Starting /dee2/code/volunteer_pipeline.sh SRR1759869
    current disk space = 868630176
    free memory = 122478300 
SRR1759869 SRAfilesize
e76c7848b07bb648d5911415c92751b8  SRR1759869.sra
SRR1759869.sra file validated
SRR1759869 is single end
SRR1759869 is conventional basespace
SRR1759869 read1 length is 36 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR1759869_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	31.3895	33.0	32.0	33.0	29.0	34.0
2	32.35625	33.0	32.0	33.0	32.0	34.0
3	32.5265	33.0	32.0	33.0	32.0	34.0
4	32.63075	33.0	32.0	33.0	32.0	34.0
5	32.51125	33.0	32.0	33.0	32.0	34.0
6	35.5645	37.0	35.0	37.0	33.0	37.0
7	35.5125	37.0	35.0	37.0	33.0	37.0
8	35.4035	37.0	34.0	37.0	33.0	37.0
9	35.118	37.0	34.0	37.0	33.0	37.0
10	35.1145	37.0	33.0	37.0	32.0	37.0
11	34.2865	37.0	33.0	37.0	32.0	37.0
12	34.44825	37.0	33.0	37.0	31.0	37.0
13	35.794	38.0	37.0	38.0	32.0	38.0
14	35.1425	38.0	36.0	38.0	21.0	38.0
15	35.22	38.0	36.0	38.0	32.0	38.0
16	36.36475	38.0	37.0	38.0	33.0	38.0
17	36.239	38.0	37.0	38.0	33.0	38.0
18	36.38075	38.0	37.0	38.0	33.0	38.0
19	36.13975	38.0	37.0	38.0	33.0	38.0
20	36.4195	38.0	37.0	38.0	34.0	38.0
21	35.973	38.0	37.0	38.0	32.0	38.0
22	36.40875	38.0	37.0	38.0	34.0	38.0
23	37.2445	39.0	38.0	39.0	36.0	39.0
24	37.24925	39.0	38.0	39.0	35.0	39.0
25	36.6965	38.0	37.0	39.0	33.0	39.0
26	36.454	38.0	37.0	39.0	32.0	39.0
27	36.60725	38.0	37.0	39.0	33.0	39.0
28	36.82475	38.0	37.0	39.0	34.0	39.0
29	36.449	38.0	37.0	39.0	33.0	39.0
30	36.7615	38.0	37.0	39.0	34.0	39.0
31	36.61625	38.0	37.0	39.0	33.0	39.0
32	36.89875	38.0	37.0	39.0	34.0	39.0
33	36.8365	38.0	37.0	39.0	34.0	39.0
34	36.83475	38.0	37.0	39.0	34.0	39.0
35	36.8755	39.0	37.0	39.0	33.0	39.0
36	36.50525	39.0	37.0	39.0	33.0	39.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
23	3.0
24	5.0
25	7.0
26	12.0
27	18.0
28	42.0
29	67.0
30	103.0
31	114.0
32	137.0
33	226.0
34	300.0
35	508.0
36	1092.0
37	1366.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	22.613319827804506	14.940491263611042	50.671055963535075	11.77513294504938
2	21.7	28.975	22.7	26.625
3	25.275	32.550000000000004	22.05	20.125
4	40.0	16.125	19.5	24.375
5	31.225	28.775000000000002	27.3	12.7
6	39.625	21.325	27.55	11.5
7	25.724999999999998	24.425	33.875	15.975
8	23.724999999999998	16.75	44.5	15.024999999999999
9	28.849999999999998	17.05	38.275	15.825
10	33.4	14.924999999999999	36.75	14.924999999999999
11	21.75	24.925	37.824999999999996	15.5
12	21.425	27.400000000000002	38.975	12.2
13	27.975	31.825	27.700000000000003	12.5
14	33.550000000000004	24.224999999999998	25.074999999999996	17.150000000000002
15	21.175	33.775	30.55	14.499999999999998
16	25.4	22.925	35.35	16.325
17	28.9	18.2	31.374999999999996	21.525
18	41.349999999999994	19.400000000000002	20.25	19.0
19	32.4	27.800000000000004	21.675	18.125
20	27.224999999999998	40.75	20.95	11.075
21	26.825	41.25	17.05	14.875
22	38.625	29.725	21.525	10.125
23	28.625	43.475	11.899999999999999	16.0
24	44.6	29.275000000000002	12.025	14.099999999999998
25	26.75	38.3	15.1	19.85
26	21.675	39.125	20.75	18.45
27	24.125	31.924999999999997	11.200000000000001	32.75
