Starting /dee2/code/volunteer_pipeline.sh SRR11699294
    current disk space = 2467133722624
    free memory = 1581225444 
SRR11699294 SRAfilesize
055785dc30643d1b55601e6eae9f9ecb  SRR11699294.sra
SRR11699294.sra file validated
SRR11699294 is single end
SRR11699294 is conventional basespace
SRR11699294 read1 length is 76 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR11699294_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	31.07125	32.0	32.0	32.0	32.0	32.0
2	31.37025	32.0	32.0	32.0	32.0	32.0
3	31.46975	32.0	32.0	32.0	32.0	32.0
4	31.46175	32.0	32.0	32.0	32.0	32.0
5	31.49625	32.0	32.0	32.0	32.0	32.0
6	34.98975	36.0	36.0	36.0	36.0	36.0
7	35.05775	36.0	36.0	36.0	36.0	36.0
8	35.17275	36.0	36.0	36.0	36.0	36.0
9	34.74175	36.0	36.0	36.0	32.0	36.0
10-11	35.002375	36.0	36.0	36.0	36.0	36.0
12-13	35.013625	36.0	36.0	36.0	36.0	36.0
14-15	35.023875000000004	36.0	36.0	36.0	36.0	36.0
16-17	35.087125	36.0	36.0	36.0	36.0	36.0
18-19	35.159375	36.0	36.0	36.0	36.0	36.0
20-21	34.959125	36.0	36.0	36.0	36.0	36.0
22-23	34.94525	36.0	36.0	36.0	36.0	36.0
24-25	35.056875000000005	36.0	36.0	36.0	36.0	36.0
26-27	34.832125	36.0	36.0	36.0	34.0	36.0
28-29	34.861875	36.0	36.0	36.0	36.0	36.0
30-31	34.864125	36.0	36.0	36.0	36.0	36.0
32-33	34.849374999999995	36.0	36.0	36.0	36.0	36.0
34-35	34.984375	36.0	36.0	36.0	36.0	36.0
36-37	34.981125	36.0	36.0	36.0	36.0	36.0
38-39	34.906499999999994	36.0	36.0	36.0	36.0	36.0
40-41	34.824375	36.0	36.0	36.0	36.0	36.0
42-43	34.78675	36.0	36.0	36.0	32.0	36.0
44-45	34.824124999999995	36.0	36.0	36.0	34.0	36.0
46-47	34.77975	36.0	36.0	36.0	34.0	36.0
48-49	34.7205	36.0	36.0	36.0	34.0	36.0
50-51	34.2705	36.0	36.0	36.0	32.0	36.0
52-53	34.34325	36.0	36.0	36.0	32.0	36.0
54-55	34.062375	36.0	36.0	36.0	32.0	36.0
56-57	33.878875	36.0	36.0	36.0	27.0	36.0
58-59	33.415499999999994	36.0	36.0	36.0	27.0	36.0
60-61	33.373125	36.0	36.0	36.0	27.0	36.0
62-63	33.156875	36.0	34.0	36.0	27.0	36.0
64-65	32.842875	36.0	32.0	36.0	24.0	36.0
66-67	32.9405	36.0	32.0	36.0	27.0	36.0
68-69	33.077	36.0	32.0	36.0	27.0	36.0
70-71	33.371375	36.0	34.0	36.0	27.0	36.0
72-73	33.018125	36.0	34.0	36.0	24.0	36.0
74-75	33.515875	36.0	36.0	36.0	29.5	36.0
76	30.8045	36.0	32.0	36.0	14.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
19	1.0
20	0.0
21	0.0
22	3.0
23	2.0
24	11.0
25	16.0
26	23.0
27	39.0
28	58.0
29	81.0
30	105.0
31	131.0
32	219.0
33	383.0
34	1030.0
35	1898.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	23.5	30.85	20.4	25.25
2	21.2	29.049999999999997	28.4	21.349999999999998
3	23.875	35.25	18.25	22.625
4	27.900000000000002	35.0	18.025	19.075
5	21.75	27.85	22.025	28.375
6	28.65	29.075	22.900000000000002	19.375
7	30.425	36.55	17.2	15.825
8	22.5	31.125000000000004	25.924999999999997	20.45
9	24.725	31.825	17.525	25.924999999999997
10-11	32.1	29.475	21.3625	17.0625
12-13	22.1	24.5125	23.7375	29.65
14-15	29.475	37.824999999999996	18.35	14.35
16-17	22.9375	23.849999999999998	33.887499999999996	19.325
18-19	36.15	25.35	23.200000000000003	15.299999999999999
20-21	23.125	37.425000000000004	22.8125	16.6375
22-23	30.15	38.2125	14.2	17.4375
24-25	30.412499999999998	38.7125	14.149999999999999	16.725
26-27	28.875	31.0375	18.3625	21.725
28-29	34.4375	28.4	14.75	22.412499999999998
30-31	32.1	38.4375	10.012500000000001	19.45
32-33	29.275000000000002	38.625	10.7375	21.3625
34-35	29.625	29.862499999999997	13.7875	26.724999999999998
36-37	24.5625	34.0625	11.275	30.099999999999998
38-39	22.4625	33.7125	14.0625	29.762499999999996
40-41	25.2	27.500000000000004	19.1	28.199999999999996
42-43	24.725	25.624999999999996	21.512500000000003	28.1375
44-45	21.3	34.150000000000006	16.575	27.975
46-47	18.8	32.675	14.9875	33.537499999999994
