Starting /dee2/code/volunteer_pipeline.sh SRR1759870
    current disk space = 869215716
    free memory = 128610212 
SRR1759870 SRAfilesize
fef6d23ae0df7c57452bd9b03d2a3e7e  SRR1759870.sra
SRR1759870.sra file validated
SRR1759870 is single end
SRR1759870 is conventional basespace
SRR1759870 read1 length is 36 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR1759870_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	31.4435	33.0	32.0	33.0	29.0	34.0
2	32.379	33.0	32.0	33.0	32.0	34.0
3	32.45125	33.0	32.0	33.0	32.0	34.0
4	32.5885	33.0	32.0	33.0	32.0	34.0
5	32.49225	33.0	32.0	33.0	32.0	34.0
6	35.63575	37.0	35.0	37.0	33.0	37.0
7	35.49	37.0	35.0	37.0	33.0	37.0
8	35.4545	37.0	34.0	37.0	33.0	37.0
9	35.01225	37.0	33.0	37.0	32.0	37.0
10	34.921	37.0	33.0	37.0	32.0	37.0
11	34.0565	37.0	33.0	37.0	31.0	37.0
12	34.3	37.0	33.0	37.0	31.0	37.0
13	35.8805	38.0	37.0	38.0	33.0	38.0
14	35.30575	38.0	36.0	38.0	32.0	38.0
15	35.2085	38.0	36.0	38.0	32.0	38.0
16	36.41825	38.0	37.0	38.0	33.0	38.0
17	36.2455	38.0	37.0	38.0	33.0	38.0
18	36.40925	38.0	37.0	38.0	33.0	38.0
19	36.08375	38.0	37.0	38.0	33.0	38.0
20	36.35575	38.0	37.0	38.0	33.0	38.0
21	35.9225	38.0	37.0	38.0	33.0	38.0
22	36.5375	38.0	37.0	38.0	34.0	38.0
23	37.28475	39.0	38.0	39.0	35.0	39.0
24	37.17	39.0	37.0	39.0	35.0	39.0
25	36.7005	38.0	37.0	39.0	34.0	39.0
26	36.36725	38.0	37.0	39.0	33.0	39.0
27	36.57175	38.0	37.0	39.0	33.0	39.0
28	36.86425	38.0	37.0	39.0	33.0	39.0
29	36.6555	38.0	37.0	39.0	33.0	39.0
30	36.863	38.0	37.0	39.0	34.0	39.0
31	36.9065	38.0	37.0	39.0	34.0	39.0
32	36.99	38.0	38.0	39.0	34.0	39.0
33	37.13275	39.0	38.0	39.0	34.0	39.0
34	36.92025	38.0	37.0	39.0	34.0	39.0
35	36.9065	39.0	37.0	39.0	34.0	39.0
36	36.59875	39.0	37.0	39.0	33.0	39.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
23	1.0
24	4.0
25	7.0
26	12.0
27	20.0
28	40.0
29	65.0
30	76.0
31	117.0
32	166.0
33	214.0
34	326.0
35	472.0
36	1118.0
37	1362.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	20.57113975233763	15.64316401314127	51.554207733131165	12.231488501389942
2	19.25	28.15	22.875	29.725
3	24.3	33.575	22.275	19.85
4	40.5	16.175	19.675	23.65
5	34.449999999999996	26.424999999999997	26.674999999999997	12.45
6	42.025	19.15	27.975	10.85
7	25.874999999999996	21.8	36.7	15.625
8	23.674999999999997	16.3	45.875	14.149999999999999
9	31.275	16.725	38.725	13.275
10	32.75	14.174999999999999	39.025	14.05
11	21.55	25.874999999999996	37.325	15.25
12	20.125	29.475	40.25	10.15
13	27.325	35.4	25.275	12.0
14	34.8	24.625	24.0	16.575
15	20.474999999999998	36.8	27.775	14.95
16	25.6	22.95	34.875	16.575
17	28.425	20.05	27.650000000000002	23.875
18	43.675000000000004	20.424999999999997	18.175	17.724999999999998
19	34.5	29.425	18.55	17.525
20	27.075	43.95	17.4	11.575000000000001
21	27.474999999999998	42.95	16.1	13.475000000000001
22	39.550000000000004	31.125000000000004	18.55	10.775
23	28.999999999999996	44.3	11.325000000000001	15.375
24	45.475	28.499999999999996	10.725	15.299999999999999
25	26.25	36.725	12.425	24.6
26	21.925	40.875	16.225	20.974999999999998
27	24.2	32.25	9.35	34.2
28	35.975	36.75	8.275	19.0
29	34.65	29.325000000000003	5.949999999999999	30.075000000000003
30	38.9	35.449999999999996	9.875	15.775
31	25.124999999999996	30.8	21.099999999999998	22.975
32	25.324999999999996	33.300000000000004	10.525	30.85
