Starting /dee2/code/volunteer_pipeline.sh SRR5030866
    current disk space = 160677052416
    free memory = 1052856412 
SRR5030866 SRAfilesize
77d3ad7b162fdaf45872c587629eed19  SRR5030866.sra
SRR5030866.sra file validated
SRR5030866 is single end
SRR5030866 is conventional basespace
SRR5030866 read1 length is 50 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR5030866_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	52
>>END_MODULE
>>Per base sequence quality	fail
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	32.2855	33.0	31.0	34.0	31.0	34.0
2	32.62375	34.0	31.0	34.0	31.0	34.0
3	32.7325	34.0	31.0	34.0	31.0	34.0
4	36.17475	37.0	35.0	37.0	35.0	37.0
5	36.141	37.0	37.0	37.0	35.0	37.0
6	35.931	37.0	35.0	37.0	35.0	37.0
7	36.041	37.0	35.0	37.0	35.0	37.0
8	36.05575	37.0	35.0	37.0	35.0	37.0
9	37.79525	39.0	38.0	39.0	35.0	39.0
10	37.836	39.0	38.0	39.0	35.0	39.0
11	37.72375	39.0	38.0	39.0	35.0	39.0
12	37.73725	39.0	38.0	39.0	35.0	39.0
13	37.72675	39.0	38.0	39.0	35.0	39.0
14	39.16075	41.0	39.0	41.0	36.0	41.0
15	39.167	40.0	39.0	41.0	36.0	41.0
16	39.10275	40.0	39.0	41.0	36.0	41.0
17	39.167	40.0	39.0	41.0	36.0	41.0
18	39.0965	41.0	39.0	41.0	35.0	41.0
19	38.909	40.0	38.0	41.0	35.0	41.0
20	38.91825	40.0	38.0	41.0	35.0	41.0
21	39.051	40.0	39.0	41.0	35.0	41.0
22	39.0515	40.0	39.0	41.0	36.0	41.0
23	39.0195	40.0	39.0	41.0	35.0	41.0
24	38.11975	40.0	38.0	41.0	33.0	41.0
25	38.43	40.0	38.0	41.0	34.0	41.0
26	38.49075	40.0	38.0	41.0	34.0	41.0
27	38.49975	40.0	38.0	41.0	34.0	41.0
28	38.64075	40.0	38.0	41.0	34.0	41.0
29	38.2775	40.0	38.0	41.0	33.0	41.0
30	38.15475	40.0	38.0	41.0	33.0	41.0
31	38.563	40.0	38.0	41.0	34.0	41.0
32	38.74875	40.0	38.0	41.0	35.0	41.0
33	37.05225	40.0	37.0	41.0	30.0	41.0
34	36.4425	40.0	36.0	41.0	28.0	41.0
35	32.7445	38.0	31.0	40.0	15.0	41.0
36	29.48075	37.0	18.0	40.0	8.0	41.0
37	29.65975	35.0	23.0	39.0	7.0	41.0
38	32.22275	37.0	30.0	39.0	15.0	41.0
39	31.492	37.0	30.0	40.0	8.0	41.0
40	32.3235	37.0	31.0	40.0	8.0	41.0
41	30.37525	36.0	26.0	40.0	2.0	41.0
42	31.80675	37.0	31.0	40.0	2.0	41.0
43	30.36025	36.0	26.0	40.0	2.0	41.0
44	31.24125	37.0	30.0	40.0	2.0	41.0
45	28.98425	36.0	24.0	40.0	2.0	41.0
46	26.9	34.0	13.0	39.0	2.0	40.0
47	26.90825	34.0	13.0	39.0	2.0	41.0
48	27.299	35.0	2.0	39.0	2.0	41.0
49	25.72025	34.0	2.0	39.0	2.0	41.0
50	22.26075	29.0	2.0	37.0	2.0	40.0
>>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	2.0
16	3.0
17	2.0
18	3.0
19	5.0
20	7.0
21	12.0
22	35.0
23	30.0
24	47.0
25	62.0
26	91.0
27	148.0
28	84.0
29	99.0
30	154.0
31	190.0
32	158.0
33	193.0
34	237.0
35	263.0
36	349.0
37	452.0
38	633.0
39	740.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	13.95640190428464	24.630418441493358	44.77574542721123	16.637434227010775
2	26.724999999999998	24.425	20.575	28.275
3	21.925	21.3	21.9	34.875
4	31.6	26.5	16.950000000000003	24.95
5	23.775	38.75	24.2	13.275
6	31.2	15.925	36.975	15.9
7	20.974999999999998	20.599999999999998	25.324999999999996	33.1
8	26.0	29.325000000000003	18.35	26.325
9	19.975	32.425	31.900000000000002	15.7
10	23.625	22.45	30.45	23.474999999999998
11	34.875	15.825	16.55	32.75
12	18.45	23.5	27.175	30.875000000000004
13	27.05	20.349999999999998	32.824999999999996	19.775000000000002
14	26.85	29.95	24.75	18.45
15	33.875	24.2	24.625	17.299999999999997
16	20.225	20.549999999999997	23.925	35.3
17	24.5	25.15	34.625	15.725
18	23.05	19.525000000000002	31.95	25.474999999999998
19	35.0	16.2	30.375000000000004	18.425
20	40.475	17.1	28.225	14.2
21	25.35	19.650000000000002	27.474999999999998	27.525
