Starting /dee2/code/volunteer_pipeline.sh SRR5031026
    current disk space = 160535232512
    free memory = 73927592 
SRR5031026 SRAfilesize
2732492dad60f4ee9368106a1e9e00f8  SRR5031026.sra
SRR5031026.sra file validated
SRR5031026 is single end
SRR5031026 is conventional basespace
SRR5031026 read1 length is 50 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR5031026_1.fastq
File type	Conventional base calls
Encoding	Sanger / Illumina 1.9
Total Sequences	4000
Sequences flagged as poor quality	0
Sequence length	50
%GC	51
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	32.25775	33.0	31.0	34.0	30.0	34.0
2	32.48975	34.0	31.0	34.0	31.0	34.0
3	32.4705	34.0	31.0	34.0	31.0	34.0
4	36.13825	37.0	35.0	37.0	35.0	37.0
5	36.05775	37.0	35.0	37.0	35.0	37.0
6	35.8235	37.0	35.0	37.0	33.0	37.0
7	35.8685	37.0	35.0	37.0	35.0	37.0
8	35.938	37.0	35.0	37.0	35.0	37.0
9	37.5155	39.0	37.0	39.0	34.0	39.0
10	37.44175	39.0	37.0	39.0	34.0	39.0
11	37.207	39.0	37.0	39.0	33.0	39.0
12	37.4985	39.0	37.0	39.0	35.0	39.0
13	37.5285	39.0	37.0	39.0	35.0	39.0
14	38.97075	40.0	38.0	41.0	35.0	41.0
15	38.855	40.0	38.0	41.0	35.0	41.0
16	38.8285	40.0	38.0	41.0	35.0	41.0
17	38.8575	40.0	38.0	41.0	35.0	41.0
18	38.8025	40.0	38.0	41.0	34.0	41.0
19	38.6365	40.0	38.0	41.0	34.0	41.0
20	38.6735	40.0	38.0	41.0	34.0	41.0
21	38.671	40.0	38.0	41.0	34.0	41.0
22	38.68625	40.0	38.0	41.0	34.0	41.0
23	38.43525	40.0	38.0	41.0	34.0	41.0
24	38.52675	40.0	38.0	41.0	34.0	41.0
25	38.68975	40.0	38.0	41.0	34.0	41.0
26	38.454	40.0	38.0	41.0	34.0	41.0
27	38.67675	40.0	38.0	41.0	34.0	41.0
28	38.53175	40.0	38.0	41.0	34.0	41.0
29	38.34075	40.0	38.0	41.0	33.0	41.0
30	38.39625	40.0	38.0	41.0	34.0	41.0
31	38.63225	40.0	38.0	41.0	34.0	41.0
32	38.64275	40.0	38.0	41.0	34.0	41.0
33	38.42425	40.0	38.0	41.0	34.0	41.0
34	38.28225	40.0	38.0	41.0	34.0	41.0
35	38.10525	40.0	38.0	41.0	33.0	41.0
36	37.997	40.0	38.0	41.0	33.0	41.0
37	37.41575	40.0	37.0	41.0	31.0	41.0
38	37.32175	40.0	37.0	41.0	31.0	41.0
39	37.7805	40.0	37.0	41.0	33.0	41.0
40	37.92	40.0	38.0	41.0	33.0	41.0
41	38.13625	40.0	38.0	41.0	33.0	41.0
42	38.04725	40.0	38.0	41.0	33.0	41.0
43	37.85225	40.0	38.0	41.0	33.0	41.0
44	37.73275	40.0	37.0	41.0	33.0	41.0
45	37.71	40.0	37.0	41.0	33.0	41.0
46	37.65225	40.0	37.0	41.0	33.0	41.0
47	37.13875	40.0	37.0	41.0	31.0	41.0
48	37.0975	40.0	36.0	41.0	31.0	41.0
49	37.14425	40.0	37.0	41.0	32.0	41.0
50	36.641	40.0	36.0	41.0	31.0	41.0
>>END_MODULE
>>Per tile sequence quality	pass
#Tile	Base	Mean
1101	1	0.0
1101	2	0.0
1101	3	0.0
1101	4	0.0
1101	5	0.0
1101	6	0.0
1101	7	0.0
1101	8	0.0
1101	9	0.0
1101	10	0.0
1101	11	0.0
1101	12	0.0
1101	13	0.0
1101	14	0.0
1101	15	0.0
1101	16	0.0
1101	17	0.0
1101	18	0.0
1101	19	0.0
1101	20	0.0
1101	21	0.0
1101	22	0.0
1101	23	0.0
1101	24	0.0
1101	25	0.0
1101	26	0.0
1101	27	0.0
1101	28	0.0
1101	29	0.0
1101	30	0.0
1101	31	0.0
1101	32	0.0
1101	33	0.0
1101	34	0.0
1101	35	0.0
1101	36	0.0
1101	37	0.0
1101	38	0.0
1101	39	0.0
1101	40	0.0
1101	41	0.0
1101	42	0.0
1101	43	0.0
1101	44	0.0
1101	45	0.0
1101	46	0.0
1101	47	0.0
1101	48	0.0
1101	49	0.0
1101	50	0.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
13	1.0
14	0.0
15	0.0
16	1.0
17	2.0
18	0.0
19	1.0
20	0.0
21	7.0
22	5.0
23	4.0
24	11.0
25	7.0
26	14.0
27	21.0
28	26.0
29	34.0
30	59.0
31	71.0
32	85.0
33	115.0
34	157.0
35	183.0
36	294.0
37	414.0
38	717.0
39	1771.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	8.15	22.7	56.474999999999994	12.675
2	25.269761606022584	26.82559598494354	22.1831869510665	25.72145545796738