28	39.85	32.675	9.5	17.974999999999998
29	38.5	27.250000000000004	7.775	26.474999999999998
30	37.625	38.6	8.200000000000001	15.575
31	27.3	35.025	18.025	19.650000000000002
32	28.875	36.225	8.35	26.55
33	28.125	37.1	16.675	18.099999999999998
34	40.9	30.825000000000003	7.1	21.175
35	18.825	41.65	8.575000000000001	30.95
36	19.225	40.400000000000006	8.7	31.674999999999997
>>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	0.5
14	1.0
15	0.5
16	0.0
17	0.0
18	0.0
19	0.0
20	0.0
21	1.0
22	2.0
23	2.0
24	1.5
25	1.0
26	1.5
27	2.0
28	2.0
29	5.0
30	8.0
31	8.0
32	16.0
33	24.0
34	24.0
35	41.5
36	59.0
37	59.0
38	114.0
39	169.0
40	182.0
41	195.0
42	195.0
43	373.0
44	551.0
45	551.0
46	929.0
47	1307.0
48	1307.0
49	1122.0
50	937.0
51	688.0
52	439.0
53	439.0
54	320.0
55	201.0
56	201.0
57	136.0
58	71.0
59	71.0
60	48.0
61	25.0
62	25.0
63	15.5
64	6.0
65	4.0
66	2.0
67	2.0
68	1.0
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	1.275
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	56.125
#Duplication Level	Percentage of deduplicated	Percentage of total
1	89.13140311804008	50.025
2	3.78619153674833	4.25
3	2.2271714922048997	3.75
4	1.2026726057906458	2.7
5	0.7126948775055679	2.0
6	0.26726057906458794	0.8999999999999999
7	0.311804008908686	1.225
8	0.311804008908686	1.4000000000000001
9	0.579064587973274	2.9250000000000003
>10	1.247216035634744	14.45
>50	0.13363028953229397	5.35
>100	0.08908685968819599	11.025
>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	329	8.225	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TACCTGATTGATTCTGTCAGATCGGAAGAGCACACG	112	2.8000000000000003	No Hit
TGAGATCGTTCAGTACGGCAATAGATCGGAAGAGCA	91	2.275	No Hit
TGGGAATCCTGGATGTTGTAAGCTAGATCGGAAGAG	65	1.625	No Hit
GAGTTTTTTGTAGATCGGAAGAGCACACGTCTGAAC	58	1.4500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
CTGGATGTTGTAAGCTAGATCGGAAGAGCACACGTC	45	1.125	No Hit
ATCCTGGATGTTGTAAGCTAGATCGGAAGAGCACAC	45	1.125	No Hit
CTGGGAATCCTGGATGTTGTAAGCTAGATCGGAAGA	41	1.0250000000000001	No Hit
TCAGGGTTGTTCAGATCGGAAGAGCACACGTCTGAA	34	0.8500000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TGGAATGTAAAGAAGTATGTAAGATCGGAAGAGCAC	32	0.8	No Hit
TACCTGATTGATTCTGTCAAGATCGGAAGAGCACAC	28	0.7000000000000001	No Hit
TGGATGTTGTAAGCTAGATCGGAAGAGCACACGTCT	23	0.575	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
ACGTCTGGTTCAGGGTTGTTTAGATCGGAAGAGCAC	23	0.575	No Hit
TCAGGGTTGTGTAGATCGGAAGAGCACACGTCTGAA	21	0.525	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TACCTGATTGATTCTGTTAGATCGGAAGAGCACACG	20	0.5	No Hit
CCTGGATGTTGTAAGCTAGATCGGAAGAGCACACGT	20	0.5	No Hit
CACCCGTACATATGTTTCCGTGCTAGATCGGAAGAG	19	0.475	No Hit
AATCCTGGATGTTGTAAGCTAGATCGGAAGAGCACA	19	0.475	No Hit
GGAGACGGCCTGGGAATCCTGGATGTTGTAAGCTAG	19	0.475	No Hit
CAGGGTTGTTTAGATCGGAAGAGCACACGTCTGAAC	18	0.44999999999999996	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
GCCTGGGAATCCTGGATGTTGTAAGCTAGATCGGAA	18	0.44999999999999996	No Hit
TCTCAACCTGAACTCAGTCGTGAGATCGGAAGAGCA	16	0.4	No Hit
TCTCAACCTGAACTCAGTCGTGATTAGATCGGAAGA	16	0.4	No Hit
TGACTAGAGACACATTCAGCTAGATCGGAAGAGCAC	15	0.375	No Hit