33	26.375	32.925	20.200000000000003	20.5
34	38.1	30.3	7.249999999999999	24.349999999999998
35	16.1	43.75	10.075000000000001	30.075000000000003
36	18.825	39.125	10.4	31.65
>>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	0.5
25	1.0
26	1.5
27	2.0
28	2.0
29	3.0
30	4.0
31	4.0
32	7.5
33	11.0
34	11.0
35	24.5
36	38.0
37	38.0
38	82.0
39	126.0
40	154.0
41	182.0
42	182.0
43	362.0
44	542.0
45	542.0
46	970.5
47	1399.0
48	1399.0
49	1181.5
50	964.0
51	706.0
52	448.0
53	448.0
54	313.5
55	179.0
56	179.0
57	125.0
58	71.0
59	71.0
60	46.0
61	21.0
62	21.0
63	14.5
64	8.0
65	6.0
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	1.075
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	0.0
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	54.50000000000001
#Duplication Level	Percentage of deduplicated	Percentage of total
1	89.31192660550458	48.675000000000004
2	4.08256880733945	4.45
3	1.6972477064220184	2.775
4	1.2385321100917432	2.7
5	0.5963302752293578	1.625
6	0.41284403669724773	1.35
7	0.41284403669724773	1.575
8	0.1834862385321101	0.8
9	0.09174311926605505	0.44999999999999996
>10	1.7889908256880735	19.15
>50	0.09174311926605505	3.125
>100	0.09174311926605505	13.325000000000001
>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	410	10.25	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TACCTGATTGATTCTGTCAGATCGGAAGAGCACACG	123	3.075	No Hit
GAGTTTTTTGTAGATCGGAAGAGCACACGTCTGAAC	67	1.675	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TGAGATCGTTCAGTACGGCAATAGATCGGAAGAGCA	58	1.4500000000000002	No Hit
ATCCTGGATGTTGTAAGCTAGATCGGAAGAGCACAC	49	1.225	No Hit
TGGGAATCCTGGATGTTGTAAGCTAGATCGGAAGAG	49	1.225	No Hit
CTGGATGTTGTAAGCTAGATCGGAAGAGCACACGTC	43	1.075	No Hit
CCTGGATGTTGTAAGCTAGATCGGAAGAGCACACGT	38	0.95	No Hit
TACCTGATTGATTCTGTCAAGATCGGAAGAGCACAC	33	0.8250000000000001	No Hit
TCAGGGTTGTTCAGATCGGAAGAGCACACGTCTGAA	33	0.8250000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TTTTGTAGATCGGAAGAGCACACGTCTGAACTCCAG	30	0.75	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
AATCCTGGATGTTGTAAGCTAGATCGGAAGAGCACA	29	0.7250000000000001	No Hit
ACGTCTGGTTCAGGGTTGTTTAGATCGGAAGAGCAC	29	0.7250000000000001	No Hit
TCAGGGTTGTGTAGATCGGAAGAGCACACGTCTGAA	28	0.7000000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
CAGGGTTGTTTAGATCGGAAGAGCACACGTCTGAAC	25	0.625	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
CTGGGAATCCTGGATGTTGTAAGCTAGATCGGAAGA	25	0.625	No Hit
CGTCTGGTTCAGGGTTGTTTAGATCGGAAGAGCACA	22	0.5499999999999999	No Hit
TGGATGTTGTAAGCTAGATCGGAAGAGCACACGTCT	21	0.525	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
TACCTGATTAGATCGGAAGAGCACACGTCTGAACTC	17	0.42500000000000004	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TGGAATGTAAAGAAGTATGTAAGATCGGAAGAGCAC	17	0.42500000000000004	No Hit
TCAGGGTTGTTAGATCGGAAGAGCACACGTCTGAAC	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
GCCTGGGAATCCTGGATGTTGTAAGCTAGATCGGAA	15	0.375	No Hit
GACGGCCTGGGAATCCTGGATGTTGTAAGCTAGATC	15	0.375	No Hit
TTGATTGAGTTTTTTGTAGATCGGAAGAGCACACGT	14	0.35000000000000003	No Hit
CCTGGGAATCCTGGATGTTGTAAGCTAGATCGGAAG	14	0.35000000000000003	No Hit
TTCAGGGTTGTTTAGATCGGAAGAGCACACGTCTGA	14	0.35000000000000003	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
TCTCAACCTGAACTCAGTCGTGATTAGATCGGAAGA	14	0.35000000000000003	No Hit
