Starting /dee2/code/volunteer_pipeline.sh SRR5030895
    current disk space = 160664322048
    free memory = 73955896 
SRR5030895 SRAfilesize
f2681bd05b93556e3f060c9f4ce8a02a  SRR5030895.sra
SRR5030895.sra file validated
SRR5030895 is single end
SRR5030895 is conventional basespace
SRR5030895 read1 length is 50 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR5030895_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	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	32.4175	33.0	31.0	34.0	31.0	34.0
2	32.70275	34.0	31.0	34.0	31.0	34.0
3	32.7	34.0	31.0	34.0	31.0	34.0
4	36.215	37.0	37.0	37.0	35.0	37.0
5	36.3165	37.0	37.0	37.0	35.0	37.0
6	36.05875	37.0	36.0	37.0	35.0	37.0
7	36.11575	37.0	36.0	37.0	35.0	37.0
8	36.1855	37.0	36.0	37.0	35.0	37.0
9	37.9515	39.0	38.0	39.0	35.0	39.0
10	37.9035	39.0	38.0	39.0	35.0	39.0
11	37.81925	39.0	38.0	39.0	35.0	39.0
12	37.88325	39.0	38.0	39.0	35.0	39.0
13	37.88775	39.0	38.0	39.0	35.0	39.0
14	39.177	40.0	39.0	41.0	36.0	41.0
15	39.281	41.0	39.0	41.0	36.0	41.0
16	39.20025	40.0	39.0	41.0	36.0	41.0
17	39.278	41.0	39.0	41.0	36.0	41.0
18	39.31725	41.0	39.0	41.0	36.0	41.0
19	39.17475	41.0	39.0	41.0	36.0	41.0
20	39.07	40.0	39.0	41.0	35.0	41.0
21	39.03675	40.0	39.0	41.0	35.0	41.0
22	39.23525	41.0	39.0	41.0	36.0	41.0
23	39.24875	41.0	39.0	41.0	36.0	41.0
24	38.407	40.0	38.0	41.0	33.0	41.0
25	38.77025	40.0	38.0	41.0	34.0	41.0
26	38.98525	41.0	39.0	41.0	35.0	41.0
27	38.989	41.0	39.0	41.0	35.0	41.0
28	38.57425	40.0	38.0	41.0	34.0	41.0
29	37.99325	40.0	38.0	41.0	33.0	41.0
30	38.12875	40.0	38.0	41.0	33.0	41.0
31	38.5745	40.0	38.0	41.0	34.0	41.0
32	38.6085	40.0	38.0	41.0	35.0	41.0
33	37.208	40.0	37.0	41.0	31.0	41.0
34	37.1135	40.0	37.0	41.0	30.0	41.0
35	37.34725	39.0	37.0	41.0	31.0	41.0
36	33.67275	38.0	30.0	40.0	19.0	41.0
37	35.86625	38.0	34.0	40.0	30.0	41.0
38	37.0985	39.0	37.0	40.0	32.0	41.0
39	37.23325	39.0	37.0	40.0	32.0	41.0
40	37.11225	39.0	37.0	40.0	32.0	41.0
41	36.946	39.0	36.0	40.0	31.0	41.0
42	36.8205	39.0	36.0	40.0	31.0	41.0
43	37.065	39.0	36.0	41.0	31.0	41.0
44	37.19625	39.0	37.0	41.0	32.0	41.0
45	36.7835	39.0	36.0	40.0	32.0	41.0
46	34.3075	38.0	33.0	40.0	24.0	41.0
47	35.15075	38.0	34.0	40.0	26.0	41.0
48	35.104	38.0	34.0	40.0	28.0	41.0
49	34.514	38.0	34.0	40.0	26.0	41.0
50	30.49875	34.0	28.0	38.0	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
10	1.0
11	0.0
12	0.0
13	0.0
14	1.0
15	0.0
16	3.0
17	3.0
18	1.0
19	4.0
20	4.0
21	6.0
22	8.0
23	7.0
24	13.0
25	9.0
26	21.0
27	21.0
28	43.0
29	34.0
30	50.0
31	86.0
32	102.0
33	118.0
34	155.0
35	208.0
36	303.0
37	512.0
38	1127.0
39	1160.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	12.221387427998998	25.36939644377661	41.9984973703982	20.410718757826196
2	22.125	26.224999999999998	18.675	32.975
3	26.96348174087044	18.384192096048025	20.110055027513756	34.54227113556778
4	32.725	29.525000000000002	15.4	22.35
5	19.950000000000003	45.2	22.575	12.275
6	26.400000000000002	17.150000000000002	42.9	13.55
7	22.075	16.075	21.675	40.175
8	21.45	32.824999999999996	16.425	29.299999999999997
9	25.650000000000002	30.025000000000002	29.2	15.125
10	25.025	17.349999999999998	34.375	23.25
11	33.800000000000004	16.1	13.925	36.175000000000004
12	15.575	22.95	30.425	31.05
13	28.425	21.025	27.925	22.625
14	25.1	35.75	19.725	19.425
15	36.225	24.275	24.65	14.85
16	18.0	20.45	21.725	39.825
