Starting /dee2/code/volunteer_pipeline.sh SRR11699286
    current disk space = 2470549102592
    free memory = 868203844 
SRR11699286 SRAfilesize
4d045d86b270725a6f9fc3ef86ff6994  SRR11699286.sra
SRR11699286.sra file validated
SRR11699286 is single end
SRR11699286 is conventional basespace
SRR11699286 read1 length is 76 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR11699286_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	31.355	32.0	32.0	32.0	32.0	32.0
2	31.46575	32.0	32.0	32.0	32.0	32.0
3	31.602	32.0	32.0	32.0	32.0	32.0
4	31.54375	32.0	32.0	32.0	32.0	32.0
5	31.6005	32.0	32.0	32.0	32.0	32.0
6	35.11225	36.0	36.0	36.0	36.0	36.0
7	35.204	36.0	36.0	36.0	36.0	36.0
8	35.15425	36.0	36.0	36.0	36.0	36.0
9	35.07225	36.0	36.0	36.0	36.0	36.0
10-11	35.2345	36.0	36.0	36.0	36.0	36.0
12-13	35.152625	36.0	36.0	36.0	36.0	36.0
14-15	35.18075	36.0	36.0	36.0	36.0	36.0
16-17	35.231	36.0	36.0	36.0	36.0	36.0
18-19	35.2795	36.0	36.0	36.0	36.0	36.0
20-21	35.17575	36.0	36.0	36.0	36.0	36.0
22-23	35.163	36.0	36.0	36.0	36.0	36.0
24-25	35.259375	36.0	36.0	36.0	36.0	36.0
26-27	35.053375	36.0	36.0	36.0	36.0	36.0
28-29	35.083124999999995	36.0	36.0	36.0	36.0	36.0
30-31	35.069500000000005	36.0	36.0	36.0	36.0	36.0
32-33	34.991375000000005	36.0	36.0	36.0	36.0	36.0
34-35	35.120125	36.0	36.0	36.0	36.0	36.0
36-37	35.1215	36.0	36.0	36.0	36.0	36.0
38-39	35.051125	36.0	36.0	36.0	36.0	36.0
40-41	35.08925	36.0	36.0	36.0	36.0	36.0
42-43	34.972625	36.0	36.0	36.0	36.0	36.0
44-45	34.92375	36.0	36.0	36.0	36.0	36.0
46-47	34.966875	36.0	36.0	36.0	36.0	36.0
48-49	34.874624999999995	36.0	36.0	36.0	34.0	36.0
50-51	34.466375	36.0	36.0	36.0	32.0	36.0
52-53	34.22275	36.0	36.0	36.0	32.0	36.0
54-55	33.846000000000004	36.0	36.0	36.0	29.5	36.0
56-57	33.144999999999996	36.0	36.0	36.0	21.0	36.0
58-59	32.549	36.0	32.0	36.0	14.0	36.0
60-61	32.183499999999995	36.0	32.0	36.0	14.0	36.0
62-63	31.863625	36.0	32.0	36.0	14.0	36.0
64-65	31.608874999999998	36.0	32.0	36.0	14.0	36.0
66-67	30.273625000000003	36.0	27.0	36.0	14.0	36.0
68-69	30.527875	36.0	27.0	36.0	14.0	36.0
70-71	30.974249999999998	36.0	29.5	36.0	14.0	36.0
72-73	31.091250000000002	36.0	29.5	36.0	14.0	36.0
74-75	31.67825	36.0	32.0	36.0	14.0	36.0
76	27.4835	32.0	14.0	36.0	14.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
20	2.0
21	0.0
22	1.0
23	5.0
24	8.0
25	12.0
26	32.0
27	55.0
28	78.0
29	100.0
30	145.0
31	224.0
32	293.0
33	504.0
34	1110.0
35	1431.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	24.05	30.3	23.974999999999998	21.675
2	23.05	29.625	24.7	22.625
3	27.075	31.125000000000004	17.575	24.224999999999998
4	29.025000000000002	31.5	19.6	19.875
5	22.900000000000002	26.6	23.7	26.8
6	25.674999999999997	26.625	26.375	21.325
7	30.85	34.65	18.85	15.65
8	22.85	25.2	31.75	20.200000000000003
9	24.625	34.849999999999994	17.875	22.650000000000002
10-11	31.2	26.85	23.7	18.25
12-13	21.15	22.575	25.474999999999998	30.8
14-15	30.15	36.55	18.425	14.875
16-17	23.3625	24.8625	31.55	20.225
18-19	36.987500000000004	25.174999999999997	21.0625	16.775000000000002
20-21	24.349999999999998	35.15	23.425	17.075000000000003
22-23	32.574999999999996	37.325	13.55	16.55
24-25	29.812499999999996	38.2625	14.35	17.575
26-27	29.2375	32.8375	16.175	21.75
28-29	32.550000000000004	30.125	13.575000000000001	23.75
30-31	32.2125	35.85	9.4875	22.45
32-33	26.7125	37.025000000000006	11.987499999999999	24.275
34-35	30.562499999999996	29.725	14.2125	25.5
36-37	24.125	34.4625	12.275	29.1375
38-39	22.95	31.362499999999997	16.2625	29.425
40-41	23.075000000000003	28.537499999999998	18.0375	30.349999999999998
42-43	25.387500000000003	27.3625	20.45	26.8
44-45	19.537499999999998	32.1	17.549999999999997	30.8125
46-47	19.6125	30.7125	17.2375	32.4375
48-49	13.450000000000001	29.525000000000002	19.275000000000002	37.75
50-51	12.2875	28.349999999999998	24.375	34.9875
52-53	14.475	23.875	27.950000000000003	33.7