AGGGTTGTTTAGATCGGAAGAGCACACGTCTGAACT	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TGAGATCGTTCAGTACGGCAAAGATCGGAAGAGCAC	12	0.3	No Hit
TACCTGATTGATTCTGTTAGATCGGAAGAGCACACG	12	0.3	No Hit
TTTGATTGAGTTTTTTGTAGATCGGAAGAGCACACG	12	0.3	No Hit
GAGTTTTTTGCAGATCGGAAGAGCACACGTCTGAAC	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TCAGGGTTGTTTAACAGATCGGAAGAGCACACGTCT	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
CACCCGTACATATGTTTCCGTGCTAGATCGGAAGAG	11	0.27499999999999997	No Hit
TCTCAACCTGAACTAGATCGGAAGAGCACACGTCTG	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
TACCCTGTAGATCGAGCTGTGTGTAGATCGGAAGAG	11	0.27499999999999997	No Hit
TCTCAACCTGAACTCAGTCGTGAGATCGGAAGAGCA	11	0.27499999999999997	No Hit
TCAGGGTTGATTAGATCGGAAGAGCACACGTCTGAA	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
NCAGGGTTGTTTAGATCGGAAGAGCACACGTCTGAA	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TGAGATCATCGTGAAAGCCAGTAGATCGGAAGAGCA	10	0.25	No Hit
TACCTGATTGATTCTGTAGATCGGAAGAGCACACGT	10	0.25	No Hit
AGATCGGAAGAGCACACGTCTGAACTCCAGTCACTG	10	0.25	TruSeq Adapter, Index 2 (97% over 35bp)
GAATCCTGGATGTTGTAAGCTAGATCGGAAGAGCAC	10	0.25	No Hit
GAGACTATCCTTTGATTAGATCGGAAGAGCACACGT	9	0.22499999999999998	No Hit
TCAGGGTTGTCTAGATCGGAAGAGCACACGTCTGAA	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TGAGATCGTTCAGTACGGCAACAGATCGGAAGAGCA	8	0.2	No Hit
GCTGGATCATCGAGATCGGAAGAGCACACGTCTGAA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TGATATGTTGTTTGAATGCCCCTAGATCGGAAGAGC	8	0.2	No Hit
TACCTGATTGATTCTAGATCGGAAGAGCACACGTCT	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
TCCTGGATGTTGTAAGCTAGATCGGAAGAGCACACG	7	0.17500000000000002	No Hit
TCACCGGGTGGAAACTAGCAGTAGATCGGAAGAGCA	7	0.17500000000000002	No Hit
TGACTAGAGACACATTCAGCTAGATCGGAAGAGCAC	7	0.17500000000000002	No Hit
TACCTGATTGATTCTGTCAGCGCGATATGCTAGATC	7	0.17500000000000002	No Hit
TTGTAAGCTAGATCGGAAGAGCACACGTCTGAACTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GAATAGATACGCGGTATGAGGTAGATCGGAAGAGCA	7	0.17500000000000002	No Hit
ATCCTGGATGTTGTAAGCCAGATCGGAAGAGCACAC	7	0.17500000000000002	No Hit
TAATACGTCGTTGGTGTTTCCATAGATCGGAAGAGC	7	0.17500000000000002	No Hit
TACCCGTAGCTCCTATCCATGTTAGATCGGAAGAGC	7	0.17500000000000002	No Hit
TACCTGATTGATTCTGTCAGTAGATCGGAAGAGCAC	6	0.15	No Hit
TACGTCTGGTTCAGGGTTGTTTAGATCGGAAGAGCA	6	0.15	No Hit
TGCAAAGGACTAGATCGGAAGAGCACACGTCTGAAC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
CTTTGATTGAGTTTTTTGTAGATCGGAAGAGCACAC	6	0.15	No Hit
TCTCAACCTGAACTCAGTAGATCGGAAGAGCACACG	6	0.15	No Hit
TATGACACTGAAGCGTAACCGAAAGATCGGAAGAGC	6	0.15	No Hit
TACCTGATTGATTCTGAGATCGGAAGAGCACACGTC	6	0.15	No Hit
TGGAATGTAAAGAAGTATGTAGATCGGAAGAGCACA	6	0.15	No Hit
TTCTGAGCAGTAGATCGGAAGAGCACACGTCTGAAC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
AATCCTGGATGTTGTAAGCCAGATCGGAAGAGCACA	5	0.125	No Hit
TGGCAAGATGTAGGCAGTTCAGTAGATCGGAAGAGC	5	0.125	No Hit
TCTCAACCTGAACTCAGTCAGATCGGAAGAGCACAC	5	0.125	No Hit
CATGACACTGATTAGGGATGTGAAGATCGGAAGAGC	5	0.125	No Hit
TGGGAATCCTGGATGTTGTAAGCGAGATCGGAAGAG	5	0.125	No Hit
TCCTCGGTAGTATAGTAGATCGGAAGAGCACACGTC	5	0.125	No Hit
GGAGACGGCCTGGGAATCCTGGATGTTGTAAGCTAG	5	0.125	No Hit
TGATTGAGTTTTTTGTAGATCGGAAGAGCACACGTC	5	0.125	No Hit
ACAAGGCGTGGAGCTTGCGGCTTAATTAGATCGGAA	5	0.125	No Hit
CGGCCTGGGAATCCTGGATGTTGTAAGCTAGATCGG	5	0.125	No Hit
GCTTACGACCAGATCGGAAGAGCACACGTCTGAACT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TGAGATCGTTCAGTACGGCAGTAGATCGGAAGAGCA	5	0.125	No Hit
