Starting /dee2/code/volunteer_pipeline.sh SRR11699698
    current disk space = 2452498132992
    free memory = 1581664492 
SRR11699698 SRAfilesize
7892f312240bd3740581f5391ee0c631  SRR11699698.sra
SRR11699698.sra file validated
SRR11699698 is single end
SRR11699698 is conventional basespace
SRR11699698 read1 length is 76 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR11699698_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	50
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	31.29425	32.0	32.0	32.0	32.0	32.0
2	31.44775	32.0	32.0	32.0	32.0	32.0
3	31.59325	32.0	32.0	32.0	32.0	32.0
4	31.5825	32.0	32.0	32.0	32.0	32.0
5	31.66025	32.0	32.0	32.0	32.0	32.0
6	35.28075	36.0	36.0	36.0	36.0	36.0
7	35.2325	36.0	36.0	36.0	36.0	36.0
8	35.124	36.0	36.0	36.0	36.0	36.0
9	35.1255	36.0	36.0	36.0	36.0	36.0
10-11	35.247875	36.0	36.0	36.0	36.0	36.0
12-13	35.280625	36.0	36.0	36.0	36.0	36.0
14-15	35.156875	36.0	36.0	36.0	36.0	36.0
16-17	35.268375000000006	36.0	36.0	36.0	36.0	36.0
18-19	35.335499999999996	36.0	36.0	36.0	36.0	36.0
20-21	35.195625	36.0	36.0	36.0	36.0	36.0
22-23	35.197375	36.0	36.0	36.0	36.0	36.0
24-25	35.147875	36.0	36.0	36.0	36.0	36.0
26-27	35.0405	36.0	36.0	36.0	36.0	36.0
28-29	35.125375	36.0	36.0	36.0	36.0	36.0
30-31	35.08625	36.0	36.0	36.0	36.0	36.0
32-33	35.1445	36.0	36.0	36.0	36.0	36.0
34-35	35.122875	36.0	36.0	36.0	36.0	36.0
36-37	35.07425	36.0	36.0	36.0	36.0	36.0
38-39	35.104375	36.0	36.0	36.0	36.0	36.0
40-41	35.134625	36.0	36.0	36.0	36.0	36.0
42-43	35.047250000000005	36.0	36.0	36.0	36.0	36.0
44-45	35.12025	36.0	36.0	36.0	36.0	36.0
46-47	35.07775	36.0	36.0	36.0	36.0	36.0
48-49	34.909375	36.0	36.0	36.0	34.0	36.0
50-51	34.7545	36.0	36.0	36.0	32.0	36.0
52-53	34.714375000000004	36.0	36.0	36.0	32.0	36.0
54-55	34.434749999999994	36.0	36.0	36.0	32.0	36.0
56-57	33.884875	36.0	36.0	36.0	29.5	36.0
58-59	33.55875	36.0	36.0	36.0	27.0	36.0
60-61	33.235875	36.0	36.0	36.0	17.5	36.0
62-63	33.0945	36.0	36.0	36.0	21.0	36.0
64-65	32.576125000000005	36.0	32.0	36.0	14.0	36.0
66-67	31.69225	36.0	32.0	36.0	14.0	36.0
68-69	31.97075	36.0	32.0	36.0	14.0	36.0
70-71	31.828375	36.0	32.0	36.0	14.0	36.0
72-73	31.42175	36.0	29.5	36.0	14.0	36.0
74-75	31.996625	36.0	32.0	36.0	14.0	36.0
76	28.16725	32.0	14.0	36.0	14.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
23	6.0
24	6.0
25	8.0
26	28.0
27	29.0
28	59.0
29	84.0
30	129.0
31	163.0
32	244.0
33	403.0
34	1106.0
35	1735.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	36.35	28.275	21.375	14.000000000000002
2	37.675	19.975	18.375	23.974999999999998
3	30.375000000000004	22.575	21.075	25.974999999999998
4	37.775	26.6	18.175	17.45
5	25.124999999999996	25.025	25.874999999999996	23.974999999999998
6	21.45	21.45	32.4	24.7
7	39.45	27.05	20.8	12.7
8	21.85	18.825	43.45	15.875
9	23.549999999999997	39.025	21.475	15.950000000000001
10-11	35.712500000000006	23.175	22.55	18.5625
12-13	21.95	17.925	30.0875	30.0375
14-15	30.162499999999998	41.575	16.25	12.0125
16-17	24.425	18.462500000000002	37.25	19.8625
18-19	45.425	19.0625	21.6	13.9125
20-21	23.4625	27.437499999999996	30.7	18.4
22-23	34.025	37.3625	14.374999999999998	14.2375
24-25	29.5375	37.5625	15.299999999999999	17.599999999999998
26-27	23.825	28.487499999999997	24.6125	23.075000000000003
28-29	24.875	23.7	20.5875	30.837500000000002
30-31	32.7625	27.287499999999998	14.6875	25.2625
32-33	25.837500000000002	29.2875	20.0125	24.8625