54-55	12.0	26.375	30.4625	31.162499999999998
56-57	9.0	26.2625	32.6	32.1375
58-59	9.125	23.8375	36.1875	30.85
60-61	7.3625	19.7125	44.6875	28.237499999999997
62-63	10.8875	19.55	42.5375	27.025
64-65	10.4375	19.662499999999998	39.0125	30.887500000000003
66-67	14.1125	14.35	40.45	31.087500000000002
68-69	14.649999999999999	15.412500000000001	38.8875	31.05
70-71	15.987499999999999	15.437500000000002	39.787499999999994	28.787499999999998
72-73	17.3625	11.75	41.449999999999996	29.4375
74-75	18.0125	10.1625	41.0375	30.7875
76	11.525	11.95	48.3	28.225
>>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	0.0
31	0.0
32	0.5
33	1.0
34	0.5
35	1.0
36	3.5
37	5.0
38	6.5
39	12.0
40	35.0
41	68.0
42	82.0
43	140.5
44	322.0
45	716.0
46	987.0
47	769.0
48	568.5
49	493.0
50	400.0
51	336.5
52	205.5
53	119.0
54	100.0
55	90.5
56	59.0
57	24.0
58	11.0
59	12.0
60	7.0
61	2.0
62	3.0
63	1.5
64	1.0
65	1.5
66	0.5
67	0.0
68	0.5
69	0.5
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	0.5
82	0.5
83	0.0
84	0.0
85	0.0
86	0.0
87	0.0
88	0.0
89	0.5
90	0.5
91	0.0
92	0.0
93	0.0
94	0.5
95	0.5
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	0.0
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	60.775
#Duplication Level	Percentage of deduplicated	Percentage of total
1	89.22254216371863	54.225
2	4.8539695598519135	5.8999999999999995
3	1.3574660633484164	2.475
4	1.06951871657754	2.6
5	0.781571369806664	2.375
6	0.53475935828877	1.95
7	0.2879473467708762	1.225
8	0.24681201151789386	1.2
9	0.12340600575894693	0.675
>10	1.2751953928424515	15.25
>50	0.20567667626491154	7.5
>100	0.04113533525298231	4.625
>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	185	4.625	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
ATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAAC	72	1.7999999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
GAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	60	1.5	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGAGATCGGAAGAGCAC	58	1.4500000000000002	No Hit
AGGGCTATAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACT	57	1.425	TruSeq Adapter, Index 8 (100% over 36bp)
TAATTCATGATCTGGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	53	1.325	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
ACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	45	1.125	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
CTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCA	38	0.95	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
CCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGT	35	0.8750000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GGGGATGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACT	33	0.8250000000000001	TruSeq Adapter, Index 8 (100% over 36bp)
AACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	33	0.8250000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TCCGTTGTAGTCTAGCTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	32	0.8	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
AACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAG	32	0.8	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACT	30	0.75	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
CTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAG	28	0.7000000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
AACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACTT	26	0.65	TruSeq Adapter, Index 8 (100% over 37bp)
TGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGC	20	0.5	No Hit
ATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACTTTTAT	19	0.475	TruSeq Adapter, Index 8 (97% over 37bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTAGATCGGAAGAGCA	18	0.44999999999999996	No Hit
TAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCA	17	0.42500000000000004	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACTTTTA	17	0.42500000000000004	TruSeq Adapter, Index 8 (97% over 37bp)
ATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACT	14	0.35000000000000003	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GCGAGCGTAGTTCAGTGGTAAAACATCTCCTTGCCAAGGAGAGATCGGAA	13	0.325	No Hit
CGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACTTTT	13	0.325	TruSeq Adapter, Index 8 (97% over 37bp)
GAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTC	13	0.325	No Hit
CAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCAC	13	0.325	No Hit
TATTCTGGTGTCCTAGGCGTAGAGGAACCACAAGATCGGAAGAGCACACG	13	0.325	No Hit
ACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACTTT	12	0.3	TruSeq Adapter, Index 8 (97% over 37bp)
AAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
CAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTC	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
TGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGT	11	0.27499999999999997	No Hit
AACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGT	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
TAATTCATGATCTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACA	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAGATCGGAAGAGCACA	10	0.25	No Hit
GACACGACTCTCGGCAACGGATATCTCGGCAGATCGGAAGAGCACACGTC	10	0.25	No Hit
TTTGGATTGAAGGGAGCTCTGAGATCGGAAGAGCACACGTCTGAACTCCA	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
AGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACTTT	10	0.25	TruSeq Adapter, Index 8 (97% over 37bp)
TTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACTTTTATC	9	0.22499999999999998	TruSeq Adapter, Index 8 (97% over 37bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTGAGATCGGAAGAGCAC	9	0.22499999999999998	No Hit
TCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTC	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACAC	8	0.2	No Hit
AACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GGGGACGTAGCTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAC	8	0.2	TruSeq Adapter, Index 5 (100% over 35bp)
GGGGATGTAGCTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAC	8	0.2	TruSeq Adapter, Index 5 (100% over 35bp)
TAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAGT	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GCGTCTGTAGTCCAACGGTTAGGATAATTGCCAGATCGGAAGAGCACACG	7	0.17500000000000002	No Hit
CGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAC	7	0.17500000000000002	TruSeq Adapter, Index 5 (100% over 35bp)
GCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
GGGCCTGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACT	7	0.17500000000000002	TruSeq Adapter, Index 8 (100% over 36bp)
AGCGGAGTAGAGCAGTTAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
TACCTGGTTGATCCTGCCAGATCGGAAGAGCACACGTCTGAACTCCAGTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
ACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
CGACACGACTCTCGGCAACGGAGATCGGAAGAGCACACGTCTGAACTCCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TCCGTTGTAGTCTAGTTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
ACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
GCAGTGATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAG	6	0.15	No Hit
ACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
CTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTG	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
CGACACGACTCTCGGCAACGGATATCTCGAGATCGGAAGAGCACACGTCT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
ATCCTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
CACGACTCTCGGCAACGGATATCAGATCGGAAGAGCACACGTCTGAACTC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
ACACGACTCTCGGCAACGGATATCTCGGCAGATCGGAAGAGCACACGTCT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
TGAGGCATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTC	6	0.15	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCAGATCGGAAGAGCACAC	6	0.15	No Hit
GACACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCAGATCGGAAGA	6	0.15	No Hit
GGTAGTTCGACCGTGGATTAGATCGGAAGAGCACACGTCTGAACTCCAGT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GTGATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATC	5	0.125	No Hit
GGGTCGATGCCCGAGCGGTTAATGGGGACGGACTGTAGATCGGAAGAGCA	5	0.125	No Hit
CACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTCCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TCAAAAGAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGATCGGAA	5	0.125	No Hit
TATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGA	5	0.125	No Hit
CGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
ATATTCTGGTGTCCTAGGCGTAGAGGAACCACAAGATCGGAAGAGCACAC	5	0.125	No Hit
TCCACAGGCTTTCTTGAACTGAGATCGGAAGAGCACACGTCTGAACTCCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
CTAACGAACGAACGATTTGAATAGATCGGAAGAGCACACGTCTGAACTCC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
CCAGCCCCGCGTCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAAC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
ACGTCTGCCTGGGCGTCACGCAGATCGGAAGAGCACACGTCTGAACTCCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GGGATTGTAGTTCAATCGGAAGAGCACACGTCTGAACTCCAGTCACACTT	5	0.125	TruSeq Adapter, Index 8 (97% over 37bp)
TCCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTC	5	0.125	No Hit
CCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTGAGATCGGAAGAGCACA	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)
AGGGATGTAGCGCAGCTTGGTAGCGCTTTTGTTTTAGATCGGAAGAGCAC	5	0.125	No Hit
>>END_MODULE
>>Adapter Content	fail
#Position	Illumina Universal Adapter	Illumina Small RNA 3' Adapter	Illumina Small RNA 5' Adapter	Nextera Transposase Sequence	SOLID Small RNA Adapter
1	0.05	0.0	0.0	0.0	0.0
2	0.05	0.0	0.0	0.0	0.0
3	0.075	0.0	0.0	0.0	0.0
4	0.1	0.0	0.0	0.0	0.0
5	0.15	0.0	0.0	0.0	0.0
6	0.225	0.0	0.0	0.0	0.0
7	0.25	0.0	0.0	0.0	0.0
8	0.65	0.0	0.0	0.0	0.0
9	1.375	0.0	0.0	0.0	0.0
10	2.1	0.0	0.0	0.0	0.0
11	2.825	0.0	0.0	0.0	0.0
12	3.775	0.0	0.0	0.0	0.0
13	5.25	0.0	0.0	0.0	0.0
14	9.425	0.0	0.0	0.0	0.0
15	11.225	0.0	0.0	0.0	0.0
16	13.0	0.0	0.0	0.0	0.0
17	17.325	0.0	0.0	0.0	0.0
18	21.625	0.0	0.0	0.0	0.0
19	24.175	0.0	0.0	0.0	0.0
20	28.825	0.0	0.0	0.0	0.0
21	32.75	0.0	0.0	0.0	0.0
22	38.65	0.0	0.0	0.0	0.0
23	47.85	0.0	0.0	0.0	0.0
24	50.85	0.0	0.0	0.0	0.0
25	57.325	0.0	0.0	0.0	0.0
26	61.65	0.0	0.0	0.0	0.0
27	63.8	0.0	0.0	0.0	0.0
28	66.9	0.0	0.0	0.0	0.0
29	68.55	0.0	0.0	0.0	0.0
30	70.7	0.0	0.0	0.0	0.0
31	73.35	0.0	0.0	0.0	0.0
32	75.1	0.0	0.0	0.0	0.0
33	77.05	0.0	0.0	0.0	0.0
34	79.5	0.0	0.0	0.0	0.0
35	81.65	0.0	0.0	0.0	0.0
36	85.65	0.0	0.0	0.0	0.0
37	87.825	0.0	0.0	0.0	0.0
38	89.3	0.0	0.0	0.0	0.0
39	90.025	0.0	0.0	0.0	0.0
40	90.85	0.0	0.0	0.0	0.0
41	91.375	0.0	0.0	0.0	0.0
42	92.475	0.0	0.0	0.0	0.0
43	93.1	0.0	0.0	0.0	0.0
44	93.525	0.0	0.0	0.0	0.0
45	93.875	0.0	0.0	0.0	0.0
46	94.25	0.0	0.0	0.0	0.0
47	94.575	0.0	0.0	0.0	0.0
48	94.75	0.0	0.0	0.0	0.0
49	94.95	0.0	0.0	0.0	0.0
50	95.05	0.0	0.0	0.0	0.0
51	95.2	0.0	0.0	0.0	0.0
52	95.275	0.0	0.0	0.0	0.0
53	95.3	0.0	0.0	0.0	0.0
54	95.325	0.0	0.0	0.0	0.0
55	95.35	0.0	0.0	0.0	0.0
56	95.375	0.0	0.0	0.0	0.0
57	95.375	0.0	0.0	0.0	0.0
58	95.375	0.0	0.0	0.0	0.0
59	95.375	0.0	0.0	0.0	0.0
60	95.375	0.0	0.0	0.0	0.0
61	95.375	0.0	0.0	0.0	0.0
62	95.375	0.0	0.0	0.0	0.0
63	95.375	0.0	0.0	0.0	0.0
64	95.375	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
CTATAGC	15	0.0020658788	70.00001	5
TTCAATT	15	0.0020658788	70.00001	11
ATTGGTC	15	0.0020658788	70.00001	15
CACCGCC	15	0.0020658788	70.00001	26
AGGGCTA	15	0.0020658788	70.00001	1
CAATTGG	15	0.0020658788	70.00001	13
TCAATTG	15	0.0020658788	70.00001	12
GGTCAGA	15	0.0020658788	70.00001	18
GTTCAAT	15	0.0020658788	70.00001	10
GATTGTA	15	0.0020658788	70.00001	3
GCTATAG	15	0.0020658788	70.00001	4
CAGAGCA	15	0.0020658788	70.00001	21
