Starting /dee2/code/volunteer_pipeline.sh SRR5030950
    current disk space = 160608321536
    free memory = 56711600 
SRR5030950 SRAfilesize
3bde2c9113a60360df635b27d0a05294  SRR5030950.sra
SRR5030950.sra file validated
SRR5030950 is single end
SRR5030950 is conventional basespace
SRR5030950 read1 length is 50 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR5030950_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	32.47425	34.0	31.0	34.0	31.0	34.0
2	32.705	34.0	31.0	34.0	31.0	34.0
3	32.90025	34.0	31.0	34.0	31.0	34.0
4	36.2475	37.0	37.0	37.0	35.0	37.0
5	36.31575	37.0	37.0	37.0	35.0	37.0
6	36.18175	37.0	37.0	37.0	35.0	37.0
7	36.0655	37.0	35.0	37.0	35.0	37.0
8	36.1725	37.0	36.0	37.0	35.0	37.0
9	38.00575	39.0	38.0	39.0	35.0	39.0
10	38.04875	39.0	39.0	39.0	35.0	39.0
11	37.822	39.0	38.0	39.0	35.0	39.0
12	37.9035	39.0	38.0	39.0	35.0	39.0
13	37.91425	39.0	38.0	39.0	35.0	39.0
14	39.32875	41.0	39.0	41.0	36.0	41.0
15	39.2105	41.0	39.0	41.0	36.0	41.0
16	39.1495	40.0	39.0	41.0	36.0	41.0
17	39.364	41.0	39.0	41.0	36.0	41.0
18	39.27175	41.0	39.0	41.0	36.0	41.0
19	39.08975	41.0	39.0	41.0	36.0	41.0
20	39.1465	41.0	39.0	41.0	36.0	41.0
21	39.2085	41.0	39.0	41.0	36.0	41.0
22	39.16025	41.0	39.0	41.0	36.0	41.0
23	39.0245	40.0	39.0	41.0	35.0	41.0
24	38.77625	40.0	38.0	41.0	35.0	41.0
25	39.12025	41.0	39.0	41.0	35.0	41.0
26	39.09975	41.0	39.0	41.0	35.0	41.0
27	39.23425	41.0	39.0	41.0	36.0	41.0
28	38.94825	40.0	39.0	41.0	35.0	41.0
29	38.23	40.0	38.0	41.0	33.0	41.0
30	38.46325	40.0	38.0	41.0	34.0	41.0
31	38.70125	40.0	38.0	41.0	34.0	41.0
32	38.9175	40.0	39.0	41.0	35.0	41.0
33	38.05075	40.0	38.0	41.0	33.0	41.0
34	38.25125	40.0	38.0	41.0	33.0	41.0
35	37.95675	40.0	38.0	41.0	33.0	41.0
36	34.44075	38.0	31.0	40.0	23.0	41.0
37	35.65125	38.0	34.0	40.0	29.0	41.0
38	37.17475	39.0	37.0	40.0	32.0	41.0
39	37.184	39.0	37.0	40.0	32.0	41.0
40	37.09725	39.0	37.0	41.0	31.0	41.0
41	37.19025	39.0	37.0	41.0	31.0	41.0
42	37.37775	40.0	37.0	41.0	32.0	41.0
43	37.1445	40.0	37.0	41.0	32.0	41.0
44	37.05725	39.0	37.0	41.0	32.0	41.0
45	36.6825	39.0	36.0	40.0	31.0	41.0
46	34.954	38.0	34.0	40.0	26.0	41.0
47	35.61275	39.0	35.0	40.0	28.0	41.0
48	35.79825	39.0	35.0	41.0	28.0	41.0
49	34.7745	38.0	34.0	40.0	27.0	41.0
50	30.45425	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
11	1.0
12	0.0
13	0.0
14	0.0
15	1.0
16	1.0
17	0.0
18	5.0
19	0.0
20	2.0
21	2.0
22	11.0
23	7.0
24	16.0
25	16.0
26	24.0
27	22.0
28	24.0
29	46.0
30	44.0
31	64.0
32	83.0
33	96.0
34	185.0
35	180.0
36	282.0
37	539.0
38	960.0
39	1389.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	10.835835835835836	23.4984984984985	51.051051051051054	14.614614614614615
2	22.05	25.674999999999997	20.3	31.974999999999998
3	25.974999999999998	16.85	21.625	35.55
4	31.175000000000004	30.95	13.925	23.95
5	19.900000000000002	41.975	23.575	14.549999999999999
6	28.675	16.875	41.4	13.05
7	18.625	18.825	23.225	39.324999999999996
8	21.825	31.674999999999997	15.625	30.875000000000004
9	26.1	32.925	28.075	12.9
10	23.474999999999998	18.099999999999998	33.4	25.025
11	28.875	15.625	15.75	39.75
12	14.000000000000002	20.0	34.575	31.424999999999997
13	29.049999999999997	20.474999999999998	28.549999999999997	21.925
14	26.700000000000003	33.7	21.05	18.55
15	37.02777082812109	22.641981486114584	24.518388791593697	15.811858894170626
16	16.45	24.925	21.45	37.175000000000004
17	23.65	21.675	39.574999999999996	15.1
