Starting /dee2/code/volunteer_pipeline.sh SRR1759871
    current disk space = 869476892
    free memory = 122478212 
SRR1759871 SRAfilesize
42e639717f6e67ba2a80c5e0bb1319d0  SRR1759871.sra
SRR1759871.sra file validated
SRR1759871 is single end
SRR1759871 is conventional basespace
SRR1759871 read1 length is 36 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR1759871_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	48
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	31.59275	33.0	32.0	33.0	30.0	34.0
2	32.30925	33.0	32.0	33.0	32.0	34.0
3	32.4745	33.0	32.0	33.0	32.0	34.0
4	32.59475	33.0	32.0	33.0	32.0	34.0
5	32.502	33.0	32.0	33.0	32.0	34.0
6	35.603	37.0	35.0	37.0	33.0	37.0
7	35.494	37.0	35.0	37.0	33.0	37.0
8	35.4975	37.0	34.0	37.0	33.0	37.0
9	35.15375	37.0	34.0	37.0	33.0	37.0
10	35.16375	37.0	33.0	37.0	32.0	37.0
11	34.23825	37.0	33.0	37.0	32.0	37.0
12	34.33625	37.0	33.0	37.0	31.0	37.0
13	35.6905	38.0	37.0	38.0	32.0	38.0
14	35.2035	38.0	36.0	38.0	30.0	38.0
15	35.0825	38.0	36.0	38.0	21.0	38.0
16	36.336	38.0	37.0	38.0	33.0	38.0
17	36.0795	38.0	37.0	38.0	33.0	38.0
18	36.40375	38.0	37.0	38.0	34.0	38.0
19	35.9945	38.0	37.0	38.0	32.0	38.0
20	36.1955	38.0	37.0	38.0	33.0	38.0
21	35.98425	38.0	37.0	38.0	33.0	38.0
22	36.397	38.0	37.0	38.0	34.0	38.0
23	37.28225	39.0	38.0	39.0	35.0	39.0
24	37.096	39.0	38.0	39.0	34.0	39.0
25	36.5555	38.0	37.0	39.0	33.0	39.0
26	36.44	38.0	37.0	39.0	33.0	39.0
27	36.44575	38.0	37.0	39.0	33.0	39.0
28	36.73425	38.0	37.0	39.0	33.0	39.0
29	36.21225	38.0	37.0	39.0	32.0	39.0
30	36.7365	38.0	37.0	39.0	34.0	39.0
31	36.532	38.0	37.0	39.0	33.0	39.0
32	36.82775	38.0	37.0	39.0	34.0	39.0
33	36.83725	38.0	37.0	39.0	34.0	39.0
34	36.824	38.0	37.0	39.0	34.0	39.0
35	36.63225	39.0	37.0	39.0	33.0	39.0
36	36.46775	39.0	37.0	39.0	33.0	39.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
24	1.0
25	11.0
26	15.0
27	28.0
28	44.0
29	61.0
30	88.0
31	137.0
32	183.0
33	196.0
34	318.0
35	501.0
36	1084.0
37	1333.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	22.309247094492168	16.725618999494692	48.863062152602325	12.102071753410813
2	19.950000000000003	29.75	24.15	26.150000000000002
3	25.8	30.349999999999998	23.225	20.625
4	37.35	17.349999999999998	19.925	25.374999999999996
5	32.175	25.825	28.425	13.575000000000001
6	39.875	21.45	28.125	10.549999999999999
7	25.074999999999996	23.9	34.125	16.900000000000002
8	22.75	18.0	42.775	16.475
9	29.675	18.125	37.1	15.1
10	34.025	14.85	37.05	14.075
11	21.8	27.6	35.275	15.325
12	22.525000000000002	27.6	38.35	11.525
13	26.806701675418854	32.10802700675169	27.831957989497376	13.253313328332084
14	31.75	24.725	24.825	18.7
15	22.775000000000002	32.4	29.799999999999997	15.024999999999999
16	27.400000000000002	23.25	33.575	15.775
17	28.000000000000004	19.950000000000003	30.7	21.349999999999998
18	40.925	20.150000000000002	19.5	19.425
19	33.575	29.549999999999997	20.45	16.425
20	28.849999999999998	39.775	19.175	12.2
21	25.8	41.825	17.825	14.549999999999999
22	38.1	31.424999999999997	19.675	10.8
23	29.175	41.349999999999994	12.275	17.2
24	42.325	30.475	11.95	15.25