22	29.225	13.775	44.125	12.875
23	24.725	15.024999999999999	43.125	17.125
24	47.275	14.774999999999999	25.35	12.6
25	47.099999999999994	22.2	15.6	15.1
26	26.85	40.975	15.725	16.45
27	17.95	44.125	21.224999999999998	16.7
28	15.625	24.6	42.625	17.150000000000002
29	14.2	13.775	53.05	18.975
30	12.475	9.1	33.7	44.725
31	15.575	7.725	45.6	31.1
32	27.700000000000003	7.5249999999999995	24.25	40.525
33	47.8	12.875	15.174999999999999	24.15
34	54.974999999999994	8.475000000000001	18.525	18.025
35	55.75	9.5	20.075000000000003	14.674999999999999
36	61.575	9.5	15.875	13.05
37	38.3	14.124999999999998	22.650000000000002	24.925
38	26.75	17.224999999999998	13.825000000000001	42.199999999999996
39	19.0	25.25	12.825000000000001	42.925000000000004
40	17.825	43.25	15.5	23.425
41	25.6	42.9	12.6	18.9
42	45.6	27.975	15.425	11.0
43	44.9	30.3	12.35	12.45
44	30.95	44.2	10.325	14.524999999999999
45	21.45	44.375	11.875	22.3
46	18.075	28.075	22.5	31.35
47	12.925	16.75	33.225	37.1
48	14.899999999999999	13.25	22.275	49.575
49	16.2	23.25	14.274999999999999	46.275
50	27.800000000000004	26.525	13.125	32.550000000000004
>>END_MODULE
>>Per sequence GC content	warn
#GC Content	Count
0	0.0
1	0.0
2	0.0
3	0.0
4	0.0
5	0.0
6	0.0
7	0.0
8	0.0
9	0.0
10	0.0
11	0.0
12	0.0
13	0.0
14	0.0
15	0.0
16	0.0
17	0.5
18	1.0
19	0.5
20	0.0
21	0.5
22	1.0
23	0.5
24	0.0
25	1.0
26	2.0
27	1.5
28	1.0
29	1.5
30	2.0
31	6.5
32	11.0
33	23.0
34	35.0
35	45.5
36	56.0
37	77.0
38	98.0
39	87.0
40	76.0
41	69.0
42	62.0
43	97.0
44	132.0
45	175.5
46	219.0
47	264.5
48	310.0
49	402.0
50	494.0
51	616.0
52	738.0
53	618.5
54	499.0
55	450.0
56	401.0
57	358.5
58	316.0
59	230.5
60	145.0
61	120.0
62	95.0
63	143.5
64	192.0
65	113.0
66	34.0
67	24.5
68	15.0
69	13.5
70	12.0
71	24.5
72	37.0
73	21.5
74	6.0
75	4.5
76	3.0
77	1.5
78	0.0
79	2.0
80	4.0
81	3.0
82	2.0
83	1.5
84	1.0
85	0.5
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	0.22499999999999998
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
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	warn
#Total Deduplicated Percentage	52.575
#Duplication Level	Percentage of deduplicated	Percentage of total
1	81.26485972420352	42.725
2	7.560627674750357	7.95
3	3.185924869234427	5.025
4	2.0446980504041847	4.3
5	1.0936757013789824	2.875
6	0.9510223490252021	3.0
7	0.47551117451260105	1.7500000000000002
8	0.3804089396100808	1.6
9	0.3804089396100808	1.7999999999999998
>10	2.5677603423680457	23.875
>50	0.0475511174512601	2.45
>100	0.0475511174512601	2.65
>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
AACATTCAACGCTGTCGGTGAGTTGGAATTCTCGGGTGCCAAGGAACTCC	106	2.65	RNA PCR Primer, Index 1 (100% over 27bp)
CGCGACCTCAGATCAGACGTGGCGACCCGCTGATGGAATTCTCGGGTGCC	98	2.45	No Hit
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGGGCCAAGGAACTCCA	49	1.225	RNA PCR Primer, Index 1 (96% over 28bp)
TCACAGTGAACCGGTCTCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	49	1.225	RNA PCR Primer, Index 1 (100% over 29bp)
CAACGGAATCCCAAAAGCAGCTGTGGAATTCTCGGGTGCCAAGGAACTCC	38	0.95	RNA PCR Primer, Index 1 (100% over 27bp)
AGCTGGTGTTGTGAATCAGGCCGTGGAATTCTCGGGTGCCAAGGAACTCC	36	0.8999999999999999	RNA PCR Primer, Index 1 (100% over 27bp)
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGGGCCAAGGAACTCCA	36	0.8999999999999999	RNA PCR Primer, Index 1 (96% over 28bp)
GTTAGTACTTGGATGGGAGACCGCCTGGGAATACCGGGTGCTGTAGGCTT	35	0.8750000000000001	No Hit
TCTTTGGTTATCTAGCTGTATGATGGAATTCTCGGGTGCCAAGGAACTCC	31	0.775	RNA PCR Primer, Index 1 (100% over 27bp)
