Starting /dee2/code/volunteer_pipeline.sh SRR1759866
    current disk space = 868091096
    free memory = 122462704 
SRR1759866 SRAfilesize
f4d1ec7c7258a35a2bec4aa66b0494a2  SRR1759866.sra
SRR1759866.sra file validated
SRR1759866 is single end
SRR1759866 is conventional basespace
SRR1759866 read1 length is 36 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR1759866_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	32.66725	33.0	32.0	34.0	32.0	34.0
2	32.457	33.0	32.0	34.0	32.0	34.0
3	32.65075	33.0	32.0	34.0	32.0	34.0
4	32.6275	33.0	32.0	34.0	32.0	34.0
5	32.6995	33.0	32.0	34.0	32.0	34.0
6	35.6675	37.0	35.0	37.0	33.0	37.0
7	35.549	37.0	34.0	37.0	33.0	37.0
8	35.32425	37.0	34.0	37.0	33.0	37.0
9	34.97675	37.0	34.0	37.0	32.0	37.0
10	34.9505	37.0	33.0	37.0	32.0	37.0
11	34.91925	37.0	33.0	37.0	32.0	37.0
12	35.341	37.0	34.0	37.0	33.0	37.0
13	36.87475	38.0	38.0	38.0	36.0	38.0
14	36.62825	38.0	38.0	38.0	34.0	38.0
15	36.6905	38.0	38.0	38.0	35.0	38.0
16	36.8235	38.0	38.0	38.0	35.0	38.0
17	36.7325	38.0	37.0	38.0	35.0	38.0
18	36.50225	38.0	37.0	38.0	34.0	38.0
19	36.777	38.0	38.0	38.0	35.0	38.0
20	36.7935	38.0	38.0	38.0	36.0	38.0
21	36.51575	38.0	37.0	38.0	34.0	38.0
22	36.7545	38.0	37.0	38.0	35.0	38.0
23	37.0665	39.0	37.0	39.0	34.0	39.0
24	37.2455	39.0	38.0	39.0	35.0	39.0
25	37.10225	38.0	37.0	39.0	35.0	39.0
26	37.13475	39.0	38.0	39.0	35.0	39.0
27	36.8675	39.0	37.0	39.0	34.0	39.0
28	37.23475	39.0	38.0	39.0	35.0	39.0
29	36.97425	39.0	37.0	39.0	34.0	39.0
30	36.92725	38.0	37.0	39.0	34.0	39.0
31	37.14975	38.0	38.0	39.0	35.0	39.0
32	37.13	39.0	38.0	39.0	35.0	39.0
33	36.96075	39.0	37.0	39.0	34.0	39.0
34	36.74175	38.0	37.0	39.0	34.0	39.0
35	37.06825	39.0	38.0	39.0	34.0	39.0
36	35.971	38.0	37.0	39.0	32.0	39.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
24	2.0
25	8.0
26	10.0
27	20.0
28	29.0
29	47.0
30	68.0
31	86.0
32	130.0
33	173.0
34	229.0
35	398.0
36	1108.0
37	1692.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	16.3	16.150000000000002	54.900000000000006	12.65
2	22.319859402460455	27.918654280692945	22.721566658297764	27.039919658548833
3	25.35	31.974999999999998	22.275	20.4
4	33.983495873968494	14.603650912728183	18.95473868467117	32.45811452863216
5	30.525000000000002	31.95	24.4	13.125
6	38.75	23.45	26.85	10.95
7	27.725	25.174999999999997	31.924999999999997	15.174999999999999
8	29.375	15.65	41.8	13.175
9	26.05	25.324999999999996	36.575	12.049999999999999
10	34.300000000000004	15.1	37.425000000000004	13.175
11	26.6	29.349999999999998	30.275000000000002	13.775
12	19.5	32.25	37.6	10.65
13	23.625	34.675	27.625	14.075
14	30.425	28.825	21.55	19.2
15	18.5	39.900000000000006	27.525	14.075
16	27.025	26.875	32.475	13.625000000000002
17	28.1	19.075	30.4	22.425
18	32.6	21.6	21.95	23.849999999999998
19	32.15	30.3	16.8	20.75
20	26.674999999999997	34.325	21.975	17.025000000000002
21	23.549999999999997	39.825	22.55	14.075
22	35.449999999999996	25.674999999999997	23.625	15.25
23	24.325	36.85	19.175	19.650000000000002