3	18.25	19.5	20.65	41.6
4	29.299999999999997	36.225	12.8	21.675
5	22.95	36.875	28.225	11.95
6	34.125	16.0	37.574999999999996	12.3
7	13.65	25.0	24.575	36.775000000000006
8	24.95	39.050000000000004	14.799999999999999	21.2
9	18.75	38.2	30.0	13.05
10	18.95	21.85	26.05	33.15
11	31.8	10.475	14.725	43.0
12	16.55	16.675	24.9	41.875
13	21.7	21.2	38.824999999999996	18.275
14	38.175	22.7	26.05	13.075000000000001
15	39.625	20.95	27.05	12.375
16	13.25	23.674999999999997	23.925	39.15
17	24.825	23.3	38.875	13.0
18	28.999999999999996	17.95	28.349999999999998	24.7
19	37.475	14.924999999999999	31.674999999999997	15.925
20	51.6	16.025	21.775	10.6
21	21.325	25.924999999999997	24.975	27.775
22	31.1	12.0	48.9	8.0
23	24.3	12.7	49.85	13.15
24	52.075	12.375	29.15	6.4
25	56.675	22.05	13.775	7.5
26	30.5	48.5	12.45	8.55
27	13.600000000000001	54.074999999999996	21.875	10.45
28	9.0	27.025	51.65	12.325
29	9.375	10.9	61.175000000000004	18.55
30	9.825000000000001	4.8	38.800000000000004	46.575
31	12.25	4.324999999999999	46.725	36.7
32	25.575	4.55	24.15	45.725
33	55.974999999999994	5.3	12.9	25.825
34	69.05	5.7250000000000005	12.625	12.6
35	68.72500000000001	6.825	16.2	8.25
36	42.699999999999996	6.675000000000001	38.95	11.675
37	45.675	9.0	23.5	21.825
38	25.575	13.675	10.725	50.025
39	12.925	22.125	8.375	56.574999999999996
40	12.35	50.5	8.7	28.449999999999996
41	21.775	55.825	7.7	14.7
42	51.0	32.1	8.450000000000001	8.450000000000001
43	57.9	26.075	6.25	9.775
44	32.525	48.975	7.049999999999999	11.450000000000001
45	15.625	55.825	10.825	17.724999999999998
46	9.925	28.4	16.5	45.175
47	6.825	13.225000000000001	40.475	39.475
48	8.625	9.9	23.275000000000002	58.199999999999996
49	10.15	17.875	13.350000000000001	58.62500000000001
50	16.525000000000002	38.95	10.45	34.075
>>END_MODULE
>>Per sequence GC content	fail
#GC Content	Count
0	1.0
1	0.5
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	0.5
26	1.0
27	2.5
28	4.0
29	3.0
30	2.0
31	5.0
32	8.0
33	9.5
34	11.0
35	13.0
36	15.0
37	18.5
38	22.0
39	26.5
40	31.0
41	41.5
42	52.0
43	83.0
44	114.0
45	175.5
46	237.0
47	440.5
48	644.0
49	615.5
50	587.0
51	795.5
52	1004.0
53	673.5
54	343.0
55	351.5
56	360.0
57	310.5
58	261.0
59	173.5
60	86.0
61	58.0
62	30.0
63	54.5
64	79.0
65	52.0
66	25.0
67	16.0
68	7.0
69	13.5
70	20.0
71	31.0
72	42.0
73	25.0
74	8.0
75	4.5
76	1.0
77	1.0
78	1.0
79	1.0
80	1.0
81	1.0
82	1.0
83	1.0
84	1.0
85	1.0
86	1.0
87	0.5
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	0.375
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
37	0.0
38	0.0
39	0.0
40	0.0
41	0.0
42	0.0
43	0.0
44	0.0
45	0.0
46	0.0
47	0.0
48	0.0
49	0.0
50	0.0
>>END_MODULE
>>Sequence Length Distribution	pass
#Length	Count
50	4000.0
>>END_MODULE
>>Sequence Duplication Levels	fail
#Total Deduplicated Percentage	36.05
#Duplication Level	Percentage of deduplicated	Percentage of total
1	75.86685159500693	27.35
2	9.57004160887656	6.9
3	4.5769764216366156	4.95
4	1.5256588072122053	2.1999999999999997
5	1.8030513176144243	3.25
6	0.5547850208044383	1.2
7	0.9708737864077669	2.45
8	0.5547850208044383	1.6
9	0.624133148404993	2.025
>10	3.3980582524271843	25.45
>50	0.34674063800277394	8.725
>100	0.20804438280166435	13.900000000000002
>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
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA	242	6.05	RNA PCR Primer, Index 1 (100% over 28bp)
AACATTCAACGCTGTCGGTGAGTTGGAATTCTCGGGTGCCAAGGAACTCC	193	4.825	RNA PCR Primer, Index 1 (100% over 27bp)
