Starting /dee2/code/volunteer_pipeline.sh SRR1759864
    current disk space = 867063928
    free memory = 118254280 
SRR1759864 SRAfilesize
9cb54d5c94710a4cd6b3bd39e8425cf5  SRR1759864.sra
SRR1759864.sra file validated
SRR1759864 is single end
SRR1759864 is conventional basespace
SRR1759864 read1 length is 36 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR1759864_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	46
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	32.65125	33.0	32.0	34.0	32.0	34.0
2	32.4615	33.0	32.0	34.0	32.0	34.0
3	32.583	33.0	32.0	34.0	32.0	34.0
4	32.567	33.0	32.0	34.0	32.0	34.0
5	32.6495	33.0	32.0	34.0	32.0	34.0
6	35.52875	37.0	35.0	37.0	33.0	37.0
7	35.27175	37.0	34.0	37.0	32.0	37.0
8	35.2595	37.0	34.0	37.0	33.0	37.0
9	35.01125	37.0	34.0	37.0	32.0	37.0
10	34.9345	37.0	33.0	37.0	32.0	37.0
11	34.81375	37.0	33.0	37.0	32.0	37.0
12	35.3015	37.0	34.0	37.0	33.0	37.0
13	36.82275	38.0	38.0	38.0	35.0	38.0
14	36.6695	38.0	38.0	38.0	35.0	38.0
15	36.444	38.0	37.0	38.0	34.0	38.0
16	36.73625	38.0	38.0	38.0	35.0	38.0
17	36.599	38.0	37.0	38.0	34.0	38.0
18	36.4855	38.0	37.0	38.0	34.0	38.0
19	36.781	38.0	38.0	38.0	35.0	38.0
20	36.76025	38.0	38.0	38.0	35.0	38.0
21	36.37875	38.0	37.0	38.0	34.0	38.0
22	36.608	38.0	37.0	38.0	34.0	38.0
23	36.93275	38.0	37.0	39.0	34.0	39.0
24	37.06725	39.0	37.0	39.0	34.0	39.0
25	37.15675	38.0	37.0	39.0	34.0	39.0
26	37.15525	39.0	37.0	39.0	35.0	39.0
27	36.83	39.0	37.0	39.0	34.0	39.0
28	37.2945	38.0	38.0	39.0	35.0	39.0
29	36.8265	38.0	37.0	39.0	34.0	39.0
30	36.8395	38.0	37.0	39.0	34.0	39.0
31	36.9835	38.0	37.0	39.0	34.0	39.0
32	37.011	39.0	37.0	39.0	34.0	39.0
33	36.80875	39.0	37.0	39.0	34.0	39.0
34	36.66475	38.0	37.0	39.0	33.0	39.0
35	36.90425	39.0	37.0	39.0	34.0	39.0
36	35.9475	38.0	37.0	39.0	32.0	39.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
23	1.0
24	2.0
25	6.0
26	15.0
27	23.0
28	24.0
29	49.0
30	85.0
31	94.0
32	142.0
33	183.0
34	223.0
35	409.0
36	1080.0
37	1664.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	17.075000000000003	16.225	54.65	12.049999999999999
2	25.0	27.16297786720322	22.535211267605636	25.30181086519115
3	28.050000000000004	32.2	20.7	19.05
4	34.075	15.1	17.05	33.775
5	29.975	32.375	23.799999999999997	13.850000000000001
6	36.775000000000006	23.150000000000002	28.499999999999996	11.575000000000001
7	29.75	21.0	33.125	16.125
8	30.975	18.099999999999998	38.275	12.65
9	28.125	29.049999999999997	32.425	10.4
10	29.9	16.45	38.6	15.049999999999999
11	29.375	26.900000000000002	30.825000000000003	12.9
12	20.875	33.75	34.55	10.825
13	22.575	35.05	28.675	13.700000000000001
14	31.45	30.049999999999997	21.975	16.525000000000002
15	21.175	39.75	26.0	13.075000000000001
16	24.224999999999998	29.075	32.375	14.325
17	28.625	18.85	29.9	22.625
18	33.074999999999996	22.425	21.55	22.95
19	34.35	30.45	17.325	17.875
20	26.450000000000003	34.225	20.275000000000002	19.05