25	28.65	35.9	14.424999999999999	21.025
26	22.0	39.900000000000006	17.549999999999997	20.549999999999997
27	24.2	33.025	11.15	31.624999999999996
28	37.425000000000004	32.975	9.475	20.125
29	36.275	30.2	7.324999999999999	26.200000000000003
30	37.9	35.675000000000004	9.575	16.85
31	26.400000000000002	32.95	18.2	22.45
32	26.275	34.55	11.875	27.3
33	28.1	33.85	16.775000000000002	21.275
34	36.65	32.324999999999996	8.175	22.85
35	19.0	41.699999999999996	8.85	30.45
36	20.075000000000003	38.224999999999994	10.15	31.55
>>END_MODULE
>>Per sequence GC content	warn
#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	4.5
30	9.0
31	9.0
32	16.0
33	23.0
34	23.0
35	39.0
36	55.0
37	55.0
38	99.0
39	143.0
40	173.0
41	203.0
42	203.0
43	383.0
44	563.0
45	563.0
46	926.5
47	1290.0
48	1290.0
49	1103.5
50	917.0
51	691.5
52	466.0
53	466.0
54	328.5
55	191.0
56	191.0
57	143.0
58	95.0
59	95.0
60	65.0
61	35.0
62	35.0
63	20.5
64	6.0
65	5.0
66	4.0
67	4.0
68	2.0
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	0.0
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	1.05
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	0.025
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	warn
#Total Deduplicated Percentage	58.875
#Duplication Level	Percentage of deduplicated	Percentage of total
1	88.95966029723992	52.37500000000001
2	4.840764331210192	5.7
3	1.910828025477707	3.375
4	1.0615711252653928	2.5
5	0.5520169851380042	1.625
6	0.42462845010615713	1.5
7	0.3397027600849257	1.4000000000000001
8	0.16985138004246286	0.8
9	0.21231422505307856	1.125
>10	1.358811040339703	15.25
>50	0.08492569002123143	3.25
>100	0.08492569002123143	11.1
>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
TCAGGGTTGTTTAGATCGGAAGAGCACACGTCTGAA	320	8.0	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TACCTGATTGATTCTGTCAGATCGGAAGAGCACACG	124	3.1	No Hit
TGGGAATCCTGGATGTTGTAAGCTAGATCGGAAGAG	67	1.675	No Hit
GAGTTTTTTGTAGATCGGAAGAGCACACGTCTGAAC	63	1.575	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TGAGATCGTTCAGTACGGCAATAGATCGGAAGAGCA	45	1.125	No Hit
ATCCTGGATGTTGTAAGCTAGATCGGAAGAGCACAC	40	1.0	No Hit
CTGGATGTTGTAAGCTAGATCGGAAGAGCACACGTC	36	0.8999999999999999	No Hit
TTTTGTAGATCGGAAGAGCACACGTCTGAACTCCAG	30	0.75	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
CTGGGAATCCTGGATGTTGTAAGCTAGATCGGAAGA	29	0.7250000000000001	No Hit
TCAGGGTTGTTCAGATCGGAAGAGCACACGTCTGAA	29	0.7250000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
ACGTCTGGTTCAGGGTTGTTTAGATCGGAAGAGCAC	27	0.675	No Hit
AATCCTGGATGTTGTAAGCTAGATCGGAAGAGCACA	26	0.65	No Hit
TACCTGATTGATTCTGTCAAGATCGGAAGAGCACAC	26	0.65	No Hit
TGGAATGTAAAGAAGTATGTAAGATCGGAAGAGCAC	24	0.6	No Hit
TCAGGGTTGTGTAGATCGGAAGAGCACACGTCTGAA	24	0.6	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TACCTGATTGATTCTGTTAGATCGGAAGAGCACACG	21	0.525	No Hit
CCTGGATGTTGTAAGCTAGATCGGAAGAGCACACGT	19	0.475	No Hit
TGGATGTTGTAAGCTAGATCGGAAGAGCACACGTCT	18	0.44999999999999996	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
GCCTGGGAATCCTGGATGTTGTAAGCTAGATCGGAA	17	0.42500000000000004	No Hit
TCTCAACCTGAACTCAGTCGTGATTAGATCGGAAGA	15	0.375	No Hit
