Starting /dee2/code/volunteer_pipeline.sh SRR11699284
    current disk space = 2469049548800
    free memory = 1579052804 
SRR11699284 SRAfilesize
f75875f6aecae25013cdc2d40472e165  SRR11699284.sra
SRR11699284.sra file validated
SRR11699284 is single end
SRR11699284 is conventional basespace
SRR11699284 read1 length is 76 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR11699284_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	47
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	31.33775	32.0	32.0	32.0	32.0	32.0
2	31.60725	32.0	32.0	32.0	32.0	32.0
3	31.63925	32.0	32.0	32.0	32.0	32.0
4	31.61025	32.0	32.0	32.0	32.0	32.0
5	31.635	32.0	32.0	32.0	32.0	32.0
6	35.26725	36.0	36.0	36.0	36.0	36.0
7	35.22375	36.0	36.0	36.0	36.0	36.0
8	35.177	36.0	36.0	36.0	36.0	36.0
9	35.0535	36.0	36.0	36.0	36.0	36.0
10-11	35.202375	36.0	36.0	36.0	36.0	36.0
12-13	35.203875	36.0	36.0	36.0	36.0	36.0
14-15	35.170625	36.0	36.0	36.0	36.0	36.0
16-17	35.25175	36.0	36.0	36.0	36.0	36.0
18-19	35.247	36.0	36.0	36.0	36.0	36.0
20-21	35.149249999999995	36.0	36.0	36.0	36.0	36.0
22-23	35.1375	36.0	36.0	36.0	36.0	36.0
24-25	35.171125	36.0	36.0	36.0	36.0	36.0
26-27	35.024125	36.0	36.0	36.0	36.0	36.0
28-29	35.050625	36.0	36.0	36.0	36.0	36.0
30-31	35.066500000000005	36.0	36.0	36.0	36.0	36.0
32-33	34.992125	36.0	36.0	36.0	36.0	36.0
34-35	35.042874999999995	36.0	36.0	36.0	36.0	36.0
36-37	35.1495	36.0	36.0	36.0	36.0	36.0
38-39	35.04125	36.0	36.0	36.0	36.0	36.0
40-41	34.986125	36.0	36.0	36.0	36.0	36.0
42-43	35.01875	36.0	36.0	36.0	36.0	36.0
44-45	34.989625	36.0	36.0	36.0	36.0	36.0
46-47	34.996875	36.0	36.0	36.0	36.0	36.0
48-49	34.907624999999996	36.0	36.0	36.0	36.0	36.0
50-51	34.494625	36.0	36.0	36.0	32.0	36.0
52-53	34.44625	36.0	36.0	36.0	32.0	36.0
54-55	34.313	36.0	36.0	36.0	32.0	36.0
56-57	34.126375	36.0	36.0	36.0	32.0	36.0
58-59	34.069374999999994	36.0	36.0	36.0	32.0	36.0
60-61	34.248125	36.0	36.0	36.0	32.0	36.0
62-63	33.976124999999996	36.0	36.0	36.0	32.0	36.0
64-65	33.912000000000006	36.0	36.0	36.0	32.0	36.0
66-67	33.322125	36.0	32.0	36.0	27.0	36.0
68-69	33.421875	36.0	32.0	36.0	27.0	36.0
70-71	33.389875	36.0	34.0	36.0	27.0	36.0
72-73	33.268874999999994	36.0	34.0	36.0	27.0	36.0
74-75	33.4315	36.0	36.0	36.0	27.0	36.0
76	31.6395	36.0	32.0	36.0	14.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
18	1.0
19	0.0
20	0.0
21	2.0
22	2.0
23	3.0
24	4.0
25	11.0
26	19.0
27	28.0
28	42.0
29	51.0
30	101.0
31	105.0
32	186.0
33	315.0
34	900.0
35	2230.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	26.0	30.925000000000004	21.575	21.5
2	26.150000000000002	27.275	25.374999999999996	21.2
3	26.5	31.275	19.175	23.05
4	29.375	32.074999999999996	19.950000000000003	18.6
5	22.825	25.825	23.275000000000002	28.075
6	27.825	25.124999999999996	26.6	20.45
7	32.5	33.575	18.675	15.25
8	21.525	27.1	32.75	18.625
9	22.575	34.050000000000004	20.150000000000002	23.225
10-11	32.725	27.425	21.575	18.275
12-13	23.75	23.125	23.4375	29.6875
14-15	29.2375	37.375	17.4375	15.950000000000001
16-17	24.675	23.35	32.2	19.775000000000002
18-19	36.7875	24.5	21.6875	17.025000000000002
20-21	23.6625	35.175	24.025	17.1375
22-23	32.454056757094634	36.44205525690711	13.764220527565946	17.339667458432302
24-25	28.725	37.475	16.2	17.599999999999998
26-27	28.999999999999996	30.95	17.5875	22.4625
28-29	29.225	28.6375	16.6375	25.5
30-31	32.8375	33.650000000000006	11.774999999999999	21.7375
32-33	27.787499999999998	35.362500000000004	14.3625	22.4875
34-35	29.4375	31.0	15.55	24.0125
36-37	24.875	34.7125	12.950000000000001	27.462500000000002
38-39	24.6	32.6625	14.274999999999999	28.462500000000002