21	23.025000000000002	37.574999999999996	25.7	13.700000000000001
22	35.525	26.450000000000003	22.525000000000002	15.5
23	26.325	36.1	18.6	18.975
24	37.45	27.250000000000004	14.674999999999999	20.625
25	25.7	28.225	23.200000000000003	22.875
26	17.474999999999998	35.375	23.65	23.5
27	18.525	30.55	16.8	34.125
28	30.5	27.075	14.774999999999999	27.650000000000002
29	30.0	26.424999999999997	18.425	25.15
30	48.775	25.8	11.625	13.8
31	21.2	32.4	28.050000000000004	18.35
32	18.0	34.0	19.475	28.525
33	24.85	31.75	25.8	17.599999999999998
34	38.625	30.425	10.75	20.200000000000003
35	25.15	39.900000000000006	12.9	22.05
36	17.025000000000002	35.6	19.675	27.700000000000003
>>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	0.5
14	1.0
15	1.0
16	1.0
17	1.0
18	1.5
19	2.0
20	2.0
21	2.0
22	2.0
23	2.0
24	4.0
25	6.0
26	6.0
27	6.0
28	6.0
29	10.5
30	15.0
31	15.0
32	18.5
33	22.0
34	22.0
35	91.0
36	160.0
37	160.0
38	320.0
39	480.0
40	327.5
41	175.0
42	175.0
43	354.5
44	534.0
45	534.0
46	798.5
47	1063.0
48	1063.0
49	958.0
50	853.0
51	612.0
52	371.0
53	371.0
54	295.0
55	219.0
56	219.0
57	137.5
58	56.0
59	56.0
60	39.0
61	22.0
62	22.0
63	14.5
64	7.0
65	5.5
66	4.0
67	4.0
68	2.5
69	1.0
70	1.0
71	0.5
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	0.0
2	0.6
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	fail
#Total Deduplicated Percentage	41.85
#Duplication Level	Percentage of deduplicated	Percentage of total
1	83.63201911589009	35.0
2	6.810035842293908	5.7
3	2.7479091995221028	3.45
4	0.8960573476702508	1.5
5	0.4778972520908005	1.0
6	0.5973715651135006	1.5
7	0.5376344086021506	1.575
8	0.4181600955794504	1.4000000000000001
9	0.4181600955794504	1.575
>10	3.046594982078853	21.6
>50	0.23894862604540024	8.3
>100	0.17921146953405018	17.4
>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	357	8.924999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
GTGCAAGGATGAAAAAGAACTCTCTCACTGATAGAT	208	5.2	No Hit
TACCTGATTGATTCTGTCAGATCGGAAGAGCACACG	131	3.2750000000000004	No Hit
TGGAATGTAAAGAAGTATGTAAGATCGGAAGAGCAC	96	2.4	No Hit
TAGCTTCAGCGATGGATCGGTTGCATCGAGTATCGA	88	2.1999999999999997	No Hit
TGAGATCGTTCAGTACGGCAATAGATCGGAAGAGCA	87	2.175	No Hit
AGTCAATGATGTTTTTTCAAGACGGGACCGACTGGT	61	1.525	No Hit
AGATCGGAAGAGCACACGTCTGAACTCCAGTCACGC	45	1.125	TruSeq Adapter, Index 5 (97% over 35bp)
CGATGATGATGAAGAATTTTTGATATGGTGTCAGGA	36	0.8999999999999999	No Hit
TACCTGATTGATTCTGTCAGCGCGATATGCTCAAGT	35	0.8750000000000001	No Hit
TAATACGTCGTTGGTGTTTCCATAGATCGGAAGAGC	28	0.7000000000000001	No Hit
CAGGGTTGTTTAGATCGGAAGAGCACACGTCTGAAC	27	0.675	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TACCTGATTGATTCTGTCAAGATCGGAAGAGCACAC	26	0.65	No Hit
TCTCAACCTGAACTCAGTCGTGATTACCCGCTGAAC	23	0.575	No Hit
AATGGCACTGCATGAATTCACGGAGATCGGAAGAGC	22	0.5499999999999999	No Hit
TCAGGGTTGTTCAGATCGGAAGAGCACACGTCTGAA	21	0.525	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TGTGTATGACGACAACGTGTTAGGGACATCTGCACC	21	0.525	No Hit