24	40.975	26.900000000000002	15.1	17.025000000000002
25	27.125	28.199999999999996	23.150000000000002	21.525
26	18.224999999999998	38.425	21.725	21.625
27	20.200000000000003	32.7	14.674999999999999	32.425
28	31.15	28.225	15.2	25.424999999999997
29	28.875	27.675	17.65	25.8
30	46.875	25.05	12.25	15.825
31	22.650000000000002	31.374999999999996	25.074999999999996	20.9
32	19.425	35.25	18.224999999999998	27.1
33	23.025000000000002	31.424999999999997	24.7	20.849999999999998
34	38.725	30.0	11.975	19.3
35	21.45	39.1	14.499999999999998	24.95
36	20.775	33.75	20.875	24.6
>>END_MODULE
>>Per sequence GC content	fail
#GC Content	Count
0	0.0
1	0.0
2	0.0
3	0.0
4	0.0
5	0.0
6	0.0
7	0.0
8	0.0
9	0.0
10	0.0
11	0.0
12	0.0
13	0.0
14	0.0
15	0.0
16	0.0
17	0.0
18	0.0
19	0.0
20	0.0
21	1.5
22	3.0
23	3.0
24	6.0
25	9.0
26	8.0
27	7.0
28	7.0
29	13.0
30	19.0
31	19.0
32	26.5
33	34.0
34	34.0
35	100.5
36	167.0
37	167.0
38	319.5
39	472.0
40	337.0
41	202.0
42	202.0
43	344.0
44	486.0
45	486.0
46	824.0
47	1162.0
48	1162.0
49	970.5
50	779.0
51	574.0
52	369.0
53	369.0
54	275.0
55	181.0
56	181.0
57	129.0
58	77.0
59	77.0
60	51.5
61	26.0
62	26.0
63	15.5
64	5.0
65	3.0
66	1.0
67	1.0
68	1.0
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	0.42500000000000004
3	0.0
4	0.025
5	0.0
6	0.0
7	0.0
8	0.0
9	0.0
10	0.0
11	0.0
12	0.0
13	0.0
14	0.0
15	0.0
16	0.0
17	0.0
18	0.0
19	0.0
20	0.0
21	0.0
22	0.0
23	0.0
24	0.0
25	0.0
26	0.0
27	0.0
28	0.0
29	0.0
30	0.0
31	0.0
32	0.0
33	0.0
34	0.0
35	0.0
36	0.0
>>END_MODULE
>>Sequence Length Distribution	pass
#Length	Count
36	4000.0
>>END_MODULE
>>Sequence Duplication Levels	fail
#Total Deduplicated Percentage	43.425000000000004
#Duplication Level	Percentage of deduplicated	Percentage of total
1	82.95912492803684	36.025
2	7.196315486470926	6.25
3	2.763385146804836	3.5999999999999996
4	1.4392630972941853	2.5
5	0.8059873344847437	1.7500000000000002
6	0.3454231433506045	0.8999999999999999
7	0.7484168105929765	2.275
8	0.5181347150259068	1.7999999999999998
9	0.3454231433506045	1.35
>10	2.5906735751295336	20.225
>50	0.05757052389176742	1.825
>100	0.2302820955670697	21.5
>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	363	9.075	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TACCTGATTGATTCTGTCAGATCGGAAGAGCACACG	215	5.375	No Hit
GTGCAAGGATGAAAAAGAACTCTCTCACTGATAGAT	181	4.5249999999999995	No Hit
TGAGATCGTTCAGTACGGCAATAGATCGGAAGAGCA	101	2.5250000000000004	No Hit
TGGAATGTAAAGAAGTATGTAAGATCGGAAGAGCAC	73	1.825	No Hit
ACTTGGATCGGAGACGGCCTGGGAATCCTGGATGTT	39	0.975	No Hit
TACCTGATTGATTCTGTCAGCGCGATATGCTCAAGT	39	0.975	No Hit
AGTCAATGATGTTTTTTCAAGACGGGACCGACTGGT	37	0.9249999999999999	No Hit
AGATCGGAAGAGCACACGTCTGAACTCCAGTCACTG	30	0.75	TruSeq Adapter, Index 2 (97% over 35bp)
TCAGGGTTGTTCAGATCGGAAGAGCACACGTCTGAA	29	0.7250000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
CGATGATGATGAAGAATTTTTGATATGGTGTCAGGA	29	0.7250000000000001	No Hit
TCTCAACCTGAACTCAGTCGTGATTACCCGCTGAAC	26	0.65	No Hit