40-41	25.124999999999996	28.9125	17.2	28.762500000000003
42-43	26.337500000000002	29.375	18.912499999999998	25.374999999999996
44-45	21.987499999999997	34.2875	16.2625	27.462500000000002
46-47	20.6875	32.15	15.925	31.2375
48-49	13.825000000000001	30.662499999999998	18.8	36.7125
50-51	15.15	29.9875	20.150000000000002	34.7125
52-53	15.25381345336334	26.694173543385848	26.04401100275069	32.00800200050013
54-55	14.0125	27.712500000000002	26.2625	32.0125
56-57	11.025	31.0375	27.037499999999998	30.9
58-59	10.25	31.0	27.487499999999997	31.2625
60-61	8.4375	24.825	35.55	31.1875
62-63	10.9625	24.3	34.175	30.562499999999996
64-65	10.9125	22.5125	35.5375	31.0375
66-67	13.7125	18.4	35.0625	32.824999999999996
68-69	13.5375	20.7125	36.375	29.375
70-71	14.939367420927615	20.27753469183648	38.79234904363045	25.99074884360545
72-73	15.5	17.6125	36.35	30.5375
74-75	18.2375	14.4375	37.724999999999994	29.599999999999998
76	13.225000000000001	15.675	41.875	29.225
>>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	0.0
29	0.0
30	0.5
31	0.5
32	0.0
33	0.0
34	0.0
35	0.5
36	1.5
37	2.0
38	3.5
39	14.5
40	39.5
41	74.5
42	94.0
43	150.5
44	293.0
45	666.0
46	953.0
47	785.0
48	572.5
49	464.5
50	401.0
51	335.5
52	211.5
53	142.0
54	131.0
55	114.5
56	66.0
57	27.0
58	20.0
59	13.0
60	7.5
61	5.0
62	1.0
63	1.5
64	2.0
65	1.0
66	0.5
67	1.0
68	0.5
69	1.0
70	1.0
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	0.5
91	0.5
92	0.0
93	0.0
94	0.0
95	0.0
96	0.0
97	0.0
98	1.0
99	1.5
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	0.0125
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	0.025
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	65.85
#Duplication Level	Percentage of deduplicated	Percentage of total
1	87.8132118451025	57.825
2	5.429005315110098	7.1499999999999995
3	2.088078967350038	4.125
4	1.2528473804100226	3.3000000000000003
5	0.9491268033409264	3.125
6	0.5694760820045558	2.25
7	0.30372057706909644	1.4000000000000001
8	0.18982536066818526	1.0
9	0.26575550493545935	1.575
>10	1.0630220197418374	12.5
>50	0.037965072133637055	1.7500000000000002
>100	0.037965072133637055	4.0
>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	160	4.0	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
CTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCA	70	1.7500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
ATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAAC	35	0.8750000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
CTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAG	31	0.775	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
AGGGCTATAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATA	31	0.775	TruSeq Adapter, Index 3 (97% over 36bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGAGATCGGAAGAGCAC	27	0.675	No Hit
AACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAG	25	0.625	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTAGATCGGAAGAGCACA	23	0.575	No Hit
ATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACT	23	0.575	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TAATTCATGATCTGGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	19	0.475	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
ATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATACTTAT	19	0.475	TruSeq Adapter, Index 27 (97% over 37bp)
GATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATACTTA	19	0.475	TruSeq Adapter, Index 27 (97% over 37bp)
GGGGATGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATA	18	0.44999999999999996	TruSeq Adapter, Index 3 (97% over 36bp)
AAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAACTCCAG	17	0.42500000000000004	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
AACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATAC	17	0.42500000000000004	TruSeq Adapter, Index 27 (97% over 37bp)
ACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	17	0.42500000000000004	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAA	16	0.4	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
AAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAACTCCA	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACT	14	0.35000000000000003	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCAGATCGGAAGAGCACAC	14	0.35000000000000003	No Hit
GCGTCTGTAGTCCAACGGTTAGGATAATTGCCAGATCGGAAGAGCACACG	13	0.325	No Hit
CCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGT	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
AGCGGAGTAGAGCAGTTAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
AGGGATGTAGCGCAGCTTGGTAGCGCTTTTGTTTTAGATCGGAAGAGCAC	13	0.325	No Hit
GGGGATGTAGCTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAT	12	0.3	TruSeq Adapter, Index 1 (100% over 35bp)
TAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCA	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
TCCGTTGTAGTCTAGCTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
AACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCACAAGATCGGAAGAGCACACG	10	0.25	No Hit
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTAGATCGGAAGAGCA	9	0.22499999999999998	No Hit
AAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
GAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GGGTCGATGCCCGAGCGGTTAATGGGGACGGACTGAGATCGGAAGAGCAC	9	0.22499999999999998	No Hit
TAATTCATGATCTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACA	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTC	9	0.22499999999999998	No Hit
CCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCT	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAGATCGGAAGAGCACA	8	0.2	No Hit
CGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAT	8	0.2	TruSeq Adapter, Index 1 (100% over 35bp)
CTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTG	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
TAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAG	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATACTTATCTC	8	0.2	TruSeq Adapter, Index 27 (97% over 37bp)
TATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGA	7	0.17500000000000002	No Hit
TGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGC	7	0.17500000000000002	No Hit
ATCCTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTAGATCGGAAGAGCACAC	7	0.17500000000000002	No Hit
TCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TACCTGGTTGATCCTGCCAGTAGTCATATGCTTGTCTAGATCGGAAGAGC	7	0.17500000000000002	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTAGATCGGAAGAGCACA	7	0.17500000000000002	No Hit
CATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAAC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
CGACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
CAGCCCCGCGTCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAACT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TACCTGGTTGATCCTGCCAGTAGTCATATGCTTGTCTCAAGATCGGAAGA	6	0.15	No Hit
CAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
TCCAGCCCCGCGTCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
CAGCTGAGGCATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACA	6	0.15	No Hit
AGGGCTATAGCTCAGTTCGGTAGAGCAACTCGTTTACACCGAGAAGATCG	6	0.15	No Hit
AACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
TATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAAAGATCGGAAGAG	6	0.15	No Hit
GCCGCCATGGTGAAATTGGTAGACACGCTGCTCTTAGATCGGAAGAGCAC	6	0.15	No Hit
CGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATA	6	0.15	TruSeq Adapter, Index 3 (97% over 36bp)
CCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
CAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCAC	6	0.15	No Hit
CACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCAGATCGGAAGAGC	6	0.15	No Hit
AGCGGAGTAGAGCAGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACAC	5	0.125	No Hit
AACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
CGACACGACTCTCGGCAACGAGATCGGAAGAGCACACGTCTGAACTCCAG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGT	5	0.125	No Hit
GGGATTGTAGTTCAATTAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
ATACTGTAGGGGAGGTCCTGCGGCAAAATAGCTCGATGCCAGAATAGATC	5	0.125	No Hit
TATTCTGGTGTCCTAGGCGTAGAGGAACCAGATCGGAAGAGCACACGTCT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
AGGGATGTAGCGCAGCTTGGTAGCGCTTTTGTTTTGAGATCGGAAGAGCA	5	0.125	No Hit
GCCCCCATCGTCTAGTGGTTCAGGACATCTCTCTTTAGATCGGAAGAGCA	5	0.125	No Hit
TTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATACTTATC	5	0.125	TruSeq Adapter, Index 27 (97% over 37bp)
GCGAGCGTAGTTCAGTGGTAAAACATCTCCTTGCCAAGGAGAGATCGGAA	5	0.125	No Hit
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCAGATCGGAAGAGCACAC	5	0.125	No Hit
ACACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCAGATCGGAAGAG	5	0.125	No Hit
TTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATACTTATCT	5	0.125	TruSeq Adapter, Index 27 (97% over 37bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTAGATCGGAAGAGCACA	5	0.125	No Hit
ACGTCTGCCTGGGCGTCACGCAGATCGGAAGAGCACACGTCTGAACTCCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
ACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTCC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TCAAAAGAGGAAAGGCTTGCGGTGGATAGATCGGAAGAGCACACGTCTGA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
ACGGATTCGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATACTT	5	0.125	TruSeq Adapter, Index 27 (97% over 37bp)
ATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAAAGATCGGAA	5	0.125	No Hit
CAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATACTTATCTCGTAT	5	0.125	TruSeq Adapter, Index 27 (97% over 37bp)
GCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GCGACCCCAGGTCAGTCGGGACTAGATCGGAAGAGCACACGTCTGAACTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTAGATCGGAAGAGCA	5	0.125	No Hit
CGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATACTT	5	0.125	TruSeq Adapter, Index 27 (97% over 37bp)
>>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	0.275	0.0	0.0	0.0	0.0
3	0.375	0.0	0.0	0.0	0.0
4	0.525	0.0	0.0	0.0	0.0
5	0.575	0.0	0.0	0.0	0.0
6	0.85	0.0	0.0	0.0	0.0
7	1.175	0.0	0.0	0.0	0.0
8	1.425	0.0	0.0	0.0	0.0
9	2.275	0.0	0.0	0.0	0.0
10	3.15	0.0	0.0	0.0	0.0
11	3.925	0.0	0.0	0.0	0.0
12	4.85	0.0	0.0	0.0	0.0
13	6.25	0.0	0.0	0.0	0.0
14	8.925	0.0	0.0	0.0	0.0
15	10.65	0.0	0.0	0.0	0.0
16	12.275	0.0	0.0	0.0	0.0
17	15.275	0.0	0.0	0.0	0.0
18	17.75	0.0	0.0	0.0	0.0
19	19.775	0.0	0.0	0.0	0.0
20	22.525	0.0	0.0	0.0	0.0
21	26.525	0.0	0.0	0.0	0.0
22	31.925	0.0	0.0	0.0	0.0
23	39.95	0.0	0.0	0.0	0.0
24	42.775	0.0	0.0	0.0	0.0
25	49.875	0.0	0.0	0.0	0.0
26	53.15	0.0	0.0	0.0	0.0
27	55.975	0.0	0.0	0.0	0.0
28	58.575	0.0	0.0	0.0	0.0
29	60.925	0.0	0.0	0.0	0.0
30	63.85	0.0	0.0	0.0	0.0
31	66.5	0.0	0.0	0.0	0.0
32	68.9	0.0	0.0	0.0	0.0
33	71.75	0.0	0.0	0.0	0.0
34	75.025	0.0	0.0	0.0	0.0
35	78.75	0.0	0.0	0.0	0.0
36	83.05	0.0	0.0	0.0	0.0