18	22.25	19.3	35.125	23.325000000000003
19	38.074999999999996	15.525	28.549999999999997	17.849999999999998
20	44.375	15.425	25.05	15.15
21	23.35	20.025000000000002	24.875	31.75
22	27.3	14.000000000000002	47.75	10.95
23	26.5	14.274999999999999	44.2	15.024999999999999
24	51.05	15.0	24.775	9.175
25	49.1	24.099999999999998	14.399999999999999	12.4
26	26.38159539884971	47.436859214803704	14.453613403350838	11.727931982995749
27	16.025	47.025	24.5	12.45
28	12.2	24.224999999999998	48.75	14.825
29	10.6	13.200000000000001	56.49999999999999	19.7
30	10.35	8.05	35.5	46.1
31	14.825	7.175	46.775	31.225
32	27.675	7.775	20.825	43.725
33	54.725	9.275	13.8	22.2
34	59.675	8.475000000000001	16.150000000000002	15.7
35	61.95	8.625	18.925	10.5
36	41.65	9.675	34.775	13.900000000000002
37	44.95	10.75	19.775000000000002	24.525
38	22.6	15.9	12.925	48.575
39	16.425	25.275	9.825000000000001	48.475
40	15.9	48.725	11.85	23.525
41	25.775	48.35	9.700000000000001	16.175
42	50.849999999999994	29.299999999999997	10.85	9.0
43	49.3	31.275	9.175	10.25
44	27.675	49.675000000000004	8.674999999999999	13.975000000000001
45	16.75	51.475	12.9	18.875
46	11.975	27.925	18.675	41.425
47	9.175	16.150000000000002	40.2	34.475
48	10.85	14.025000000000002	19.375	55.75
49	13.900000000000002	21.2	13.450000000000001	51.449999999999996
50	19.2	38.35	13.65	28.799999999999997
>>END_MODULE
>>Per sequence GC content	fail
#GC Content	Count
0	0.0
1	0.0
2	0.0
3	0.0
4	0.0
5	0.0
6	0.0
7	0.0
8	0.0
9	0.0
10	0.0
11	0.0
12	0.0
13	0.0
14	0.0
15	0.0
16	0.0
17	0.0
18	0.0
19	0.0
20	0.0
21	0.0
22	0.0
23	0.0
24	0.0
25	0.5
26	1.0
27	1.5
28	2.0
29	3.0
30	4.0
31	12.5
32	21.0
33	27.0
34	33.0
35	46.0
36	59.0
37	58.5
38	58.0
39	64.0
40	70.0
41	62.5
42	55.0
43	88.0
44	121.0
45	159.0
46	197.0
47	339.5
48	482.0
49	556.0
50	630.0
51	681.5
52	733.0
53	575.0
54	417.0
55	470.0
56	523.0
57	411.5
58	300.0
59	190.0
60	80.0
61	61.0
62	42.0
63	69.5
64	97.0
65	64.5
66	32.0
67	20.5
68	9.0
69	10.5
70	12.0
71	13.0
72	14.0
73	9.0
74	4.0
75	2.5
76	1.0
77	1.0
78	1.0
79	0.5
80	0.0
81	1.0
82	2.0
83	1.0
84	0.0
85	0.0
86	0.0
87	0.0
88	0.0
89	0.0
90	0.0
91	0.0
92	0.0
93	0.0
94	0.0
95	0.0
96	0.0
97	0.0
98	0.0
99	0.0
100	0.0
>>END_MODULE
>>Per base N content	pass
#Base	N-Count
1	0.1
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	0.075
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	0.025
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	41.099999999999994
#Duplication Level	Percentage of deduplicated	Percentage of total
1	75.85158150851582	31.175000000000004
2	8.75912408759124	7.199999999999999
3	4.805352798053527	5.925
4	2.980535279805353	4.9
5	1.3990267639902676	2.875
6	1.2773722627737227	3.15
7	0.30413625304136255	0.8750000000000001
8	0.7907542579075426	2.6
9	0.24330900243309003	0.8999999999999999
>10	3.102189781021898	21.85
>50	0.36496350364963503	11.325000000000001
>100	0.12165450121654502	7.225
>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	168	4.2	RNA PCR Primer, Index 1 (100% over 28bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA	121	3.025	RNA PCR Primer, Index 1 (100% over 28bp)
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	91	2.275	RNA PCR Primer, Index 1 (100% over 28bp)
TCGGATCCGTCTGAGCTTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGT	89	2.225	RNA PCR Primer, Index 1 (100% over 30bp)
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGTGCCAAGGAACTCCA	77	1.925	RNA PCR Primer, Index 1 (100% over 28bp)