34-35	29.9	29.299999999999997	22.475	18.325
36-37	28.125	38.1625	14.35	19.3625
38-39	26.2625	32.6875	17.2375	23.8125
40-41	31.324999999999996	27.675	13.9625	27.037499999999998
42-43	33.25	34.5875	12.775	19.3875
44-45	26.687499999999996	38.987500000000004	12.2625	22.0625
46-47	28.825	32.9625	10.975	27.237499999999997
48-49	18.4875	32.375	12.612499999999999	36.525
50-51	15.0625	32.7875	14.887500000000001	37.262499999999996
52-53	22.2	23.4625	19.7	34.637499999999996
54-55	18.525	20.962500000000002	28.712500000000002	31.8
56-57	18.8375	27.212500000000002	23.4625	30.4875
58-59	16.2	33.037499999999994	20.599999999999998	30.162499999999998
60-61	10.825	21.55	27.950000000000003	39.675
62-63	13.450000000000001	21.325	24.9375	40.2875
64-65	16.075	25.162499999999998	25.6125	33.15
66-67	15.2375	19.05	30.85	34.862500000000004
68-69	13.15	25.4	24.25	37.2
70-71	20.4125	21.025	31.6	26.9625
72-73	16.075	12.35	40.175	31.4
74-75	12.987499999999999	14.725	30.675	41.612500000000004
76	10.5	17.325	37.15	35.025
>>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	0.5
28	0.5
29	0.0
30	0.0
31	0.0
32	0.5
33	1.0
34	0.5
35	0.5
36	0.5
37	0.0
38	1.5
39	4.5
40	11.0
41	21.5
42	27.0
43	45.0
44	93.0
45	151.0
46	179.0
47	254.5
48	540.5
49	679.5
50	608.0
51	577.5
52	575.0
53	469.5
54	336.0
55	243.0
56	119.5
57	95.5
58	102.0
59	69.0
60	24.5
61	9.5
62	6.0
63	3.5
64	2.0
65	2.5
66	1.0
67	0.0
68	0.0
69	0.5
70	1.0
71	1.0
72	0.5
73	0.0
74	0.0
75	0.0
76	0.0
77	0.0
78	0.0
79	0.0
80	0.0
81	0.0
82	0.0
83	0.0
84	0.0
85	0.0
86	0.0
87	0.0
88	0.0
89	0.0
90	0.0
91	0.0
92	0.0
93	0.5
94	0.5
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	0.0
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	62.1
#Duplication Level	Percentage of deduplicated	Percentage of total
1	87.84219001610306	54.55
2	5.35426731078905	6.65
3	2.455716586151369	4.575
4	1.0869565217391304	2.7
5	0.6843800322061192	2.125
6	0.4830917874396135	1.7999999999999998
7	0.322061191626409	1.4000000000000001
8	0.1610305958132045	0.8
9	0.24154589371980675	1.35
>10	1.2077294685990339	16.5
>50	0.1610305958132045	7.55
>100	0.0	0.0
>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
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGAGATCGGAAGAGCAC	89	2.225	No Hit
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTAGATCGGAAGAGCACA	84	2.1	No Hit
CTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCC	72	1.7999999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTAGATCGGAAGAGCA	57	1.425	No Hit
AGGGATGTAGCGCAGCTTGGTAGCGCTTTTGTTTTAGATCGGAAGAGCAC	48	1.2	No Hit
AGCGGAGTAGAGCAGTTAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	42	1.05	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
TCCGTTGTAGTCTAGCTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	41	1.0250000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
ATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAAC	39	0.975	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTAGATCGGAAGAGCA	37	0.9249999999999999	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCAGATCGGAAGAGCACAC	31	0.775	No Hit
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTGAGATCGGAAGAGCAC	29	0.7250000000000001	No Hit
CTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCA	27	0.675	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GCCGCCATGGTGAAATTGGTAGACACGCTGCTCTTAGATCGGAAGAGCAC	27	0.675	No Hit
GGGGATGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGT	26	0.65	TruSeq Adapter, Index 8 (97% over 36bp)
GGGTCGATGCCCGAGCGGTTAATGGGGACGGACTGAGATCGGAAGAGCAC	24	0.6	No Hit
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTGTAGATCGGAAGAGCA	24	0.6	No Hit
GCGAGCGTAGTTCAGTGGTAAAACATCTCCTTGCCAAGGAGAGATCGGAA	22	0.5499999999999999	No Hit
GGGTCGATGCCCGAGCGGTTAATGGGGACGGACTGTAGATCGGAAGAGCA	20	0.5	No Hit
AGGGATGTAGCGCAGCTTGGTAGCGCTTTTGTTTAGATCGGAAGAGCACA	19	0.475	No Hit
GCCCCCATCGTCTAGTGGTTCAGGACATCTCTCTTTAGATCGGAAGAGCA	17	0.42500000000000004	No Hit
ATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACT	17	0.42500000000000004	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTAGATCGGAAGAGCAC	16	0.4	No Hit
TCCTCAGTAGCTCAGTGGTAGAGCGGTCGGCTGAGATCGGAAGAGCACAC	15	0.375	No Hit
GAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
AGGGCTATAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGT	15	0.375	TruSeq Adapter, Index 8 (97% over 36bp)
TCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACT	14	0.35000000000000003	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TCCGTTGTAGTCTAGTTGGTCAGGATATTCGGCTCTAGATCGGAAGAGCA	14	0.35000000000000003	No Hit
GGAGAGATGGCTGAGTGGACTAAAGCGGCGGATTAGATCGGAAGAGCACA	14	0.35000000000000003	No Hit
GGAGAGATGGCTGAGTGGACTAAAGCGGCGGATTGAGATCGGAAGAGCAC	13	0.325	No Hit
ACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTAGATCGGAAGAGCACA	12	0.3	No Hit
AGGGATGTAGCGCAGCTTGGTAGCTTTTGTTTTAGATCGGAAGAGCACAC	10	0.25	No Hit
TAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCA	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
AGCGGAGTAGAGCAGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGT	9	0.22499999999999998	No Hit
CTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAG	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTGAGATCGGAAGAGCACA	9	0.22499999999999998	No Hit
GGCGGATGTAGCCAAGTGGATCAAGGCAGTGGATTGAGATCGGAAGAGCA	9	0.22499999999999998	No Hit
GGGCCTGTAGCTCAGAGGAAGATCGGAAGAGCACACGTCTGAACTCCAGT	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GGAGAGATGGCTGAGTGGACTAAAGCGGCGGATTGCTAGATCGGAAGAGC	9	0.22499999999999998	No Hit
AGGGATGTAGCGCAGCTTGGTAGCGCTTTTGTTAGATCGGAAGAGCACAC	8	0.2	No Hit
GTCTACGCTGGTTCAAATCCAGCTCGGCCCACCAAGATCGGAAGAGCACA	8	0.2	No Hit
AGGGCTATAGCTCAGTTCGGTAGAGCAACTCGTTTAGATCGGAAGAGCAC	8	0.2	No Hit
AACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAG	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGAGATCGGAAGAGCACACG	7	0.17500000000000002	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCCAGATCGGAAGAGCACA	7	0.17500000000000002	No Hit
GCAGTGATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAG	7	0.17500000000000002	No Hit
ATCCTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TACCTGGTTGATCCTGCCAGTAGTCATATGCTTGTCTAGATCGGAAGAGC	7	0.17500000000000002	No Hit
TACCTGGTTGATCCTGCCAGTAGTCATATGCTTGAGATCGGAAGAGCACA	7	0.17500000000000002	No Hit
AACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCACAAGATCGGAAGAGCACACG	7	0.17500000000000002	No Hit
CGACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
AACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGTT	6	0.15	TruSeq Adapter, Index 8 (97% over 37bp)
TACCTGGTTGATCCTGCCAGTAGTCATATGCTTGTCTCAAGATCGGAAGA	6	0.15	No Hit
TCAAAAGAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGATCGGAA	6	0.15	No Hit
TGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGC	6	0.15	No Hit