37	85.85	0.0	0.0	0.0	0.0
38	87.775	0.0	0.0	0.0	0.0
39	89.125	0.0	0.0	0.0	0.0
40	90.575	0.0	0.0	0.0	0.0
41	91.125	0.0	0.0	0.0	0.0
42	92.2	0.0	0.0	0.0	0.0
43	92.725	0.0	0.0	0.0	0.0
44	93.125	0.0	0.0	0.0	0.0
45	93.75	0.0	0.0	0.0	0.0
46	94.325	0.0	0.0	0.0	0.0
47	94.625	0.0	0.0	0.0	0.0
48	94.775	0.0	0.0	0.0	0.0
49	95.125	0.0	0.0	0.0	0.0
50	95.225	0.0	0.0	0.0	0.0
51	95.275	0.0	0.0	0.0	0.0
52	95.425	0.0	0.0	0.0	0.0
53	95.5	0.0	0.0	0.0	0.0
54	95.575	0.0	0.0	0.0	0.0
55	95.575	0.0	0.0	0.0	0.0
56	95.575	0.0	0.0	0.0	0.0
57	95.575	0.0	0.0	0.0	0.0
58	95.6	0.0	0.0	0.0	0.0
59	95.6	0.0	0.0	0.0	0.0
60	95.625	0.0	0.0	0.0	0.0
61	95.625	0.0	0.0	0.0	0.0
62	95.625	0.0	0.0	0.0	0.0
63	95.625	0.0	0.0	0.0	0.0
64	95.625	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
AGCTCGA	15	0.0020658788	70.00001	5
TCGATGC	15	0.0020658788	70.00001	8
CGCCCTG	15	0.0020658788	70.00001	29
TTCAATT	30	7.878043E-8	70.00001	11
TTGTAGT	35	2.6138878E-9	70.00001	5
CCGCCCT	15	0.0020658788	70.00001	28
GATGCCA	15	0.0020658788	70.00001	10
AAATAGC	15	0.0020658788	70.00001	1
TAGCTCG	15	0.0020658788	70.00001	4
GGATTGT	30	7.878043E-8	70.00001	2
CCAGAAT	15	0.0020658788	70.00001	14
GTTCAAT	30	7.878043E-8	70.00001	10
GATTGTA	30	7.878043E-8	70.00001	3
TAGTTCA	30	7.878043E-8	70.00001	8
GCCAGAA	15	0.0020658788	70.00001	13
AATAGCT	15	0.0020658788	70.00001	2
ATTGTAG	30	7.878043E-8	70.00001	4
GCTCGAT	15	0.0020658788	70.00001	6
TGCCAGA	15	0.0020658788	70.00001	12
>>END_MODULE
Rejected 301695 READS because READLEN < 1
Read 301695 spots for SRR11699284.sra
Written 301695 spots for SRR11699284.sra
Rejected 301695 READS because READLEN < 1
Read 301695 spots for SRR11699284.sra
Written 301695 spots for SRR11699284.sra
Rejected 301695 READS because READLEN < 1
Read 301695 spots for SRR11699284.sra
Written 301695 spots for SRR11699284.sra
Rejected 301695 READS because READLEN < 1
Read 301695 spots for SRR11699284.sra
Written 301695 spots for SRR11699284.sra
Rejected 301695 READS because READLEN < 1
Read 301695 spots for SRR11699284.sra
Written 301695 spots for SRR11699284.sra
Rejected 301695 READS because READLEN < 1
Read 301695 spots for SRR11699284.sra
Written 301695 spots for SRR11699284.sra
Rejected 301695 READS because READLEN < 1
Read 301695 spots for SRR11699284.sra
Written 301695 spots for SRR11699284.sra
Rejected 301695 READS because READLEN < 1
Read 301695 spots for SRR11699284.sra
Written 301695 spots for SRR11699284.sra
Rejected 301695 READS because READLEN < 1
Read 301695 spots for SRR11699284.sra
Written 301695 spots for SRR11699284.sra
Rejected 301695 READS because READLEN < 1
Read 301695 spots for SRR11699284.sra
Written 301695 spots for SRR11699284.sra
Rejected 301695 READS because READLEN < 1
Read 301695 spots for SRR11699284.sra
Written 301695 spots for SRR11699284.sra
Rejected 301695 READS because READLEN < 1
Read 301695 spots for SRR11699284.sra
Written 301695 spots for SRR11699284.sra
Rejected 301695 READS because READLEN < 1
Read 301695 spots for SRR11699284.sra
Written 301695 spots for SRR11699284.sra
Rejected 301695 READS because READLEN < 1
Read 301695 spots for SRR11699284.sra
Written 301695 spots for SRR11699284.sra
Rejected 301695 READS because READLEN < 1
Read 301695 spots for SRR11699284.sra
Written 301695 spots for SRR11699284.sra
Rejected 301695 READS because READLEN < 1
Read 301695 spots for SRR11699284.sra
Written 301695 spots for SRR11699284.sra
Rejected 301695 READS because READLEN < 1
Read 301695 spots for SRR11699284.sra
Written 301695 spots for SRR11699284.sra
Rejected 301695 READS because READLEN < 1
Read 301695 spots for SRR11699284.sra