17	25.674999999999997	19.8	39.65	14.875
18	24.2	17.224999999999998	36.025	22.55
19	38.675	14.325	30.85	16.150000000000002
20	45.725	18.975	22.45	12.85
21	21.825	22.275	23.5	32.4
22	31.874999999999996	15.15	39.75	13.225000000000001
23	29.775000000000002	14.475	38.224999999999994	17.525
24	46.875	15.65	24.725	12.75
25	45.375	23.825	14.399999999999999	16.400000000000002
26	28.675	38.574999999999996	15.174999999999999	17.575
27	18.475	42.0	23.35	16.175
28	14.875	25.374999999999996	40.625	19.125
29	14.85	13.525	52.7	18.925
30	12.25	10.85	32.2	44.7
31	18.35	8.625	41.449999999999996	31.574999999999996
32	29.9	10.475	23.1	36.525
33	47.225	14.85	14.725	23.200000000000003
34	52.25	10.05	20.349999999999998	17.349999999999998
35	55.974999999999994	9.5	18.925	15.6
36	42.175000000000004	11.025	29.975	16.825000000000003
37	39.300000000000004	12.75	22.7	25.25
38	26.200000000000003	18.3	15.35	40.150000000000006
39	19.725	24.099999999999998	14.2	41.975
40	20.974999999999998	38.7	17.4	22.925
41	26.075	42.225	15.525	16.175
42	44.375	28.975	15.55	11.1
43	46.0	29.45	12.725	11.825
44	32.45	42.6	10.4	14.549999999999999
45	20.75	48.675000000000004	14.575	16.0
46	15.925	30.349999999999998	19.625	34.1
47	13.025	17.125	36.9	32.95
48	16.55413853463366	15.178794698674668	23.330832708177045	44.93623405851463
49	18.875	18.65	16.25	46.225
50	20.155038759689923	30.657664416104026	17.65441360340085	31.532883220805203
>>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	0.5
10	1.0
11	0.5
12	0.0
13	0.5
14	1.0
15	0.5
16	0.0
17	0.0
18	0.0
19	0.0
20	0.0
21	0.0
22	0.0
23	0.0
24	0.0
25	0.5
26	1.0
27	2.0
28	3.0
29	4.0
30	5.0
31	19.5
32	34.0
33	34.0
34	34.0
35	42.5
36	51.0
37	82.0
38	113.0
39	97.5
40	82.0
41	70.5
42	59.0
43	102.5
44	146.0
45	190.5
46	235.0
47	267.0
48	299.0
49	369.5
50	440.0
51	591.5
52	743.0
53	595.0
54	447.0
55	492.5
56	538.0
57	413.0
58	288.0
59	190.0
60	92.0
61	81.0
62	70.0
63	113.5
64	157.0
65	100.0
66	43.0
67	31.0
68	19.0
69	23.5
70	28.0
71	35.5
72	43.0
73	27.5
74	12.0
75	6.5
76	1.0
77	3.0
78	5.0
79	5.5
80	6.0
81	3.5
82	1.0
83	2.0
84	3.0
85	1.5
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	0.17500000000000002
2	0.0
3	0.05
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	0.025
49	0.0
50	0.025
>>END_MODULE
>>Sequence Length Distribution	pass
#Length	Count
50	4000.0
>>END_MODULE
>>Sequence Duplication Levels	fail
#Total Deduplicated Percentage	40.025
#Duplication Level	Percentage of deduplicated	Percentage of total
1	77.45159275452842	31.0
2	7.8700811992504685	6.3
3	4.4347282948157405	5.325
4	2.12367270455965	3.4000000000000004
5	1.8738288569643973	3.75
6	0.3747657713928795	0.8999999999999999
7	0.9369144284821986	2.625
8	0.8119925046845722	2.6
9	0.18738288569643974	0.675
>10	3.3104309806371015	22.325
>50	0.49968769519050593	15.15
>100	0.12492192379762648	5.949999999999999
>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
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA	135	3.375	RNA PCR Primer, Index 1 (100% over 28bp)
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGTGCCAAGGAACTCCA	103	2.5749999999999997	RNA PCR Primer, Index 1 (100% over 28bp)
AACATTCAACGCTGTCGGTGAGTTGGAATTCTCGGGTGCCAAGGAACTCC	100	2.5	RNA PCR Primer, Index 1 (100% over 27bp)
TCGGATCCGTCTGAGCTTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGT	98	2.45	RNA PCR Primer, Index 1 (100% over 30bp)