CTTTGATTGAGTTTTTTGTAGATCGGAAGAGCACAC	14	0.35000000000000003	No Hit
TGAGATCGTTCAGTACGGCAAAGATCGGAAGAGCAC	14	0.35000000000000003	No Hit
TTGATTGAGTTTTTTGTAGATCGGAAGAGCACACGT	12	0.3	No Hit
CGTCTGGTTCAGGGTTGTTTAGATCGGAAGAGCACA	12	0.3	No Hit
GACGGCCTGGGAATCCTGGATGTTGTAAGCTAGATC	12	0.3	No Hit
TTTTGTAGATCGGAAGAGCACACGTCTGAACTCCAG	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TACGTCTGGTTCAGGGTTGTTTAGATCGGAAGAGCA	11	0.27499999999999997	No Hit
TCTCAACCTGAACTAGATCGGAAGAGCACACGTCTG	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
TACCTGATTGATTCTGTCAGCGCGATATGCTCAAGA	10	0.25	No Hit
TGAGATCATCGTGAAAGCTAGTAGATCGGAAGAGCA	9	0.22499999999999998	No Hit
TCAGGGTTGATTAGATCGGAAGAGCACACGTCTGAA	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
CCTGGGAATCCTGGATGTTGTAAGCTAGATCGGAAG	9	0.22499999999999998	No Hit
TGGGAATCCTGGATGTTGTAAGCCAGATCGGAAGAG	9	0.22499999999999998	No Hit
TCACCGGGTGGAAACTAGCAGTAGATCGGAAGAGCA	9	0.22499999999999998	No Hit
TACCTGATTGATTCTGTCAGCGCGATATGCTAGATC	9	0.22499999999999998	No Hit
TGGGAATCCTGGATGTTGTAAGCGAGATCGGAAGAG	9	0.22499999999999998	No Hit
TTTGATTGAGTTTTTTGTAGATCGGAAGAGCACACG	9	0.22499999999999998	No Hit
TAATACGTCGTTGGTGTTTCCATAGATCGGAAGAGC	9	0.22499999999999998	No Hit
TACCCTGTAGATCGAGCTGTGTGTAGATCGGAAGAG	9	0.22499999999999998	No Hit
CGGCCTGGGAATCCTGGATGTTGTAAGCTAGATCGG	9	0.22499999999999998	No Hit
CTGGGAATCCTGGATGTTGTAAGCCAGATCGGAAGA	9	0.22499999999999998	No Hit
TACCTGATTGATTCTAGATCGGAAGAGCACACGTCT	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
TGGATCATCGAGATCGGAAGAGCACACGTCTGAACT	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TCCTGGATGTTGTAAGCTAGATCGGAAGAGCACACG	8	0.2	No Hit
TGAGGTAGGCTCAGTAGATGCGAAGATCGGAAGAGC	8	0.2	No Hit
TCTCAACCTGAACTCAGTCGTAGATCGGAAGAGCAC	8	0.2	No Hit
GAGACTATCCTTTGATTAGATCGGAAGAGCACACGT	8	0.2	No Hit
ATCCTGGATGTTGTAAGCCAGATCGGAAGAGCACAC	8	0.2	No Hit
TCAGGGTTGTTTAACAGATCGGAAGAGCACACGTCT	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
TACCTGATTAGATCGGAAGAGCACACGTCTGAACTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
CATGACACTGATTAGGGATGTGAAGATCGGAAGAGC	7	0.17500000000000002	No Hit
AGACGGCCTGGGAATCCTGGATGTTGTAAGCTAGAT	7	0.17500000000000002	No Hit
TACCTGATTGATTCTGAGATCGGAAGAGCACACGTC	7	0.17500000000000002	No Hit
TGGAATGTAAAGAAGTATGTAGATCGGAAGAGCACA	7	0.17500000000000002	No Hit
GAGTTTTTTGCAGATCGGAAGAGCACACGTCTGAAC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TGAGATCGTTCAGTACGGCAGTAGATCGGAAGAGCA	7	0.17500000000000002	No Hit
TCAGGGTTGTTAGATCGGAAGAGCACACGTCTGAAC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TCTCAACCTGAACTCAGTAGATCGGAAGAGCACACG	6	0.15	No Hit
TGATTGAGTTTTTTGTAGATCGGAAGAGCACACGTC	6	0.15	No Hit
AATGGCACTGCATGAATTCACGGAGATCGGAAGAGC	6	0.15	No Hit
TCAGGGTTGGTTAGATCGGAAGAGCACACGTCTGAA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TACCTGATTGATTCTGTCAGCAGATCGGAAGAGCAC	6	0.15	No Hit
TCAGGGTTGTTTAAGATCGGAAGAGCACACGTCTGA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
AGGGTTGTTTAGATCGGAAGAGCACACGTCTGAACT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
AGGCAAGATGTTGGCATAGCTGAAGATCGGAAGAGC	5	0.125	No Hit