AACATTCAACGCTGTCGGTGAGTTGGAATTCTCGGGTGCCAAGGAACTCC	74	1.8499999999999999	RNA PCR Primer, Index 1 (100% over 27bp)
TCGGATCCGTCTGAGCTTGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	68	1.7000000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTTTAACCTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	54	1.35	RNA PCR Primer, Index 1 (100% over 28bp)
TTTGAACCATCACTCGACTCCTTGGAATTCTCGGGTGCCAAGGAACTCCA	46	1.15	RNA PCR Primer, Index 1 (100% over 28bp)
CGCGACCTCAGATCAGACGTGGCGACCCGCTGATGGAATTCTCGGGTGCC	43	1.075	No Hit
TGTAAACATCCTACACTCTCAGCTTGGAATTCTCGGGTGCCAAGGAACTC	36	0.8999999999999999	RNA PCR Primer, Index 1 (100% over 26bp)
CAACGGAATCCCAAAAGCAGCTGTGGAATTCTCGGGTGCCAAGGAACTCC	30	0.75	RNA PCR Primer, Index 1 (100% over 27bp)
ACTAATCCTAGCCCTAGCCCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	27	0.675	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGATTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	26	0.65	RNA PCR Primer, Index 1 (100% over 28bp)
TCACAGTGAACCGGTCTCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	23	0.575	RNA PCR Primer, Index 1 (100% over 29bp)
CCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC	22	0.5499999999999999	RNA PCR Primer, Index 1 (100% over 33bp)
GTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAACTAATCTC	22	0.5499999999999999	RNA PCR Primer, Index 29 (100% over 44bp)
TCGGATCCGTCTGAGCTTGGCTTTGGAATTCTCGGGTGCCAAGGAACTCC	22	0.5499999999999999	RNA PCR Primer, Index 1 (100% over 27bp)
TCGGATCCGTCTGAGCTTGGCTATTGGAATTCTCGGGTGCCAAGGAACTC	20	0.5	RNA PCR Primer, Index 1 (100% over 26bp)
TGTAAACATCCCCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	20	0.5	RNA PCR Primer, Index 1 (100% over 26bp)
TTCACAGTGGCTAAGTTCTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT	20	0.5	RNA PCR Primer, Index 1 (100% over 30bp)
TGTAAACATCCTCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	20	0.5	RNA PCR Primer, Index 1 (100% over 26bp)
TCGGATCCGTCTGAGCTTGGCTATGGAATTCTCGGGTGCCAAGGAACTCC	19	0.475	RNA PCR Primer, Index 1 (100% over 27bp)
GCCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA	19	0.475	RNA PCR Primer, Index 1 (100% over 32bp)
AGCTGGTGTTGTGAATCAGGCCGTGGAATTCTCGGGTGCCAAGGAACTCC	18	0.44999999999999996	RNA PCR Primer, Index 1 (100% over 27bp)
TCTTTGGTTATCTAGCTGTATGATGGAATTCTCGGGTGCCAAGGAACTCC	18	0.44999999999999996	RNA PCR Primer, Index 1 (100% over 27bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGGGCCAAGGAACTCCA	16	0.4	RNA PCR Primer, Index 1 (96% over 28bp)
ACAAATGATGAACCTTTTGACGGGCGGACAGAAACTCTGTGCTGAATGTC	16	0.4	No Hit
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAACTAATCTCGTATGC	16	0.4	RNA PCR Primer, Index 29 (100% over 50bp)
TGTAAACATCCTTGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	16	0.4	RNA PCR Primer, Index 1 (100% over 26bp)
TCCCTGAGACCCTAACTTGTGATGGAATTCTCGGGTGCCAAGGAACTCCA	15	0.375	RNA PCR Primer, Index 1 (100% over 28bp)
TATTGCACTCGTCCCGGCCTCCTGGAATTCTCGGGTGCCAAGGAACTCCA	15	0.375	RNA PCR Primer, Index 1 (100% over 28bp)
GTTAGTACTTGGATGGGAGACCGCCTGGGAATACCGGGTGCTGTAGGCTT	15	0.375	No Hit
TACCCTGTAGATCCGAATTTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	15	0.375	RNA PCR Primer, Index 1 (100% over 28bp)
TCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCC	15	0.375	No Hit
TGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCA	15	0.375	RNA PCR Primer, Index 7 (100% over 35bp)
TACCCTGTAGAACCGAATTTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 28bp)
TGCTGTGATGAGATGACTAAGTAGGAAGTGCCGTCAGAGTCGATAACTGA	14	0.35000000000000003	No Hit
AATATAACACAGATGGCCTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 29bp)
AACATTCAACGCTGTCGGTGATGGAATTCTCGGGTGCCAAGGAACTCCAG	13	0.325	RNA PCR Primer, Index 1 (100% over 29bp)
GCGGATGATGACACCTGGGTATGCTGCACACTCCCGACTGCGTCGTGGGG	13	0.325	No Hit
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGGGCCAAGGAACTCCA	13	0.325	RNA PCR Primer, Index 1 (96% over 28bp)
CACCCGTAGAACCGACCTTGCGTGGAATTCTCGGGTGCCAAGGAACTCCA	13	0.325	RNA PCR Primer, Index 1 (100% over 28bp)
TAGCAGCACGTAAATATTGGCGTGGAATTCTCGGGTGCCAAGGAACTCCA	13	0.325	RNA PCR Primer, Index 1 (100% over 28bp)
TCCCTGAGACCCTAACTTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	12	0.3	RNA PCR Primer, Index 1 (100% over 30bp)
TGAACTGATGATATCATTTCTTTCCCCGTCAGATCGACCCTGTTGATCTC	12	0.3	No Hit
CTCGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTTGGAA	12	0.3	No Hit
TGAGGTAGTAGGTTGTATGGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	12	0.3	RNA PCR Primer, Index 1 (100% over 28bp)
CACCCGTAGAACCGACCTTGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 29bp)
TTTGAACCATCACTCGACTCCTGGAATTCTCGGGTGCCAAGGAACTCCAG	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCTCGACTGGATGGAATTCTCGGGTGCCAAGGAACTCCAGT	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 30bp)
TCCCTGAGACCCTTTAACCTGTGATGGAATTCTCGGGTGCCAAGGAACTC	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 26bp)
CATTATTACTTTTGGTACGCGTGGAATTCTCGGGTGCCAAGGAACTCCAG	10	0.25	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGTTTGTGCTGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	10	0.25	RNA PCR Primer, Index 1 (100% over 28bp)
CACCCTGATGAACTGAATACCGCCCCAGTCTGATAGCTGTGGAGAAAGGT	10	0.25	No Hit
TTCACAGTGGCTAAGTTCTGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	10	0.25	RNA PCR Primer, Index 1 (100% over 29bp)
TTCAAGTAATCCAGGATAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	10	0.25	RNA PCR Primer, Index 1 (100% over 29bp)
ACTAATCCTAGCCCTAGCCCTACATGGAATTCTCGGGTGCCAAGGAACTC	10	0.25	RNA PCR Primer, Index 1 (100% over 26bp)
TGAGATGAAGCACTGTAGCTCTTGGAATTCTCGGGTGCCAAGGAACTCCA	10	0.25	RNA PCR Primer, Index 1 (100% over 28bp)
AACATTCATTGCTGTCGGTGGGTTGGAATTCTCGGGTGCCAAGGAACTCC	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 27bp)
TCGAGGAGCTCACAGTCTAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCCCGACTGGAAGCTGGAATTCTCGGGTGCCAAGGAACTCC	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 27bp)
GGGGGGGCCCAAGTCCTTCTGATCGAGGCCCTGGAATTCTCGGGTGCCAA	9	0.22499999999999998	No Hit
CACAAATGATGAACCTTTTGACGGGCGGACAGAAACTCTGTGCTGAATGT	8	0.2	No Hit
TATTGCACTTGTCCCGGCCTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	8	0.2	RNA PCR Primer, Index 1 (100% over 28bp)
TTCCCTTTGTCATCCTATGCCTGTGGAATTCTCGGGTGCCAAGGAACTCC	8	0.2	RNA PCR Primer, Index 1 (100% over 27bp)
TAGCACCATCTGAAATCGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
GACTCTTAGCGGTGGATCACTCGGCTCGTGCGTCGATGAAGAACGCAGCT	8	0.2	No Hit
TGACTTGATGAAAGTACTTTTGAACCCTTTTCCATCTGATGTGGAATTCT	8	0.2	No Hit
ACTAATCCTAGCCCTAGCCCTATGGAATTCTCGGGTGCCAAGGAACTCCA	8	0.2	RNA PCR Primer, Index 1 (100% over 28bp)
TGAGGTAGTAGGTTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
CCCTGAGACCCTAACTTGTGATGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