GCCGCCATGGTGAAATTGGTAGACACGCTGCTCTAGATCGGAAGAGCACA	6	0.15	No Hit
GGCGGATGTAGCCAAGTGGAAGATCGGAAGAGCACACGTCTGAACTCCAG	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TAATTCATGATCTGGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
AGGGATGTAGCGCAGCTTGGTAGCTTTTGTTTAGATCGGAAGAGCACACG	6	0.15	No Hit
CCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
GCCCCCATCGTCTAGTGTTCAGGACATCTCTCTTTAGATCGGAAGAGCAC	6	0.15	No Hit
ATAGGTTTAAGGACACAAGGTGACCCTGCTAGATCGGAAGAGCACACGTC	6	0.15	No Hit
TCCGTTGTAGTCTAGTTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
GCCCCCATCGTCTAGTGGTTCAGGACATCTCTCTTAGATCGGAAGAGCAC	5	0.125	No Hit
GATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGTTCCA	5	0.125	TruSeq Adapter, Index 14 (97% over 39bp)
GGGTCGATGCCCGAGCGGTTAATGGGGACGGACTAGATCGGAAGAGCACA	5	0.125	No Hit
GACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGA	5	0.125	No Hit
GGCGGATGTAGCCAAGTGGATCAAGGCAGTGGATTGTAGATCGGAAGAGC	5	0.125	No Hit
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTAGATCGGAAGAGCACA	5	0.125	No Hit
GGTGGCTGTAGTTTAGTGGTTAGAATTCCACGTTGAGATCGGAAGAGCAC	5	0.125	No Hit
TCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTC	5	0.125	No Hit
GCGACCCCAGGTCAGTCGGGACTAGATCGGAAGAGCACACGTCTGAACTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
AGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
GCCCCCATCGTCTAGTAGTTCAGGACATCTCTCTTTAGATCGGAAGAGCA	5	0.125	No Hit
GCGAGCGTAGTTCAGTGGTAAAACATCTCCTTGAGATCGGAAGAGCACAC	5	0.125	No Hit
CAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCAC	5	0.125	No Hit
GCGACCCCAGGTCAGTCGGGACTACCCGCTAGATCGGAAGAGCACACGTC	5	0.125	No Hit
>>END_MODULE
>>Adapter Content	fail
#Position	Illumina Universal Adapter	Illumina Small RNA 3' Adapter	Illumina Small RNA 5' Adapter	Nextera Transposase Sequence	SOLID Small RNA Adapter
1	0.025	0.0	0.0	0.0	0.0
2	0.125	0.0	0.0	0.0	0.0
3	0.175	0.0	0.0	0.0	0.0
4	0.175	0.0	0.0	0.0	0.0
5	0.175	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	0.4	0.0	0.0	0.0	0.0
9	0.525	0.0	0.0	0.0	0.0
10	0.775	0.0	0.0	0.0	0.0
11	0.925	0.0	0.0	0.0	0.0
12	1.15	0.0	0.0	0.0	0.0
13	1.525	0.0	0.0	0.0	0.0
14	3.125	0.0	0.0	0.0	0.0
15	3.6	0.0	0.0	0.0	0.0
16	4.225	0.0	0.0	0.0	0.0
17	6.05	0.0	0.0	0.0	0.0
18	8.525	0.0	0.0	0.0	0.0
19	9.625	0.0	0.0	0.0	0.0
20	11.55	0.0	0.0	0.0	0.0
21	13.375	0.0	0.0	0.0	0.0
22	16.15	0.0	0.0	0.0	0.0
23	20.675	0.0	0.0	0.0	0.0
24	23.025	0.0	0.0	0.0	0.0
25	27.45	0.0	0.0	0.0	0.0
26	30.6	0.0	0.0	0.0	0.0
27	33.075	0.0	0.0	0.0	0.0
28	36.25	0.0	0.0	0.0	0.0
29	38.475	0.0	0.0	0.0	0.0
30	40.975	0.0	0.0	0.0	0.0
31	43.65	0.0	0.0	0.0	0.0
32	46.175	0.0	0.0	0.0	0.0
33	49.4	0.0	0.0	0.0	0.0
34	54.7	0.0	0.0	0.0	0.0
35	63.325	0.0	0.0	0.0	0.0
36	73.525	0.0	0.0	0.0	0.0
37	82.125	0.0	0.0	0.0	0.0
38	84.675	0.0	0.0	0.0	0.0
39	86.125	0.0	0.0	0.0	0.0
40	87.425	0.0	0.0	0.0	0.0
41	88.725	0.0	0.0	0.0	0.0
42	90.675	0.0	0.0	0.0	0.0
43	91.45	0.0	0.0	0.0	0.0
44	91.975	0.0	0.0	0.0	0.0
45	92.625	0.0	0.0	0.0	0.0
46	93.25	0.0	0.0	0.0	0.0
47	93.725	0.0	0.0	0.0	0.0
48	94.1	0.0	0.0	0.0	0.0
49	94.45	0.0	0.0	0.0	0.0
50	94.7	0.0	0.0	0.0	0.0
51	94.75	0.0	0.0	0.0	0.0
52	94.85	0.0	0.0	0.0	0.0
53	94.9	0.0	0.0	0.0	0.0
54	94.9	0.0	0.0	0.0	0.0
55	95.025	0.0	0.0	0.0	0.0
56	95.025	0.0	0.0	0.0	0.0
57	95.025	0.0	0.0	0.0	0.0
58	95.05	0.0	0.0	0.0	0.0
59	95.05	0.0	0.0	0.0	0.0
60	95.05	0.0	0.0	0.0	0.0
61	95.075	0.0	0.0	0.0	0.0
62	95.075	0.0	0.0	0.0	0.0
63	95.075	0.0	0.0	0.0	0.0