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGTGCCAAGGAACTCCA	121	3.025	RNA PCR Primer, Index 1 (100% over 28bp)
TCCCTGAGACCCTTTAACCTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	100	2.5	RNA PCR Primer, Index 1 (100% over 28bp)
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA	73	1.825	RNA PCR Primer, Index 1 (100% over 28bp)
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	62	1.55	RNA PCR Primer, Index 1 (100% over 28bp)
TCGGATCCGTCTGAGCTTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGT	58	1.4500000000000002	RNA PCR Primer, Index 1 (100% over 30bp)
TGAGGTAGTAGATTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	56	1.4000000000000001	RNA PCR Primer, Index 1 (100% over 28bp)
TTTGAACCATCACTCGACTCCTTGGAATTCTCGGGTGCCAAGGAACTCCA	45	1.125	RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCCCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	43	1.075	RNA PCR Primer, Index 1 (100% over 26bp)
CGCGACCTCAGATCAGACGTGGCGACCCGCTGATGGAATTCTCGGGTGCC	41	1.0250000000000001	No Hit
TCTTTGGTTATCTAGCTGTATGATGGAATTCTCGGGTGCCAAGGAACTCC	40	1.0	RNA PCR Primer, Index 1 (100% over 27bp)
TTCAAGTAATCCAGGATAGGCTTTGGAATTCTCGGGTGCCAAGGAACTCC	36	0.8999999999999999	RNA PCR Primer, Index 1 (100% over 27bp)
TGTAAACATCCTCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	36	0.8999999999999999	RNA PCR Primer, Index 1 (100% over 26bp)
AACATTCAACGCTGTCGGTGATGGAATTCTCGGGTGCCAAGGAACTCCAG	35	0.8750000000000001	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCTACACTCTCAGCTTGGAATTCTCGGGTGCCAAGGAACTC	32	0.8	RNA PCR Primer, Index 1 (100% over 26bp)
TGAGGTAGTAGGTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	31	0.775	RNA PCR Primer, Index 1 (100% over 28bp)
TGAGGTAGTAGTTTGTACAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	31	0.775	RNA PCR Primer, Index 1 (100% over 28bp)
TGAGGTAGTAGGTTGTATGGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	31	0.775	RNA PCR Primer, Index 1 (100% over 28bp)
CACCCGTAGAACCGACCTTGCGTGGAATTCTCGGGTGCCAAGGAACTCCA	27	0.675	RNA PCR Primer, Index 1 (100% over 28bp)
TTCCCTTTGTCATCCTATGCCTGTGGAATTCTCGGGTGCCAAGGAACTCC	25	0.625	RNA PCR Primer, Index 1 (100% over 27bp)
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTCCCGAATCTCGTATGC	24	0.6	RNA PCR Primer, Index 46 (100% over 50bp)
TGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTC	24	0.6	RNA PCR Primer, Index 5 (97% over 35bp)
TAGCAGCACGTAAATATTGGCGTGGAATTCTCGGGTGCCAAGGAACTCCA	24	0.6	RNA PCR Primer, Index 1 (100% over 28bp)
CAACGGAATCCCAAAAGCAGCTGTGGAATTCTCGGGTGCCAAGGAACTCC	22	0.5499999999999999	RNA PCR Primer, Index 1 (100% over 27bp)
TTCAAGTAATCCAGGATAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	21	0.525	RNA PCR Primer, Index 1 (100% over 29bp)
CACCCGTAGAACCGACCTTGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	20	0.5	RNA PCR Primer, Index 1 (100% over 29bp)
TCGGATCCGTCTGAGCTTGGCTTTGGAATTCTCGGGTGCCAAGGAACTCC	20	0.5	RNA PCR Primer, Index 1 (100% over 27bp)
TCGGATCCGTCTGAGCTTGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	19	0.475	RNA PCR Primer, Index 1 (100% over 29bp)
CCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC	19	0.475	RNA PCR Primer, Index 1 (100% over 33bp)
TGTAAACATCCTACACTCAGCTTGGAATTCTCGGGTGCCAAGGAACTCCA	19	0.475	RNA PCR Primer, Index 1 (100% over 28bp)
TCACAGTGAACCGGTCTCTTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	19	0.475	RNA PCR Primer, Index 1 (100% over 28bp)
TCCTGTACTGAGCTGCCCCGAGTTGGAATTCTCGGGTGCCAAGGAACTCC	19	0.475	RNA PCR Primer, Index 1 (100% over 27bp)
TGAGGTAGTAGATTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	18	0.44999999999999996	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCTCGACTGGATGGAATTCTCGGGTGCCAAGGAACTCCAGT	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 30bp)
TCACAGTGAACCGGTCTCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 29bp)
CTTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTG	17	0.42500000000000004	No Hit
TTCACAGTGGCTAAGTTCTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 30bp)
TGTAAACATCCCCGACTGGAAGCTGGAATTCTCGGGTGCCAAGGAACTCC	16	0.4	RNA PCR Primer, Index 1 (100% over 27bp)
TATTGCACTCGTCCCGGCCTCCTGGAATTCTCGGGTGCCAAGGAACTCCA	15	0.375	RNA PCR Primer, Index 1 (100% over 28bp)
ACTTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTT	15	0.375	No Hit
TCCCTGAGACCCTTTAACCTGTGGAATTCTCGGGTGCCAAGGAACTCCAG	15	0.375	RNA PCR Primer, Index 1 (100% over 29bp)
GTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTCCCGAATCTC	13	0.325	RNA PCR Primer, Index 46 (100% over 44bp)
TGTAAACATCCCCGACTGGAATGGAATTCTCGGGTGCCAAGGAACTCCAG	12	0.3	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGGTTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	12	0.3	RNA PCR Primer, Index 1 (100% over 29bp)
TTCAAGTAATCCAGGATAGGCATGGAATTCTCGGGTGCCAAGGAACTCCA	12	0.3	RNA PCR Primer, Index 1 (100% over 28bp)
TGAGGTAGTAGTTTGTGCTGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	12	0.3	RNA PCR Primer, Index 1 (100% over 28bp)
GGGGGGGCCCAAGTCCTTCTGATCGAGGCCCTGGAATTCTCGGGTGCCAA	12	0.3	No Hit
AACATTCAACCTGTCGGTGAGTTGGAATTCTCGGGTGCCAAGGAACTCCA	12	0.3	RNA PCR Primer, Index 1 (100% over 28bp)
TCCTGTACTGAGCTGCCCCGAGTGGAATTCTCGGGTGCCAAGGAACTCCA	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 28bp)
TTCCCTTTGTCATCCTATGCCTTGGAATTCTCGGGTGCCAAGGAACTCCA	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 28bp)
AGAGGTAGTAGGTTGCATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 28bp)
TCCTGTACTGAGCTGCCCCGAGATGGAATTCTCGGGTGCCAAGGAACTCC	10	0.25	RNA PCR Primer, Index 1 (100% over 27bp)
AACATTCAACGCTGTCGGTGAGATGGAATTCTCGGGTGCCAAGGAACTCC	10	0.25	RNA PCR Primer, Index 1 (100% over 27bp)
TGTAAACATCCCCGACTGGATGGAATTCTCGGGTGCCAAGGAACTCCAGT	10	0.25	RNA PCR Primer, Index 1 (100% over 30bp)
TCCCTGAGACCCTTTAACCTGTGATGGAATTCTCGGGTGCCAAGGAACTC	10	0.25	RNA PCR Primer, Index 1 (100% over 26bp)
TCCCTGAGACCCTTTAACCTGATGGAATTCTCGGGTGCCAAGGAACTCCA	10	0.25	RNA PCR Primer, Index 1 (100% over 28bp)
TTCACAGTGGCTAAGTTCTGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTTTAACCTGTATGGAATTCTCGGGTGCCAAGGAACTCC	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 27bp)
GCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTGGAA	9	0.22499999999999998	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAA	9	0.22499999999999998	No Hit
TTCAAGTAATCCAGGATAGTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 31bp)
TGAGATGAAGCACTGTAGCTCTGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCCCGACTGGAAGTGGAATTCTCGGGTGCCAAGGAACTCCA	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCTTGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 26bp)
TGAGGTAGTAGTTTGTGCTGTTATGGAATTCTCGGGTGCCAAGGAACTCC	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 27bp)
TCTTTGGTTATCTAGCTGTATTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
TCACAGTGAACCGGTCTCTTTCTGGAATTCTCGGGTGCCAAGGAACTCCA	8	0.2	RNA PCR Primer, Index 1 (100% over 28bp)
CGCCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	8	0.2	RNA PCR Primer, Index 1 (100% over 31bp)
TGTAAACATCCCCGACTGGAAATGGAATTCTCGGGTGCCAAGGAACTCCA	8	0.2	RNA PCR Primer, Index 1 (100% over 28bp)