GAGCACC	15	0.0020658788	70.00001	23
ATAGCTC	15	0.0020658788	70.00001	7
ATTGTAG	15	0.0020658788	70.00001	4
TCAGAGC	15	0.0020658788	70.00001	20
TGTAGTT	15	0.0020658788	70.00001	6
GGGATTG	15	0.0020658788	70.00001	1
GGCTATA	15	0.0020658788	70.00001	3
AGCACCG	15	0.0020658788	70.00001	24
>>END_MODULE
Rejected 284383 READS because READLEN < 1
Read 284383 spots for SRR11699286.sra
Written 284383 spots for SRR11699286.sra
Rejected 284383 READS because READLEN < 1
Read 284383 spots for SRR11699286.sra
Written 284383 spots for SRR11699286.sra
Rejected 284383 READS because READLEN < 1
Read 284383 spots for SRR11699286.sra
Written 284383 spots for SRR11699286.sra
Rejected 284383 READS because READLEN < 1
Read 284383 spots for SRR11699286.sra
Written 284383 spots for SRR11699286.sra
Rejected 284383 READS because READLEN < 1
Read 284383 spots for SRR11699286.sra
Written 284383 spots for SRR11699286.sra
Rejected 284383 READS because READLEN < 1
Read 284383 spots for SRR11699286.sra
Written 284383 spots for SRR11699286.sra
Rejected 284383 READS because READLEN < 1
Read 284383 spots for SRR11699286.sra
Written 284383 spots for SRR11699286.sra
Rejected 284383 READS because READLEN < 1
Read 284383 spots for SRR11699286.sra
Written 284383 spots for SRR11699286.sra
Rejected 284383 READS because READLEN < 1
Read 284383 spots for SRR11699286.sra
Written 284383 spots for SRR11699286.sra
Rejected 284383 READS because READLEN < 1
Read 284383 spots for SRR11699286.sra
Written 284383 spots for SRR11699286.sra
Rejected 284383 READS because READLEN < 1
Read 284383 spots for SRR11699286.sra
Written 284383 spots for SRR11699286.sra
Rejected 284383 READS because READLEN < 1
Read 284383 spots for SRR11699286.sra
Written 284383 spots for SRR11699286.sra
Rejected 284383 READS because READLEN < 1
Read 284383 spots for SRR11699286.sra
Written 284383 spots for SRR11699286.sra
Rejected 284383 READS because READLEN < 1
Read 284383 spots for SRR11699286.sra
Written 284383 spots for SRR11699286.sra
Rejected 284383 READS because READLEN < 1
Read 284383 spots for SRR11699286.sra
Written 284383 spots for SRR11699286.sra
Rejected 284383 READS because READLEN < 1
Read 284383 spots for SRR11699286.sra
Written 284383 spots for SRR11699286.sra
Rejected 284383 READS because READLEN < 1
Read 284383 spots for SRR11699286.sra
Written 284383 spots for SRR11699286.sra
Rejected 284383 READS because READLEN < 1
Read 284383 spots for SRR11699286.sra
Written 284383 spots for SRR11699286.sra
Rejected 284383 READS because READLEN < 1
Read 284383 spots for SRR11699286.sra
Written 284383 spots for SRR11699286.sra
Rejected 284385 READS because READLEN < 1
Read 284385 spots for SRR11699286.sra
Written 284385 spots for SRR11699286.sra
SRR ids: ['SRR11699286.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_o06f7e7k
SRR11699286.sra spots: 5687662
blocks: [[1, 284383], [284384, 568766], [568767, 853149], [853150, 1137532], [1137533, 1421915], [1421916, 1706298], [1706299, 1990681], [1990682, 2275064], [2275065, 2559447], [2559448, 2843830], [2843831, 3128213], [3128214, 3412596], [3412597, 3696979], [3696980, 3981362], [3981363, 4265745], [4265746, 4550128], [4550129, 4834511], [4834512, 5118894], [5118895, 5403277], [5403278, 5687662]]
SRR11699286 file size 1080930
SRR11699286 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 SRR11699286 SRR11699286_1.fastq
Input file:	SRR11699286_1.fastq
trimmed:	SRR11699286-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 07:10:17 2025 >> started

Wed Jun 18 07:10:19 2025 >> done (2.580s)
5687662 reads processed; of these:
1329617 (23.38%) short reads filtered out after trimming by size control
   2988 ( 0.05%) empty reads filtered out after trimming by size control
4355057 (76.57%) reads available; of these:
4253455 (97.67%) trimmed reads available after processing