GGGGGGGCCCAAGTCCTTCTGATCGAGGCCCTGGAATTCTCGGGTGCCAA	30	0.75	No Hit
TCGGATCCGTCTGAGCTTGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	29	0.7250000000000001	RNA PCR Primer, Index 1 (100% over 29bp)
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGGGCCAAGGAACTCCA	28	0.7000000000000001	RNA PCR Primer, Index 1 (96% over 28bp)
TCGGATCCGTCTGAGCTTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGT	27	0.675	RNA PCR Primer, Index 1 (100% over 30bp)
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA	20	0.5	RNA PCR Primer, Index 1 (100% over 28bp)
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	20	0.5	RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCTCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	20	0.5	RNA PCR Primer, Index 1 (100% over 26bp)
TGTAAACATCCCCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	18	0.44999999999999996	RNA PCR Primer, Index 1 (100% over 26bp)
TGCTGTGATGAGATGACTAAGTAGGAAGTGCCGTCAGAGTCGATAACTGA	17	0.42500000000000004	No Hit
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGGGCCAAGGAACTCCA	17	0.42500000000000004	RNA PCR Primer, Index 1 (96% over 28bp)
TCGGATCCGTCTGAGCTTGGCTATTGGAATTCTCGGGTGCCAAGGAACTC	16	0.4	RNA PCR Primer, Index 1 (100% over 26bp)
ACTAATCCTAGCCCTAGCCCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	16	0.4	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGATTGTATAGTTTGGAATTCTCGGGGGCCAAGGAACTCCA	16	0.4	RNA PCR Primer, Index 1 (96% over 28bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA	16	0.4	RNA PCR Primer, Index 1 (100% over 28bp)
TGAACTGATGATATCATTTCTTTCCCCGTCAGATCGACCCTGTTGATCTC	15	0.375	No Hit
CGACTCTTAGCGGTGGATCACTCGGCTCGTGCGTCGATGAAGAACGCAGC	14	0.35000000000000003	No Hit
TGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGT	14	0.35000000000000003	RNA PCR Primer, Index 1 (97% over 35bp)
TCGGATCCGTCTGAGCTTGGCTTTGGAATTCTCGGGTGCCAAGGAACTCC	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 27bp)
AATATAACACAGATGGCCTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 29bp)
TTTGAACCATCACTCGACTCCTTGGAATTCTCGGGTGCCAAGGAACTCCA	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 28bp)
CTTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTG	13	0.325	No Hit
AGTCTATGATGATCCTATCCCGAACCTGAATTCCTGTTGAAAAACCATAA	13	0.325	No Hit
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGTGAAAATCTCGTATGC	13	0.325	RNA PCR Primer, Index 19 (100% over 50bp)
GTAAATGATGAGATTCCATTGGTCCGTGTTTCTGAACTACATGATTTTCC	13	0.325	No Hit
CATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTCCTCCCGG	13	0.325	No Hit
TTGCTGTGATGACTATCTTAGGACACCTTTGGATTAACCGTGAAATCAAA	13	0.325	No Hit
TCCCTGAGACCCTTTAACCTGTGATGGAATTCTCGGGTGCCAAGGAACTC	13	0.325	RNA PCR Primer, Index 1 (100% over 26bp)
CCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC	12	0.3	RNA PCR Primer, Index 1 (100% over 33bp)
AGCAGCATTGTACAGGGCTATGATGGAATTCTCGGGTGCCAAGGAACTCC	12	0.3	RNA PCR Primer, Index 1 (100% over 27bp)
TTTGAACCATCACTCGACTCCTTGGAATTCTCGGGGGCCAAGGAACTCCA	12	0.3	RNA PCR Primer, Index 1 (96% over 28bp)
GGTCCATGATGAAACCCATTATCAGTGGACATCTATGGATGAGAAATGCG	11	0.27499999999999997	No Hit
TCTTTGGTTATCTAGCTGTATTGGAATTCTCGGGTGCCAAGGAACTCCAG	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 29bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGGGCCAAGGAACTCCG	11	0.27499999999999997	RNA PCR Primer, Index 1 (96% over 27bp)
TTCAAGTAATCCAGGATAGGCTTTGGAATTCTCGGGTGCCAAGGAACTCC	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 27bp)