64	95.075	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	fail
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
TGAGAAT	30	7.878043E-8	70.00001	20
GAGAATT	30	7.878043E-8	70.00001	21
TAGCGCT	15	0.0020658788	70.00001	21
GAGCGGT	15	0.0020658788	70.00001	13
GGGTCGA	15	0.0020658788	70.00001	1
TAGTGGT	35	2.6138878E-9	70.00001	14
TTCAATT	15	0.0020658788	70.00001	11
AATTCCA	30	7.878043E-8	70.00001	24
CACGTTA	15	0.0020658788	70.00001	29
GGACTGT	15	0.0020658788	70.00001	30
CGCTTTT	15	0.0020658788	70.00001	24
AGTGGTG	30	7.878043E-8	70.00001	15
CACCGCC	15	0.0020658788	70.00001	26
GATGCCC	15	0.0020658788	70.00001	6
GTCGATG	15	0.0020658788	70.00001	3
GGATTGT	15	0.0020658788	70.00001	2
ACCGCCC	15	0.0020658788	70.00001	27
GGCTGTA	30	7.878043E-8	70.00001	4
CCATGGT	15	0.0020658788	70.00001	5
CAATTGG	15	0.0020658788	70.00001	13
>>END_MODULE
Rejected 315588 READS because READLEN < 1
Read 315588 spots for SRR11699698.sra
Written 315588 spots for SRR11699698.sra
Rejected 315588 READS because READLEN < 1
Read 315588 spots for SRR11699698.sra
Written 315588 spots for SRR11699698.sra
Rejected 315588 READS because READLEN < 1
Read 315588 spots for SRR11699698.sra
Written 315588 spots for SRR11699698.sra
Rejected 315588 READS because READLEN < 1
Read 315588 spots for SRR11699698.sra
Written 315588 spots for SRR11699698.sra
Rejected 315588 READS because READLEN < 1
Read 315588 spots for SRR11699698.sra
Written 315588 spots for SRR11699698.sra
Rejected 315588 READS because READLEN < 1
Read 315588 spots for SRR11699698.sra
Written 315588 spots for SRR11699698.sra
Rejected 315588 READS because READLEN < 1
Read 315588 spots for SRR11699698.sra
Written 315588 spots for SRR11699698.sra
Rejected 315588 READS because READLEN < 1
Read 315588 spots for SRR11699698.sra
Written 315588 spots for SRR11699698.sra
Rejected 315588 READS because READLEN < 1
Read 315588 spots for SRR11699698.sra
Written 315588 spots for SRR11699698.sra
Rejected 315588 READS because READLEN < 1
Read 315588 spots for SRR11699698.sra
Written 315588 spots for SRR11699698.sra
Rejected 315588 READS because READLEN < 1
Read 315588 spots for SRR11699698.sra
Written 315588 spots for SRR11699698.sra
Rejected 315588 READS because READLEN < 1
Read 315588 spots for SRR11699698.sra
Written 315588 spots for SRR11699698.sra
Rejected 315588 READS because READLEN < 1
Read 315588 spots for SRR11699698.sra
Written 315588 spots for SRR11699698.sra
Rejected 315588 READS because READLEN < 1
Read 315588 spots for SRR11699698.sra
Written 315588 spots for SRR11699698.sra
Rejected 315588 READS because READLEN < 1
Read 315588 spots for SRR11699698.sra
Written 315588 spots for SRR11699698.sra
Rejected 315588 READS because READLEN < 1
Read 315588 spots for SRR11699698.sra
Written 315588 spots for SRR11699698.sra
Rejected 315588 READS because READLEN < 1
Read 315588 spots for SRR11699698.sra
Written 315588 spots for SRR11699698.sra
Rejected 315588 READS because READLEN < 1
Read 315588 spots for SRR11699698.sra
Written 315588 spots for SRR11699698.sra
Rejected 315600 READS because READLEN < 1
Read 315600 spots for SRR11699698.sra
Written 315600 spots for SRR11699698.sra
Rejected 315588 READS because READLEN < 1
Read 315588 spots for SRR11699698.sra
Written 315588 spots for SRR11699698.sra
SRR ids: ['SRR11699698.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_av8e2lev
SRR11699698.sra spots: 6311772