GTGGGGCACAGAGTTGCAGTTGATTGAAACTAAATC	21	0.525	No Hit
TGAGATCATCGTGAAAGCCAGTAGATCGGAAGAGCA	20	0.5	No Hit
GACAATGATAGGATAACCTAGAGTCTCTGAACCATT	20	0.5	No Hit
TCAGGGTTGTTTAACAGATCGGAAGAGCACACGTCT	20	0.5	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
TACCTGATTGATTCTGTCAGCGCGATATGCTAGATC	18	0.44999999999999996	No Hit
TGACTAGAGACACATTCAGCTAGATCGGAAGAGCAC	17	0.42500000000000004	No Hit
CGTACTAGCTTCAGCGATGGATCGGTTGCATCGAGT	17	0.42500000000000004	No Hit
ACGTCTGGTTCAGGGTTGTTTAGATCGGAAGAGCAC	17	0.42500000000000004	No Hit
GTTTGTGATGACTGCATACGGATCACTGGGCTCTGA	17	0.42500000000000004	No Hit
CCTTTTATACTGCGATCTGTTGAGACTATCCTTTGA	17	0.42500000000000004	No Hit
TTTATACTGCGATCTGTTGAGACTATCCTTTGATTG	16	0.4	No Hit
AGGCAAGATGTTGGCATAGCTGAAGATCGGAAGAGC	16	0.4	No Hit
TACCCTGTAGATCGAGCTGTGTGTAGATCGGAAGAG	16	0.4	No Hit
CACCCGTACATATGTTTCCGTGCTAGATCGGAAGAG	15	0.375	No Hit
GATGATGATGAAGAATTTTTGATATGGTGTCAGGAC	15	0.375	No Hit
GCGGATTGAAGATGAAATCAACGACGCTGACCGGTA	15	0.375	No Hit
TTATACTGCGATCTGTTGAGACTATCCTTTGATTGA	15	0.375	No Hit
GAGCGGTGATGAATGCACGTATTGCTCTGACACCTC	15	0.375	No Hit
TGAGATCATTAGTTGAAAGCCGAAGATCGGAAGAGC	15	0.375	No Hit
CTAGCTTCAGCGATGGATCGGTTGCATCGAGTATCG	15	0.375	No Hit
TACCTGATTGATTCTGTTAGATCGGAAGAGCACACG	14	0.35000000000000003	No Hit
CTGCGGTGACGATCAACTCTTACCTACTATGACAAA	14	0.35000000000000003	No Hit
TGTGCAAGGATGAAAAAGAACTCTCTCACTGATAGA	13	0.325	No Hit
ACTTGGATCGGAGACGGCCTGGGAATCCTGGATGTT	13	0.325	No Hit
TACTGCGATCTGTTGAGACTATCCTTTGATTGAGTT	13	0.325	No Hit
TGAAAGACATGGGTAGTGAGACGAGATCGGAAGAGC	13	0.325	No Hit
TCCGTTGTGGTCTAGTGGTTAGGATTTATGGCTAGA	13	0.325	No Hit
TTTTGTAGATCGGAAGAGCACACGTCTGAACTCCAG	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TGAGATCATCGTGAAAGCTAGTAGATCGGAAGAGCA	11	0.27499999999999997	No Hit
TCTCAACCTGAACTAGATCGGAAGAGCACACGTCTG	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
TCACCGGGTGGAAACTAGCAGTAGATCGGAAGAGCA	11	0.27499999999999997	No Hit
TGAGGTAGGCTCAGTAGATGCGAAGATCGGAAGAGC	11	0.27499999999999997	No Hit
TACGTCTGGTTCAGGGTTGTTTAGATCGGAAGAGCA	11	0.27499999999999997	No Hit
TTCAGGGTTGTTTAGATCGGAAGAGCACACGTCTGA	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
GCGCGATGAACTCTTTACCATCTTTCGGGGCATAAC	11	0.27499999999999997	No Hit
ACTAGCTTCAGCGATGGATCGGTTGCATCGAGTATC	11	0.27499999999999997	No Hit
CGACAATGATAGGATAACCTAGAGTCTCTGAACCAT	10	0.25	No Hit
TGAGATCGTTCAGTACGGCAAAGATCGGAAGAGCAC	10	0.25	No Hit
TACCTGATTGATTCTGTAGATCGGAAGAGCACACGT	10	0.25	No Hit
TACCTGATTGATTCTGAGATCGGAAGAGCACACGTC	10	0.25	No Hit
AACAGTGATCGAGAGTCGGGTGCTAGACTGTAAGTG	10	0.25	No Hit
CGACTTGGTCTCTTGGTCAAGGTGTTGTATTCAGTA	9	0.22499999999999998	No Hit
TATGACACTGAAGCGTTACCGAAAGATCGGAAGAGC	9	0.22499999999999998	No Hit
TAACAGTGATCGAGAGTCGGGTGCTAGACTGTAAGT	9	0.22499999999999998	No Hit
TATACTGCGATCTGTTGAGACTATCCTTTGATTGAG	9	0.22499999999999998	No Hit
TACCCGTAGCTCCTATCCATGTTAGATCGGAAGAGC	9	0.22499999999999998	No Hit
ACGTACTAGCTTCAGCGATGGATCGGTTGCATCGAG	9	0.22499999999999998	No Hit
