Starting /dee2/code/volunteer_pipeline.sh SRR1759867
    current disk space = 868765876
    free memory = 118060924 
SRR1759867 SRAfilesize
6ea83c6db154f0f842108b3912e4add7  SRR1759867.sra
SRR1759867.sra file validated
SRR1759867 is single end
SRR1759867 is conventional basespace
SRR1759867 read1 length is 36 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR1759867_1.fastq
File type	Conventional base calls
Encoding	Sanger / Illumina 1.9
Total Sequences	4000
Sequences flagged as poor quality	0
Sequence length	36
%GC	47
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	32.75725	33.0	32.0	34.0	32.0	34.0
2	32.50225	33.0	32.0	34.0	32.0	34.0
3	32.7275	33.0	32.0	34.0	32.0	34.0
4	32.67625	33.0	32.0	34.0	32.0	34.0
5	32.6975	33.0	32.0	34.0	32.0	34.0
6	35.62975	37.0	35.0	37.0	33.0	37.0
7	35.404	37.0	34.0	37.0	33.0	37.0
8	35.38325	37.0	34.0	37.0	33.0	37.0
9	34.93325	37.0	34.0	37.0	32.0	37.0
10	34.86375	37.0	33.0	37.0	32.0	37.0
11	34.8195	37.0	33.0	37.0	32.0	37.0
12	35.33425	37.0	34.0	37.0	33.0	37.0
13	36.97275	38.0	38.0	38.0	36.0	38.0
14	36.745	38.0	38.0	38.0	35.0	38.0
15	36.699	38.0	38.0	38.0	34.0	38.0
16	36.76975	38.0	38.0	38.0	35.0	38.0
17	36.6805	38.0	38.0	38.0	34.0	38.0
18	36.45225	38.0	37.0	38.0	34.0	38.0
19	36.7865	38.0	38.0	38.0	35.0	38.0
20	36.8315	38.0	38.0	38.0	35.0	38.0
21	36.424	38.0	37.0	38.0	34.0	38.0
22	36.50225	38.0	37.0	38.0	34.0	38.0
23	36.944	38.0	37.0	39.0	34.0	39.0
24	37.18525	39.0	37.0	39.0	35.0	39.0
25	37.05875	39.0	37.0	39.0	34.0	39.0
26	37.1515	39.0	38.0	39.0	35.0	39.0
27	36.82825	39.0	37.0	39.0	34.0	39.0
28	37.21925	38.0	38.0	39.0	35.0	39.0
29	36.97625	39.0	37.0	39.0	34.0	39.0
30	36.91725	38.0	37.0	39.0	34.0	39.0
31	37.123	39.0	38.0	39.0	35.0	39.0
32	37.16825	39.0	38.0	39.0	34.0	39.0
33	36.9235	39.0	37.0	39.0	34.0	39.0
34	36.76225	38.0	37.0	39.0	34.0	39.0
35	36.989	39.0	37.0	39.0	34.0	39.0
36	35.77775	38.0	37.0	39.0	32.0	39.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
23	1.0
24	4.0
25	0.0
26	9.0
27	18.0
28	41.0
29	46.0
30	75.0
31	98.0
32	109.0
33	168.0
34	252.0
35	434.0
36	1081.0
37	1664.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	15.85	15.049999999999999	57.45	11.65
2	22.269645995480793	27.86844087371328	21.190057745418027	28.6718553853879
3	28.249999999999996	33.425	18.85	19.475
4	37.58439609902476	14.278569642410602	16.104026006501627	32.03300825206302
5	34.35	28.349999999999998	24.525	12.775
6	41.55	21.275	27.125	10.05
7	27.775	21.525	35.25	15.45
8	27.900000000000002	17.2	43.425000000000004	11.475
9	31.825	27.725	30.45	10.0
10	29.175	15.55	40.925	14.35
11	25.3	26.375	34.325	14.000000000000002
12	20.325	30.475	38.324999999999996	10.875
13	19.475	39.625	28.575	12.325
14	35.55	28.525	19.25	16.675
15	22.075	40.225	24.825	12.875
16	25.1	28.4	34.875	11.625
17	26.85	17.724999999999998	28.499999999999996	26.924999999999997
18	35.85	21.875	19.5	22.775000000000002
19	37.7	30.0	16.900000000000002	15.4
20	28.349999999999998	34.55	19.875	17.224999999999998
21	20.599999999999998	41.025	24.95	13.425