GTTTCCGTAGTGTAGTGGTTATCACGTTCGCCTTGGAATTCTCGGGTGCC	8	0.2	No Hit
TGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTGGA	8	0.2	No Hit
TAGCACCATCTGAAATCGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
TCCTGTACTGAGCTGCCCCGATGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGATTGTATAGTTATGGAATTCTCGGGTGCCAAGGAACTCC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 27bp)
TTTGAACCATCACTCGACTCCTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTTTAACCTGTGTGGAATTCTCGGGTGCCAAGGAACTCC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 27bp)
AATATAACACAGATGGCCTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGTTTGTACAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTAACTTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 30bp)
TCGGATCCGTCTGAGCTTGGCTATGGAATTCTCGGGTGCCAAGGAACTCC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 27bp)
TTGCTGTGATGACTATCTTAGGACACCTTTGGATTAACCGTGGAATTCTC	7	0.17500000000000002	No Hit
TATACAAGGGCAAGCTCTCTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 28bp)
TCTTTGGTTATCTAGCTGTATGTGGAATTCTCGGGTGCCAAGGAACTCCA	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 28bp)
TCGGATCCGTCTGAGCTTGGATGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGATGAAGCACTGTAGCTCTTGGAATTCTCGGGTGCCAAGGAACTCCA	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 28bp)
GTTTCCGTAGTGTAGTGGTTATCACGTTCGCCTGGAATTCTCGGGTGCCA	7	0.17500000000000002	No Hit
GGGGGGCCCAAGTCCTTCTGATCGAGGCCCTGGAATTCTCGGGTGCCAAG	7	0.17500000000000002	No Hit
TCGGATCCGTCTGAGCTTGGCTATTGGAATTCTCGGGTGCCAAGGAACTC	6	0.15	RNA PCR Primer, Index 1 (100% over 26bp)
TGAGGTAGTAGGTTGTATGGTTTTGGAATTCTCGGGTGCCAAGGAACTCC	6	0.15	RNA PCR Primer, Index 1 (100% over 27bp)
CTTTTTGCGGTCTGGGCTTGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
TCGGATCCGTCTGAGCTTGGCTTTTGGAATTCTCGGGTGCCAAGGAACTC	6	0.15	RNA PCR Primer, Index 1 (100% over 26bp)
TGAGGTAGTAGATTGTATAGTTTTGGAATTCTCGGGTGCCAAGGAACTCC	6	0.15	RNA PCR Primer, Index 1 (100% over 27bp)
AACATTCAACGCTGTCGGTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
AGGAGGATCACGAGTTCGAGGCCAGCCTGGGCTACACATTTTTGGAATTC	6	0.15	No Hit
AACATTCAACCTGTCGGTGAGTTTGGAATTCTCGGGTGCCAAGGAACTCC	6	0.15	RNA PCR Primer, Index 1 (100% over 27bp)
TCCCTGAGACCCTAACTTGTGATGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
AACATTCAACGCTGTCGGTGGTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
AACATTCAACGCTGTCGGTGAGTTTGGAATTCTCGGGTGCCAAGGAACTC	5	0.125	RNA PCR Primer, Index 1 (100% over 26bp)
TGAGGTAGTAGGTTGTATGGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
CATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTTGGAATTC	5	0.125	No Hit
TCTTTGGTTATCTAGCTGTATGTTGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
TAGCAGCACAGAAATATTGGCATGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCTACACTCTCAGCTGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
ACTGGACTTGGAGTCAGAAGGCTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
AGCTGGTGTTGTGAATCAGGCCGTGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
GACACAAGGGTTTGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTCC	5	0.125	RNA PCR Primer, Index 6 (97% over 36bp)
TATGCAAGGGCAAGCTCTCTTCATGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
GGCTGGTCCGAAGGTAGTGAGTTATCTCAATTTGGAATTCTCGGGTGCCA	5	0.125	No Hit
ACGCCCTTCCCCCCCTTCTTCATGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
CTGACCTATGAATTGACAGCCTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGGAGGTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TAGCACCATCTGAAATCGGTTATGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