TGACTAGAGACACATTCAGCTAGATCGGAAGAGCAC	14	0.35000000000000003	No Hit
TCTCAACCTGAACTCAGTCGTGAGATCGGAAGAGCA	14	0.35000000000000003	No Hit
TCTCAACCTGAACTAGATCGGAAGAGCACACGTCTG	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
CAGGGTTGTTTAGATCGGAAGAGCACACGTCTGAAC	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TACCTGATTGATTCTGTAGATCGGAAGAGCACACGT	13	0.325	No Hit
CGTCTGGTTCAGGGTTGTTTAGATCGGAAGAGCACA	12	0.3	No Hit
TCAGGGTTGTTAGATCGGAAGAGCACACGTCTGAAC	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
CACCCGTACATATGTTTCCGTGCTAGATCGGAAGAG	11	0.27499999999999997	No Hit
TTGATTGAGTTTTTTGTAGATCGGAAGAGCACACGT	11	0.27499999999999997	No Hit
CCTGGGAATCCTGGATGTTGTAAGCTAGATCGGAAG	11	0.27499999999999997	No Hit
TGAGATCGTTCAGTACGGCAAAGATCGGAAGAGCAC	11	0.27499999999999997	No Hit
GAGACTATCCTTTGATTAGATCGGAAGAGCACACGT	10	0.25	No Hit
TAATACGTCGTTGGTGTTTCCATAGATCGGAAGAGC	10	0.25	No Hit
TGATTGAGTTTTTTGTAGATCGGAAGAGCACACGTC	10	0.25	No Hit
TACCTGATTGATTCTAGATCGGAAGAGCACACGTCT	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
TCAGGGTTGTTTAACAGATCGGAAGAGCACACGTCT	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
TACCTGATTAGATCGGAAGAGCACACGTCTGAACTC	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TACCTGATTGATTCTGTCAGCGCGATATGCTAGATC	9	0.22499999999999998	No Hit
GCTGGATCATCGAGATCGGAAGAGCACACGTCTGAA	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
AGACGGCCTGGGAATCCTGGATGTTGTAAGCTAGAT	9	0.22499999999999998	No Hit
TGGAATGTAAAGAAGTATGTAGATCGGAAGAGCACA	9	0.22499999999999998	No Hit
AGGGTTGTTTAGATCGGAAGAGCACACGTCTGAACT	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
AGGCAAGATGTTGGCATAGCTGAAGATCGGAAGAGC	8	0.2	No Hit
NCAGGGTTGTTTAGATCGGAAGAGCACACGTCTGAA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TTTGATTGAGTTTTTTGTAGATCGGAAGAGCACACG	8	0.2	No Hit
TCAGGGTTGTTTAAGATCGGAAGAGCACACGTCTGA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
TGGGAATCCTGGATGTTGTAAGCCAGATCGGAAGAG	7	0.17500000000000002	No Hit
TCTCAACCTGAACTCAGTAGATCGGAAGAGCACACG	7	0.17500000000000002	No Hit
GGAGACGGCCTGGGAATCCTGGATGTTGTAAGCTAG	7	0.17500000000000002	No Hit
TTCTGAGCAGTAGATCGGAAGAGCACACGTCTGAAC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TCAGGGTTGTTTAGATCGGAAGAGCACACGTCTAAA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (95% over 24bp)
GACGGCCTGGGAATCCTGGATGTTGTAAGCTAGATC	7	0.17500000000000002	No Hit
TACCTGATTGATTCTGTCAGCAGATCGGAAGAGCAC	7	0.17500000000000002	No Hit
AATCCTGGATGTTGTAAGCCAGATCGGAAGAGCACA	6	0.15	No Hit
TCTCAACCTGAACTCAGTCAGATCGGAAGAGCACAC	6	0.15	No Hit
ATCCTGGATGTTGTAAGCAAGATCGGAAGAGCACAC	6	0.15	No Hit
TACGTCTGGTTCAGGGTTGTTTAGATCGGAAGAGCA	6	0.15	No Hit
CTTTGATTGAGTTTTTTGTAGATCGGAAGAGCACAC	6	0.15	No Hit
TCCCTGAGAATTCTCGAACAGCTAGATCGGAAGAGC	6	0.15	No Hit
TACCCTGTAGATCGAGCTGTGTGTAGATCGGAAGAG	6	0.15	No Hit
GAGTTTTTTGCAGATCGGAAGAGCACACGTCTGAAC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TGAGATCATTAGTTGAAAGCCGAAGATCGGAAGAGC	6	0.15	No Hit
TCTCAACCTGAACTCAGTCGTGATTACCCGCTAGAT	6	0.15	No Hit
CTGGATCATCGAGATCGGAAGAGCACACGTCTGAAC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TCTCAACCTGAACTCAGTCGTGATTACCCGCTGAAC	5	0.125	No Hit