TCGGATCCGTCTGAGCTTGGCTATGGAATTCTCGGGTGCCAAGGAACTCC	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 27bp)
AGCTACATCTGGCTACTGGGTCTCTGGAATTCTCGGGTGCCAAGGAACTC	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 26bp)
TGAGGTAGTAGGTTGTATGGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 29bp)
TTCAAGTAATCCAGGATAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTTTAACCTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 28bp)
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGGGCCAAGGAACTCCG	10	0.25	RNA PCR Primer, Index 1 (96% over 27bp)
AAGGGATTCTGATGTTGGTCACACTTGGAATTCTCGGGTGCCAAGGAACT	10	0.25	RNA PCR Primer, Index 1 (100% over 25bp)
GACTCTTAGCGGTGGATCACTCGGCTCGTGCGTCGATGAAGAACGCAGCT	10	0.25	No Hit
CACCCGTAGAACCGACCTTGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	10	0.25	RNA PCR Primer, Index 1 (100% over 29bp)
CATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTTGGAATTC	10	0.25	No Hit
TTGCAATGATGACTTATATATCTGTCAATCCCCTGAGAGATCACTGACGA	10	0.25	No Hit
TGTAAACATCCTTGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	10	0.25	RNA PCR Primer, Index 1 (100% over 26bp)
GTCTATGATGATCCTATCCCGAACCTGAATTCCTGTTGAAAAACCATACT	10	0.25	No Hit
TGTAAACATCCTACACTCTCAGCTTGGAATTCTCGGGTGCCAAGGAACTC	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 26bp)
AGCCCATGATGGTATGAGAGTAGTGGACAGAAGGGATTTCTGAAAAACAC	9	0.22499999999999998	No Hit
TGAGGTAGTAGGTTGTATAGTTTGGAATTCTCGGGGGCCAAGGAACTCCA	9	0.22499999999999998	RNA PCR Primer, Index 1 (96% over 28bp)
ACGGATGATGACACCTGGGTATGCTGCACACTCCCGACTGCGTCGTGGGG	9	0.22499999999999998	No Hit
GTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGTGAAAATCTC	9	0.22499999999999998	RNA PCR Primer, Index 19 (100% over 44bp)
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGGGCCAAGGAACTCCG	9	0.22499999999999998	RNA PCR Primer, Index 1 (96% over 27bp)
TCGGATCCGTCTGAGCTTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGC	9	0.22499999999999998	RNA PCR Primer, Index 1 (96% over 29bp)
ACAAATGATGAACCTTTTGACGGGCGGACAGAAACTCTGTGCTGAATGTC	9	0.22499999999999998	No Hit
TAGTAGACCGTATAGCGTACGTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
GCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTGGAA	8	0.2	No Hit
TGAGGTAGTAGATTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	8	0.2	RNA PCR Primer, Index 1 (100% over 28bp)
GGCTGGTCCGAAGGTAGTGAGTTATCTCAATTGTGGAATTCTCGGGTGCC	8	0.2	No Hit
ACCATTCGTAGACGACCTGCTTCTGGAATTCTCGGGTGCCAAGGAACTCC	8	0.2	RNA PCR Primer, Index 1 (100% over 27bp)
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGTGCCAAGGAACTCCA	8	0.2	RNA PCR Primer, Index 1 (100% over 28bp)
ATACATGATGATCTCACACAACTTGAACTCTCTCACTGATTACTTGATGA	8	0.2	No Hit
TGAGGTAGTAGATTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGGTTGTATGGTTTGGAATTCTCGGGGGCCAAGGAACTCCA	7	0.17500000000000002	RNA PCR Primer, Index 1 (96% over 28bp)
GGTTAATTCCGATAACGAACGAGACTCTGGCATGCTAACTAGTTACGCGA	7	0.17500000000000002	No Hit
TACCATGATGATAACATAGTTCAGCAGACTTAACTCTGATGAACAATCAT	7	0.17500000000000002	No Hit
GCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTTGGAATTC	7	0.17500000000000002	No Hit
TCACAGTGAACCGGTCTCTTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 28bp)
AGTCTATGATGATCCTATCCCGAACCTGAATTCCTGTTGAAAAACCATAC	7	0.17500000000000002	No Hit
GCCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 32bp)
CACCCTGATGAACTGAATACCGCCCCAGTCTGATAGCTGTGGAGAAAGGT	7	0.17500000000000002	No Hit
GTCCATGATGAAACCCATTATCAGTGGACATCTATGGATGAGAAATGCGG	7	0.17500000000000002	No Hit
TGAGGTAGTAGGTTGTATGGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 28bp)
TATTGCACTCGTCCCGGCCTCCTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
AACATTCATTGCTGTCGGTGGGTTGGAATTCTCGGGTGCCAAGGAACTCC	6	0.15	RNA PCR Primer, Index 1 (100% over 27bp)
GCATGTGATGACATTATTTAGCGACCAAAGTCTGATAAAGATGATTGTGA	6	0.15	No Hit
TTCCCTTTGTCATCCTATGCCTGTGGAATTCTCGGGTGCCAAGGAACTCC	6	0.15	RNA PCR Primer, Index 1 (100% over 27bp)
ATCGATGTGGTGCTCCGGAGTTCTCTTCGGGCCAGGGCCTAAGCCGCGCC	6	0.15	No Hit
TCGGATCCGTCTGAGCTTGGCTTTTGGAATTCTCGGGTGCCAAGGAACTC	6	0.15	RNA PCR Primer, Index 1 (100% over 26bp)
TAGCACCATCTGAAATCGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGATTGTATAGTTTGGAATTCTCGGGGGCCAAGGAACTCCG	6	0.15	RNA PCR Primer, Index 1 (96% over 27bp)
GTTTCCGTAGTGTAGTGGTTATCACGTTCGCCTGACTGGAATTCTCGGGT	6	0.15	No Hit
GCGGATGATGACACCTGGGTATGCTGCACACTCCCGACTGCGTCGTGGGG	6	0.15	No Hit
AGTCCATGATGAGCAACACTCACCATCTTTCGTTTGAGTCTCACGACTGT	6	0.15	No Hit
GGCTGGTCCGAAGGTAGTGAGTTATCTCAATTGGAATTCTCGGGTGCCAA	6	0.15	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGCCACGCGGGAGGCCCGG	6	0.15	No Hit
TCTTTGGTTATCTAGCTGTATGTTGGAATTCTCGGGTGCCAAGGAACTCC	6	0.15	RNA PCR Primer, Index 1 (100% over 27bp)
TGAAATGATGGCAAATCATCTTTCGGGACTGACCTGAAATGAAGAGAATA	6	0.15	No Hit
TCGGATCCGTCTGAGCTTGGTGGAATTCTCGGGGGCCAAGGAACTCCAGC	6	0.15	RNA PCR Primer, Index 1 (96% over 29bp)
TCGGATCCGTCTGAGCTTGGCATTGGAATTCTCGGGTGCCAAGGAACTCC	6	0.15	RNA PCR Primer, Index 1 (100% over 27bp)
CACCCTGATGAACTGAATACCGCCCCAGTCTGATAGCTGTGAAGAAAGGT	6	0.15	No Hit
ACATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTCCTCCCG	6	0.15	No Hit
GTGAAATGATGGCAAATCATCTTTCGGGACTGACCTGAAATGAAGAGAAT	6	0.15	No Hit
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGGGCCAAGGAATTCCA	5	0.125	RNA PCR Primer, Index 1 (95% over 23bp)
AACATTCATTGCTGTCGGTGGGTGGAATTCTCGGGGGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (96% over 28bp)
CACAAATGATGAACCTTTTGACGGGCGGACAGAAACTCTGTGCTGAATGT	5	0.125	No Hit
TGTAAACATCCCCGACTGGAAGCTGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
ACTTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTT	5	0.125	No Hit
GTTTCCGTAGTGTAGTGGTTATCACGTTCGCCTCACTGGAATTCTCGGGT	5	0.125	No Hit
CGCGACCTCAGATCAGACGTGGCGACCCGCTGCTGGAATTCTCGGGTGCC	5	0.125	No Hit
ACATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTTGGAATT	5	0.125	No Hit
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGGGCCAAGGAATTCCA	5	0.125	RNA PCR Primer, Index 1 (95% over 23bp)
CACATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTCCTCCC	5	0.125	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGCCATGGAATTCTCGGGT	5	0.125	No Hit
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGTGCCAAGGAACTCCG	5	0.125	RNA PCR Primer, Index 1 (96% over 27bp)
TCCCTGAGACCCTTTAACCTGTTGGAATTCTCGGGGGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (96% over 28bp)
GAGACCGCCTGGGAATACCGGGTGCTGTAGGCTTTGGAATTCTCGGGTGC	5	0.125	No Hit
AACATTCAACGCTGTCGGTGAGTTTGGAATTCTCGGGTGCCAAGGAACTC	5	0.125	RNA PCR Primer, Index 1 (100% over 26bp)
CTCGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTTGGAT	5	0.125	No Hit
TTCACAGTGGCTAAGTTCTGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TCACAGTGAACCGGTCTCTTTAATGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
AGCTGGTGTTGTGAATCAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGGGCCAAGGAACTCCG	5	0.125	RNA PCR Primer, Index 1 (96% over 27bp)
TGCGGGGCTAGGGCTAACAGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
GTCTATGATGATCCTATCCCGAACCTGAATTCCTGTTGAAAAACCATAAT	5	0.125	No Hit
CATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTGGAATTCT	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	0.0	0.325	0.0	0.0	0.0
2	0.0	0.325	0.0	0.0	0.0
3	0.0	0.35	0.0	0.0	0.0
4	0.0	0.35	0.0	0.0	0.0
5	0.0	0.375	0.0	0.0	0.0
6	0.0	0.4	0.0	0.0	0.0
7	0.0	0.65	0.0	0.0	0.0
8	0.0	0.8	0.0	0.0	0.0
9	0.0	0.8	0.0	0.0	0.0
10	0.0	0.9	0.0	0.0	0.0
11	0.0	1.1	0.0	0.0	0.0
12	0.0	1.25	0.0	0.0	0.0
13	0.0	1.55	0.0	0.0	0.0
14	0.0	1.675	0.0	0.0	0.0
15	0.0	1.9	0.0	0.0	0.0
16	0.0	2.6	0.0	0.0	0.0
17	0.0	3.15	0.0	0.0	0.0
18	0.0	3.925	0.0	0.0	0.0
19	0.0	4.525	0.0	0.0	0.0
20	0.0	5.45	0.0	0.0	0.0
21	0.0	9.35	0.0	0.0	0.0
22	0.0	17.675	0.0	0.0	0.0
23	0.0	42.7	0.0	0.0	0.0
24	0.0	54.525	0.0	0.0	0.0
25	0.0	59.45	0.0	0.0	0.0
26	0.0	61.15	0.0	0.0	0.0
27	0.0	61.7	0.0	0.0	0.0
28	0.0	62.325	0.0	0.0	0.0
29	0.0	62.575	0.0	0.0	0.0
30	0.0	63.075	0.0	0.0	0.0
31	0.0	63.875	0.0	0.0	0.0
32	0.0	65.25	0.0	0.0	0.0
33	0.0	65.975	0.0	0.0	0.0
34	0.0	70.025	0.0	0.0	0.0
35	0.0	71.475	0.0	0.0	0.0
36	0.0	72.4	0.0	0.0	0.0
37	0.0	73.6	0.0	0.0	0.0
38	0.0	74.175	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
GGTGAGT	40	5.315087E-9	44.000004	17
ACGCTGT	40	5.315087E-9	44.000004	9
GAGTGGA	20	6.952051E-4	44.000004	20
TTCAACG	40	5.315087E-9	44.000004	5
TCGGTGA	40	5.315087E-9	44.000004	15
AGTGGAA	20	6.952051E-4	44.000004	21
CATTCAA	40	5.315087E-9	44.000004	3
TCAACGC	40	5.315087E-9	44.000004	6
GTGAGTG	20	6.952051E-4	44.000004	18
ACATTCA	40	5.315087E-9	44.000004	2
GAGTTGG	20	6.952051E-4	44.000004	20
GGGGGCC	65	0.0	44.000004	33
GCTGTCG	40	5.315087E-9	44.000004	11
GGCTTGG	20	6.952051E-4	44.000004	19
CGGTGAG	40	5.315087E-9	44.000004	16
GGCCAAG	65	0.0	44.000004	36
AGTTGGA	20	6.952051E-4	44.000004	21
GGTGGAA	20	6.952051E-4	44.000004	19
CTGTCGG	40	5.315087E-9	44.000004	12
>>END_MODULE
Read 61606 spots for SRR5030866.sra
Written 61606 spots for SRR5030866.sra
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Written 61606 spots for SRR5030866.sra
Read 61606 spots for SRR5030866.sra
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Read 61606 spots for SRR5030866.sra
Written 61606 spots for SRR5030866.sra
Read 61606 spots for SRR5030866.sra
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Read 61606 spots for SRR5030866.sra
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Read 61606 spots for SRR5030866.sra
Written 61606 spots for SRR5030866.sra
Read 61606 spots for SRR5030866.sra
Written 61606 spots for SRR5030866.sra
Read 61606 spots for SRR5030866.sra
Written 61606 spots for SRR5030866.sra
Read 61606 spots for SRR5030866.sra
Written 61606 spots for SRR5030866.sra
Read 61606 spots for SRR5030866.sra
Written 61606 spots for SRR5030866.sra
Read 61606 spots for SRR5030866.sra
Written 61606 spots for SRR5030866.sra
Read 61606 spots for SRR5030866.sra
Written 61606 spots for SRR5030866.sra
Read 61606 spots for SRR5030866.sra
Written 61606 spots for SRR5030866.sra
Read 61606 spots for SRR5030866.sra
Written 61606 spots for SRR5030866.sra
Read 61606 spots for SRR5030866.sra
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Read 61606 spots for SRR5030866.sra
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Read 61606 spots for SRR5030866.sra
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Read 61611 spots for SRR5030866.sra
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Read 61606 spots for SRR5030866.sra
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SRR ids: ['SRR5030866.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_skhf_4v_
SRR5030866.sra spots: 2957093