48-49	14.5875	27.775	19.275000000000002	38.3625
50-51	13.25	30.2125	18.2375	38.3
52-53	18.512500000000003	26.200000000000003	21.95	33.3375
54-55	14.2	30.7	20.0875	35.0125
56-57	11.25	31.45	21.1375	36.162499999999994
58-59	12.0125	28.175	22.2125	37.6
60-61	13.075000000000001	26.737499999999997	23.150000000000002	37.0375
62-63	17.7625	27.325	22.5	32.4125
64-65	16.0	21.912499999999998	28.225	33.862500000000004
66-67	15.787499999999998	16.45	32.5125	35.25
68-69	18.862499999999997	17.9125	32.1125	31.112499999999997
70-71	18.862499999999997	19.5875	34.1	27.450000000000003
72-73	20.575	14.725	30.025000000000002	34.675
74-75	23.25	11.899999999999999	29.912499999999998	34.9375
76	17.75	11.700000000000001	39.050000000000004	31.5
>>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	0.0
33	0.0
34	0.5
35	0.5
36	0.0
37	0.0
38	1.5
39	5.5
40	9.0
41	20.0
42	30.0
43	42.5
44	75.0
45	150.5
46	206.0
47	313.0
48	782.5
49	848.5
50	552.0
51	509.5
52	439.5
53	340.0
54	268.0
55	201.5
56	102.0
57	73.5
58	78.0
59	50.5
60	16.0
61	7.0
62	5.0
63	5.0
64	2.5
65	1.0
66	1.0
67	0.0
68	0.0
69	0.0
70	0.0
71	0.0
72	0.0
73	0.0
74	0.0
75	0.0
76	0.0
77	0.0
78	0.0
79	0.0
80	0.0
81	0.0
82	0.0
83	0.0
84	0.0
85	0.0
86	0.0
87	0.0
88	0.0
89	0.0
90	0.0
91	0.5
92	1.0
93	0.5
94	0.0
95	0.5
96	1.0
97	0.5
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	63.025
#Duplication Level	Percentage of deduplicated	Percentage of total
1	89.21063070210235	56.225
2	4.918683062276874	6.2
3	2.0626735422451405	3.9
4	0.8726695755652519	2.1999999999999997
5	0.5553351844506148	1.7500000000000002
6	0.5156683855612851	1.95
7	0.4760015866719556	2.1
8	0.2380007933359778	1.2
9	0.1190003966679889	0.675
>10	0.8726695755652519	12.275
>50	0.1190003966679889	4.55
>100	0.039666798889329634	6.9750000000000005
>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	279	6.9750000000000005	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
CTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCA	68	1.7000000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
ATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAAC	61	1.525	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
GAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	53	1.325	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
AACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAG	39	0.975	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
AACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATCA	38	0.95	TruSeq Adapter, Index 1 (100% over 37bp)
ACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	37	0.9249999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
TCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACT	35	0.8750000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
CCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGT	28	0.7000000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
TAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCA	28	0.7000000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
AACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	28	0.7000000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
ATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATCACGAT	27	0.675	TruSeq Adapter, Index 1 (100% over 41bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGAGATCGGAAGAGCAC	25	0.625	No Hit
CTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAG	22	0.5499999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GGGGATGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATC	20	0.5	TruSeq Adapter, Index 1 (100% over 36bp)
TCCGTTGTAGTCTAGCTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	20	0.5	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCAGATCGGAAGAGCACAC	19	0.475	No Hit