22	39.175	24.45	22.15	14.224999999999998
23	26.85	37.55	16.8	18.8
24	40.425	25.874999999999996	13.700000000000001	20.0
25	24.45	25.05	23.150000000000002	27.35
26	17.075000000000003	38.75	20.150000000000002	24.025
27	20.775	29.925	13.950000000000001	35.35
28	31.05	30.75	13.475000000000001	24.725
29	24.075	30.125	16.125	29.675
30	50.625	23.849999999999998	10.75	14.774999999999999
31	21.525	27.0	31.424999999999997	20.05
32	15.75	34.35	18.099999999999998	31.8
33	23.025000000000002	28.475	29.599999999999998	18.9
34	37.95	28.9	10.05	23.1
35	23.65	42.525	12.85	20.974999999999998
36	18.099999999999998	37.075	19.775000000000002	25.05
>>END_MODULE
>>Per sequence GC content	fail
#GC Content	Count
0	0.0
1	0.0
2	0.0
3	0.0
4	0.0
5	0.0
6	0.0
7	0.0
8	0.0
9	0.0
10	0.0
11	0.0
12	0.0
13	0.0
14	0.0
15	0.0
16	0.0
17	0.0
18	0.5
19	1.0
20	1.0
21	2.0
22	3.0
23	3.0
24	5.5
25	8.0
26	5.5
27	3.0
28	3.0
29	7.5
30	12.0
31	12.0
32	17.5
33	23.0
34	23.0
35	63.5
36	104.0
37	104.0
38	275.5
39	447.0
40	306.5
41	166.0
42	166.0
43	296.5
44	427.0
45	427.0
46	839.0
47	1251.0
48	1251.0
49	1058.5
50	866.0
51	629.5
52	393.0
53	393.0
54	289.0
55	185.0
56	185.0
57	132.5
58	80.0
59	80.0
60	50.0
61	20.0
62	20.0
63	14.5
64	9.0
65	5.0
66	1.0
67	1.0
68	0.5
69	0.0
70	0.0
71	0.0
72	0.0
73	0.0
74	0.5
75	1.0
76	0.5
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	0.0
94	0.0
95	0.0
96	0.0
97	0.0
98	0.0
99	0.0
100	0.0
>>END_MODULE
>>Per base N content	pass
#Base	N-Count
1	0.0
2	0.42500000000000004
3	0.0
4	0.025
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	0.0
35	0.0
36	0.0
>>END_MODULE
>>Sequence Length Distribution	pass
#Length	Count
36	4000.0
>>END_MODULE
>>Sequence Duplication Levels	fail
#Total Deduplicated Percentage	40.325
#Duplication Level	Percentage of deduplicated	Percentage of total
1	82.14507129572226	33.125
2	8.245505269683818	6.65
3	2.6658400495970245	3.225
4	1.4879107253564787	2.4
5	0.6819590824550528	1.375
6	0.49597024178549287	1.2
7	0.4339739615623063	1.225
8	0.3099814011159331	1.0
9	0.5579665220086795	2.025
>10	2.5418474891506513	18.525
>50	0.18598884066955984	5.0
>100	0.18598884066955984	11.725
>500	0.06199628022318661	12.525
>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
TCAGGGTTGTTTAGATCGGAAGAGCACACGTCTGAA	501	12.525	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TACCTGATTGATTCTGTCAGATCGGAAGAGCACACG	182	4.55	No Hit
GTGCAAGGATGAAAAAGAACTCTCTCACTGATAGAT	181	4.5249999999999995	No Hit
TAGCTTCAGCGATGGATCGGTTGCATCGAGTATCGA	106	2.65	No Hit
TGGAATGTAAAGAAGTATGTAAGATCGGAAGAGCAC	85	2.125	No Hit
TGAGATCGTTCAGTACGGCAATAGATCGGAAGAGCA	60	1.5	No Hit
AGATCGGAAGAGCACACGTCTGAACTCCAGTCACGA	55	1.375	TruSeq Adapter, Index 7 (97% over 35bp)
AGTCAATGATGTTTTTTCAAGACGGGACCGACTGGT	41	1.0250000000000001	No Hit
TCAGGGTTGTTCAGATCGGAAGAGCACACGTCTGAA	41	1.0250000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TCAGGGTTGTTTAACAGATCGGAAGAGCACACGTCT	35	0.8750000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