CGCGACCTCAGATCAGACGTGGCGACCCGCTGATGGAATTCTCGGGTGCC	90	2.25	No Hit
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA	78	1.95	RNA PCR Primer, Index 1 (100% over 28bp)
TCGGATCCGTCTGAGCTTGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	64	1.6	RNA PCR Primer, Index 1 (100% over 29bp)
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	64	1.6	RNA PCR Primer, Index 1 (100% over 28bp)
ACAAATGATGAACCTTTTGACGGGCGGACAGAAACTCTGTGCTGAATGTC	61	1.525	No Hit
CAACGGAATCCCAAAAGCAGCTGTGGAATTCTCGGGTGCCAAGGAACTCC	51	1.275	RNA PCR Primer, Index 1 (100% over 27bp)
GTTAGTACTTGGATGGGAGACCGCCTGGGAATACCGGGTGCTGTAGGCTT	36	0.8999999999999999	No Hit
CACCCTGATGAACTGAATACCGCCCCAGTCTGATAGCTGTGGAGAAAGGT	35	0.8750000000000001	No Hit
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGGGCCAAGGAACTCCA	34	0.8500000000000001	RNA PCR Primer, Index 1 (96% over 28bp)
TCGGATCCGTCTGAGCTTGGCTTTGGAATTCTCGGGTGCCAAGGAACTCC	33	0.8250000000000001	RNA PCR Primer, Index 1 (100% over 27bp)
CACAAATGATGAACCTTTTGACGGGCGGACAGAAACTCTGTGCTGAATGT	31	0.775	No Hit
TCTTTGGTTATCTAGCTGTATGATGGAATTCTCGGGTGCCAAGGAACTCC	29	0.7250000000000001	RNA PCR Primer, Index 1 (100% over 27bp)
TCCCTGAGACCCTTTAACCTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	27	0.675	RNA PCR Primer, Index 1 (100% over 28bp)
CATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTTGGAATTC	26	0.65	No Hit
TCGGATCCGTCTGAGCTTGGCTATTGGAATTCTCGGGTGCCAAGGAACTC	23	0.575	RNA PCR Primer, Index 1 (100% over 26bp)
GTAAATGATGAGATTCCATTGGTCCGTGTTTCTGAACTACATGATTTTCC	22	0.5499999999999999	No Hit
GGTCCATGATGAAACCCATTATCAGTGGACATCTATGGATGAGAAATGCG	21	0.525	No Hit
TTTGAACCATCACTCGACTCCTTGGAATTCTCGGGTGCCAAGGAACTCCA	21	0.525	RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCTCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	21	0.525	RNA PCR Primer, Index 1 (100% over 26bp)
TGTAAACATCCCCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	20	0.5	RNA PCR Primer, Index 1 (100% over 26bp)
AGCCCATGATGGTATGAGAGTAGTGGACAGAAGGGATTTCTGAAAAACAC	19	0.475	No Hit
CATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTGGAATTCT	19	0.475	No Hit
TAGCAGCACGTAAATATTGGCGTGGAATTCTCGGGTGCCAAGGAACTCCA	18	0.44999999999999996	RNA PCR Primer, Index 1 (100% over 28bp)
AGCTGGTGTTGTGAATCAGGCCGTGGAATTCTCGGGTGCCAAGGAACTCC	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 27bp)
TCACAGTGAACCGGTCTCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 29bp)
CTTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTG	17	0.42500000000000004	No Hit
GTGAAATGATGGCAAATCATCTTTCGGGACTGACCTGAAATGAAGAGAAT	17	0.42500000000000004	No Hit
TTCACAGTGGCTAAGTTCTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT	15	0.375	RNA PCR Primer, Index 1 (100% over 30bp)
ACATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTTGGAATT	15	0.375	No Hit
TTGCTGTGATGACTATCTTAGGACACCTTTGGATTAACCGTGAAATCAAA	15	0.375	No Hit
CACCCGTAGAACCGACCTTGCGTGGAATTCTCGGGTGCCAAGGAACTCCA	15	0.375	RNA PCR Primer, Index 1 (100% over 28bp)
GCGGATGATGACACCTGGGTATGCTGCACACTCCCGACTGCGTCGTGGGG	14	0.35000000000000003	No Hit
TTGCAATGATGACTTATATATCTGTCAATCCCCTGAGAGATCACTGACGA	14	0.35000000000000003	No Hit
TTCAAGTAATCCAGGATAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 29bp)
GTCCATGATGAAACCCATTATCAGTGGACATCTATGGATGAGAAATGCGG	14	0.35000000000000003	No Hit