GCGACCCCAGGTCAGTCGGGACTAGATCGGAAGAGCACACGTCTGAACTC	19	0.475	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATCACGA	16	0.4	TruSeq Adapter, Index 1 (100% over 40bp)
AGGGCTATAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATC	16	0.4	TruSeq Adapter, Index 1 (100% over 36bp)
TAATTCATGATCTGGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
ATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACT	14	0.35000000000000003	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
ACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACA	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTAGATCGGAAGAGCA	11	0.27499999999999997	No Hit
TCCGTTGTAGTCTAGCTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
GAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTC	11	0.27499999999999997	No Hit
AAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAACTCCAG	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
CGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTC	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
AAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAACTCCA	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
CAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
GCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
AACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGT	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
CTAACGAACGAACGATTTGAATAGATCGGAAGAGCACACGTCTGAACTCC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GGGTCGATGCCCGAGCGGTTAATGGGGACGGACTGAGATCGGAAGAGCAC	8	0.2	No Hit
CAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCAC	8	0.2	No Hit
CACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTCCA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGT	7	0.17500000000000002	No Hit
ACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
GACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
AGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACA	7	0.17500000000000002	No Hit
TGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGC	7	0.17500000000000002	No Hit
ACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTCC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GCCGCCATGGTGAAATTGGTAGACACGCTGCTCTTAGATCGGAAGAGCAC	7	0.17500000000000002	No Hit
TCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TAATTCATGATCTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTAGATCGGAAGAGCACA	7	0.17500000000000002	No Hit
CGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATCACG	7	0.17500000000000002	TruSeq Adapter, Index 1 (100% over 39bp)
GCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACAC	6	0.15	No Hit
ATCCTAACGAACGAACGATTTGAATAGATCGGAAGAGCACACGTCTGAAC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
CGACACGACTCTCGGCAACGAGATCGGAAGAGCACACGTCTGAACTCCAG	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
CGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAT	6	0.15	TruSeq Adapter, Index 1 (100% over 35bp)
TTTGGATTGAAGGGAGCTCTGAGATCGGAAGAGCACACGTCTGAACTCCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
ACGTCTGCCTGGGCGTCACGCAGATCGGAAGAGCACACGTCTGAACTCCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
ACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATCAC	6	0.15	TruSeq Adapter, Index 1 (100% over 38bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTGAGATCGGAAGAGCAC	6	0.15	No Hit
CCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
GCGACCCCAGGTCAGTCGGGACTACCCGCTAGATCGGAAGAGCACACGTC	6	0.15	No Hit
AGGGATGTAGCGCAGCTTGGTAGCGCTTTTGTTTTAGATCGGAAGAGCAC	6	0.15	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTAGATCGGAAGAGCA	6	0.15	No Hit
AACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCCAGATCGGAAGAGCACA	5	0.125	No Hit
TTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATCACGATC	5	0.125	TruSeq Adapter, Index 1 (100% over 42bp)
TAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
ATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGA	5	0.125	No Hit
GCGAGCGTAGTTCAGTGGTAAAACATCTCCTTGCCAAGGAGAGATCGGAA	5	0.125	No Hit
AAAGGCTGACGCGGGCTCTAGATCGGAAGAGCACACGTCTGAACTCCAGT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
AGCGGAGTAGAGCAGTTAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
AGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATCAC	5	0.125	TruSeq Adapter, Index 1 (100% over 38bp)
GGGGATGTAGCTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAT	5	0.125	TruSeq Adapter, Index 1 (100% over 35bp)
GGCGGATGTAGCCAAGTGGATCAAGGCAGTGGATTGAGATCGGAAGAGCA	5	0.125	No Hit
CGACACGACTCTCGGCAACGGAAGATCGGAAGAGCACACGTCTGAACTCC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TCCGTTGTAGTCTAGTTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	5	0.125	No Hit
GATAAAAGGCTGACGCGGGCTCTAGATCGGAAGAGCACACGTCTGAACTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
>>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	0.0	0.0	0.0	0.0	0.0
2	0.05	0.0	0.0	0.0	0.0
3	0.15	0.0	0.0	0.0	0.0
4	0.15	0.0	0.0	0.0	0.0
5	0.225	0.0	0.0	0.0	0.0
6	0.325	0.0	0.0	0.0	0.0
7	0.35	0.0	0.0	0.0	0.0
8	0.6	0.0	0.0	0.0	0.0
9	1.55	0.0	0.0	0.0	0.0
10	2.25	0.0	0.0	0.0	0.0
11	2.675	0.0	0.0	0.0	0.0
12	3.3	0.0	0.0	0.0	0.0
13	4.975	0.0	0.0	0.0	0.0
14	6.85	0.0	0.0	0.0	0.0
15	8.45	0.0	0.0	0.0	0.0
16	10.575	0.0	0.0	0.0	0.0
17	13.625	0.0	0.0	0.0	0.0
18	16.875	0.0	0.0	0.0	0.0
19	19.425	0.0	0.0	0.0	0.0
20	23.375	0.0	0.0	0.0	0.0
21	27.325	0.0	0.0	0.0	0.0
22	33.55	0.0	0.0	0.0	0.0
23	45.975	0.0	0.0	0.0	0.0
24	49.775	0.0	0.0	0.0	0.0
25	56.825	0.0	0.0	0.0	0.0
26	60.825	0.0	0.0	0.0	0.0
27	63.45	0.0	0.0	0.0	0.0
28	65.8	0.0	0.0	0.0	0.0
29	67.7	0.0	0.0	0.0	0.0
30	70.125	0.0	0.0	0.0	0.0
31	73.425	0.0	0.0	0.0	0.0
32	75.9	0.0	0.0	0.0	0.0
33	77.625	0.0	0.0	0.0	0.0
34	80.125	0.0	0.0	0.0	0.0
35	82.625	0.0	0.0	0.0	0.0
36	85.825	0.0	0.0	0.0	0.0
37	88.325	0.0	0.0	0.0	0.0
38	89.875	0.0	0.0	0.0	0.0
39	91.0	0.0	0.0	0.0	0.0
40	91.7	0.0	0.0	0.0	0.0
41	92.45	0.0	0.0	0.0	0.0
42	93.45	0.0	0.0	0.0	0.0
43	94.0	0.0	0.0	0.0	0.0
44	94.375	0.0	0.0	0.0	0.0
45	94.65	0.0	0.0	0.0	0.0
46	94.95	0.0	0.0	0.0	0.0
47	95.2	0.0	0.0	0.0	0.0
48	95.4	0.0	0.0	0.0	0.0
49	95.575	0.0	0.0	0.0	0.0
50	95.625	0.0	0.0	0.0	0.0
51	95.65	0.0	0.0	0.0	0.0
52	95.725	0.0	0.0	0.0	0.0
53	95.775	0.0	0.0	0.0	0.0
54	95.8	0.0	0.0	0.0	0.0
55	95.825	0.0	0.0	0.0	0.0
56	95.825	0.0	0.0	0.0	0.0
57	95.825	0.0	0.0	0.0	0.0
58	95.825	0.0	0.0	0.0	0.0
59	95.85	0.0	0.0	0.0	0.0
60	95.85	0.0	0.0	0.0	0.0
61	95.85	0.0	0.0	0.0	0.0
62	95.85	0.0	0.0	0.0	0.0
63	95.85	0.0	0.0	0.0	0.0
64	95.85	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
GGATGTA	15	0.0020658788	70.00001	3
TCTAGCT	15	0.0020658788	70.00001	11
GCTGGTC	15	0.0020658788	70.00001	15
GATGTAG	15	0.0020658788	70.00001	4
TAGCTGG	15	0.0020658788	70.00001	13
CCGTTGT	15	0.0020658788	70.00001	2
TAGTCTA	15	0.0020658788	70.00001	8
GGTCAGG	15	0.0020658788	70.00001	18
CTGGTCA	15	0.0020658788	70.00001	16
CTAGCTG	15	0.0020658788	70.00001	12
GGGATGT	15	0.0020658788	70.00001	2
GTCTAGC	15	0.0020658788	70.00001	10
TCCGTTG	15	0.0020658788	70.00001	1
CGTTGTA	15	0.0020658788	70.00001	3
ATGTAGC	15	0.0020658788	70.00001	5
AGTCTAG	15	0.0020658788	70.00001	9
CAGGATA	15	0.0020658788	70.00001	21
GTCAGGA	15	0.0020658788	70.00001	19
AGCTGGT	15	0.0020658788	70.00001	14
GTAGTCT	15	0.0020658788	70.00001	7
>>END_MODULE
Rejected 578416 READS because READLEN < 1
Read 578416 spots for SRR11699294.sra
Written 578416 spots for SRR11699294.sra