GAATAGATACGCGGTATGAGGTAGATCGGAAGAGCA	5	0.125	No Hit
GCTGGATCATCGAGATCGGAAGAGCACACGTCTGAA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TGGGAATCCTGGATGTTGTAAGCAAGATCGGAAGAG	5	0.125	No Hit
GCCTGGGAATCCTGGATGTTGTAAGCCAGATCGGAA	5	0.125	No Hit
TGAGATCATCGTGAAAGCCAGTAGATCGGAAGAGCA	5	0.125	No Hit
CTGGATGTTGTAAGCAAGATCGGAAGAGCACACGTC	5	0.125	No Hit
TCCTCGGTAGTATAGTAGATCGGAAGAGCACACGTC	5	0.125	No Hit
TCAGGGTTGTCTAGATCGGAAGAGCACACGTCTGAA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
GAATCCTGGATGTTGTAAGCTAGATCGGAAGAGCAC	5	0.125	No Hit
TACCCGTAGCTCCTATCCATGTTAGATCGGAAGAGC	5	0.125	No Hit
TGAGATCATTAGTTGAAAGCCGAAGATCGGAAGAGC	5	0.125	No Hit
TACCCGTATAAGTTTCTGCTGAGAGATCGGAAGAGC	5	0.125	No Hit
TGCAAAGGACTTTGAAGAGAGAGTAGATCGGAAGAG	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	0.05	0.0	0.0	0.0	0.0
2	0.1	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	0.35	0.0	0.0	0.0	0.0
7	0.85	0.0	0.0	0.0	0.0
8	1.125	0.0	0.0	0.0	0.0
9	1.475	0.0	0.0	0.0	0.0
10	2.3	0.0	0.0	0.0	0.0
11	3.625	0.0	0.0	0.0	0.0
12	7.65	0.0	0.0	0.0	0.0
13	20.275	0.0	0.0	0.0	0.0
14	22.3	0.0	0.0	0.0	0.0
15	24.0	0.0	0.0	0.0	0.0
16	26.85	0.0	0.0	0.0	0.0
17	30.7	0.0	0.0	0.0	0.0
18	33.85	0.0	0.0	0.0	0.0
19	40.1	0.0	0.0	0.0	0.0
20	44.525	0.0	0.0	0.0	0.0
21	47.85	0.0	0.0	0.0	0.0
22	55.95	0.0	0.0	0.0	0.0
23	70.85	0.0	0.0	0.0	0.0
24	77.775	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
TACCTGA	30	2.4834699E-5	30.36709	1
AATAGAT	25	3.5360456E-4	29.987503	20
GATTCTG	25	3.5360456E-4	29.987503	10
CGTTCAG	20	0.0045738416	29.987501	7
GGCAATA	20	0.0045738416	29.987501	17
CAGTACG	20	0.0045738416	29.987501	11
TACGGCA	20	0.0045738416	29.987501	14
GATCGTT	20	0.0045738416	29.987501	4
GTTCAGT	20	0.0045738416	29.987501	8
GCAATAG	20	0.0045738416	29.987501	18
AGTACGG	20	0.0045738416	29.987501	12
CAATAGA	20	0.0045738416	29.987501	19
TCAGTAC	20	0.0045738416	29.987501	10
TCGTTCA	20	0.0045738416	29.987501	6
ATCGTTC	20	0.0045738416	29.987501	5
ATTCTGT	20	0.0045738416	29.987501	11
TTCAGTA	20	0.0045738416	29.987501	9
CGGCAAT	20	0.0045738416	29.987501	16
ACGGCAA	20	0.0045738416	29.987501	15
AGATCGT	20	0.0045738416	29.987501	3
>>END_MODULE
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84121 READS because READLEN < 1
Read 84121 spots for SRR1759869.sra
Written 84121 spots for SRR1759869.sra
Rejected 84173 READS because READLEN < 1
Read 84173 spots for SRR1759869.sra
Written 84173 spots for SRR1759869.sra
SRR ids: ['SRR1759869.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_78lr9s4i
SRR1759869.sra spots: 5383796
blocks: [[1, 84121], [84122, 168242], [168243, 252363], [252364, 336484], [336485, 420605], [420606, 504726], [504727, 588847], [588848, 672968], [672969, 757089], [757090, 841210], [841211, 925331], [925332, 1009452], [1009453, 1093573], [1093574, 1177694], [1177695, 1261815], [1261816, 1345936], [1345937, 1430057], [1430058, 1514178], [1514179, 1598299], [1598300, 1682420], [1682421, 1766541], [1766542, 1850662], [1850663, 1934783], [1934784, 2018904], [2018905, 2103025], [2103026, 2187146], [2187147, 2271267], [2271268, 2355388], [2355389, 2439509], [2439510, 