TTCCCTTTGTCATCCTATGCCTTGGAATTCTCGGGTGCCAAGGAACTCCA	8	0.2	RNA PCR Primer, Index 1 (100% over 28bp)
AACCCGTAGATCCGAACTTGTGTGGAATTCTCGGGTGCCAAGGAACTCCA	8	0.2	RNA PCR Primer, Index 1 (100% over 28bp)
TCTCCCAACCCTTGTACCAGTGTGGAATTCTCGGGTGCCAAGGAACTCCA	8	0.2	RNA PCR Primer, Index 1 (100% over 28bp)
TCGGATCCGTCTGAGCTTGGCATGGAATTCTCGGGTGCCAAGGAACTCCA	8	0.2	RNA PCR Primer, Index 1 (100% over 28bp)
GCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTTGGAATTC	7	0.17500000000000002	No Hit
AAGGGATTCTGATGTTGGTCACACTTGGAATTCTCGGGTGCCAAGGAACT	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 25bp)
CTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACC	7	0.17500000000000002	RNA PCR Primer, Index 2 (100% over 34bp)
CATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTTGGAATTC	7	0.17500000000000002	No Hit
AGCTGGTGTTGTGAATCAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
TCTTTGGTTATCTAGCTGTATTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
CGACTCTTAGCGGTGGATCACTCGGCTCGTGCGTCGATGAAGAACGCAGC	6	0.15	No Hit
TTCAAGTAATCCAGGATAGGCTTTGGAATTCTCGGGTGCCAAGGAACTCC	6	0.15	RNA PCR Primer, Index 1 (100% over 27bp)
TCACAGTGAACCGGTCTCTTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
AAGCCCTTACCCCAAAAAGCATTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
TCCTGTACTGAGCTGCCCCGAGTTGGAATTCTCGGGTGCCAAGGAACTCC	6	0.15	RNA PCR Primer, Index 1 (100% over 27bp)
TGAGATGAAGCACTGTAGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	6	0.15	RNA PCR Primer, Index 1 (100% over 30bp)
TCGGATCCGTCTGAGCTTGGCTTTTGGAATTCTCGGGTGCCAAGGAACTC	6	0.15	RNA PCR Primer, Index 1 (100% over 26bp)
AGCCCATGATGGTATGAGAGTAGTGGACAGAAGGGATTTCTGAAAAACAC	6	0.15	No Hit
TCCAGCATCAGTGATTTTGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
TGGGGGGCCCAAGTCCTTCTGATCGAGGCCCTGGAATTCTCGGGTGCCAA	6	0.15	No Hit
CTAGACTGAGGCTCCTTGAGGATGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
ACCATTCGTAGACGACCTGCTTCTGGAATTCTCGGGTGCCAAGGAACTCC	6	0.15	RNA PCR Primer, Index 1 (100% over 27bp)
GGGGGGCCCAAGTCCTTCTGATCGAGGCCCTGGAATTCTCGGGTGCCAAG	6	0.15	No Hit
TTCAAGTAATTCAGGATAGGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCTACACTCAGCTTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
TGCGGGGCTAGGGCTAACAGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
TTTCTATGATGAATCAAACTAGCTCACTATGACTGCTAATGAAAACACAG	6	0.15	No Hit
AACCCGTAGATCCGAACTTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
AACAATATCCTGGTGCTGAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTAACTTGTGAATGGAATTCTCGGGTGCCAAGGAACTCC	6	0.15	RNA PCR Primer, Index 1 (100% over 27bp)
TCGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTTGGAAT	5	0.125	No Hit
CTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAA	5	0.125	No Hit
TCTTAGATCGATGTGGTGCTCCGGAGTTCTCTTCGGGCCAGGGCCTAAGC	5	0.125	No Hit
ATAAAGCTAGATAACCGAAAGTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
GAAGGATCATTATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAACT	5	0.125	RNA PCR Primer, Index 29 (100% over 38bp)
ACTAATCCTAGCCCTAGCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	5	0.125	RNA PCR Primer, Index 1 (100% over 30bp)
ACATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTTGGAATT	5	0.125	No Hit
ATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTTGGAATTCT	5	0.125	No Hit
CAAAGAATTCTCCTTTTGGGCTTTGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