CAGGGTTGTTTAGATCGGAAGAGCACACGTCTGAAC	32	0.8	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TACCTGATTGATTCTGTCAGCGCGATATGCTCAAGT	30	0.75	No Hit
ACGTCTGGTTCAGGGTTGTTTAGATCGGAAGAGCAC	29	0.7250000000000001	No Hit
TCTCAACCTGAACTCAGTCGTGATTACCCGCTGAAC	24	0.6	No Hit
TACCTGATTGATTCTGTCAAGATCGGAAGAGCACAC	23	0.575	No Hit
TACGTACTAGCTTCAGCGATGGATCGGTTGCATCGA	23	0.575	No Hit
CACCCGTACATATGTTTCCGTGCTAGATCGGAAGAG	21	0.525	No Hit
GACAATGATAGGATAACCTAGAGTCTCTGAACCATT	21	0.525	No Hit
TTTTGTAGATCGGAAGAGCACACGTCTGAACTCCAG	19	0.475	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TGAGGTAGGCTCAGTAGATGCGAAGATCGGAAGAGC	19	0.475	No Hit
TAATACGTCGTTGGTGTTTCCATAGATCGGAAGAGC	19	0.475	No Hit
GTGGGGCACAGAGTTGCAGTTGATTGAAACTAAATC	19	0.475	No Hit
CGTACTAGCTTCAGCGATGGATCGGTTGCATCGAGT	18	0.44999999999999996	No Hit
CGATGATGATGAAGAATTTTTGATATGGTGTCAGGA	18	0.44999999999999996	No Hit
TGTGTATGACGACAACGTGTTAGGGACATCTGCACC	18	0.44999999999999996	No Hit
TAACAGTGATCGAGAGTCGGGTGCTAGACTGTAAGT	17	0.42500000000000004	No Hit
TACCCTGTAGATCGAGCTGTGTGTAGATCGGAAGAG	16	0.4	No Hit
AATGGCACTGCATGAATTCACGGAGATCGGAAGAGC	16	0.4	No Hit
CCTTTTATACTGCGATCTGTTGAGACTATCCTTTGA	16	0.4	No Hit
TACCTGATTGATTCTGTTAGATCGGAAGAGCACACG	15	0.375	No Hit
CTAGCTTCAGCGATGGATCGGTTGCATCGAGTATCG	15	0.375	No Hit
GTTTGTGATGACTGCATACGGATCACTGGGCTCTGA	14	0.35000000000000003	No Hit
TGTGCAAGGATGAAAAAGAACTCTCTCACTGATAGA	13	0.325	No Hit
TCTCAACCTGAACTAGATCGGAAGAGCACACGTCTG	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
TACCTGATTGATTCTGTCAGCGCGATATGCTAGATC	13	0.325	No Hit
GCGCGATGAACTCTTTACCATCTTTCGGGGCATAAC	13	0.325	No Hit
CGTCTGGTTCAGGGTTGTTTAGATCGGAAGAGCACA	12	0.3	No Hit
TGGAATGTAAAGAAGTATGTAGATCGGAAGAGCACA	12	0.3	No Hit
GAGCGGTGATGAATGCACGTATTGCTCTGACACCTC	12	0.3	No Hit
GTGCGATGAATGACTTGGATAAGTTTCGGCTGAAAC	11	0.27499999999999997	No Hit
TGACTAGAACCGTTACTCATCAGATCGGAAGAGCAC	11	0.27499999999999997	No Hit
TTCAGGGTTGTTTAGATCGGAAGAGCACACGTCTGA	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
TATACTGCGATCTGTTGAGACTATCCTTTGATTGAG	11	0.27499999999999997	No Hit
ACTTGGATCGGAGACGGCCTGGGAATCCTGGATGTT	10	0.25	No Hit
GATGATGATGAAGAATTTTTGATATGGTGTCAGGAC	10	0.25	No Hit
GCGGATTGAAGATGAAATCAACGACGCTGACCGGTA	10	0.25	No Hit
GAGTTTTTTGTAGATCGGAAGAGCACACGTCTGAAC	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TACCTGATTGATTCTGAGATCGGAAGAGCACACGTC	10	0.25	No Hit
CGACAATGATAGGATAACCTAGAGTCTCTGAACCAT	9	0.22499999999999998	No Hit
AGGGTTGTTTAGATCGGAAGAGCACACGTCTGAACT	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TGACTAGAGACACATTCAGCTAGATCGGAAGAGCAC	9	0.22499999999999998	No Hit
TGAGATCATCGTGAAAGCCAGTAGATCGGAAGAGCA	9	0.22499999999999998	No Hit
TGAGATCGTTCAGTACGGCAAAGATCGGAAGAGCAC	9	0.22499999999999998	No Hit
TACCTGATTGATTCTGTAGATCGGAAGAGCACACGT	9	0.22499999999999998	No Hit
TATGACACTGAAGCGTAACCGAAAGATCGGAAGAGC	9	0.22499999999999998	No Hit
TGAGATCATTAGTTGAAAGCCGAAGATCGGAAGAGC	9	0.22499999999999998	No Hit
TCTCAACCTGAACTCAGTCGTGATTAGATCGGAAGA	9	0.22499999999999998	No Hit
TACGTCTGGTTCAGGGTTGTTTAGATCGGAAGAGCA	8	0.2	No Hit