AGCTACATCTGGCTACTGGGTCTCTGGAATTCTCGGGTGCCAAGGAACTC	5	0.125	RNA PCR Primer, Index 1 (100% over 26bp)
TTCCCTTTGTCATCCTATGCCTGTTGGAATTCTCGGGTGCCAAGGAACTC	5	0.125	RNA PCR Primer, Index 1 (100% over 26bp)
AACATTCATTGCTGTCGGTGGGTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TCACAGTGAACCGGTCTCTTTATGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCTCGACTGGAATGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
CAAAGAATTCTCCTTTTGGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
CATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTGGAATTCT	5	0.125	No Hit
TGTAAACATCCTCGACTGGAAGCTGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
TCCCTGAGACCCTAACTTGTGAATGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
>>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	0.0	0.6	0.0	0.0	0.0
2	0.0	0.6	0.0	0.0	0.0
3	0.0	0.675	0.0	0.0	0.0
4	0.0	0.75	0.0	0.0	0.0
5	0.0	0.775	0.0	0.0	0.0
6	0.0	0.825	0.0	0.0	0.0
7	0.0	1.2	0.0	0.0	0.0
8	0.0	1.35	0.0	0.0	0.0
9	0.0	1.4	0.0	0.0	0.0
10	0.0	1.55	0.0	0.0	0.0
11	0.0	1.875	0.0	0.0	0.0
12	0.0	2.0	0.0	0.0	0.0
13	0.0	2.25	0.0	0.0	0.0
14	0.0	2.5	0.0	0.0	0.0
15	0.0	2.8	0.0	0.0	0.0
16	0.0	3.75	0.0	0.0	0.0
17	0.0	4.325	0.0	0.0	0.0
18	0.0	5.4	0.0	0.0	0.0
19	0.0	5.875	0.0	0.0	0.0
20	0.0	7.425	0.0	0.0	0.0
21	0.0	12.175	0.0	0.0	0.0
22	0.0	23.4	0.0	0.0	0.0
23	0.0	56.7	0.0	0.0	0.0
24	0.0	74.05	0.0	0.0	0.0
25	0.0	79.625	0.0	0.0	0.0
26	0.0	80.625	0.0	0.0	0.0
27	0.0	80.95	0.0	0.0	0.0
28	0.0	81.6	0.0	0.0	0.0
29	0.0	81.925	0.0	0.0	0.0
30	0.0	82.15	0.0	0.0	0.0
31	0.0	83.075	0.0	0.0	0.0
32	0.0	84.3	0.0	0.0	0.0
33	0.0	85.325	0.0	0.0	0.0
34	0.0	87.375	0.0	0.0	0.0
35	0.0	88.2	0.0	0.0	0.0
36	0.0	88.825	0.0	0.0	0.0
37	0.0	89.525	0.0	0.0	0.0
38	0.0	89.75	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	fail
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
AACGCTG	40	5.315087E-9	44.000004	8
GTATGAT	20	6.952051E-4	44.000004	18
GGTGAGT	40	5.315087E-9	44.000004	17
ACGCTGT	40	5.315087E-9	44.000004	9
TCTAGCT	20	6.952051E-4	44.000004	11
GAGTGGA	20	6.952051E-4	44.000004	20
TTCAACG	40	5.315087E-9	44.000004	5
ATGATGG	20	6.952051E-4	44.000004	20
ATCTAGC	20	6.952051E-4	44.000004	10
TTATCTA	20	6.952051E-4	44.000004	8
TCGGTGA	40	5.315087E-9	44.000004	15
TAGCTGT	20	6.952051E-4	44.000004	13
AGTGGAA	20	6.952051E-4	44.000004	21
GAGCTTG	20	6.952051E-4	44.000004	13
GGATCCG	20	6.952051E-4	44.000004	3
CCGTCTG	20	6.952051E-4	44.000004	7
TATGATG	20	6.952051E-4	44.000004	19
TCGGATC	20	6.952051E-4	44.000004	1
CATTCAA	40	5.315087E-9	44.000004	3
TCAACGC	40	5.315087E-9	44.000004	6
>>END_MODULE
Read 366565 spots for SRR5031026.sra
Written 366565 spots for SRR5031026.sra
Read 366565 spots for SRR5031026.sra
Written 366565 spots for SRR5031026.sra
Read 366565 spots for SRR5031026.sra
Written 366565 spots for SRR5031026.sra
Read 366565 spots for SRR5031026.sra
Written 366565 spots for SRR5031026.sra
Read 366565 spots for SRR5031026.sra
Written 366565 spots for SRR5031026.sra
Read 366565 spots for SRR5031026.sra
Written 366565 spots for SRR5031026.sra
Read 366565 spots for SRR5031026.sra
Written 366565 spots for SRR5031026.sra
Read 366565 spots for SRR5031026.sra
Written 366565 spots for SRR5031026.sra
Read 366565 spots for SRR5031026.sra
Written 366565 spots for SRR5031026.sra
Read 366565 spots for SRR5031026.sra
Written 366565 spots for SRR5031026.sra
Read 366565 spots for SRR5031026.sra
Written 366565 spots for SRR5031026.sra
Read 366569 spots for SRR5031026.sra