GCCTGGGAATCCTGGATGTTGTAAGCCAGATCGGAA	5	0.125	No Hit
TTCAGGGTTGTTTAGATCGGAAGAGCACACGTCTGA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
AAAGGACTAGATCGGAAGAGCACACGTCTGAACTCC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TCAGGGTTGTCTAGATCGGAAGAGCACACGTCTGAA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TACCTGATTGATTCTGTCAGCGCGATATGCTCAAGA	5	0.125	No Hit
TACCTGATTGATTCTGTAAGATCGGAAGAGCACACG	5	0.125	No Hit
CGGCCTGGGAATCCTGGATGTTGTAAGCTAGATCGG	5	0.125	No Hit
TACCCGTAGCTCCTATCCATGTTAGATCGGAAGAGC	5	0.125	No Hit
TACCTGATTGATTAGATCGGAAGAGCACACGTCTGA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
GGAATCCTGGATGTTGTAAGCTAGATCGGAAGAGCA	5	0.125	No Hit
TACGTACTAGCTTCAGCGATAGATCGGAAGAGCACA	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	0.075	0.0	0.0	0.0	0.0
2	0.25	0.0	0.0	0.0	0.0
3	0.45	0.0	0.0	0.0	0.0
4	0.55	0.0	0.0	0.0	0.0
5	0.7	0.0	0.0	0.0	0.0
6	0.975	0.0	0.0	0.0	0.0
7	2.225	0.0	0.0	0.0	0.0
8	2.775	0.0	0.0	0.0	0.0
9	3.425	0.0	0.0	0.0	0.0
10	4.6	0.0	0.0	0.0	0.0
11	6.5	0.0	0.0	0.0	0.0
12	11.325	0.0	0.0	0.0	0.0
13	23.275	0.0	0.0	0.0	0.0
14	26.225	0.0	0.0	0.0	0.0
15	28.3	0.0	0.0	0.0	0.0
16	31.35	0.0	0.0	0.0	0.0
17	34.75	0.0	0.0	0.0	0.0
18	38.175	0.0	0.0	0.0	0.0
19	45.0	0.0	0.0	0.0	0.0
20	49.625	0.0	0.0	0.0	0.0
21	53.325	0.0	0.0	0.0	0.0
22	60.825	0.0	0.0	0.0	0.0
23	72.4	0.0	0.0	0.0	0.0
24	78.6	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
TGATTCT	25	3.5274107E-4	30.0	9
CCTGATT	25	3.5274107E-4	30.0	3
CTGATTG	25	3.5274107E-4	30.0	4
GATTGAT	25	3.5274107E-4	30.0	6
ACCTGAT	25	3.5274107E-4	30.0	2
TTGATTC	25	3.5274107E-4	30.0	8
GATTCTG	25	3.5274107E-4	30.0	10
ATTGATT	25	3.5274107E-4	30.0	7
TACCTGA	25	3.5274107E-4	30.0	1
ATTCTGT	25	3.5274107E-4	30.0	11
TCAGGGT	75	0.0	28.0	1
CAGGGTT	75	0.0	28.0	2
AGGGTTG	80	0.0	26.249998	3
TGTTTAG	60	6.1081664E-9	25.000002	8
GTTTAGA	60	6.1081664E-9	25.000002	9
GGGTTGT	85	0.0	24.705883	4
TTGTTTA	65	1.4346369E-8	23.076923	7
GGTTGTT	65	1.4346369E-8	23.076923	5
TTTAGAT	65	1.4346369E-8	23.076923	10
GTTGTTT	65	1.4346369E-8	23.076923	6
>>END_MODULE
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Written 70462 spots for SRR1759871.sra
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70464 READS because READLEN < 1
Read 70464 spots for SRR1759871.sra
Written 70464 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
Rejected 70462 READS because READLEN < 1
Read 70462 spots for SRR1759871.sra
Written 70462 spots for SRR1759871.sra
SRR ids: ['SRR1759871.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_nte0ipg0
SRR1759871.sra spots: 4509570
blocks: [[1, 70462], [70463, 140924], [140925, 211386], [211387, 281848], [281849, 352310], [352311, 422772], [422773, 493234], [493235, 563696], [563697, 634158], [634159, 704620], [704621, 775082], [775083, 845544], [845545, 916006], [916007, 986468], [986469, 1056930], [1056931, 1127392], [1127393, 1197854], [1197855, 1268316], [1268317, 1338778], [1338779, 1409240], [1409241, 1479702], [1479703, 1550164], [1550165, 1620626], [1620627, 1691088], [1691089, 1761550], [1761551, 1832012], [1832013, 1902474], [1902475, 1972936], [1972937, 