Written 301695 spots for SRR11699284.sra
Rejected 301697 READS because READLEN < 1
Read 301697 spots for SRR11699284.sra
Written 301697 spots for SRR11699284.sra
Rejected 301695 READS because READLEN < 1
Read 301695 spots for SRR11699284.sra
Written 301695 spots for SRR11699284.sra
SRR ids: ['SRR11699284.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_b1wts4vc
SRR11699284.sra spots: 6033902
blocks: [[1, 301695], [301696, 603390], [603391, 905085], [905086, 1206780], [1206781, 1508475], [1508476, 1810170], [1810171, 2111865], [2111866, 2413560], [2413561, 2715255], [2715256, 3016950], [3016951, 3318645], [3318646, 3620340], [3620341, 3922035], [3922036, 4223730], [4223731, 4525425], [4525426, 4827120], [4827121, 5128815], [5128816, 5430510], [5430511, 5732205], [5732206, 6033902]]
SRR11699284 file size 1146864
SRR11699284 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 SRR11699284 SRR11699284_1.fastq
Input file:	SRR11699284_1.fastq
trimmed:	SRR11699284-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 08:31:39 2025 >> started

Wed Jun 18 08:31:42 2025 >> done (2.448s)
6033902 reads processed; of these:
1157752 (19.19%) short reads filtered out after trimming by size control
   6097 ( 0.10%) empty reads filtered out after trimming by size control
4870053 (80.71%) reads available; of these:
4730339 (97.13%) trimmed reads available after processing
 139714 ( 2.87%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	 131325	  2.70%
 19	 179282	  3.68%
 20	 240715	  4.94%
 21	 352298	  7.23%
 22	 491446	 10.09%
 23	 185472	  3.81%
 24	 400449	  8.22%
 25	 196995	  4.05%
 26	 173283	  3.56%
 27	 161942	  3.33%
 28	 145233	  2.98%
 29	 162388	  3.33%
 30	 193319	  3.97%
 31	 165966	  3.41%
 32	 187714	  3.85%
 33	 184782	  3.79%
 34	 237812	  4.88%
 35	 237645	  4.88%
 36	 179885	  3.69%
 37	 124384	  2.55%
 38	  89941	  1.85%
 39	  78725	  1.62%
 40	  61129	  1.26%
 41	  57872	  1.19%
 42	  44527	  0.91%
 43	  35617	  0.73%
 44	  30190	  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	      0	  0.00%
 70	      0	  0.00%
 71	      0	  0.00%
 72	      1	  0.00%
 73	      0	  0.00%
 74	      0	  0.00%
 75	      2	  0.00%
 76	 139714	  2.87%
4870053 reads passed initial QC


criterion=sequence-density
sequence-density=2.49
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=18
prefix-density=0.00
prefix-fanout=1.0
sequence=GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTCAAGGCG


criterion=fanout-score
sequence-density=2.36
sequence-density-rank=2
fanout-score=19.44
fanout-score-rank=1
prefix-density=2.41
prefix-fanout=19.1
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACATACTTATCTCGTATGCCGTCTTCTGCTTGA
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 SRR11699284 -
Input file:	STDIN
trimmed:	SRR11699284-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 08:31:53 2025 >> started

Wed Jun 18 08:31:54 2025 >> done (1.039s)
1623351 reads processed; of these:
   3355 ( 0.21%) short reads filtered out after trimming by size control
  40696 ( 2.51%) empty reads filtered out after trimming by size control
1579300 (97.29%) reads available; of these:
  11126 ( 0.70%) trimmed reads available after processing
1568174 (99.30%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  44279	  2.80%
 19	  59859	  3.79%
 20	  80040	  5.07%
 21	 116766	  7.39%
 22	 163501	 10.35%
 23	  61533	  3.90%
 24	 131832	  8.35%
 25	  65314	  4.14%
 26	  56365	  3.57%
 27	  53936	  3.42%
 28	  48369	  3.06%
 29	  51914	  3.29%
 30	  64371	  4.08%
 31	  54985	  3.48%