Written 366569 spots for SRR5031026.sra
SRR ids: ['SRR5031026.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_s071sto5
SRR5031026.sra spots: 4398784
blocks: [[1, 366565], [366566, 733130], [733131, 1099695], [1099696, 1466260], [1466261, 1832825], [1832826, 2199390], [2199391, 2565955], [2565956, 2932520], [2932521, 3299085], [3299086, 3665650], [3665651, 4032215], [4032216, 4398784]]
SRR5031026 file size 761346
SRR5031026 completed basic pipeline successfully
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	skewer -l 18 -q 10 -k inf -t 12 -o SRR5031026 SRR5031026_1.fastq
Input file:	SRR5031026_1.fastq
trimmed:	SRR5031026-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):	12
Wed Mar  4 07:09:03 2020 >> started

Wed Mar  4 07:09:06 2020 >> done (2.400s)
4398784 reads processed; of these:
    363 ( 0.01%) short reads filtered out after trimming by size control
     19 ( 0.00%) empty reads filtered out after trimming by size control
4398402 (99.99%) reads available; of these:
 239957 ( 5.46%) trimmed reads available after processing
4158445 (94.54%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	    103	  0.00%
 19	    126	  0.00%
 20	    227	  0.01%
 21	    340	  0.01%
 22	    602	  0.01%
 23	    743	  0.02%
 24	    650	  0.01%
 25	    791	  0.02%
 26	    689	  0.02%
 27	    837	  0.02%
 28	   1002	  0.02%
 29	   1940	  0.04%
 30	   1058	  0.02%
 31	   1141	  0.03%
 32	   1171	  0.03%
 33	   1648	  0.04%
 34	   2273	  0.05%
 35	   4290	  0.10%
 36	   3701	  0.08%
 37	   4275	  0.10%
 38	   3939	  0.09%
 39	   4335	  0.10%
 40	   5122	  0.12%
 41	   5387	  0.12%
 42	   6976	  0.16%
 43	  10119	  0.23%
 44	  12793	  0.29%
 45	  16387	  0.37%
 46	  21318	  0.48%
 47	  27232	  0.62%
 48	  46008	  1.05%
 49	  52734	  1.20%
 50	4158445	 94.54%
4398402 reads passed initial QC


criterion=sequence-density
sequence-density=89.41
sequence-density-rank=1
fanout-score=18.43
fanout-score-rank=1
prefix-density=90.61
prefix-fanout=18.2
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTCCCGAATCTCGTATGCC


criterion=fanout-score
sequence-density=89.41
sequence-density-rank=1
fanout-score=18.43
fanout-score-rank=1
prefix-density=90.61
prefix-fanout=18.2
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTCCCGAATCTCGTATGCC
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 12 -x TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTCCCGAATCTCGTATGCC -o SRR5031026 -
Input file:	STDIN
trimmed:	SRR5031026-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTCCCGAATCTCGTATGCC
-- 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):	12
Wed Mar  4 07:09:29 2020 >> started

Wed Mar  4 07:09:36 2020 >> done (6.587s)
4300660 reads processed; of these:
 193141 ( 4.49%) short reads filtered out after trimming by size control
  28467 ( 0.66%) empty reads filtered out after trimming by size control
4079052 (94.85%) reads available; of these:
3930549 (96.36%) trimmed reads available after processing
 148503 ( 3.64%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  23010	  0.56%
 19	  48305	  1.18%
 20	 196130	  4.81%
 21	 502032	 12.31%
 22	1458574	 35.76%
 23	 749444	 18.37%
 24	 260950	  6.40%
 25	  44810	  1.10%
 26	  23066	  0.57%
 27	  21633	  0.53%
 28	  23571	  0.58%
 29	  19400	  0.48%
 30	  35592	  0.87%
 31	  55465	  1.36%
 32	  46495	  1.14%
 33	  81580	  2.00%
 34	  38936	  0.95%
 35	  26885	  0.66%
 36	  29539	  0.72%
 37	  17461	  0.43%
 38	  20000	  0.49%
 39	  18281	  0.45%
 40	  24180	  0.59%