2523630], [2523631, 2607751], [2607752, 2691872], [2691873, 2775993], [2775994, 2860114], [2860115, 2944235], [2944236, 3028356], [3028357, 3112477], [3112478, 3196598], [3196599, 3280719], [3280720, 3364840], [3364841, 3448961], [3448962, 3533082], [3533083, 3617203], [3617204, 3701324], [3701325, 3785445], [3785446, 3869566], [3869567, 3953687], [3953688, 4037808], [4037809, 4121929], [4121930, 4206050], [4206051, 4290171], [4290172, 4374292], [4374293, 4458413], [4458414, 4542534], [4542535, 4626655], [4626656, 4710776], [4710777, 4794897], [4794898, 4879018], [4879019, 4963139], [4963140, 5047260], [5047261, 5131381], [5131382, 5215502], [5215503, 5299623], [5299624, 5383796]]
SRR1759869 file size 597200
SRR1759869 completed basic pipeline successfully
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	skewer -l 18 -q 10 -k inf -t 64 -o SRR1759869 SRR1759869_1.fastq
Input file:	SRR1759869_1.fastq
trimmed:	SRR1759869-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 08:28:21 2020 >> started

Sat Feb  8 08:28:26 2020 >> done (5.029s)
5383796 reads processed; of these:
   9803 ( 0.18%) short reads filtered out after trimming by size control
   1463 ( 0.03%) empty reads filtered out after trimming by size control
5372530 (99.79%) reads available; of these:
     15 ( 0.00%) trimmed reads available after processing
5372515 (100.00%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 30	      1	  0.00%
 31	      0	  0.00%
 32	      0	  0.00%
 33	      1	  0.00%
 34	      6	  0.00%
 35	      7	  0.00%
 36	5372515	100.00%
5372530 reads passed initial QC


criterion=sequence-density
sequence-density=51.25
sequence-density-rank=1
fanout-score=12.25
fanout-score-rank=9
prefix-density=55.72
prefix-fanout=11.3
sequence=TAGATCGGAAGAGCACACGTCTGAACTCCAGTC


criterion=fanout-score
sequence-density=8.35
sequence-density-rank=4
fanout-score=36.51
fanout-score-rank=1
prefix-density=8.94
prefix-fanout=34.1
sequence=GAGATCGGAAGA
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 TAGATCGGAAGAGCACACGTCTGAACTCCAGTC -o SRR1759869 -
Input file:	STDIN
trimmed:	SRR1759869-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	TAGATCGGAAGAGCACACGTCTGAACTCCAGTC
-- 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 08:28:37 2020 >> started

Sat Feb  8 08:28:45 2020 >> done (8.073s)
5165894 reads processed; of these:
2078085 (40.23%) short reads filtered out after trimming by size control
      0 ( 0.00%) empty reads filtered out after trimming by size control
3087809 (59.77%) reads available; of these:
1890336 (61.22%) trimmed reads available after processing
1197473 (38.78%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	 246562	  7.99%
 19	 136003	  4.40%
 20	 242342	  7.85%
 21	 433417	 14.04%
 22	 200218	  6.48%
 23	 214145	  6.94%
 24	 106572	  3.45%
 25	  55544	  1.80%
 26	  55813	  1.81%
 27	  21630	  0.70%
 28	  32145	  1.04%
 29	  20617	  0.67%
 30	  48671	  1.58%
 31	  32067	  1.04%
 32	  13818	  0.45%
 33	  30773	  1.00%
 34	      2	  0.00%
 35	      2	  0.00%
 36	1197468	 38.78%


criterion=sequence-density