GATGATGATGAAGAATTTTTGATATGGTGTCAGGAC	26	0.65	No Hit
ACGTCTGGTTCAGGGTTGTTTAGATCGGAAGAGCAC	26	0.65	No Hit
CCTTTTATACTGCGATCTGTTGAGACTATCCTTTGA	25	0.625	No Hit
GACAATGATAGGATAACCTAGAGTCTCTGAACCATT	24	0.6	No Hit
CAGGGTTGTTTAGATCGGAAGAGCACACGTCTGAAC	23	0.575	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TAATACGTCGTTGGTGTTTCCATAGATCGGAAGAGC	23	0.575	No Hit
TACCTGATTGATTCTGTCAAGATCGGAAGAGCACAC	22	0.5499999999999999	No Hit
TAGCTTCAGCGATGGATCGGTTGCATCGAGTATCGA	19	0.475	No Hit
TCACCGGGTGGAAACTAGCAGTAGATCGGAAGAGCA	17	0.42500000000000004	No Hit
TACCCTGTAGATCGAGCTGTGTGTAGATCGGAAGAG	17	0.42500000000000004	No Hit
AATGGCACTGCATGAATTCACGGAGATCGGAAGAGC	17	0.42500000000000004	No Hit
TACTGCGATCTGTTGAGACTATCCTTTGATTGAGTT	16	0.4	No Hit
AGGCAAGATGTTGGCATAGCTGAAGATCGGAAGAGC	16	0.4	No Hit
TCAGGGTTGTTTAACAGATCGGAAGAGCACACGTCT	16	0.4	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
CACCCGTACATATGTTTCCGTGCTAGATCGGAAGAG	15	0.375	No Hit
CGACAATGATAGGATAACCTAGAGTCTCTGAACCAT	15	0.375	No Hit
TTATACTGCGATCTGTTGAGACTATCCTTTGATTGA	15	0.375	No Hit
TACCCGTAGCTCCTATCCATGTTAGATCGGAAGAGC	15	0.375	No Hit
TGTGTATGACGACAACGTGTTAGGGACATCTGCACC	15	0.375	No Hit
TACCTGATTGATTCTGAGATCGGAAGAGCACACGTC	14	0.35000000000000003	No Hit
TTTTGTAGATCGGAAGAGCACACGTCTGAACTCCAG	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
CTTTTATACTGCGATCTGTTGAGACTATCCTTTGAT	13	0.325	No Hit
TGAGATCATCGTGAAAGCCAGTAGATCGGAAGAGCA	13	0.325	No Hit
CTGCGGTGACGATCAACTCTTACCTACTATGACAAA	13	0.325	No Hit
TACCTGATTGATTCTGTCAGCGCGATATGCTAGATC	12	0.3	No Hit
TATGACACTGAAGCGTAACCGAAAGATCGGAAGAGC	12	0.3	No Hit
TACCTGATTGATTCTGTTAGATCGGAAGAGCACACG	12	0.3	No Hit
GTTTGTGATGACTGCATACGGATCACTGGGCTCTGA	12	0.3	No Hit
TGAGATCATCGTGAAAGCTAGTAGATCGGAAGAGCA	11	0.27499999999999997	No Hit
TAACAGTGATCGAGAGTCGGGTGCTAGACTGTAAGT	11	0.27499999999999997	No Hit
TGAGATCGTTCAGTACGGCAAAGATCGGAAGAGCAC	11	0.27499999999999997	No Hit
GAGTTTTTTGTAGATCGGAAGAGCACACGTCTGAAC	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
CTGGATGTTGTAAGCTAGATCGGAAGAGCACACGTC	10	0.25	No Hit
TCTCAACCTGAACTAGATCGGAAGAGCACACGTCTG	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
TACCTGATTGATTCTGTAGATCGGAAGAGCACACGT	10	0.25	No Hit
AACAGTGATCGAGAGTCGGGTGCTAGACTGTAAGTG	10	0.25	No Hit
TATACTGCGATCTGTTGAGACTATCCTTTGATTGAG	10	0.25	No Hit
GCGCGATGAACTCTTTACCATCTTTCGGGGCATAAC	10	0.25	No Hit
GTGCGATGAATGACTTGGATAAGTTTCGGCTGAAAC	9	0.22499999999999998	No Hit
TTTATACTGCGATCTGTTGAGACTATCCTTTGATTG	9	0.22499999999999998	No Hit
GCTGGATCATCGAGATCGGAAGAGCACACGTCTGAA	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TGGAATGTAAAGAAGTATGTAGATCGGAAGAGCACA	9	0.22499999999999998	No Hit
TCTCAACCTGAACTCAGTCGTGATTAGATCGGAAGA	9	0.22499999999999998	No Hit
GTGGGGCACAGAGTTGCAGTTGATTGAAACTAAATC	9	0.22499999999999998	No Hit
TGTGCAAGGATGAAAAAGAACTCTCTCACTGATAGA	8	0.2	No Hit
TGAGATCGTTCAGTACGGCAACAGATCGGAAGAGCA	8	0.2	No Hit
GAAGGCTATGAGCGTAGGCTCGGCTGGAGCTTCCGT	8	0.2	No Hit
TGGCAAGATGTAGGCAGTTCAGTAGATCGGAAGAGC	8	0.2	No Hit