2043398], [2043399, 2113860], [2113861, 2184322], [2184323, 2254784], [2254785, 2325246], [2325247, 2395708], [2395709, 2466170], [2466171, 2536632], [2536633, 2607094], [2607095, 2677556], [2677557, 2748018], [2748019, 2818480], [2818481, 2888942], [2888943, 2959404], [2959405, 3029866], [3029867, 3100328], [3100329, 3170790], [3170791, 3241252], [3241253, 3311714], [3311715, 3382176], [3382177, 3452638], [3452639, 3523100], [3523101, 3593562], [3593563, 3664024], [3664025, 3734486], [3734487, 3804948], [3804949, 3875410], [3875411, 3945872], [3945873, 4016334], [4016335, 4086796], [4086797, 4157258], [4157259, 4227720], [4227721, 4298182], [4298183, 4368644], [4368645, 4439106], [4439107, 4509570]]
SRR1759871 file size 499872
SRR1759871 completed basic pipeline successfully
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	skewer -l 18 -q 10 -k inf -t 64 -o SRR1759871 SRR1759871_1.fastq
Input file:	SRR1759871_1.fastq
trimmed:	SRR1759871-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 08:28:30 2020 >> started

Sat Feb  8 08:28:34 2020 >> done (4.077s)
4509570 reads processed; of these:
  30323 ( 0.67%) short reads filtered out after trimming by size control
   5258 ( 0.12%) empty reads filtered out after trimming by size control
4473989 (99.21%) reads available; of these:
     10 ( 0.00%) trimmed reads available after processing
4473979 (100.00%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 33	      1	  0.00%
 34	      3	  0.00%
 35	      6	  0.00%
 36	4473979	100.00%
4473989 reads passed initial QC


criterion=sequence-density
sequence-density=79.89
sequence-density-rank=1
fanout-score=21.02
fanout-score-rank=3
prefix-density=89.58
prefix-fanout=18.7
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACGAT


criterion=fanout-score
sequence-density=1.21
sequence-density-rank=6
fanout-score=22.18
fanout-score-rank=1
prefix-density=1.25
prefix-fanout=21.4
sequence=CTTAGATCGGAA
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 AGATCGGAAGAGCACACGTCTGAACTCCAGTCACGAT -o SRR1759871 -
Input file:	STDIN
trimmed:	SRR1759871-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	AGATCGGAAGAGCACACGTCTGAACTCCAGTCACGAT
-- 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 08:28:44 2020 >> started

Sat Feb  8 08:28:51 2020 >> done (6.368s)
4362139 reads processed; of these:
1726940 (39.59%) short reads filtered out after trimming by size control
      6 ( 0.00%) empty reads filtered out after trimming by size control
2635193 (60.41%) reads available; of these:
2503986 (95.02%) trimmed reads available after processing
 131207 ( 4.98%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	 285915	 10.85%
 19	 202127	  7.67%
 20	 159274	  6.04%
 21	 352387	 13.37%
 22	 530412	 20.13%
 23	 272435	 10.34%
 24	 220346	  8.36%
 25	 113179	  4.29%
 26	  67853	  2.57%
 27	  69239	  2.63%
 28	  34348	  1.30%
 29	  40963	  1.55%
 30	  31762	  1.21%
 31	  56254	  2.13%
 32	  40997	  1.56%
 33	  26495	  1.01%
 34	      1	  0.00%
 35	      0	  0.00%
 36	 131206	  4.98%


criterion=sequence-density
sequence-density=9.39