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGGGCCAAGGAACTCCA	13	0.325	RNA PCR Primer, Index 1 (96% over 28bp)
TGCTGTGATGAGATGACTAAGTAGGAAGTGCCGTCAGAGTCGATAACTGA	13	0.325	No Hit
AACATTCAACGCTGTCGGTGATGGAATTCTCGGGTGCCAAGGAACTCCAG	13	0.325	RNA PCR Primer, Index 1 (100% over 29bp)
ATATATGATGACTTTCATAGAATCTCGTTCGGCTGATGATTGCTGTTGAG	13	0.325	No Hit
ATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTTGGAATTCT	13	0.325	No Hit
TCGGATCCGTCTGAGCTTGGCATTGGAATTCTCGGGTGCCAAGGAACTCC	13	0.325	RNA PCR Primer, Index 1 (100% over 27bp)
TCGGATCCGTCTGAGCTTGGATGGAATTCTCGGGTGCCAAGGAACTCCAG	13	0.325	RNA PCR Primer, Index 1 (100% over 29bp)
AATATAACACAGATGGCCTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	12	0.3	RNA PCR Primer, Index 1 (100% over 29bp)
CGCGACCTCAGATCAGACGTGGCGACCCGCTGAATTTAAGCATATTATGG	12	0.3	No Hit
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGGGCCAAGGAACTCCA	12	0.3	RNA PCR Primer, Index 1 (96% over 28bp)
TGAGGTAGTAGATTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 28bp)
ACTTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTT	11	0.27499999999999997	No Hit
TCGGATCCGTCTGAGCTTGGCTATGGAATTCTCGGGTGCCAAGGAACTCC	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 27bp)
TGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCA	11	0.27499999999999997	RNA PCR Primer, Index 7 (100% over 35bp)
ACTAATCCTAGCCCTAGCCCTACACAAATATAATTATACTATTATATGGA	11	0.27499999999999997	No Hit
CGCGACCTCAGATCAGATGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 33bp)
TGAGGTAGTAGGTTGTATGGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCCCGACTGGAAGCTGGAATTCTCGGGTGCCAAGGAACTCC	10	0.25	RNA PCR Primer, Index 1 (100% over 27bp)
TGTAAACATCCTACACTCTCAGCTTGGAATTCTCGGGTGCCAAGGAACTC	10	0.25	RNA PCR Primer, Index 1 (100% over 26bp)
AGCTACATCTGGCTACTGGGTCTCTGGAATTCTCGGGTGCCAAGGAACTC	10	0.25	RNA PCR Primer, Index 1 (100% over 26bp)
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGGGCCAAGGAACTCCA	10	0.25	RNA PCR Primer, Index 1 (96% over 28bp)
AGCAGCATTGTACAGGGCTATGATGGAATTCTCGGGTGCCAAGGAACTCC	10	0.25	RNA PCR Primer, Index 1 (100% over 27bp)
ATACATGATGATCTCACACAACTTGAACTCTCTCACTGATTACTTGATGA	10	0.25	No Hit
TCGGATCCGTCTGAGCTTGGCATGGAATTCTCGGGTGCCAAGGAACTCCA	10	0.25	RNA PCR Primer, Index 1 (100% over 28bp)
TCTTAGATCGATGTGGTGCTCCGGAGTTCTCTTCGGGCCAGGGCCTAAGC	9	0.22499999999999998	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGCCTGGAATTCTCGGGTG	9	0.22499999999999998	No Hit
TCGGATCCGTCTGAGCTTGGCTTTTGGAATTCTCGGGTGCCAAGGAACTC	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 26bp)
TCCCTGAGACCCTAACTTGTGATGGAATTCTCGGGTGCCAAGGAACTCCA	8	0.2	RNA PCR Primer, Index 1 (100% over 28bp)
GGTTAATTCCGATAACGAACGAGACTCTGGCATGCTAACTAGTTACGCGA	8	0.2	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTTGGAATTCTCGGGTGCCA	8	0.2	No Hit
ACTAATCCTAGCCCTAGCCCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
TCACAGTGAACCGGTCTCTTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	8	0.2	RNA PCR Primer, Index 1 (100% over 28bp)
TGAGGTAGTAGTTTGTGCTGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	8	0.2	RNA PCR Primer, Index 1 (100% over 28bp)
CTGCAGTGATGACTATCTTAGGACACCTTTGGATTTACCGTGAAAAGAAG	8	0.2	No Hit
CACATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTGGAATT	8	0.2	No Hit
TGTAAACATCCTCGACTGGATGGAATTCTCGGGTGCCAAGGAACTCCAGT	8	0.2	RNA PCR Primer, Index 1 (100% over 30bp)