GAGACTATCCTTTGATTAGATCGGAAGAGCACACGT	8	0.2	No Hit
CGTCTGGTTCAGGGTTGTTTAGATCGGAAGAGCACA	8	0.2	No Hit
TGAAAGACATGGGTAGTGAGACGAGATCGGAAGAGC	8	0.2	No Hit
TTTTATACTGCGATCTGTTGAGACTATCCTTTGATT	8	0.2	No Hit
TGAGATCATTAGTTGAAAGCCGAAGATCGGAAGAGC	8	0.2	No Hit
TCAGGGTTGTTAGATCGGAAGAGCACACGTCTGAAC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TCAGGGTTGTTTAAGATCGGAAGAGCACACGTCTGA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
CGACTTGGTCTCTTGGTCAAGGTGTTGTATTCAGTA	7	0.17500000000000002	No Hit
TACCTGATTAGATCGGAAGAGCACACGTCTGAACTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
AGGGTTGTTTAGATCGGAAGAGCACACGTCTGAACT	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TGAGGTAGGCTCAGTAGATGCGAAGATCGGAAGAGC	7	0.17500000000000002	No Hit
ACTGCGATCTGTTGAGACTATCCTTTGATTGAGTTT	7	0.17500000000000002	No Hit
TGACTAGAGACACATTCAGCTAGATCGGAAGAGCAC	7	0.17500000000000002	No Hit
GAGCGGTGATGAATGCACGTATTGCTCTGACACCTC	7	0.17500000000000002	No Hit
CCTGGATGTTGTAAGCTAGATCGGAAGAGCACACGT	7	0.17500000000000002	No Hit
ATACTGCGATCTGTTGAGACTATCCTTTGATTGAGT	7	0.17500000000000002	No Hit
TCTCAACCTGAACTCAGTCGTGAGATCGGAAGAGCA	7	0.17500000000000002	No Hit
CTAGCTTCAGCGATGGATCGGTTGCATCGAGTATCG	7	0.17500000000000002	No Hit
CTGCGATCTGTTGAGACTATCCTTTGATTGAGTTTT	6	0.15	No Hit
GCGGATTGAAGATGAAATCAACGACGCTGACCGGTA	6	0.15	No Hit
TACGTCTGGTTCAGGGTTGTTTAGATCGGAAGAGCA	6	0.15	No Hit
TGGTTCAGGGTTGTTTAGATCGGAAGAGCACACGTC	6	0.15	No Hit
TCAGGGTTGTGTAGATCGGAAGAGCACACGTCTGAA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TCACCGGGTGTAAATCAGCTTGAGATCGGAAGAGCA	6	0.15	No Hit
AATGGCACTGCATGAATTCACGAGATCGGAAGAGCA	5	0.125	No Hit
ACTTGCATACGACTTGGTCTCTTGGTCAAGGTGTTG	5	0.125	No Hit
TGGAATGTAAAGAAGTATGTATAGATCGGAAGAGCA	5	0.125	No Hit
TCTTCTGAGCAGTAGATCGGAAGAGCACACGTCTGA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
TCACCGGGTGAACACTTGCAGTAGATCGGAAGAGCA	5	0.125	No Hit
GCTAAATCACTTGCATACGACTTGGTCTCTTGGTCA	5	0.125	No Hit
TTCAGGGTTGTTTAGATCGGAAGAGCACACGTCTGA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
GCGCGATGAGGATTGATAACACATACACACACTCTG	5	0.125	No Hit
CTGGGAATCCTGGATGTTGTAAGCTAGATCGGAAGA	5	0.125	No Hit
TCCGTTGTGGTCTAGTGGTTAGGATTTATGGCTCAG	5	0.125	No Hit
AAGCAGTGATGATTTTATAGTTCAGCTTATCTTCGG	5	0.125	No Hit
CATAGCACCAACTGGGCCTCCAGTTGGTACGTCTGG	5	0.125	No Hit
GCACCAACTGGGCCTCCAGTTGGTACGTCTGGTTCA	5	0.125	No Hit
TCTCAACCTGAACTCAGATCGGAAGAGCACACGTCT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
>>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	0.75	0.0	0.0	0.0	0.0
2	0.875	0.0	0.0	0.0	0.0
3	1.025	0.0	0.0	0.0	0.0
4	1.125	0.0	0.0	0.0	0.0
5	1.3	0.0	0.0	0.0	0.0
6	1.425	0.0	0.0	0.0	0.0
7	1.85	0.0	0.0	0.0	0.0
8	2.075	0.0	0.0	0.0	0.0
9	2.4	0.0	0.0	0.0	0.0
10	3.05	0.0	0.0	0.0	0.0
11	3.825	0.0	0.0	0.0	0.0
12	5.65	0.0	0.0	0.0	0.0
13	17.35	0.0	0.0	0.0	0.0
14	19.25	0.0	0.0	0.0	0.0
15	20.725	0.0	0.0	0.0	0.0
16	22.7	0.0	0.0	0.0	0.0
17	24.4	0.0	0.0	0.0	0.0
18	26.15	0.0	0.0	0.0	0.0
19	33.625	0.0	0.0	0.0	0.0
20	35.675	0.0	0.0	0.0	0.0
21	37.3	0.0	0.0	0.0	0.0