 101602 ( 2.33%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	 155097	  3.56%
 19	 238875	  5.49%
 20	 245250	  5.63%
 21	 349901	  8.03%
 22	 571936	 13.13%
 23	 186824	  4.29%
 24	 408289	  9.38%
 25	 222637	  5.11%
 26	 135346	  3.11%
 27	 174562	  4.01%
 28	 111274	  2.56%
 29	 116573	  2.68%
 30	 155020	  3.56%
 31	 115108	  2.64%
 32	 108911	  2.50%
 33	 119487	  2.74%
 34	 125869	  2.89%
 35	 221236	  5.08%
 36	 135443	  3.11%
 37	  74927	  1.72%
 38	  55203	  1.27%
 39	  52425	  1.20%
 40	  39515	  0.91%
 41	  55083	  1.26%
 42	  32952	  0.76%
 43	  26953	  0.62%
 44	  18757	  0.43%
 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	      1	  0.00%
 72	      0	  0.00%
 73	      0	  0.00%
 74	      0	  0.00%
 75	      1	  0.00%
 76	 101602	  2.33%
4355057 reads passed initial QC


criterion=sequence-density
sequence-density=3.47
sequence-density-rank=1
fanout-score=1.00
fanout-score-rank=12
prefix-density=0.01
prefix-fanout=1.0
sequence=TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTCACCCGAAAGACCCGGGTT


criterion=fanout-score
sequence-density=0.17
sequence-density-rank=24
fanout-score=16.00
fanout-score-rank=1
prefix-density=1.83
prefix-fanout=1.4
sequence=GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTG
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 18 07:10:53
                             Started mapping on |	Jun 18 07:10:54
                                    Finished on |	Jun 18 07:11:06
       Mapping speed, Million of reads per hour |	1306.52

                          Number of input reads |	4355057
                      Average input read length |	27
                                    UNIQUE READS:
                   Uniquely mapped reads number |	394024
                        Uniquely mapped reads % |	9.05%
                          Average mapped length |	23.91
                       Number of splices: Total |	8798
            Number of splices: Annotated (sjdb) |	3878
                       Number of splices: GT/AG |	8132
                       Number of splices: GC/AG |	469
                       Number of splices: AT/AC |	7
               Number of splices: Non-canonical |	190
                      Mismatch rate per base, % |	1.18%
                         Deletion rate per base |	0.01%
                        Deletion average length |	1.47
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.23
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	470853
             % of reads mapped to multiple loci |	10.81%
        Number of reads mapped to too many loci |	954237
             % of reads mapped to too many loci |	21.91%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	6.44%
                     % of reads unmapped: other |	51.79%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	3490180	3490180	3490180
N_multimapping	470853	470853	470853
N_noFeature	321893	334752	378788
N_ambiguous	2440	37	28
UnstrandedReadsAssigned:69691 PositiveStrandReadsAssigned:59235 NegativeStrandReadsAssigned:15208
Dataset is classified unstranded
MeadianReadLen=25 20thPercentileLength=21 echo kmer=19
SRR11699286 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: SRR11699286-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 4,355,057 reads, 830,171 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 923 rounds

  72540 SRR11699286.ke.tsv
  44303 SRR11699286.se.tsv
 116843 total
==> SRR11699286.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Zm00001eb096110_T001	2067	1968	0	0
Zm00001eb321680_T001	3417	3318	5	1.9444
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

==> SRR11699286.se.tsv <==
Zm00001eb015280	1
Zm00001eb000610	0
Zm00001eb033210	0
Zm00001eb044610	0
Zm00001eb014360	0
Zm00001eb051320	0
Zm00001eb021860	0
Zm00001eb011690	0
Zm00001eb016840	0
Zm00001eb052060	0
SRR11699286 completed mapping pipeline successfully