TCACCGGGTGTAAATCAGCTTGAGATCGGAAGAGCA	9	0.22499999999999998	No Hit
GTGCGATGAATGACTTGGATAAGTTTCGGCTGAAAC	8	0.2	No Hit
TGACTAGAACCGTTACTCATCAGATCGGAAGAGCAC	8	0.2	No Hit
ACTGCGATCTGTTGAGACTATCCTTTGATTGAGTTT	8	0.2	No Hit
TATGACACTGAAGCGTAACCGAAAGATCGGAAGAGC	8	0.2	No Hit
GAGTTTTTTGTAGATCGGAAGAGCACACGTCTGAAC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TCCGTTGTGGTCTAGTGGTTAGGATTTATGGCTCAG	8	0.2	No Hit
TTCTGAGCAGTAGATCGGAAGAGCACACGTCTGAAC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
AGGGTTGTTTAGATCGGAAGAGCACACGTCTGAACT	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
CTGCGATCTGTTGAGACTATCCTTTGATTGAGTTTT	7	0.17500000000000002	No Hit
CGTCTGGTTCAGGGTTGTTTAGATCGGAAGAGCACA	7	0.17500000000000002	No Hit
GTGTATGACGACAACGTGTTAGGGACATCTGCACCA	7	0.17500000000000002	No Hit
TGGAATGTAAAGAAGTATGTAGATCGGAAGAGCACA	7	0.17500000000000002	No Hit
ATCCCGTCCGATCTGGCAAGTTAAGCAACGTTGAGT	7	0.17500000000000002	No Hit
AAGCAGTGATGATTTTATAGTTCAGCTTATCTTCGG	7	0.17500000000000002	No Hit
TTTTATACTGCGATCTGTTGAGACTATCCTTTGATT	7	0.17500000000000002	No Hit
TCAGGGTTGTTTAGATCGGAAGAGCACACGTCTAAA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (95% over 24bp)
TCAGGGTTGTTAGATCGGAAGAGCACACGTCTGAAC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
CTGGATGTTGTAAGCTAGATCGGAAGAGCACACGTC	6	0.15	No Hit
CATGACACTGATTAGGGATGTGAAGATCGGAAGAGC	6	0.15	No Hit
TCGAACGCATAGCACCAACTGGGCCTCCAGTTGGTA	6	0.15	No Hit
GCGCGATGAGGATTGATAACACATACACACACTCTG	6	0.15	No Hit
TACCCGTAATCTTCATAATCCGAGAGATCGGAAGAG	6	0.15	No Hit
ATACTGCGATCTGTTGAGACTATCCTTTGATTGAGT	6	0.15	No Hit
TAGATCGGAAGAGCACACGTCTGAACTCCAGTCACG	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TCAGGGTTGTGTAGATCGGAAGAGCACACGTCTGAA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
GGTTTGTGATGACTGCATACGGATCACTGGGCTCTG	6	0.15	No Hit
TGAGATCGTTCAGTACGGCAACAGATCGGAAGAGCA	5	0.125	No Hit
CTTTTATACTGCGATCTGTTGAGACTATCCTTTGAT	5	0.125	No Hit
TGGCAAGATGTAGGCAGTTCAGTAGATCGGAAGAGC	5	0.125	No Hit
TCTTCTGAGCAGTAGATCGGAAGAGCACACGTCTGA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
TTTGATTGAGTTTTTTGTAGATCGGAAGAGCACACG	5	0.125	No Hit
CTTAGAGTGGTGAAATTTCGAACGCATAGCACCAAC	5	0.125	No Hit
TTAGAGTGGTGAAATTTCGAACGCATAGCACCAACT	5	0.125	No Hit
TGAAAGACATGGGTAGTGAGACAGATCGGAAGAGCA	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	1.225	0.0	0.0	0.0	0.0
2	1.475	0.0	0.0	0.0	0.0
3	1.625	0.0	0.0	0.0	0.0
4	1.825	0.0	0.0	0.0	0.0
5	1.825	0.0	0.0	0.0	0.0
6	2.025	0.0	0.0	0.0	0.0
7	2.525	0.0	0.0	0.0	0.0
8	2.85	0.0	0.0	0.0	0.0
9	3.25	0.0	0.0	0.0	0.0
10	3.775	0.0	0.0	0.0	0.0
11	4.675	0.0	0.0	0.0	0.0
12	7.175	0.0	0.0	0.0	0.0
13	18.875	0.0	0.0	0.0	0.0
14	20.075	0.0	0.0	0.0	0.0
15	21.15	0.0	0.0	0.0	0.0
16	22.6	0.0	0.0	0.0	0.0
17	23.925	0.0	0.0	0.0	0.0
18	25.0	0.0	0.0	0.0	0.0
19	30.025	0.0	0.0	0.0	0.0
20	31.95	0.0	0.0	0.0	0.0
21	33.35	0.0	0.0	0.0	0.0
22	38.9	0.0	0.0	0.0	0.0
23	45.425	0.0	0.0	0.0	0.0
24	51.55	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	fail