blocks: [[1, 315588], [315589, 631176], [631177, 946764], [946765, 1262352], [1262353, 1577940], [1577941, 1893528], [1893529, 2209116], [2209117, 2524704], [2524705, 2840292], [2840293, 3155880], [3155881, 3471468], [3471469, 3787056], [3787057, 4102644], [4102645, 4418232], [4418233, 4733820], [4733821, 5049408], [5049409, 5364996], [5364997, 5680584], [5680585, 5996172], [5996173, 6311772]]
SRR11699698 file size 1199779
SRR11699698 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 SRR11699698 SRR11699698_1.fastq
Input file:	SRR11699698_1.fastq
trimmed:	SRR11699698-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
Sun Jun 22 02:18:35 2025 >> started

Sun Jun 22 02:18:39 2025 >> done (3.898s)
6311772 reads processed; of these:
 604716 ( 9.58%) short reads filtered out after trimming by size control
   2392 ( 0.04%) empty reads filtered out after trimming by size control
5704664 (90.38%) reads available; of these:
5515494 (96.68%) trimmed reads available after processing
 189170 ( 3.32%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  84529	  1.48%
 19	 132779	  2.33%
 20	 142231	  2.49%
 21	 196610	  3.45%
 22	 293889	  5.15%
 23	 157919	  2.77%
 24	 291380	  5.11%
 25	 200588	  3.52%
 26	 153091	  2.68%
 27	 233908	  4.10%
 28	 149616	  2.62%
 29	 168230	  2.95%
 30	 192702	  3.38%
 31	 177823	  3.12%
 32	 193283	  3.39%
 33	 327283	  5.74%
 34	 536488	  9.40%
 35	 619449	 10.86%
 36	 536907	  9.41%
 37	 173166	  3.04%
 38	 111910	  1.96%
 39	  91701	  1.61%
 40	  86502	  1.52%
 41	 114950	  2.02%
 42	  63828	  1.12%
 43	  48666	  0.85%
 44	  36060	  0.63%
 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	      1	  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	      4	  0.00%
 76	 189170	  3.32%
5704664 reads passed initial QC


criterion=sequence-density
sequence-density=5.42
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=23
prefix-density=0.00
prefix-fanout=1.0
sequence=GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTGTG


criterion=fanout-score
sequence-density=2.76
sequence-density-rank=5
fanout-score=25.90
fanout-score-rank=1
prefix-density=2.88
prefix-fanout=24.9
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGTTCCATCTCGTATGCCGTCTTCTGCTT
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 GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTGTG -o SRR11699698 -
Input file:	STDIN
trimmed:	SRR11699698-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTGTG
-- 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
Sun Jun 22 02:18:46 2025 >> started

Sun Jun 22 02:18:50 2025 >> done (3.621s)
3803109 reads processed; of these:
   3554 ( 0.09%) short reads filtered out after trimming by size control
 215943 ( 5.68%) empty reads filtered out after trimming by size control
3583612 (94.23%) reads available; of these:
  40203 ( 1.12%) trimmed reads available after processing
3543409 (98.88%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  57590	  1.61%
 19	  89092	  2.49%
 20	  95495	  2.66%
 21	 132406	  3.69%
 22	 194979	  5.44%
 23	 105329	  2.94%
 24	 192130	  5.36%
 25	 134658	  3.76%
 26	 104952	  2.93%
 27	 156606	  4.37%
 28	  99899	  2.79%
 29	 107763	  3.01%
 30	 125785	  3.51%
 31	 117010	  3.27%
 32	 121457	  3.39%
 33	 207579	  5.79%
 34	 245644	  6.85%
 35	 359701	 10.04%
 36	 330253	  9.22%
 37	 114472	  3.19%
 38	  74362	  2.08%