TGAAATGATGGCAAATCATCTTTCGGGACTGACCTGAAATGAAGAGAATA	8	0.2	No Hit
TCGGATCCGTCTGAGCTTGGTGGAATTCTCGGGGGCCAAGGAACTCCAGT	8	0.2	RNA PCR Primer, Index 1 (96% over 30bp)
CCGCGACCTCAGATCAGACGTGGCGACCCGCTGATGGAATTCTCGGGTGC	8	0.2	No Hit
ACATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTGGAATTC	8	0.2	No Hit
CCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 33bp)
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCATGGCATCTCGTATGC	7	0.17500000000000002	RNA PCR Primer, Index 34 (100% over 50bp)
TGAACTGATGATATCATTTCTTTCCCCGTCAGATCGACCCTGTTGATCTC	7	0.17500000000000002	No Hit
TAGCACCATCTGAAATCGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
TGGGGGGCCCAAGTCCTTCTGATCGAGGCCCTGGAATTCTCGGGTGCCAA	7	0.17500000000000002	No Hit
CACCCGTAGAACCGACCTTGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGGTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCCCGACTGGATGGAATTCTCGGGTGCCAAGGAACTCCAGT	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 30bp)
AGCTGGTGTTGTGAATCAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
AACATTCATTGCTGTCGGTGGGTGGAATTCTCGGGTGCCAAGGAACTCCA	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 28bp)
ACTAATCCTAGCCCTAGCCCTACACAAATATAATTATACTATTATTGGAA	7	0.17500000000000002	No Hit
TGTAAACATCCTTGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 26bp)
TCACCCTGATGAACTGAATACCGCCCCAGTCTGATAGCTGTGGAGAAAGG	7	0.17500000000000002	No Hit
CTTAATGATGATTGTCTGTTTGATTGCTTGATGCAATGTGAAAACCACAT	7	0.17500000000000002	No Hit
TGAGATGAAGCACTGTAGCTCTTGGAATTCTCGGGTGCCAAGGAACTCCA	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 28bp)
TATTGCACTCGTCCCGGCCTCCTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
GCATGTGATGACATTATTTAGCGACCAAAGTCTGATAAAGATGATTGTGA	6	0.15	No Hit
AGCGCACGGGGTCGGCGGCGATGTCGGCTGGAATTCTCGGGTGCCAAGGA	6	0.15	RNA PCR Primer, Index 1 (100% over 22bp)
AGTCTATGATGATCCTATCCCGAACCTGAATTCCTGTTGAAAAACCATAC	6	0.15	No Hit
CTCGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTTGGAA	6	0.15	No Hit
GCACGGGGTCGGCGGCGATGTCGGCTGGAATTCTCGGGTGCCAAGGAACT	6	0.15	RNA PCR Primer, Index 1 (100% over 25bp)
CAACGGAATCCCAAAAGCAGCTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TAGTAGACCGTATAGCGTACGTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
ATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTGGAATTCTC	5	0.125	No Hit
TATTGCACTCGTCCCGGCCTCTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
GCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTGGAA	5	0.125	No Hit
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGGGCCAAGGAACTCCG	5	0.125	RNA PCR Primer, Index 1 (96% over 27bp)
ATCGATGTGGTGCTCCGGAGTTCTCTTCGGGCCAGGGCCTAAGCCGCGCC	5	0.125	No Hit
TTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTGG	5	0.125	No Hit
TCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCC	5	0.125	No Hit
ACTAATCCTAGCCCTAGCCCTACACAAATATAATTATACTATTATGGAAT	5	0.125	No Hit
TTTGAACCATCACTCGACTCCTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCCCGACTGGAATGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
AACATTCAACGCTGTCGGTGAGATGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
CAGGACGGTGGCCATGGAAGTCGGAATCCGCTAAGGAGTGTGTAACAACT	5	0.125	No Hit
GGCTGGTCCGAAGGTAGTGAGTTATCTCAATTTGGAATTCTCGGGTGCCA	5	0.125	No Hit
CGCCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	5	0.125	RNA PCR Primer, Index 1 (100% over 31bp)