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
TCAGGGT	75	7.8216544E-11	24.0	1
TGTTTAG	75	2.3665052E-9	22.0	8
GTTTAGA	75	2.3665052E-9	22.0	9
TTTAGAT	75	2.3665052E-9	22.0	10
CGTCTGA	85	3.7471182E-10	21.17647	29
TTGTTTA	80	5.002221E-9	20.624998	7
GTTGTTT	80	5.002221E-9	20.624998	6
TTAGATC	80	5.002221E-9	20.624998	11
GGGTTGT	90	7.6761353E-10	20.000002	4
AGGGTTG	90	7.6761353E-10	20.000002	3
GTCTGAA	90	7.6761353E-10	20.000002	30
CAGGGTT	90	7.6761353E-10	20.000002	2
GGTTGTT	85	1.0086296E-8	19.411764	5
ACACGTC	95	1.5115802E-9	18.947369	26
CACGTCT	95	1.5115802E-9	18.947369	27
ACGTCTG	100	2.8703653E-9	18.0	28
CACACGT	105	5.2714313E-9	17.142857	25
GAGCACA	110	9.404175E-9	16.363638	22
AGCACAC	110	9.404175E-9	16.363638	23
GCACACG	110	9.404175E-9	16.363638	24
>>END_MODULE
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Written 77352 spots for SRR1759864.sra
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77356 READS because READLEN < 1
Read 77356 spots for SRR1759864.sra
Written 77356 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
Rejected 77352 READS because READLEN < 1
Read 77352 spots for SRR1759864.sra
Written 77352 spots for SRR1759864.sra
SRR ids: ['SRR1759864.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_p_7nhi8c
SRR1759864.sra spots: 4950532
blocks: [[1, 77352], [77353, 154704], [154705, 232056], [232057, 309408], [309409, 386760], [386761, 464112], [464113, 541464], [541465, 618816], [618817, 696168], [696169, 773520], [773521, 850872], [850873, 928224], [928225, 1005576], [1005577, 1082928], [1082929, 1160280], [1160281, 1237632], [1237633, 1314984], [1314985, 1392336], [1392337, 1469688], [1469689, 1547040], [1547041, 1624392], [1624393, 1701744], [1701745, 1779096], [1779097, 1856448], [1856449, 1933800], [1933801, 2011152], [2011153, 2088504], [2088505, 2165856], [2165857, 2243208], [2243209, 2320560], [2320561, 2397912], [2397913, 2475264], [2475265, 2552616], [2552617, 2629968], [2629969, 2707320], [2707321, 2784672], [2784673, 2862024], [2862025, 2939376], [2939377, 3016728], [3016729, 3094080], [3094081, 3171432], [3171433, 3248784], [3248785, 3326136], [3326137, 3403488], [3403489, 3480840], [3480841, 3558192], [3558193, 3635544], [3635545, 3712896], [3712897, 3790248], [3790249, 3867600], [3867601, 3944952], [3944953, 4022304], [4022305, 4099656], [4099657, 4177008], [4177009, 4254360], [4254361, 4331712], [4331713, 4409064], [4409065, 4486416], [4486417, 4563768], [4563769, 4641120], [4641121, 4718472], [4718473, 4795824], [4795825, 4873176], [4873177, 4950532]]
SRR1759864 file size 548964
SRR1759864 completed basic pipeline successfully
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	skewer -l 18 -q 10 -k inf -t 64 -o SRR1759864 SRR1759864_1.fastq
Input file:	SRR1759864_1.fastq
trimmed:	SRR1759864-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 08:26:33 2020 >> started

Sat Feb  8 08:26:38 2020 >> done (4.696s)