GAGTTAGATCGGAAGAGCACACGTCTGAACTCCAGT	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
AACAGTGATCGAGAGTCGGGTGCTAGACTGTAAGTG	8	0.2	No Hit
TTCTGAGCAGTAGATCGGAAGAGCACACGTCTGAAC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TTTTATACTGCGATCTGTTGAGACTATCCTTTGATT	8	0.2	No Hit
TCAGGGTTGTTTAAGATCGGAAGAGCACACGTCTGA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
TACCTGATTAGATCGGAAGAGCACACGTCTGAACTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TACTGCGATCTGTTGAGACTATCCTTTGATTGAGTT	7	0.17500000000000002	No Hit
ACGCATAGCACCAACTGGGCCTCCAGTTGGTACGTC	7	0.17500000000000002	No Hit
TACCCGTAGCTCCTATCCATGTTAGATCGGAAGAGC	7	0.17500000000000002	No Hit
ACTAGCTTCAGCGATGGATCGGTTGCATCGAGTATC	7	0.17500000000000002	No Hit
CTGCGGTGACGATCAACTCTTACCTACTATGACAAA	7	0.17500000000000002	No Hit
AATGGCACTGCATGAATTCACGAGATCGGAAGAGCA	6	0.15	No Hit
GTTTAGATCGGAAGAGCACACGTCTGAACTCCAGTC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
TGGTTCAGGGTTGTTTAGATCGGAAGAGCACACGTC	6	0.15	No Hit
TTATACTGCGATCTGTTGAGACTATCCTTTGATTGA	6	0.15	No Hit
GCGCGATGAGGATTGATAACACATACACACACTCTG	6	0.15	No Hit
TACTAGCTTCAGCGATGGATCGGTTGCATCGAGTAT	6	0.15	No Hit
TGAAAGACATGGGTAGTGAGACGAGATCGGAAGAGC	6	0.15	No Hit
AAGCAGTGATGATTTTATAGTTCAGCTTATCTTCGG	6	0.15	No Hit
TCAGGGTTGTTAGATCGGAAGAGCACACGTCTGAAC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TTATGCCCTATGTATGGCCTTGGCGTCGTAGTGAAT	5	0.125	No Hit
TCAGGGTTGTTTAACTAGATCGGAAGAGCACACGTC	5	0.125	No Hit
TCGAACGCATAGCACCAACTGGGCCTCCAGTTGGTA	5	0.125	No Hit
GTAACAGTGATCGAGAGTCGGGTGCTAGACTGTAAG	5	0.125	No Hit
CAGCGGTGATCGATGACTTGTGCAGTGGCCGAGGCG	5	0.125	No Hit
TCCGTTGTGGTCTAGTGGTTAGGATTTATGGCTCTC	5	0.125	No Hit
CCGTCGATGACGACCAAGAGTTATCCCTGTCTGAAT	5	0.125	No Hit
TACCTGATTGATTCTGTCAGCGCGATATGCTCAAGA	5	0.125	No Hit
TCAGGGTTGTGTAGATCGGAAGAGCACACGTCTGAA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TACCCGTAATGTTTCCGCTGAGAGATCGGAAGAGCA	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	1.4	0.0	0.0	0.0	0.0
2	1.5	0.0	0.0	0.0	0.0
3	1.6	0.0	0.0	0.0	0.0
4	1.675	0.0	0.0	0.0	0.0
5	1.925	0.0	0.0	0.0	0.0
6	2.225	0.0	0.0	0.0	0.0
7	3.0	0.0	0.0	0.0	0.0
8	3.225	0.0	0.0	0.0	0.0
9	3.625	0.0	0.0	0.0	0.0
10	4.65	0.0	0.0	0.0	0.0
11	5.75	0.0	0.0	0.0	0.0
12	7.925	0.0	0.0	0.0	0.0
13	23.55	0.0	0.0	0.0	0.0
14	25.3	0.0	0.0	0.0	0.0
15	26.525	0.0	0.0	0.0	0.0
16	28.475	0.0	0.0	0.0	0.0
17	30.125	0.0	0.0	0.0	0.0
18	31.55	0.0	0.0	0.0	0.0
19	38.0	0.0	0.0	0.0	0.0
20	39.675	0.0	0.0	0.0	0.0
21	41.2	0.0	0.0	0.0	0.0
22	47.45	0.0	0.0	0.0	0.0
23	51.7	0.0	0.0	0.0	0.0
24	56.175	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	fail
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
TGATTCT	45	1.1683369E-8	30.000002	9
CCTGATT	45	1.1683369E-8	30.000002	3
TGTCAGA	30	2.707939E-5	30.000002	15
CTGATTG	45	1.1683369E-8	30.000002	4
ACCTGAT	45	1.1683369E-8	30.000002	2
TTGATTC	45	1.1683369E-8	30.000002	8
ATTGATT	45	1.1683369E-8	30.000002	7
TACCTGA	45	1.1683369E-8	30.000002	1
GTCAGAT	30	2.707939E-5	30.000002	16
GGATGAA	20	0.00456452	29.999998	7