TTCAAAATACTGAGCGCAAGATCGGAAGAGCACACG	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	0.25	0.0	0.0	0.0	0.0
2	0.45	0.0	0.0	0.0	0.0
3	0.575	0.0	0.0	0.0	0.0
4	0.675	0.0	0.0	0.0	0.0
5	0.9	0.0	0.0	0.0	0.0
6	1.2	0.0	0.0	0.0	0.0
7	2.275	0.0	0.0	0.0	0.0
8	2.65	0.0	0.0	0.0	0.0
9	3.175	0.0	0.0	0.0	0.0
10	4.8	0.0	0.0	0.0	0.0
11	6.775	0.0	0.0	0.0	0.0
12	12.25	0.0	0.0	0.0	0.0
13	27.75	0.0	0.0	0.0	0.0
14	30.3	0.0	0.0	0.0	0.0
15	33.025	0.0	0.0	0.0	0.0
16	36.1	0.0	0.0	0.0	0.0
17	39.675	0.0	0.0	0.0	0.0
18	43.4	0.0	0.0	0.0	0.0
19	50.175	0.0	0.0	0.0	0.0
20	54.925	0.0	0.0	0.0	0.0
21	59.0	0.0	0.0	0.0	0.0
22	66.6	0.0	0.0	0.0	0.0
23	78.0	0.0	0.0	0.0	0.0
24	83.275	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
GATTCTG	25	3.5274107E-4	30.0	10
TACCTGA	25	3.5274107E-4	30.0	1
TGATTGA	30	0.0010258359	25.000002	5
TTGATTC	30	0.0010258359	25.000002	8
TGTTTAG	45	1.4609444E-5	23.333334	8
GTTTAGA	45	1.4609444E-5	23.333334	9
TCAGGGT	60	1.9158688E-7	22.500002	1
ATTGATT	35	0.0025193915	21.428572	7
TTGTTTA	50	3.3045253E-5	21.0	7
TTTAGAT	50	3.3045253E-5	21.0	10
GTTGTTT	50	3.3045253E-5	21.0	6
GGGTTGT	65	4.153826E-7	20.76923	4
AGGGTTG	65	4.153826E-7	20.76923	3
CAGGGTT	65	4.153826E-7	20.76923	2
GTCTGAA	80	5.002221E-9	20.624998	30
>>END_MODULE
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
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Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
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Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
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Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
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Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
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Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
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Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
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Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
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Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
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Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
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Written 65188 spots for SRR1759870.sra
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Written 65188 spots for SRR1759870.sra
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Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
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Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
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Read 65188 spots for SRR1759870.sra
Written 65188 spots for SRR1759870.sra
Rejected 65188 READS because READLEN < 1
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Written 65188 spots for SRR1759870.sra
Rejected 65244 READS because READLEN < 1
Read 65244 spots for SRR1759870.sra
Written 65244 spots for SRR1759870.sra
SRR ids: ['SRR1759870.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_ofss3y3a
SRR1759870.sra spots: 4172088