4950532 reads processed; of these:
  31101 ( 0.63%) short reads filtered out after trimming by size control
  60695 ( 1.23%) empty reads filtered out after trimming by size control
4858736 (98.15%) reads available; of these:
    359 ( 0.01%) trimmed reads available after processing
4858377 (99.99%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 24	     27	  0.00%
 25	     35	  0.00%
 26	     50	  0.00%
 27	     28	  0.00%
 28	      0	  0.00%
 29	      0	  0.00%
 30	      6	  0.00%
 31	      1	  0.00%
 32	     33	  0.00%
 33	     98	  0.00%
 34	     59	  0.00%
 35	     22	  0.00%
 36	4858377	 99.99%
4858736 reads passed initial QC


criterion=sequence-density
sequence-density=51.75
sequence-density-rank=1
fanout-score=14.31
fanout-score-rank=3
prefix-density=56.23
prefix-fanout=13.2
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACGCCAATA


criterion=fanout-score
sequence-density=1.50
sequence-density-rank=4
fanout-score=25.54
fanout-score-rank=1
prefix-density=1.59
prefix-fanout=24.0
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 AGATCGGAAGAGCACACGTCTGAACTCCAGTCACGCCAATA -o SRR1759864 -
Input file:	STDIN
trimmed:	SRR1759864-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	AGATCGGAAGAGCACACGTCTGAACTCCAGTCACGCCAATA
-- 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 08:26:50 2020 >> started

Sat Feb  8 08:26:56 2020 >> done (6.308s)
4671862 reads processed; of these:
1174936 (25.15%) short reads filtered out after trimming by size control
     79 ( 0.00%) empty reads filtered out after trimming by size control
3496847 (74.85%) reads available; of these:
1978762 (56.59%) trimmed reads available after processing
1518085 (43.41%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	 237984	  6.81%
 19	  88105	  2.52%
 20	  76841	  2.20%
 21	 287922	  8.23%
 22	 303181	  8.67%
 23	 278339	  7.96%
 24	 109049	  3.12%
 25	  37387	  1.07%
 26	  40612	  1.16%
 27	  27172	  0.78%
 28	  21666	  0.62%
 29	  26396	  0.75%
 30	  24881	  0.71%
 31	  40974	  1.17%
 32	 317030	  9.07%
 33	  61350	  1.75%
 34	     35	  0.00%
 35	      7	  0.00%
 36	1517916	 43.41%


criterion=sequence-density
sequence-density=8.20
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=9
prefix-density=0.00
prefix-fanout=1.0
sequence=TACCTGATTGATTCTGTCAGCGCGATATGCTCAAGTAAAAGATTAAGCCATGCATGCTTTGATTCATCAATGAAATTGCGTACGGCTCATTAGAGCAGATATCACCTTATCCGGGATCCTCATATGGATAACTGCGGAAATACTGGAGCTAATACATGCAACTATACCCCAACGCAAGGCGGGGTGCAATTATTAGAACAGACCAAACGTTTTCGGACGTTGTTTGTTGACTCTGAATAAAGCAGTTTACTGTCAGTTTCGACTGACTCTATCCGGAAAGGGTGTCTGCCCTTT


criterion=fanout-score
sequence-density=0.03
sequence-density-rank=37
fanout-score=3.72
fanout-score-rank=1
prefix-density=0.11
prefix-fanout=1.0