CGCACGGGGTCGGCGGCGATGTCGGCTGGAATTCTCGGGTGCCAAGGAAC	5	0.125	RNA PCR Primer, Index 1 (100% over 24bp)
GCCCATGATGGTATGAGAGTAGTGGACAGAAGGGATTTCTGAAAAACACT	5	0.125	No Hit
ACTAATCCTAGCCCTAGCCCTACATGGAATTCTCGGGTGCCAAGGAACTC	5	0.125	RNA PCR Primer, Index 1 (100% over 26bp)
CACATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTTGGAAT	5	0.125	No Hit
TTTCTATGATGAATCAAACTAGCTCACTATGACTGCTAATGAAAACACAG	5	0.125	No Hit
TGAGATGAAGCACTGTAGCTCTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTTTAACCTGTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCTCGACTGGAATGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
CGCGGATGATGACACCTGGGTATGCTGCACACTCCCGACTGCGTCGTGGG	5	0.125	No Hit
TGAGGTAGTAGTTTGTGCTGTTATGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
GTCTATGATGATCCTATCCCGAACCTGAATTCCTGTTGAAAAACCATAAT	5	0.125	No Hit
GTCTATGATGATCCTATCCCGAACCTGAATTCCTGTTGAAAAACCATACT	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	0.2	0.0	0.0	0.0
2	0.0	0.225	0.0	0.0	0.0
3	0.0	0.275	0.0	0.0	0.0
4	0.0	0.275	0.0	0.0	0.0
5	0.0	0.3	0.0	0.0	0.0
6	0.0	0.35	0.0	0.0	0.0
7	0.0	0.375	0.0	0.0	0.0
8	0.0	0.5	0.0	0.0	0.0
9	0.0	0.575	0.0	0.0	0.0
10	0.0	0.65	0.0	0.0	0.0
11	0.0	0.675	0.0	0.0	0.0
12	0.0	0.825	0.0	0.0	0.0
13	0.0	0.825	0.0	0.0	0.0
14	0.0	1.025	0.0	0.0	0.0
15	0.0	1.25	0.0	0.0	0.0
16	0.0	1.7	0.0	0.0	0.0
17	0.0	2.025	0.0	0.0	0.0
18	0.0	2.75	0.0	0.0	0.0
19	0.0	3.175	0.0	0.0	0.0
20	0.0	3.625	0.0	0.0	0.0
21	0.0	9.125	0.0	0.0	0.0
22	0.0	17.4	0.0	0.0	0.0
23	0.0	39.575	0.0	0.0	0.0
24	0.0	50.95	0.0	0.0	0.0
25	0.0	55.025	0.0	0.0	0.0
26	0.0	56.15	0.0	0.0	0.0
27	0.0	56.775	0.0	0.0	0.0
28	0.0	57.575	0.0	0.0	0.0
29	0.0	58.075	0.0	0.0	0.0
30	0.0	58.475	0.0	0.0	0.0
31	0.0	59.0	0.0	0.0	0.0
32	0.0	59.725	0.0	0.0	0.0
33	0.0	61.0	0.0	0.0	0.0
34	0.0	64.575	0.0	0.0	0.0
35	0.0	65.8	0.0	0.0	0.0
36	0.0	66.825	0.0	0.0	0.0
37	0.0	67.8	0.0	0.0	0.0
38	0.0	68.525	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
GGTGAGT	20	6.952051E-4	44.000004	17
CTGAGCT	45	2.728484E-10	44.000004	11
GAGCTTG	45	2.728484E-10	44.000004	13
GGATCCG	45	2.728484E-10	44.000004	3
CCGTCTG	45	2.728484E-10	44.000004	7
TCGGATC	45	2.728484E-10	44.000004	1
CGGATCC	45	2.728484E-10	44.000004	2
GATCCGT	45	2.728484E-10	44.000004	4
GCTTGGC	40	5.315087E-9	44.000004	15
TCCGTCT	45	2.728484E-10	44.000004	6
ATCCGTC	45	2.728484E-10	44.000004	5
TGAGCTT	45	2.728484E-10	44.000004	12
CGTCTGA	45	2.728484E-10	44.000004	8
AACGCTG	30	1.9515464E-6	44.0	8
ACGCTGT	30	1.9515464E-6	44.0	9
TTCAACG	30	1.9515464E-6	44.0	5
CATTCAA	30	1.9515464E-6	44.0	3
TCAACGC	30	1.9515464E-6	44.0	6
ACATTCA	35	1.02281774E-7	44.0	2
CTTGGCT	30	1.9515464E-6	44.0	16
>>END_MODULE
Read 190106 spots for SRR5030895.sra
Written 190106 spots for SRR5030895.sra
Read 190106 spots for SRR5030895.sra
Written 190106 spots for SRR5030895.sra
Read 190106 spots for SRR5030895.sra
Written 190106 spots for SRR5030895.sra
Read 190106 spots for SRR5030895.sra
Written 190106 spots for SRR5030895.sra
Read 190106 spots for SRR5030895.sra
Written 190106 spots for SRR5030895.sra
Read 190106 spots for SRR5030895.sra
Written 190106 spots for SRR5030895.sra
Read 190106 spots for SRR5030895.sra
Written 190106 spots for SRR5030895.sra
Read 190106 spots for SRR5030895.sra
Written 190106 spots for SRR5030895.sra
Read 190106 spots for SRR5030895.sra