blocks: [[1, 65188], [65189, 130376], [130377, 195564], [195565, 260752], [260753, 325940], [325941, 391128], [391129, 456316], [456317, 521504], [521505, 586692], [586693, 651880], [651881, 717068], [717069, 782256], [782257, 847444], [847445, 912632], [912633, 977820], [977821, 1043008], [1043009, 1108196], [1108197, 1173384], [1173385, 1238572], [1238573, 1303760], [1303761, 1368948], [1368949, 1434136], [1434137, 1499324], [1499325, 1564512], [1564513, 1629700], [1629701, 1694888], [1694889, 1760076], [1760077, 1825264], [1825265, 1890452], [1890453, 1955640], [1955641, 2020828], [2020829, 2086016], [2086017, 2151204], [2151205, 2216392], [2216393, 2281580], [2281581, 2346768], [2346769, 2411956], [2411957, 2477144], [2477145, 2542332], [2542333, 2607520], [2607521, 2672708], [2672709, 2737896], [2737897, 2803084], [2803085, 2868272], [2868273, 2933460], [2933461, 2998648], [2998649, 3063836], [3063837, 3129024], [3129025, 3194212], [3194213, 3259400], [3259401, 3324588], [3324589, 3389776], [3389777, 3454964], [3454965, 3520152], [3520153, 3585340], [3585341, 3650528], [3650529, 3715716], [3715717, 3780904], [3780905, 3846092], [3846093, 3911280], [3911281, 3976468], [3976469, 4041656], [4041657, 4106844], [4106845, 4172088]]
SRR1759870 file size 462304
SRR1759870 completed basic pipeline successfully
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	skewer -l 18 -q 10 -k inf -t 64 -o SRR1759870 SRR1759870_1.fastq
Input file:	SRR1759870_1.fastq
trimmed:	SRR1759870-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 08:28:26 2020 >> started

Sat Feb  8 08:28:30 2020 >> done (3.855s)
4172088 reads processed; of these:
  31889 ( 0.76%) short reads filtered out after trimming by size control
   4635 ( 0.11%) empty reads filtered out after trimming by size control
4135564 (99.12%) reads available; of these:
     14 ( 0.00%) trimmed reads available after processing
4135550 (100.00%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 29	      1	  0.00%
 30	      0	  0.00%
 31	      0	  0.00%
 32	      0	  0.00%
 33	      1	  0.00%
 34	      6	  0.00%
 35	      6	  0.00%
 36	4135550	100.00%
4135564 reads passed initial QC


criterion=sequence-density
sequence-density=55.41
sequence-density-rank=1
fanout-score=9.91
fanout-score-rank=9
prefix-density=58.95
prefix-fanout=9.3
sequence=TAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC


criterion=fanout-score
sequence-density=9.76
sequence-density-rank=3
fanout-score=33.70
fanout-score-rank=1
prefix-density=10.28
prefix-fanout=32.0
sequence=AAGATCGGAAGA
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 TAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC -o SRR1759870 -
Input file:	STDIN
trimmed:	SRR1759870-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	TAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC
-- 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 08:28:38 2020 >> started

Sat Feb  8 08:28:44 2020 >> done (5.706s)
3987865 reads processed; of these:
2038283 (51.11%) short reads filtered out after trimming by size control
      0 ( 0.00%) empty reads filtered out after trimming by size control
1949582 (48.89%) reads available; of these:
1224683 (62.82%) trimmed reads available after processing
 724899 (37.18%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	 213415	 10.95%
 19	 111526	  5.72%
 20	 167257	  8.58%
 21	 268915	 13.79%
 22	 115174	  5.91%