GTGCAAG	20	0.00456452	29.999998	1
ACTGATA	20	0.00456452	29.999998	27
GCAAGGA	20	0.00456452	29.999998	3
TGCAAGG	20	0.00456452	29.999998	2
AGGATGA	20	0.00456452	29.999998	6
CTCTCTC	20	0.00456452	29.999998	20
TTCTGTC	40	1.5598562E-7	29.999998	12
CTCTCAC	20	0.00456452	29.999998	22
GAAAAAG	20	0.00456452	29.999998	11
ATGAAAA	20	0.00456452	29.999998	9
>>END_MODULE
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
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Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
Read 69453 spots for SRR1759867.sra
Written 69453 spots for SRR1759867.sra
Rejected 69453 READS because READLEN < 1
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Written 69453 spots for SRR1759867.sra
Rejected 69463 READS because READLEN < 1
Read 69463 spots for SRR1759867.sra
Written 69463 spots for SRR1759867.sra
SRR ids: ['SRR1759867.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_qcs5zf1g
SRR1759867.sra spots: 4445002
blocks: [[1, 69453], [69454, 138906], [138907, 208359], [208360, 277812], [277813, 347265], [347266, 416718], [416719, 486171], [486172, 555624], [555625, 625077], [625078, 694530], [694531, 763983], [763984, 833436], [833437, 902889], [902890, 972342], [972343, 1041795], [1041796, 1111248], [1111249, 1180701], [1180702, 1250154], [1250155, 1319607], [1319608, 1389060], [1389061, 1458513], [1458514, 1527966], [1527967, 1597419], [1597420, 1666872], [1666873, 1736325], [1736326, 1805778], [1805779, 1875231], [1875232, 1944684], [1944685, 2014137], [2014138, 2083590], [2083591, 2153043], [2153044, 2222496], [2222497, 2291949], [2291950, 2361402], [2361403, 2430855], [2430856, 2500308], [2500309, 2569761], [2569762, 2639214], [2639215, 2708667], [2708668, 2778120], [2778121, 2847573], [2847574, 2917026], [2917027, 2986479], [2986480, 3055932], [3055933, 3125385], [3125386, 3194838], [3194839, 3264291], [3264292, 3333744], [3333745, 3403197], [3403198, 3472650], [3472651, 3542103], [3542104, 3611556], [3611557, 3681009], [3681010, 3750462], [3750463, 3819915], [3819916, 3889368], [3889369, 3958821], [3958822, 4028274], [4028275, 4097727], [4097728, 4167180], [4167181, 4236633], [4236634, 4306086], [4306087, 4375539], [4375540, 4445002]]
SRR1759867 file size 492684
SRR1759867 completed basic pipeline successfully
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	skewer -l 18 -q 10 -k inf -t 64 -o SRR1759867 SRR1759867_1.fastq
Input file:	SRR1759867_1.fastq
trimmed:	SRR1759867-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 (auto detected)
-- minimum overlap length for adapter detection (-k):	inf
-- number of concurrent threads (-t):	32
Sat Feb  8 08:27:46 2020 >> started

Sat Feb  8 08:27:50 2020 >> done (3.946s)
4445002 reads processed; of these:
  26582 ( 0.60%) short reads filtered out after trimming by size control
  53000 ( 1.19%) empty reads filtered out after trimming by size control
4365420 (98.21%) reads available; of these:
    314 ( 0.01%) trimmed reads available after processing