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=11
prefix-density=0.00
prefix-fanout=1.0
sequence=TACCTGATTGATTCTGTCAGCGCGATATGCTCAAGTAAAAGATTAAGCCATGCATGCTTTGATTCATCAATGAAATTGCGTACGGCTCATTAGAGCAGATATCACCTTATCCGGGA


criterion=fanout-score
sequence-density=0.21
sequence-density-rank=22
fanout-score=54.13
fanout-score-rank=1
prefix-density=0.50
prefix-fanout=22.7
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACGATC
                                 Started job on |	Feb 08 08:29:17
                             Started mapping on |	Feb 08 08:29:18
                                    Finished on |	Feb 08 08:29:48
       Mapping speed, Million of reads per hour |	329.65

                          Number of input reads |	2747043
                      Average input read length |	23
                                    UNIQUE READS:
                   Uniquely mapped reads number |	1381061
                        Uniquely mapped reads % |	50.27%
                          Average mapped length |	22.55
                       Number of splices: Total |	29459
            Number of splices: Annotated (sjdb) |	22410
                       Number of splices: GT/AG |	28745
                       Number of splices: GC/AG |	175
                       Number of splices: AT/AC |	4
               Number of splices: Non-canonical |	535
                      Mismatch rate per base, % |	0.25%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.12
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.00
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	781404
             % of reads mapped to multiple loci |	28.45%
        Number of reads mapped to too many loci |	438390
             % of reads mapped to too many loci |	15.96%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	5.20%
                     % of reads unmapped: other |	0.12%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	584578	584578	584578
N_multimapping	781404	781404	781404
N_noFeature	101678	470591	891363
N_ambiguous	141051	20437	1279
UnstrandedReadsAssigned:1138332 PositiveStrandReadsAssigned:890033 NegativeStrandReadsAssigned:488419
Dataset is classified unstranded
MeadianReadLen=22 20thPercentileLength=20 echo kmer=19
SRR1759871 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: SRR1759871-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 2,747,043 reads, 486,388 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 983 rounds

  33747 SRR1759871.ke.tsv
  46739 SRR1759871.se.tsv
  80486 total
==> SRR1759871.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Y110A7A.10	1787	1688	16	18.1905
F27C8.1	1940	1841	0	0
F07C3.7	1728	1629	0	0
F52H2.2a	1739	1640	0	0
F52H2.2b	1840	1741	3	3.30689
T13A10.10a	1734	1635	0	0
T13A10.10b	1598	1499	0	0
C55C2.5a	1840	1741	0	0
C55C2.5b	1606	1507	1.99918	2.54587

==> SRR1759871.se.tsv <==
WBGene00197333	0
WBGene00198386	0
WBGene00015153	42
WBGene00002061	22
WBGene00255704	2
WBGene00235314	0
WBGene00001177	179
WBGene00169236	0
WBGene00219784	0
WBGene00015152	0
SRR1759871 completed mapping pipeline successfully