 23	 129548	  6.64%
 24	  66955	  3.43%
 25	  32534	  1.67%
 26	  30330	  1.56%
 27	  10524	  0.54%
 28	  15580	  0.80%
 29	  10171	  0.52%
 30	  21929	  1.12%
 31	  12960	  0.66%
 32	   5075	  0.26%
 33	  12791	  0.66%
 34	      2	  0.00%
 35	      0	  0.00%
 36	 724896	 37.18%


criterion=sequence-density
sequence-density=25.89
sequence-density-rank=1
fanout-score=48.12
fanout-score-rank=1
prefix-density=31.57
prefix-fanout=39.5
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACTGACCAA


criterion=fanout-score
sequence-density=25.89
sequence-density-rank=1
fanout-score=48.12
fanout-score-rank=1
prefix-density=31.57
prefix-fanout=39.5
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACTGACCAA
                                 Started job on |	Feb 08 08:29:21
                             Started mapping on |	Feb 08 08:29:22
                                    Finished on |	Feb 08 08:29:54
       Mapping speed, Million of reads per hour |	235.94

                          Number of input reads |	2097281
                      Average input read length |	27
                                    UNIQUE READS:
                   Uniquely mapped reads number |	719151
                        Uniquely mapped reads % |	34.29%
                          Average mapped length |	22.41
                       Number of splices: Total |	18961
            Number of splices: Annotated (sjdb) |	12466
                       Number of splices: GT/AG |	16200
                       Number of splices: GC/AG |	124
                       Number of splices: AT/AC |	65
               Number of splices: Non-canonical |	2572
                      Mismatch rate per base, % |	0.52%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.64
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.07
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	367231
             % of reads mapped to multiple loci |	17.51%
        Number of reads mapped to too many loci |	377451
             % of reads mapped to too many loci |	18.00%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	30.14%
                     % of reads unmapped: other |	0.06%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	1010899	1010899	1010899
N_multimapping	367231	367231	367231
N_noFeature	46080	234118	478162
N_ambiguous	61757	8173	1384
UnstrandedReadsAssigned:611314 PositiveStrandReadsAssigned:476860 NegativeStrandReadsAssigned:239605
Dataset is classified unstranded
MeadianReadLen=23 20thPercentileLength=20 echo kmer=19
SRR1759870 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: SRR1759870-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 2,097,281 reads, 359,320 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 871 rounds

  33747 SRR1759870.ke.tsv
  46739 SRR1759870.se.tsv
  80486 total
==> SRR1759870.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Y110A7A.10	1787	1688	13	18.1119
F27C8.1	1940	1841	0	0
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	0	0
C55C2.5a	1840	1741	0	0
C55C2.5b	1606	1507	1.99802	3.11802

==> SRR1759870.se.tsv <==
WBGene00197333	0
WBGene00198386	0
WBGene00015153	12
WBGene00002061	11
WBGene00255704	0
WBGene00235314	0
WBGene00001177	13
WBGene00169236	0
WBGene00219784	0
WBGene00015152	0
SRR1759870 completed mapping pipeline successfully