GGCTGGTCCGAAGGTAGTGAGTTATCTCAATTGGAATTCTCGGGTGCCAA	5	0.125	No Hit
TATGCAAGGGCAAGCTCTCTTCTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
GTAAATGATGAGATTCCATTGGTCCGTGTTTCTGAACTACATGATTTTCC	5	0.125	No Hit
TGAGGTAGTAGGTTGTATGGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGGTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TTGCTGTGATGACTATCTTAGGACACCTTTGGATTAACCGTGAAATCAAA	5	0.125	No Hit
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGGGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (96% over 28bp)
ATACATGATGATCTCACACAACTTGAACTCTCTCACTGATTACTTGATGA	5	0.125	No Hit
TACCCTGTAGAACCGAATTTGTGTGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
ACTAATCCTAGCCCTAGCCCTACACTGGAATTCTCGGGTGCCAAGGAACT	5	0.125	RNA PCR Primer, Index 1 (100% over 25bp)
TGAGATGAAGCACTGTAGCTCTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
GTCTATGATGATCCTATCCCGAACCTGAATTCCTGTTGAAAAACCATAAT	5	0.125	No Hit
AACATTCAACCTGTCGGTGAGTTTGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
GTGAAATGATGGCAAATCATCTTTCGGGACTGACCTGAAATGAAGAGAAT	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	0.5	0.0	0.0	0.0
2	0.0	0.525	0.0	0.0	0.0
3	0.0	0.675	0.0	0.0	0.0
4	0.0	0.725	0.0	0.0	0.0
5	0.0	0.8	0.0	0.0	0.0
6	0.0	0.85	0.0	0.0	0.0
7	0.0	1.55	0.0	0.0	0.0
8	0.0	1.675	0.0	0.0	0.0
9	0.0	1.725	0.0	0.0	0.0
10	0.0	1.85	0.0	0.0	0.0
11	0.0	2.0	0.0	0.0	0.0
12	0.0	2.175	0.0	0.0	0.0
13	0.0	2.575	0.0	0.0	0.0
14	0.0	2.75	0.0	0.0	0.0
15	0.0	3.225	0.0	0.0	0.0
16	0.0	4.075	0.0	0.0	0.0
17	0.0	4.575	0.0	0.0	0.0
18	0.0	5.475	0.0	0.0	0.0
19	0.0	6.325	0.0	0.0	0.0
20	0.0	7.225	0.0	0.0	0.0
21	0.0	12.475	0.0	0.0	0.0
22	0.0	23.8	0.0	0.0	0.0
23	0.0	53.5	0.0	0.0	0.0
24	0.0	65.0	0.0	0.0	0.0
25	0.0	70.575	0.0	0.0	0.0
26	0.0	71.875	0.0	0.0	0.0
27	0.0	72.65	0.0	0.0	0.0
28	0.0	73.45	0.0	0.0	0.0
29	0.0	73.975	0.0	0.0	0.0
30	0.0	74.45	0.0	0.0	0.0
31	0.0	75.075	0.0	0.0	0.0
32	0.0	76.15	0.0	0.0	0.0
33	0.0	76.725	0.0	0.0	0.0
34	0.0	79.0	0.0	0.0	0.0
35	0.0	79.9	0.0	0.0	0.0
36	0.0	80.55	0.0	0.0	0.0
37	0.0	81.1	0.0	0.0	0.0
38	0.0	81.55	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
GCCCTAG	20	6.952051E-4	44.000004	11
GCCCTAC	20	6.952051E-4	44.000004	17
ATCCTAG	20	6.952051E-4	44.000004	5
AATCCTA	20	6.952051E-4	44.000004	4
AAGTAAT	20	6.952051E-4	44.000004	4
TCAAGTA	20	6.952051E-4	44.000004	2
AATCCAG	20	6.952051E-4	44.000004	8
ATCCAGG	20	6.952051E-4	44.000004	9
TCCTAGC	20	6.952051E-4	44.000004	6
TTCAAGT	20	6.952051E-4	44.000004	1
AGGATAG	20	6.952051E-4	44.000004	13
ATAGGCT	20	6.952051E-4	44.000004	16
TCCAGGA	20	6.952051E-4	44.000004	10
GGATAGG	20	6.952051E-4	44.000004	14
AGTAATC	20	6.952051E-4	44.000004	5
CTAATCC	20	6.952051E-4	44.000004	2
GGCTTGG	40	5.315087E-9	44.000004	19
TAATCCT	20	6.952051E-4	44.000004	3
TAATCCA	20	6.952051E-4	44.000004	7
CAGGATA	20	6.952051E-4	44.000004	12
>>END_MODULE
Read 219250 spots for SRR5030950.sra
Written 219250 spots for SRR5030950.sra
Read 219250 spots for SRR5030950.sra
Written 219250 spots for SRR5030950.sra
Read 219250 spots for SRR5030950.sra
Written 219250 spots for SRR5030950.sra
Read 219250 spots for SRR5030950.sra
Written 219250 spots for SRR5030950.sra
Read 219250 spots for SRR5030950.sra
Written 219250 spots for SRR5030950.sra
Read 219250 spots for SRR5030950.sra
Written 219250 spots for SRR5030950.sra
Read 219250 spots for SRR5030950.sra
Written 219250 spots for SRR5030950.sra
Read 219250 spots for SRR5030950.sra