Written 190106 spots for SRR5030895.sra
Read 190106 spots for SRR5030895.sra
Written 190106 spots for SRR5030895.sra
Read 190106 spots for SRR5030895.sra
Written 190106 spots for SRR5030895.sra
Read 190106 spots for SRR5030895.sra
Written 190106 spots for SRR5030895.sra
SRR ids: ['SRR5030895.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_78a1zb6r
SRR5030895.sra spots: 2281272
blocks: [[1, 190106], [190107, 380212], [380213, 570318], [570319, 760424], [760425, 950530], [950531, 1140636], [1140637, 1330742], [1330743, 1520848], [1520849, 1710954], [1710955, 1901060], [1901061, 2091166], [2091167, 2281272]]
SRR5030895 file size 394315
SRR5030895 completed basic pipeline successfully
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	skewer -l 18 -q 10 -k inf -t 12 -o SRR5030895 SRR5030895_1.fastq
Input file:	SRR5030895_1.fastq
trimmed:	SRR5030895-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 06:38:57 2020 >> started

Wed Mar  4 06:38:58 2020 >> done (1.527s)
2281272 reads processed; of these:
    146 ( 0.01%) short reads filtered out after trimming by size control
      7 ( 0.00%) empty reads filtered out after trimming by size control
2281119 (99.99%) reads available; of these:
 185500 ( 8.13%) trimmed reads available after processing
2095619 (91.87%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	     34	  0.00%
 19	     50	  0.00%
 20	    162	  0.01%
 21	    153	  0.01%
 22	    270	  0.01%
 23	    308	  0.01%
 24	    405	  0.02%
 25	    439	  0.02%
 26	    427	  0.02%
 27	    592	  0.03%
 28	    639	  0.03%
 29	   1017	  0.04%
 30	    749	  0.03%
 31	    911	  0.04%
 32	   1162	  0.05%
 33	   2040	  0.09%
 34	   4402	  0.19%
 35	   2712	  0.12%
 36	   2097	  0.09%
 37	   2044	  0.09%
 38	   3024	  0.13%
 39	   3019	  0.13%
 40	   4725	  0.21%
 41	   3653	  0.16%
 42	   6251	  0.27%
 43	   5134	  0.23%
 44	  11896	  0.52%
 45	  13655	  0.60%
 46	  13327	  0.58%
 47	  15868	  0.70%
 48	  32794	  1.44%
 49	  51541	  2.26%
 50	2095619	 91.87%
2281119 reads passed initial QC


criterion=sequence-density
sequence-density=69.15
sequence-density-rank=1
fanout-score=22.16
fanout-score-rank=2
prefix-density=72.33
prefix-fanout=21.2
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCATGGCATCTCGTATGCC


criterion=fanout-score
sequence-density=2.31
sequence-density-rank=3
fanout-score=105.47
fanout-score-rank=1
prefix-density=71.48
prefix-fanout=3.4
sequence=GAATTCTCGGGGGCCAAGGAACT
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 TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCATGGCATCTCGTATGCC -o SRR5030895 -
Input file:	STDIN
trimmed:	SRR5030895-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCATGGCATCTCGTATGCC
-- 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 06:39:15 2020 >> started

Wed Mar  4 06:39:18 2020 >> done (2.951s)
2215944 reads processed; of these:
  55659 ( 2.51%) short reads filtered out after trimming by size control
   3933 ( 0.18%) empty reads filtered out after trimming by size control
2156352 (97.31%) reads available; of these:
1746572 (81.00%) trimmed reads available after processing
 409780 (19.00%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  10820	  0.50%
 19	  15247	  0.71%
 20	 116496	  5.40%
 21	 192418	  8.92%
 22	 522497	 24.23%
 23	 257625	 11.95%
 24	  95914	  4.45%
 25	  29061	  1.35%