 32	  60868	  3.85%
 33	  53325	  3.38%
 34	  71666	  4.54%
 35	  66785	  4.23%
 36	  55668	  3.52%
 37	  40401	  2.56%
 38	  29665	  1.88%
 39	  26167	  1.66%
 40	  19765	  1.25%
 41	  19082	  1.21%
 42	  14525	  0.92%
 43	  11782	  0.75%
 44	  10048	  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	      2	  0.00%
 69	      0	  0.00%
 70	      0	  0.00%
 71	      0	  0.00%
 72	      0	  0.00%
 73	   1220	  0.08%
 74	      0	  0.00%
 75	      1	  0.00%
 76	  45266	  2.87%


criterion=sequence-density
sequence-density=2.43
sequence-density-rank=1
fanout-score=19.54
fanout-score-rank=1
prefix-density=2.48
prefix-fanout=19.1
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACATACTTATCTCGTATGCCGTCTTCTGCTTGA


criterion=fanout-score
sequence-density=2.43
sequence-density-rank=1
fanout-score=19.54
fanout-score-rank=1
prefix-density=2.48
prefix-fanout=19.1
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACATACTTATCTCGTATGCCGTCTTCTGCTTGA
                                 Started job on |	Jun 18 08:32:17
                             Started mapping on |	Jun 18 08:32:18
                                    Finished on |	Jun 18 08:32:30
       Mapping speed, Million of reads per hour |	1447.80

                          Number of input reads |	4826002
                      Average input read length |	29
                                    UNIQUE READS:
                   Uniquely mapped reads number |	414497
                        Uniquely mapped reads % |	8.59%
                          Average mapped length |	25.24
                       Number of splices: Total |	9753
            Number of splices: Annotated (sjdb) |	4373
                       Number of splices: GT/AG |	8786
                       Number of splices: GC/AG |	533
                       Number of splices: AT/AC |	5
               Number of splices: Non-canonical |	429
                      Mismatch rate per base, % |	1.09%
                         Deletion rate per base |	0.01%
                        Deletion average length |	1.28
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.14
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	510006
             % of reads mapped to multiple loci |	10.57%
        Number of reads mapped to too many loci |	1045704
             % of reads mapped to too many loci |	21.67%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	8.11%
                     % of reads unmapped: other |	51.07%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	3901499	3901499	3901499
N_multimapping	510006	510006	510006
N_noFeature	341382	353023	400733
N_ambiguous	2188	37	35
UnstrandedReadsAssigned:70927 PositiveStrandReadsAssigned:61437 NegativeStrandReadsAssigned:13729
Dataset is classified unstranded
MeadianReadLen=27 20thPercentileLength=22 echo kmer=19
SRR11699284 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: SRR11699284-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 4,826,002 reads, 950,991 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 871 rounds

  72540 SRR11699284.ke.tsv
  44303 SRR11699284.se.tsv
 116843 total
==> SRR11699284.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Zm00001eb096110_T001	2067	1968	0	0
Zm00001eb321680_T001	3417	3318	15	4.98118
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	1	0.476367

==> SRR11699284.se.tsv <==
Zm00001eb015280	1
Zm00001eb000610	0
Zm00001eb033210	0
Zm00001eb044610	0
Zm00001eb014360	0
Zm00001eb051320	0
Zm00001eb021860	0
Zm00001eb011690	0
Zm00001eb016840	0
Zm00001eb052060	0
SRR11699284 completed mapping pipeline successfully