blocks: [[1, 61606], [61607, 123212], [123213, 184818], [184819, 246424], [246425, 308030], [308031, 369636], [369637, 431242], [431243, 492848], [492849, 554454], [554455, 616060], [616061, 677666], [677667, 739272], [739273, 800878], [800879, 862484], [862485, 924090], [924091, 985696], [985697, 1047302], [1047303, 1108908], [1108909, 1170514], [1170515, 1232120], [1232121, 1293726], [1293727, 1355332], [1355333, 1416938], [1416939, 1478544], [1478545, 1540150], [1540151, 1601756], [1601757, 1663362], [1663363, 1724968], [1724969, 1786574], [1786575, 1848180], [1848181, 1909786], [1909787, 1971392], [1971393, 2032998], [2032999, 2094604], [2094605, 2156210], [2156211, 2217816], [2217817, 2279422], [2279423, 2341028], [2341029, 2402634], [2402635, 2464240], [2464241, 2525846], [2525847, 2587452], [2587453, 2649058], [2649059, 2710664], [2710665, 2772270], [2772271, 2833876], [2833877, 2895482], [2895483, 2957093]]
SRR5030866 file size 511452
SRR5030866 completed basic pipeline successfully
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	skewer -l 18 -q 10 -k inf -t 48 -o SRR5030866 SRR5030866_1.fastq
Input file:	SRR5030866_1.fastq
trimmed:	SRR5030866-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
Wed Mar  4 06:31:49 2020 >> started

Wed Mar  4 06:31:51 2020 >> done (1.737s)
2957093 reads processed; of these:
    258 ( 0.01%) short reads filtered out after trimming by size control
     11 ( 0.00%) empty reads filtered out after trimming by size control
2956824 (99.99%) reads available; of these:
 350330 (11.85%) trimmed reads available after processing
2606494 (88.15%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	     72	  0.00%
 19	     77	  0.00%
 20	    119	  0.00%
 21	    156	  0.01%
 22	    318	  0.01%
 23	    423	  0.01%
 24	    405	  0.01%
 25	    558	  0.02%
 26	    453	  0.02%
 27	    620	  0.02%
 28	    820	  0.03%
 29	   1056	  0.04%
 30	    796	  0.03%
 31	   1233	  0.04%
 32	   3281	  0.11%
 33	   9967	  0.34%
 34	  24167	  0.82%
 35	   6063	  0.21%
 36	   6947	  0.23%
 37	   3578	  0.12%
 38	   7569	  0.26%
 39	   6523	  0.22%
 40	  12622	  0.43%
 41	   7320	  0.25%
 42	  16425	  0.56%
 43	   8435	  0.29%
 44	  34202	  1.16%
 45	  21948	  0.74%
 46	  22489	  0.76%
 47	  23486	  0.79%
 48	  60084	  2.03%
 49	  68118	  2.30%
 50	2606494	 88.15%
2956824 reads passed initial QC


criterion=sequence-density
sequence-density=74.83
sequence-density-rank=1
fanout-score=21.46
fanout-score-rank=3
prefix-density=77.50
prefix-fanout=20.7
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGTGAAAATCTCGTATGCC


criterion=fanout-score
sequence-density=1.22
sequence-density-rank=7
fanout-score=610.02
fanout-score-rank=1
prefix-density=76.66
prefix-fanout=9.7
sequence=GGAATTCTCGGTGCCAAGGA
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 48 -x TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGTGAAAATCTCGTATGCC -o SRR5030866 -
Input file:	STDIN
trimmed:	SRR5030866-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGTGAAAATCTCGTATGCC
-- 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
Wed Mar  4 06:32:09 2020 >> started

Wed Mar  4 06:32:14 2020 >> done (5.337s)
2877975 reads processed; of these:
 116793 ( 4.06%) short reads filtered out after trimming by size control
  14075 ( 0.49%) empty reads filtered out after trimming by size control
2747107 (95.45%) reads available; of these:
2281971 (83.07%) trimmed reads available after processing
 465136 (16.93%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  14978	  0.55%
