=2.29
sequence-density-rank=1
fanout-score=15.66
fanout-score-rank=2
prefix-density=2.34
prefix-fanout=15.3
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTAACAATCTCGTATGCCGTCTTCTGCTTGA


criterion=fanout-score
sequence-density=0.24
sequence-density-rank=22
fanout-score=24.09
fanout-score-rank=1
prefix-density=1.29
prefix-fanout=4.5
sequence=GTCTAGTGGTATGATTCTCGCTT
                                 Started job on |	Jun 18 04:10:22
                             Started mapping on |	Jun 18 04:10:22
                                    Finished on |	Jun 18 04:10:34
       Mapping speed, Million of reads per hour |	1084.47

                          Number of input reads |	3614910
                      Average input read length |	29
                                    UNIQUE READS:
                   Uniquely mapped reads number |	351234
                        Uniquely mapped reads % |	9.72%
                          Average mapped length |	25.25
                       Number of splices: Total |	8316
            Number of splices: Annotated (sjdb) |	4215
                       Number of splices: GT/AG |	7645
                       Number of splices: GC/AG |	406
                       Number of splices: AT/AC |	4
               Number of splices: Non-canonical |	261
                      Mismatch rate per base, % |	1.14%
                         Deletion rate per base |	0.01%
                        Deletion average length |	1.58
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.23
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	366470
             % of reads mapped to multiple loci |	10.14%
        Number of reads mapped to too many loci |	923106
             % of reads mapped to too many loci |	25.54%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	7.44%
                     % of reads unmapped: other |	47.17%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	2897206	2897206	2897206
N_multimapping	366470	366470	366470
N_noFeature	276714	286956	338276
N_ambiguous	2767	34	23
UnstrandedReadsAssigned:71753 PositiveStrandReadsAssigned:64244 NegativeStrandReadsAssigned:12935
Dataset is classified unstranded
MeadianReadLen=26 20thPercentileLength=22 echo kmer=19
SRR11699260 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: SRR11699260-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 3,614,910 reads, 832,357 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 940 rounds

  72540 SRR11699260.ke.tsv
  44303 SRR11699260.se.tsv
 116843 total
==> SRR11699260.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Zm00001eb096110_T001	2067	1968	0	0
Zm00001eb321680_T001	3417	3318	5	2.01935
Zm00001eb323640_T001	3273	3174	1.78114	0.751988
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

==> SRR11699260.se.tsv <==
Zm00001eb015280	0
Zm00001eb000610	0
Zm00001eb033210	0
Zm00001eb044610	0
Zm00001eb014360	0
Zm00001eb051320	0
Zm00001eb021860	0
Zm00001eb011690	0
Zm00001eb016840	0
Zm00001eb052060	0
SRR11699260 completed mapping pipeline successfully