22	42.375	0.0	0.0	0.0	0.0
23	49.45	0.0	0.0	0.0	0.0
24	54.85	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
TTCTGTC	30	2.707939E-5	30.000002	12
TCTGTCA	30	2.707939E-5	30.000002	13
TGATTCT	35	2.0637017E-6	30.0	9
CCTGATT	35	2.0637017E-6	30.0	3
CTGATTG	35	2.0637017E-6	30.0	4
ACCTGAT	35	2.0637017E-6	30.0	2
TTGATTC	35	2.0637017E-6	30.0	8
GATTCTG	35	2.0637017E-6	30.0	10
ATTGATT	35	2.0637017E-6	30.0	7
TACCTGA	35	2.0637017E-6	30.0	1
ATTCTGT	35	2.0637017E-6	30.0	11
CTGTCAG	25	3.5274107E-4	30.0	14
GTATGTA	20	0.00456452	29.999998	15
AAGTATG	20	0.00456452	29.999998	13
GTGCAAG	20	0.00456452	29.999998	1
AGAAGTA	20	0.00456452	29.999998	11
ACTGATA	20	0.00456452	29.999998	27
GCAAGGA	20	0.00456452	29.999998	3
TGCAAGG	20	0.00456452	29.999998	2
AGGATGA	20	0.00456452	29.999998	6
>>END_MODULE
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
Rejected 70300 READS because READLEN < 1
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Written 70300 spots for SRR1759866.sra
Rejected 70286 READS because READLEN < 1
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Written 70286 spots for SRR1759866.sra
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Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
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Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
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Read 70286 spots for SRR1759866.sra
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Written 70286 spots for SRR1759866.sra
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Read 70286 spots for SRR1759866.sra
Written 70286 spots for SRR1759866.sra
SRR ids: ['SRR1759866.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_b1vtlxyx
SRR1759866.sra spots: 4498318
blocks: [[1, 70286], [70287, 140572], [140573, 210858], [210859, 281144], [281145, 351430], [351431, 421716], [421717, 492002], [492003, 562288], [562289, 632574], [632575, 702860], [702861, 773146], [773147, 843432], [843433, 913718], [913719, 984004], [984005, 1054290], [1054291, 1124576], [1124577, 1194862], [1194863, 1265148], [1265149, 1335434], [1335435, 1405720], [1405721, 1476006], [1476007, 1546292], [1546293, 1616578], [1616579, 1686864], [1686865, 1757150], [1757151, 1827436], [1827437, 1897722], [1897723, 1968008], [1968009, 2038294], [2038295, 2108580], [2108581, 2178866], [2178867, 2249152], [2249153, 2319438], [2319439, 2389724], [2389725, 2460010], [2460011, 2530296], [2530297, 2600582], [2600583, 2670868], [2670869, 2741154], [2741155, 2811440], [2811441, 2881726], [2881727, 2952012], [2952013, 3022298], [3022299, 3092584], [3092585, 3162870], [3162871, 3233156], [3233157, 3303442], [3303443, 3373728], [3373729, 3444014], [3444015, 3514300], [3514301, 3584586], [3584587, 3654872], [3654873, 3725158], [3725159, 3795444], [3795445, 3865730], [3865731, 3936016], [3936017, 4006302], [4006303, 4076588], [4076589, 4146874], [4146875, 4217160], [4217161, 4287446], [4287447, 4357732], [4357733, 4428018], [4428019, 4498318]]