4365106 (99.99%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 24	     14	  0.00%
 25	     31	  0.00%
 26	     30	  0.00%
 27	     18	  0.00%
 28	      1	  0.00%
 29	      3	  0.00%
 30	      8	  0.00%
 31	      4	  0.00%
 32	     28	  0.00%
 33	     98	  0.00%
 34	     58	  0.00%
 35	     21	  0.00%
 36	4365106	 99.99%
4365420 reads passed initial QC


criterion=sequence-density
sequence-density=56.00
sequence-density-rank=1
fanout-score=11.10
fanout-score-rank=5
prefix-density=59.94
prefix-fanout=10.4
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACGATCAGA


criterion=fanout-score
sequence-density=1.48
sequence-density-rank=7
fanout-score=24.96
fanout-score-rank=1
prefix-density=1.55
prefix-fanout=23.9
sequence=GCAGATCGGAAG
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 -l 18 -t 64 -x AGATCGGAAGAGCACACGTCTGAACTCCAGTCACGATCAGA -o SRR1759867 -
Input file:	STDIN
trimmed:	SRR1759867-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	AGATCGGAAGAGCACACGTCTGAACTCCAGTCACGATCAGA
-- 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):		Unknown format (auto detected)
-- minimum overlap length for adapter detection (-k):	3
-- number of concurrent threads (-t):	32
Sat Feb  8 08:28:00 2020 >> started

Sat Feb  8 08:28:06 2020 >> done (6.202s)
4209512 reads processed; of these:
1296714 (30.80%) short reads filtered out after trimming by size control
     48 ( 0.00%) empty reads filtered out after trimming by size control
2912750 (69.19%) reads available; of these:
1637702 (56.23%) trimmed reads available after processing
1275048 (43.77%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	 273841	  9.40%
 19	  77860	  2.67%
 20	  72420	  2.49%
 21	 245413	  8.43%
 22	 212275	  7.29%
 23	 203814	  7.00%
 24	  88297	  3.03%
 25	  34649	  1.19%
 26	  28260	  0.97%
 27	  23091	  0.79%
 28	  18997	  0.65%
 29	  22181	  0.76%
 30	  21015	  0.72%
 31	  36098	  1.24%
 32	 233273	  8.01%
 33	  46316	  1.59%
 34	     26	  0.00%
 35	      7	  0.00%
 36	1274917	 43.77%


criterion=sequence-density
sequence-density=10.41
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=8
prefix-density=0.00
prefix-fanout=1.0
sequence=TACCTGATTGATTCTGTCAGCGCGATATGCTCAAGTAAAAGATTAAGCCATGCATGCTTTGATTCATCAATGAAATTGCGTACGGCTCATTAGAGCAGATATCACCTTATCCGGGATCCTCATATGGATAACTGCGGAAATACTGGAGCTAATACATGCAACTATACCCCAACGCAAGGCGGGGTGCAATTATTAGAACAGACCAAACGTTTTCGGACGTTGTTTGTTGACTCTGAATAAAGCAGTTTACTGTCAGTTTCGACTGACTCTATCCGGAAAGGGTGTCTGCCCTTTC


criterion=fanout-score
sequence-density=0.04
sequence-density-rank=37
fanout-score=3.31
fanout-score-rank=1
prefix-density=0.12
prefix-fanout=1.0
sequence=GTTCTTCGGAGCACAAGCGCGGTAACGCATTCGAACTTGGTTAGTCGCTCAAAGACCGAGCTAGAGTTTTCTTCTCTAGTTAAGGAACGGACTCCCTGGAATTGGTTCAGCCAGAGATGGGGACGTTGTTTCCGAAAAGCACCGCGGTTTCTGTGGTGTCTCGTGCTCTTTGAACGGCCCTTAAAACACCAAGGGAGGCTATTAATTTGCACTCAATCGTACCGATATCCGCATTAGGTCTCCAAGGTGAACAGCCTCTAGTCGATAGAATAATGTAGGTAAGGGAAGTCGGCAAACTAGATCCGTAACTTCGGGAAAAGGATTGGCTCCAGTGGTTGGAACGGTTGGCCAGTTGGTTGATGCTTGTCCGGCGCAGTTCTGTCTGCTTGATACTTTCGGGTTGATGGCGGACTAGTGATTGTGCTTGCTTGCGGACGCTTTCTGGTGTGTGCTTGGACCTCGGTTCTAGTATCCTGATCGCTCATCTAAACAACCGTACTGGAACCGGTAC