Written 219250 spots for SRR5030950.sra
Read 219250 spots for SRR5030950.sra
Written 219250 spots for SRR5030950.sra
Read 219250 spots for SRR5030950.sra
Written 219250 spots for SRR5030950.sra
Read 219250 spots for SRR5030950.sra
Written 219250 spots for SRR5030950.sra
Read 219260 spots for SRR5030950.sra
Written 219260 spots for SRR5030950.sra
SRR ids: ['SRR5030950.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_wu3o2h_i
SRR5030950.sra spots: 2631010
blocks: [[1, 219250], [219251, 438500], [438501, 657750], [657751, 877000], [877001, 1096250], [1096251, 1315500], [1315501, 1534750], [1534751, 1754000], [1754001, 1973250], [1973251, 2192500], [2192501, 2411750], [2411751, 2631010]]
SRR5030950 file size 454935
SRR5030950 completed basic pipeline successfully
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	skewer -l 18 -q 10 -k inf -t 12 -o SRR5030950 SRR5030950_1.fastq
Input file:	SRR5030950_1.fastq
trimmed:	SRR5030950-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 06:52:28 2020 >> started

Wed Mar  4 06:52:30 2020 >> done (1.771s)
2631010 reads processed; of these:
    114 ( 0.00%) short reads filtered out after trimming by size control
      7 ( 0.00%) empty reads filtered out after trimming by size control
2630889 (100.00%) reads available; of these:
 148505 ( 5.64%) trimmed reads available after processing
2482384 (94.36%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	     33	  0.00%
 19	     53	  0.00%
 20	    104	  0.00%
 21	    122	  0.00%
 22	    225	  0.01%
 23	    266	  0.01%
 24	    304	  0.01%
 25	    396	  0.02%
 26	    337	  0.01%
 27	    482	  0.02%
 28	    631	  0.02%
 29	    937	  0.04%
 30	    634	  0.02%
 31	    815	  0.03%
 32	    757	  0.03%
 33	   1027	  0.04%
 34	   1940	  0.07%
 35	   2147	  0.08%
 36	   1642	  0.06%
 37	   1792	  0.07%
 38	   1925	  0.07%
 39	   2238	  0.09%
 40	   2403	  0.09%
 41	   2959	  0.11%
 42	   3481	  0.13%
 43	   5122	  0.19%
 44	   8480	  0.32%
 45	   9929	  0.38%
 46	   9892	  0.38%
 47	  14902	  0.57%
 48	  31169	  1.18%
 49	  41361	  1.57%
 50	2482384	 94.36%
2630889 reads passed initial QC


criterion=sequence-density
sequence-density=80.07
sequence-density-rank=1
fanout-score=18.87
fanout-score-rank=1
prefix-density=82.02
prefix-fanout=18.4
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAACTAATCTCGTATGCC


criterion=fanout-score
sequence-density=80.07
sequence-density-rank=1
fanout-score=18.87
fanout-score-rank=1
prefix-density=82.02
prefix-fanout=18.4
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAACTAATCTCGTATGCC
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 TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAACTAATCTCGTATGCC -o SRR5030950 -
Input file:	STDIN
trimmed:	SRR5030950-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAACTAATCTCGTATGCC
-- 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 06:52:43 2020 >> started

Wed Mar  4 06:52:47 2020 >> done (4.206s)
2565929 reads processed; of these:
 155146 ( 6.05%) short reads filtered out after trimming by size control
  12067 ( 0.47%) empty reads filtered out after trimming by size control
2398716 (93.48%) reads available; of these:
2120644 (88.41%) trimmed reads available after processing
 278072 (11.59%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  21580	  0.90%
 19	  21162	  0.88%
 20	 146128	  6.09%
 21	 276095	 11.51%