SRR1759866 file size 498620
SRR1759866 completed basic pipeline successfully
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	skewer -l 18 -q 10 -k inf -t 64 -o SRR1759866 SRR1759866_1.fastq
Input file:	SRR1759866_1.fastq
trimmed:	SRR1759866-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 08:26:54 2020 >> started

Sat Feb  8 08:26:58 2020 >> done (4.071s)
4498318 reads processed; of these:
  24545 ( 0.55%) short reads filtered out after trimming by size control
  30178 ( 0.67%) empty reads filtered out after trimming by size control
4443595 (98.78%) reads available; of these:
    309 ( 0.01%) trimmed reads available after processing
4443286 (99.99%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 24	     16	  0.00%
 25	     41	  0.00%
 26	     43	  0.00%
 27	     16	  0.00%
 28	      0	  0.00%
 29	      1	  0.00%
 30	      4	  0.00%
 31	      0	  0.00%
 32	     31	  0.00%
 33	     87	  0.00%
 34	     55	  0.00%
 35	     15	  0.00%
 36	4443286	 99.99%
4443595 reads passed initial QC


criterion=sequence-density
sequence-density=55.32
sequence-density-rank=1
fanout-score=15.16
fanout-score-rank=3
prefix-density=60.28
prefix-fanout=13.9
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACTGACCAA


criterion=fanout-score
sequence-density=1.69
sequence-density-rank=3
fanout-score=25.44
fanout-score-rank=1
prefix-density=1.81
prefix-fanout=23.8
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 AGATCGGAAGAGCACACGTCTGAACTCCAGTCACTGACCAA -o SRR1759866 -
Input file:	STDIN
trimmed:	SRR1759866-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	AGATCGGAAGAGCACACGTCTGAACTCCAGTCACTGACCAA
-- 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 08:27:09 2020 >> started

Sat Feb  8 08:27:15 2020 >> done (5.976s)
4284895 reads processed; of these:
1142455 (26.66%) short reads filtered out after trimming by size control
     32 ( 0.00%) empty reads filtered out after trimming by size control
3142408 (73.34%) reads available; of these:
1893336 (60.25%) trimmed reads available after processing
1249072 (39.75%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	 313559	  9.98%
 19	  93597	  2.98%
 20	  74734	  2.38%
 21	 230698	  7.34%
 22	 306493	  9.75%
 23	 236992	  7.54%
 24	 115056	  3.66%
 25	  43464	  1.38%
 26	  39100	  1.24%
 27	  29439	  0.94%
 28	  23705	  0.75%
 29	  28495	  0.91%
 30	  26968	  0.86%
 31	  45277	  1.44%
 32	 231174	  7.36%
 33	  54709	  1.74%
 34	     24	  0.00%
 35	      4	  0.00%
 36	1248920	 39.74%


criterion=sequence-density
sequence-density=11.32
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=6
prefix-density=0.00
prefix-fanout=1.0
sequence=TACCTGATTGATTCTGTCAGCGCGATATGCTCAAGTAAAAGATTAAGCCATGCATGCTTTGATTCATCAATGAAATTGCGTACGGCTCATTAGAGCAGATATCACCTTATCCGGGATCCTCATATGGATAACTGCGGAAATACTGGAGCTAATACATGCAACTATACCCCAACGCAAGGCGGGGTGCAATTATTAGAACAGACCAAACGTTTTCGGACGTTGTTTGTTGACTCTGAATAAAGCAGTTTACTGTCAGTTTCGACTGACTCTATCCGGAAAGGGTGTCTGCCCTTT