 19	  23252	  0.85%
 20	 113867	  4.14%
 21	 268725	  9.78%
 22	 717083	 26.10%
 23	 348218	 12.68%
 24	 151518	  5.52%
 25	  40962	  1.49%
 26	  21304	  0.78%
 27	  18483	  0.67%
 28	  19801	  0.72%
 29	  16339	  0.59%
 30	  24263	  0.88%
 31	  40586	  1.48%
 32	  27798	  1.01%
 33	 131162	  4.77%
 34	  36190	  1.32%
 35	  27055	  0.98%
 36	  40718	  1.48%
 37	  15381	  0.56%
 38	  17914	  0.65%
 39	  16995	  0.62%
 40	  24682	  0.90%
 41	  29378	  1.07%
 42	  37278	  1.36%
 43	  25514	  0.93%
 44	  22969	  0.84%
 45	  25482	  0.93%
 46	  21947	  0.80%
 47	  18598	  0.68%
 48	   7595	  0.28%
 49	  13252	  0.48%
 50	 387820	 14.12%


criterion=sequence-density
sequence-density=5.77
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=16
prefix-density=0.00
prefix-fanout=1.0
sequence=AACATTCAACGCTGTCGGTGAGTTTT


criterion=fanout-score
sequence-density=0.55
sequence-density-rank=23
fanout-score=11.48
fanout-score-rank=1
prefix-density=6.31
prefix-fanout=1.0
sequence=TGAGCTTGGCTATTT
                                 Started job on |	Mar 04 06:32:54
                             Started mapping on |	Mar 04 06:32:54
                                    Finished on |	Mar 04 06:33:22
       Mapping speed, Million of reads per hour |	363.34

                          Number of input reads |	2825956
                      Average input read length |	30
                                    UNIQUE READS:
                   Uniquely mapped reads number |	1466539
                        Uniquely mapped reads % |	51.90%
                          Average mapped length |	28.96
                       Number of splices: Total |	1586
            Number of splices: Annotated (sjdb) |	254
                       Number of splices: GT/AG |	1479
                       Number of splices: GC/AG |	18
                       Number of splices: AT/AC |	0
               Number of splices: Non-canonical |	89
                      Mismatch rate per base, % |	0.24%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.30
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.03
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	883997
             % of reads mapped to multiple loci |	31.28%
        Number of reads mapped to too many loci |	73545
             % of reads mapped to too many loci |	2.60%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	13.72%
                     % of reads unmapped: other |	0.50%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	475420	475420	475420
N_multimapping	883997	883997	883997
N_noFeature	93477	111016	1084376
N_ambiguous	801219	472802	16427
UnstrandedReadsAssigned:571843 PositiveStrandReadsAssigned:882721 NegativeStrandReadsAssigned:365736
Dataset is classified unstranded
MeadianReadLen=23 20thPercentileLength=22 echo kmer=19
SRR5030866 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: SRR5030866-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 2,825,956 reads, 658,774 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 1,132 rounds

 109283 SRR5030866.ke.tsv
  52636 SRR5030866.se.tsv
 161919 total
==> SRR5030866.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

==> SRR5030866.se.tsv <==
ENSMUSG00000102693	0
ENSMUSG00000064842	0
ENSMUSG00000051951	0
ENSMUSG00000102851	0
ENSMUSG00000103377	0
ENSMUSG00000104017	0
ENSMUSG00000103025	0
ENSMUSG00000089699	0
ENSMUSG00000103201	0
ENSMUSG00000103147	0
SRR5030866 completed mapping pipeline successfully