Rejected 578416 READS because READLEN < 1
Read 578416 spots for SRR11699294.sra
Written 578416 spots for SRR11699294.sra
Rejected 578416 READS because READLEN < 1
Read 578416 spots for SRR11699294.sra
Written 578416 spots for SRR11699294.sra
Rejected 578416 READS because READLEN < 1
Read 578416 spots for SRR11699294.sra
Written 578416 spots for SRR11699294.sra
Rejected 578416 READS because READLEN < 1
Read 578416 spots for SRR11699294.sra
Written 578416 spots for SRR11699294.sra
Rejected 578416 READS because READLEN < 1
Read 578416 spots for SRR11699294.sra
Written 578416 spots for SRR11699294.sra
Rejected 578416 READS because READLEN < 1
Read 578416 spots for SRR11699294.sra
Written 578416 spots for SRR11699294.sra
Rejected 578416 READS because READLEN < 1
Read 578416 spots for SRR11699294.sra
Written 578416 spots for SRR11699294.sra
Rejected 578416 READS because READLEN < 1
Read 578416 spots for SRR11699294.sra
Written 578416 spots for SRR11699294.sra
Rejected 578416 READS because READLEN < 1
Read 578416 spots for SRR11699294.sra
Written 578416 spots for SRR11699294.sra
Rejected 578416 READS because READLEN < 1
Read 578416 spots for SRR11699294.sra
Written 578416 spots for SRR11699294.sra
Rejected 578416 READS because READLEN < 1
Read 578416 spots for SRR11699294.sra
Written 578416 spots for SRR11699294.sra
Rejected 578416 READS because READLEN < 1
Read 578416 spots for SRR11699294.sra
Written 578416 spots for SRR11699294.sra
Rejected 578416 READS because READLEN < 1
Read 578416 spots for SRR11699294.sra
Written 578416 spots for SRR11699294.sra
Rejected 578416 READS because READLEN < 1
Read 578416 spots for SRR11699294.sra
Written 578416 spots for SRR11699294.sra
Rejected 578416 READS because READLEN < 1
Read 578416 spots for SRR11699294.sra
Written 578416 spots for SRR11699294.sra
Rejected 578416 READS because READLEN < 1
Read 578416 spots for SRR11699294.sra
Written 578416 spots for SRR11699294.sra
Rejected 578416 READS because READLEN < 1
Read 578416 spots for SRR11699294.sra
Written 578416 spots for SRR11699294.sra
Rejected 578435 READS because READLEN < 1
Read 578435 spots for SRR11699294.sra
Written 578435 spots for SRR11699294.sra
Rejected 578416 READS because READLEN < 1
Read 578416 spots for SRR11699294.sra
Written 578416 spots for SRR11699294.sra
SRR ids: ['SRR11699294.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_zrlw9is5
SRR11699294.sra spots: 11568339
blocks: [[1, 578416], [578417, 1156832], [1156833, 1735248], [1735249, 2313664], [2313665, 2892080], [2892081, 3470496], [3470497, 4048912], [4048913, 4627328], [4627329, 5205744], [5205745, 5784160], [5784161, 6362576], [6362577, 6940992], [6940993, 7519408], [7519409, 8097824], [8097825, 8676240], [8676241, 9254656], [9254657, 9833072], [9833073, 10411488], [10411489, 10989904], [10989905, 11568339]]
SRR11699294 file size 2203849
SRR11699294 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 SRR11699294 SRR11699294_1.fastq
Input file:	SRR11699294_1.fastq
trimmed:	SRR11699294-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 10:46:19 2025 >> started

Wed Jun 18 10:46:23 2025 >> done (4.851s)
11568339 reads processed; of these:
 2487212 (21.50%) short reads filtered out after trimming by size control
    7290 ( 0.06%) empty reads filtered out after trimming by size control
 9073837 (78.44%) reads available; of these:
 8910168 (98.20%) trimmed reads available after processing
  163669 ( 1.80%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	 295370	  3.26%
 19	 470426	  5.18%
 20	 485922	  5.36%
 21	 688393	  7.59%
 22	1262471	 13.91%
 23	 404761	  4.46%
 24	 901111	  9.93%
 25	 462163	  5.09%
 26	 308543	  3.40%