 41	  33838	  0.83%
 42	  38658	  0.95%
 43	  30266	  0.74%
 44	  23398	  0.57%
 45	  26624	  0.65%
 46	  20794	  0.51%
 47	  14854	  0.36%
 48	   1809	  0.04%
 49	   3063	  0.08%
 50	 120409	  2.95%


criterion=sequence-density
sequence-density=4.92
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=21
prefix-density=0.00
prefix-fanout=1.0
sequence=TCCCTGAGACCCTTTAACCTGTGAA


criterion=fanout-score
sequence-density=0.38
sequence-density-rank=32
fanout-score=16.19
fanout-score-rank=1
prefix-density=6.08
prefix-fanout=1.0
sequence=CTGAGCTTGGCATT
                                 Started job on |	Mar 04 07:09:58
                             Started mapping on |	Mar 04 07:09:58
                                    Finished on |	Mar 04 07:10:25
       Mapping speed, Million of reads per hour |	556.91

                          Number of input reads |	4176794
                      Average input read length |	25
                                    UNIQUE READS:
                   Uniquely mapped reads number |	1971167
                        Uniquely mapped reads % |	47.19%
                          Average mapped length |	24.07
                       Number of splices: Total |	2284
            Number of splices: Annotated (sjdb) |	281
                       Number of splices: GT/AG |	2098
                       Number of splices: GC/AG |	20
                       Number of splices: AT/AC |	0
               Number of splices: Non-canonical |	166
                      Mismatch rate per base, % |	0.16%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.70
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.05
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	1781923
             % of reads mapped to multiple loci |	42.66%
        Number of reads mapped to too many loci |	90715
             % of reads mapped to too many loci |	2.17%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	7.29%
                     % of reads unmapped: other |	0.68%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	423704	423704	423704
N_multimapping	1781923	1781923	1781923
N_noFeature	108094	126064	1491245
N_ambiguous	1038792	628619	15567
UnstrandedReadsAssigned:824281 PositiveStrandReadsAssigned:1216484 NegativeStrandReadsAssigned:464355
Dataset is classified unstranded
MeadianReadLen=22 20thPercentileLength=22 echo kmer=19
SRR5031026 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: 109,282
[index] number of k-mers: 92,755,666
[index] number of equivalence classes: 769,752
[quant] running in single-end mode
[quant] will process file 1: SRR5031026-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 4,176,794 reads, 794,658 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 1,148 rounds

 109283 SRR5031026.ke.tsv
  52636 SRR5031026.se.tsv
 161919 total
==> SRR5031026.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
ENSMUST00000177564.1	16	4.59059	0	0
ENSMUST00000196221.1	9	3.70903	0	0
ENSMUST00000179664.1	11	4.02702	0	0
ENSMUST00000178537.1	12	4.16231	0	0
ENSMUST00000178862.1	14	4.39563	0	0
ENSMUST00000179520.1	11	4.02702	0	0
ENSMUST00000179883.1	16	4.59059	0	0
ENSMUST00000195858.1	10	3.87667	0	0
ENSMUST00000179932.1	12	4.16231	0	0

==> SRR5031026.se.tsv <==
ENSMUSG00000102693	0
ENSMUSG00000064842	0
ENSMUSG00000051951	0
ENSMUSG00000102851	0
ENSMUSG00000103377	0
ENSMUSG00000104017	0
ENSMUSG00000103025	0
ENSMUSG00000089699	0
ENSMUSG00000103201	0
ENSMUSG00000103147	0
SRR5031026 completed mapping pipeline successfully