 39	  60967	  1.70%
 40	  57389	  1.60%
 41	  75191	  2.10%
 42	  42048	  1.17%
 43	  31691	  0.88%
 44	  23260	  0.65%
 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	      4	  0.00%
 69	      0	  0.00%
 70	      2	  0.00%
 71	     52	  0.00%
 72	     64	  0.00%
 73	     48	  0.00%
 74	      0	  0.00%
 75	      3	  0.00%
 76	 125731	  3.51%


criterion=sequence-density
sequence-density=5.66
sequence-density-rank=1
fanout-score=1.00
fanout-score-rank=17
prefix-density=0.06
prefix-fanout=1.0
sequence=TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTCACCCGAAAGACCCGGGTT


criterion=fanout-score
sequence-density=0.31
sequence-density-rank=24
fanout-score=28.06
fanout-score-rank=1
prefix-density=5.77
prefix-fanout=1.5
sequence=TGGTCAGGATACT
                                 Started job on |	Jun 22 02:19:14
                             Started mapping on |	Jun 22 02:19:15
                                    Finished on |	Jun 22 02:19:25
       Mapping speed, Million of reads per hour |	1974.66

                          Number of input reads |	5485167
                      Average input read length |	32
                                    UNIQUE READS:
                   Uniquely mapped reads number |	450831
                        Uniquely mapped reads % |	8.22%
                          Average mapped length |	28.49
                       Number of splices: Total |	11359
            Number of splices: Annotated (sjdb) |	7455
                       Number of splices: GT/AG |	10406
                       Number of splices: GC/AG |	464
                       Number of splices: AT/AC |	4
               Number of splices: Non-canonical |	485
                      Mismatch rate per base, % |	1.11%
                         Deletion rate per base |	0.03%
                        Deletion average length |	1.33
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.35
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	554227
             % of reads mapped to multiple loci |	10.10%
        Number of reads mapped to too many loci |	2186347
             % of reads mapped to too many loci |	39.86%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	7.44%
                     % of reads unmapped: other |	34.38%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	4480109	4480109	4480109
N_multimapping	554227	554227	554227
N_noFeature	327365	339334	434614
N_ambiguous	4308	44	22
UnstrandedReadsAssigned:119158 PositiveStrandReadsAssigned:111453 NegativeStrandReadsAssigned:16195
Dataset is classified positive stranded
MeadianReadLen=32 20thPercentileLength=24 echo kmer=19
SRR11699698 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: SRR11699698-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 5,485,167 reads, 1,012,418 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 883 rounds

  72540 SRR11699698.ke.tsv
  44303 SRR11699698.se.tsv
 116843 total
==> SRR11699698.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Zm00001eb096110_T001	2067	1968	1	0.567708
Zm00001eb321680_T001	3417	3318	5	1.68362
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

==> SRR11699698.se.tsv <==
Zm00001eb015280	1
Zm00001eb000610	0
Zm00001eb033210	0
Zm00001eb044610	0
Zm00001eb014360	0
Zm00001eb051320	1
Zm00001eb021860	0
Zm00001eb011690	1
Zm00001eb016840	0
Zm00001eb052060	0
SRR11699698 completed mapping pipeline successfully