                                 Started job on |	Feb 08 08:28:36
                             Started mapping on |	Feb 08 08:28:36
                                    Finished on |	Feb 08 08:28:55
       Mapping speed, Million of reads per hour |	581.43

                          Number of input reads |	3068658
                      Average input read length |	29
                                    UNIQUE READS:
                   Uniquely mapped reads number |	2035731
                        Uniquely mapped reads % |	66.34%
                          Average mapped length |	29.88
                       Number of splices: Total |	6161
            Number of splices: Annotated (sjdb) |	2467
                       Number of splices: GT/AG |	5162
                       Number of splices: GC/AG |	59
                       Number of splices: AT/AC |	1
               Number of splices: Non-canonical |	939
                      Mismatch rate per base, % |	0.21%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.07
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.09
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	783437
             % of reads mapped to multiple loci |	25.53%
        Number of reads mapped to too many loci |	113519
             % of reads mapped to too many loci |	3.70%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	4.42%
                     % of reads unmapped: other |	0.01%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	249490	249490	249490
N_multimapping	783437	783437	783437
N_noFeature	14797	36413	1759124
N_ambiguous	310674	56492	371
UnstrandedReadsAssigned:1710260 PositiveStrandReadsAssigned:1942826 NegativeStrandReadsAssigned:276236
Dataset is classified positive stranded
MeadianReadLen=32 20thPercentileLength=21 echo kmer=19
SRR1759867 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: 33,746
[index] number of k-mers: 28,835,158
[index] number of equivalence classes: 89,260
[quant] running in single-end mode
[quant] will process file 1: SRR1759867-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 3,068,658 reads, 102,321 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 918 rounds

  33747 SRR1759867.ke.tsv
  46739 SRR1759867.se.tsv
  80486 total
==> SRR1759867.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Y110A7A.10	1787	1688	3	14.6902
F27C8.1	1940	1841	1	4.48978
F07C3.7	1728	1629	0	0
F52H2.2a	1739	1640	0	0
F52H2.2b	1840	1741	0	0
T13A10.10a	1734	1635	0	0
T13A10.10b	1598	1499	1	5.51413
C55C2.5a	1840	1741	0	0
C55C2.5b	1606	1507	0	0

==> SRR1759867.se.tsv <==
WBGene00197333	0
WBGene00198386	0
WBGene00015153	0
WBGene00002061	5
WBGene00255704	0
WBGene00235314	0
WBGene00001177	6
WBGene00169236	0
WBGene00219784	0
WBGene00015152	0
SRR1759867 completed mapping pipeline successfully