sequence-density=23.99
sequence-density-rank=1
fanout-score=44.76
fanout-score-rank=1
prefix-density=29.75
prefix-fanout=36.1
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACACTTGAA


criterion=fanout-score
sequence-density=23.99
sequence-density-rank=1
fanout-score=44.76
fanout-score-rank=1
prefix-density=29.75
prefix-fanout=36.1
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACACTTGAA
                                 Started job on |	Feb 08 08:29:24
                             Started mapping on |	Feb 08 08:29:24
                                    Finished on |	Feb 08 08:30:00
       Mapping speed, Million of reads per hour |	329.44

                          Number of input reads |	3294445
                      Average input read length |	27
                                    UNIQUE READS:
                   Uniquely mapped reads number |	1213903
                        Uniquely mapped reads % |	36.85%
                          Average mapped length |	22.93
                       Number of splices: Total |	30260
            Number of splices: Annotated (sjdb) |	19246
                       Number of splices: GT/AG |	25591
                       Number of splices: GC/AG |	215
                       Number of splices: AT/AC |	104
               Number of splices: Non-canonical |	4350
                      Mismatch rate per base, % |	0.52%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.10
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.06
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	613933
             % of reads mapped to multiple loci |	18.64%
        Number of reads mapped to too many loci |	533350
             % of reads mapped to too many loci |	16.19%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	28.27%
                     % of reads unmapped: other |	0.06%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	1466609	1466609	1466609
N_multimapping	613933	613933	613933
N_noFeature	76583	360324	821215
N_ambiguous	121632	11469	2341
UnstrandedReadsAssigned:1015688 PositiveStrandReadsAssigned:842110 NegativeStrandReadsAssigned:390347
Dataset is classified unstranded
MeadianReadLen=24 20thPercentileLength=20 echo kmer=19
SRR1759869 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: SRR1759869-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 3,294,445 reads, 548,648 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 894 rounds

  33747 SRR1759869.ke.tsv
  46739 SRR1759869.se.tsv
  80486 total
==> SRR1759869.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Y110A7A.10	1787	1688	12	10.8237
F27C8.1	1940	1841	0	0
F07C3.7	1728	1629	1	0.934647
F52H2.2a	1739	1640	0	0
F52H2.2b	1840	1741	0	0
T13A10.10a	1734	1635	1	0.931217
T13A10.10b	1598	1499	0	0
C55C2.5a	1840	1741	0	0
C55C2.5b	1606	1507	0.999174	1.00948

==> SRR1759869.se.tsv <==
WBGene00197333	0
WBGene00198386	0
WBGene00015153	27
WBGene00002061	26
WBGene00255704	1
WBGene00235314	0
WBGene00001177	27
WBGene00169236	0
WBGene00219784	0
WBGene00015152	0
SRR1759869 completed mapping pipeline successfully