 27	 314117	  3.46%
 28	 259164	  2.86%
 29	 274945	  3.03%
 30	 391942	  4.32%
 31	 257497	  2.84%
 32	 227687	  2.51%
 33	 272395	  3.00%
 34	 282064	  3.11%
 35	 384683	  4.24%
 36	 289714	  3.19%
 37	 163124	  1.80%
 38	 109036	  1.20%
 39	 100736	  1.11%
 40	  76486	  0.84%
 41	  97407	  1.07%
 42	  57340	  0.63%
 43	  42498	  0.47%
 44	  30169	  0.33%
 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	      1	  0.00%
 71	      0	  0.00%
 72	      1	  0.00%
 73	      0	  0.00%
 74	      0	  0.00%
 75	      2	  0.00%
 76	 163669	  1.80%
9073837 reads passed initial QC


criterion=sequence-density
sequence-density=2.62
sequence-density-rank=1
fanout-score=1.00
fanout-score-rank=18
prefix-density=0.01
prefix-fanout=1.0
sequence=TCCGTTGTAGTCTAGCTGGTCAGGATA


criterion=fanout-score
sequence-density=0.17
sequence-density-rank=21
fanout-score=15.64
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 10:46:34
                             Started mapping on |	Jun 18 10:46:34
                                    Finished on |	Jun 18 10:46:57
       Mapping speed, Million of reads per hour |	1420.25

                          Number of input reads |	9073837
                      Average input read length |	27
                                    UNIQUE READS:
                   Uniquely mapped reads number |	794619
                        Uniquely mapped reads % |	8.76%
                          Average mapped length |	24.07
                       Number of splices: Total |	18781
            Number of splices: Annotated (sjdb) |	8109
                       Number of splices: GT/AG |	17388
                       Number of splices: GC/AG |	885
                       Number of splices: AT/AC |	8
               Number of splices: Non-canonical |	500
                      Mismatch rate per base, % |	1.17%
                         Deletion rate per base |	0.01%
                        Deletion average length |	1.47
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.27
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	954316
             % of reads mapped to multiple loci |	10.52%
        Number of reads mapped to too many loci |	1895997
             % of reads mapped to too many loci |	20.90%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	6.17%
                     % of reads unmapped: other |	53.66%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	7324902	7324902	7324902
N_multimapping	954316	954316	954316
N_noFeature	653008	676043	767068
N_ambiguous	4629	61	61
UnstrandedReadsAssigned:136982 PositiveStrandReadsAssigned:118515 NegativeStrandReadsAssigned:27490
Dataset is classified unstranded
MeadianReadLen=25 20thPercentileLength=21 echo kmer=19
SRR11699294 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: SRR11699294-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 9,073,837 reads, 1,752,039 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 1,015 rounds

  72540 SRR11699294.ke.tsv
  44303 SRR11699294.se.tsv
 116843 total
==> SRR11699294.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Zm00001eb096110_T001	2067	1968	0	0
Zm00001eb321680_T001	3417	3318	8	1.43907
Zm00001eb323640_T001	3273	3174	0	0
Zm00001eb314140_T001	893	794	0	0
Zm00001eb080260_T001	3529	3430	1	0.17401
Zm00001eb026490_T001	2433	2334	0	0
Zm00001eb026490_T002	2229	2130	0	0
Zm00001eb026490_T003	2220	2121	0	0
Zm00001eb281360_T001	2412	2313	0	0

==> SRR11699294.se.tsv <==
Zm00001eb015280	0
Zm00001eb000610	0
Zm00001eb033210	0
Zm00001eb044610	0
Zm00001eb014360	0
Zm00001eb051320	1
Zm00001eb021860	0
Zm00001eb011690	0
Zm00001eb016840	0
Zm00001eb052060	0
SRR11699294 completed mapping pipeline successfully