sequence=GTTCTTCGGAGCACAAGCGCGGTAACGCATTCGAACTTGGTTAGTCGCTCAAAGACCGAGCTAGAGTTTTCTTCTCTAGTTAAGGAACGGACTCCCTGGAATTGGTTCAGCCAGAGATGGGGACGTTGTTTCCGAAAAGCACCGCGGTTTCTGTGGTGTCTCGTGCTCTTTGAACGGCCCTTAAAACACCAAGGGAGGCTATTAATTTGCACTCAATCGTACCGATATCCGCATTAGGTCTCCAAGGTGAACAGCCTCTAGTCGATAGAATAATGTAGGTAAGGGAAGTCGGCAAACTAGATCCGTAACTTCGGGAAAAGGATTGGCTCCAGTGGTTGGAACGGTTGGCCAGTTGGTTGATGCTTGTCCGGCGCAGTTCTGTCTGCTTGATACTTTCGGGTTGATGGCGGACTAGTGATTGTGCTTGCTTGCGGACGCTTTCTGGTGTGTGCTTGGACCTCGGTTCTAGTATCCTGATCGCTCATCTAAACAACCGTACTGGAACCGGTAC
                                 Started job on |	Feb 08 08:27:30
                             Started mapping on |	Feb 08 08:27:31
                                    Finished on |	Feb 08 08:27:50
       Mapping speed, Million of reads per hour |	697.97

                          Number of input reads |	3683721
                      Average input read length |	29
                                    UNIQUE READS:
                   Uniquely mapped reads number |	2527226
                        Uniquely mapped reads % |	68.61%
                          Average mapped length |	29.53
                       Number of splices: Total |	8180
            Number of splices: Annotated (sjdb) |	3690
                       Number of splices: GT/AG |	7007
                       Number of splices: GC/AG |	89
                       Number of splices: AT/AC |	5
               Number of splices: Non-canonical |	1079
                      Mismatch rate per base, % |	0.23%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.08
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.09
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	838395
             % of reads mapped to multiple loci |	22.76%
        Number of reads mapped to too many loci |	153148
             % of reads mapped to too many loci |	4.16%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	4.47%
                     % of reads unmapped: other |	0.01%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	318100	318100	318100
N_multimapping	838395	838395	838395
N_noFeature	19884	57472	2147589
N_ambiguous	408065	66899	544
UnstrandedReadsAssigned:2099277 PositiveStrandReadsAssigned:2402855 NegativeStrandReadsAssigned:379093
Dataset is classified positive stranded
MeadianReadLen=32 20thPercentileLength=22 echo kmer=19
SRR1759864 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: SRR1759864-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 3,683,721 reads, 115,297 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 946 rounds

  33747 SRR1759864.ke.tsv
  46739 SRR1759864.se.tsv
  80486 total
==> SRR1759864.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Y110A7A.10	1787	1688	1	4.33769
F27C8.1	1940	1841	1	3.97719
F07C3.7	1728	1629	2	8.98958
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	0.999453	4.85601

==> SRR1759864.se.tsv <==
WBGene00197333	0
WBGene00198386	0
WBGene00015153	0
WBGene00002061	5
WBGene00255704	1
WBGene00235314	0
WBGene00001177	6
WBGene00169236	0
WBGene00219784	0
WBGene00015152	0
SRR1759864 completed mapping pipeline successfully