 22	 718176	 29.94%
 23	 287483	 11.98%
 24	 150124	  6.26%
 25	  42420	  1.77%
 26	  20312	  0.85%
 27	  15404	  0.64%
 28	  16853	  0.70%
 29	  12219	  0.51%
 30	  18018	  0.75%
 31	  28333	  1.18%
 32	  23567	  0.98%
 33	  55662	  2.32%
 34	  23038	  0.96%
 35	  18782	  0.78%
 36	  19527	  0.81%
 37	  13907	  0.58%
 38	  14870	  0.62%
 39	  15894	  0.66%
 40	  23268	  0.97%
 41	  27905	  1.16%
 42	  31446	  1.31%
 43	  22287	  0.93%
 44	  18788	  0.78%
 45	  24518	  1.02%
 46	  17583	  0.73%
 47	  13063	  0.54%
 48	   2832	  0.12%
 49	   9953	  0.41%
 50	 247519	 10.32%


criterion=sequence-density
sequence-density=5.49
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=15
prefix-density=0.00
prefix-fanout=1.0
sequence=AACATTCAACGCTGTCGGTGAGTTTT


criterion=fanout-score
sequence-density=0.52
sequence-density-rank=28
fanout-score=18.93
fanout-score-rank=1
prefix-density=9.91
prefix-fanout=1.0
sequence=TGAGCTTGGCTTTT
                                 Started job on |	Mar 04 06:53:08
                             Started mapping on |	Mar 04 06:53:09
                                    Finished on |	Mar 04 06:53:33
       Mapping speed, Million of reads per hour |	369.55

                          Number of input reads |	2463676
                      Average input read length |	28
                                    UNIQUE READS:
                   Uniquely mapped reads number |	1510073
                        Uniquely mapped reads % |	61.29%
                          Average mapped length |	27.32
                       Number of splices: Total |	1116
            Number of splices: Annotated (sjdb) |	189
                       Number of splices: GT/AG |	1031
                       Number of splices: GC/AG |	17
                       Number of splices: AT/AC |	1
               Number of splices: Non-canonical |	67
                      Mismatch rate per base, % |	0.18%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.43
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.03
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	683715
             % of reads mapped to multiple loci |	27.75%
        Number of reads mapped to too many loci |	51350
             % of reads mapped to too many loci |	2.08%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	7.99%
                     % of reads unmapped: other |	0.88%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	269888	269888	269888
N_multimapping	683715	683715	683715
N_noFeature	63907	81827	1016450
N_ambiguous	838269	403314	13338
UnstrandedReadsAssigned:607897 PositiveStrandReadsAssigned:1024932 NegativeStrandReadsAssigned:480285
Dataset is classified unstranded
MeadianReadLen=23 20thPercentileLength=22 echo kmer=19
SRR5030950 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: SRR5030950-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 2,463,676 reads, 683,091 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 1,103 rounds

 109283 SRR5030950.ke.tsv
  52636 SRR5030950.se.tsv
 161919 total
==> SRR5030950.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

==> SRR5030950.se.tsv <==
ENSMUSG00000102693	0
ENSMUSG00000064842	0
ENSMUSG00000051951	0
ENSMUSG00000102851	0
ENSMUSG00000103377	0
ENSMUSG00000104017	0
ENSMUSG00000103025	0
ENSMUSG00000089699	0
ENSMUSG00000103201	0
ENSMUSG00000103147	0
SRR5030950 completed mapping pipeline successfully