 26	  16392	  0.76%
 27	  13004	  0.60%
 28	  15068	  0.70%
 29	  10778	  0.50%
 30	  16764	  0.78%
 31	  21251	  0.99%
 32	  22711	  1.05%
 33	  81817	  3.79%
 34	  24947	  1.16%
 35	  22157	  1.03%
 36	  23453	  1.09%
 37	  12783	  0.59%
 38	  15209	  0.71%
 39	  15879	  0.74%
 40	  26754	  1.24%
 41	  37504	  1.74%
 42	  42540	  1.97%
 43	  28925	  1.34%
 44	  20274	  0.94%
 45	  24621	  1.14%
 46	  22164	  1.03%
 47	  17601	  0.82%
 48	   5041	  0.23%
 49	  14456	  0.67%
 50	 364181	 16.89%


criterion=sequence-density
sequence-density=7.52
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=9
prefix-density=0.00
prefix-fanout=1.0
sequence=AACATTCAACGCTGTCGGTGAGTTTT


criterion=fanout-score
sequence-density=0.51
sequence-density-rank=24
fanout-score=25.76
fanout-score-rank=1
prefix-density=13.17
prefix-fanout=1.0
sequence=CTGAGCTTGGCATT
                                 Started job on |	Mar 04 06:39:43
                             Started mapping on |	Mar 04 06:39:43
                                    Finished on |	Mar 04 06:40:09
       Mapping speed, Million of reads per hour |	307.60

                          Number of input reads |	2221527
                      Average input read length |	31
                                    UNIQUE READS:
                   Uniquely mapped reads number |	1259867
                        Uniquely mapped reads % |	56.71%
                          Average mapped length |	30.33
                       Number of splices: Total |	1127
            Number of splices: Annotated (sjdb) |	279
                       Number of splices: GT/AG |	1023
                       Number of splices: GC/AG |	15
                       Number of splices: AT/AC |	1
               Number of splices: Non-canonical |	88
                      Mismatch rate per base, % |	0.25%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.46
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.06
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	595319
             % of reads mapped to multiple loci |	26.80%
        Number of reads mapped to too many loci |	58915
             % of reads mapped to too many loci |	2.65%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	13.47%
                     % of reads unmapped: other |	0.37%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	366341	366341	366341
N_multimapping	595319	595319	595319
N_noFeature	65284	87514	832802
N_ambiguous	725852	365557	22976
UnstrandedReadsAssigned:468731 PositiveStrandReadsAssigned:806796 NegativeStrandReadsAssigned:404089
Dataset is classified unstranded
MeadianReadLen=23 20thPercentileLength=22 echo kmer=19
SRR5030895 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: SRR5030895-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 2,221,527 reads, 596,974 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 1,105 rounds

 109283 SRR5030895.ke.tsv
  52636 SRR5030895.se.tsv
 161919 total
==> SRR5030895.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

==> SRR5030895.se.tsv <==
ENSMUSG00000102693	0
ENSMUSG00000064842	0
ENSMUSG00000051951	1
ENSMUSG00000102851	0
ENSMUSG00000103377	0
ENSMUSG00000104017	0
ENSMUSG00000103025	0
ENSMUSG00000089699	0
ENSMUSG00000103201	0
ENSMUSG00000103147	0
SRR5030895 completed mapping pipeline successfully