criterion=fanout-score
sequence-density=0.03
sequence-density-rank=37
fanout-score=4.48
fanout-score-rank=1
prefix-density=0.08
prefix-fanout=1.7
sequence=AAAGCTTGCTTGATCTTGACTTTCAGTACGAGTACAGACCGCGAAAGCGTGGCCTATCGATCCTTTTAATCCTGATTGTTTCAGGTAAGAGGTGTCAGAAAAGTTACCACAGGGATAACTGGCTTGTGGCAGCCAAGCGTCCATAGCGACGTTGCTTTTTGATCCTTCGATGTCGGCTCTTCCTATCATTGCGAAGCA
                                 Started job on |	Feb 08 08:27:40
                             Started mapping on |	Feb 08 08:27:40
                                    Finished on |	Feb 08 08:28:03
       Mapping speed, Million of reads per hour |	516.70

                          Number of input reads |	3301108
                      Average input read length |	28
                                    UNIQUE READS:
                   Uniquely mapped reads number |	2055549
                        Uniquely mapped reads % |	62.27%
                          Average mapped length |	28.81
                       Number of splices: Total |	6936
            Number of splices: Annotated (sjdb) |	3598
                       Number of splices: GT/AG |	5664
                       Number of splices: GC/AG |	58
                       Number of splices: AT/AC |	3
               Number of splices: Non-canonical |	1211
                      Mismatch rate per base, % |	0.21%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.15
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.09
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	960767
             % of reads mapped to multiple loci |	29.10%
        Number of reads mapped to too many loci |	164654
             % of reads mapped to too many loci |	4.99%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	3.63%
                     % of reads unmapped: other |	0.01%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	284792	284792	284792
N_multimapping	960767	960767	960767
N_noFeature	15066	42662	1778114
N_ambiguous	303279	54218	362
UnstrandedReadsAssigned:1737204 PositiveStrandReadsAssigned:1958669 NegativeStrandReadsAssigned:277073
Dataset is classified positive stranded
MeadianReadLen=31 20thPercentileLength=21 echo kmer=19
SRR1759866 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: SRR1759866-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 3,301,108 reads, 128,843 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 902 rounds

  33747 SRR1759866.ke.tsv
  46739 SRR1759866.se.tsv
  80486 total
==> SRR1759866.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Y110A7A.10	1787	1688	2	7.77803
F27C8.1	1940	1841	3	10.6974
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	0.999225	4.35273

==> SRR1759866.se.tsv <==
WBGene00197333	0
WBGene00198386	0
WBGene00015153	0
WBGene00002061	3
WBGene00255704	0
WBGene00235314	0
WBGene00001177	5
WBGene00169236	0
WBGene00219784	0
WBGene00015152	0
SRR1759866 completed mapping pipeline successfully
