Starting /dee2/code/volunteer_pipeline.sh SRR5030897
    current disk space = 160665845760
    free memory = 73955980 
SRR5030897 SRAfilesize
ff9868fea42bb0b210846d29f344d17b  SRR5030897.sra
SRR5030897.sra file validated
SRR5030897 is single end
SRR5030897 is conventional basespace
SRR5030897 read1 length is 50 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR5030897_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	32.3315	33.0	31.0	34.0	31.0	34.0
2	32.65875	34.0	31.0	34.0	31.0	34.0
3	32.7395	34.0	31.0	34.0	31.0	34.0
4	36.153	37.0	35.0	37.0	35.0	37.0
5	36.13375	37.0	35.0	37.0	35.0	37.0
6	35.9805	37.0	35.0	37.0	35.0	37.0
7	35.99	37.0	35.0	37.0	35.0	37.0
8	36.115	37.0	35.0	37.0	35.0	37.0
9	37.8365	39.0	38.0	39.0	35.0	39.0
10	37.89125	39.0	38.0	39.0	35.0	39.0
11	37.80275	39.0	38.0	39.0	35.0	39.0
12	37.77425	39.0	38.0	39.0	35.0	39.0
13	37.822	39.0	38.0	39.0	35.0	39.0
14	39.2385	41.0	39.0	41.0	36.0	41.0
15	39.22375	41.0	39.0	41.0	36.0	41.0
16	39.14275	40.0	39.0	41.0	36.0	41.0
17	39.2555	40.0	39.0	41.0	36.0	41.0
18	39.187	41.0	39.0	41.0	36.0	41.0
19	39.0815	40.0	39.0	41.0	36.0	41.0
20	39.09875	40.0	39.0	41.0	35.0	41.0
21	39.1795	40.0	39.0	41.0	36.0	41.0
22	39.13925	40.0	39.0	41.0	36.0	41.0
23	39.03725	40.0	39.0	41.0	35.0	41.0
24	38.3375	40.0	38.0	41.0	34.0	41.0
25	38.54325	40.0	38.0	41.0	34.0	41.0
26	38.55575	40.0	38.0	41.0	34.0	41.0
27	38.6215	40.0	38.0	41.0	34.0	41.0
28	38.56575	40.0	38.0	41.0	34.0	41.0
29	38.35575	40.0	38.0	41.0	34.0	41.0
30	38.052	40.0	38.0	41.0	33.0	41.0
31	38.5315	40.0	38.0	41.0	34.0	41.0
32	38.7435	40.0	38.0	41.0	35.0	41.0
33	37.00275	40.0	37.0	41.0	30.0	41.0
34	36.575	40.0	36.0	41.0	30.0	41.0
35	32.8825	38.0	31.0	40.0	15.0	41.0
36	29.70175	37.0	21.0	40.0	8.0	41.0
37	29.859	36.0	23.0	40.0	6.0	41.0
38	32.26725	37.0	30.0	40.0	15.0	41.0
39	31.869	37.0	30.0	40.0	8.0	41.0
40	32.39325	37.0	31.0	40.0	7.0	41.0
41	30.33575	36.0	26.0	40.0	2.0	41.0
42	31.8335	37.0	30.0	40.0	2.0	41.0
43	30.6055	37.0	28.0	40.0	2.0	41.0
44	31.302	37.0	30.0	40.0	2.0	41.0
45	29.49825	37.0	26.0	40.0	2.0	41.0
46	26.99275	34.0	13.0	39.0	2.0	41.0
47	27.037	34.0	14.0	39.0	2.0	41.0
48	27.446	35.0	8.0	39.0	2.0	41.0
49	25.837	34.0	2.0	39.0	2.0	41.0
50	22.4205	29.0	2.0	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
13	1.0
14	1.0
15	0.0
16	1.0
17	0.0
18	4.0
19	3.0
20	8.0
21	13.0
22	19.0
23	28.0
24	49.0
25	72.0
26	100.0
27	152.0
28	84.0
29	102.0
30	147.0
31	180.0
32	151.0
33	185.0
34	225.0
35	250.0
36	345.0
37	482.0
38	642.0
39	756.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	13.284963722792096	24.218163622717036	44.708531398548914	17.788341255941955
2	24.45	26.224999999999998	20.525	28.799999999999997
3	23.875	21.325	20.225	34.575
4	31.0	26.575	15.65	26.775
5	22.6	39.1	25.85	12.45
6	32.05	15.8	35.975	16.175
7	19.275000000000002	20.424999999999997	25.2	35.099999999999994
8	27.425	29.2	16.7	26.674999999999997
9	20.925	34.325	29.575000000000003	15.174999999999999
10	25.2	21.7	29.799999999999997	23.3
11	34.599999999999994	15.275	16.25	33.875
12	18.075	22.425	28.375	31.125000000000004
13	28.449999999999996	20.7	31.95	18.9
14	27.025	30.349999999999998	23.075000000000003	19.55
15	33.324999999999996	24.375	25.5	16.8
16	20.925	20.775	23.400000000000002	34.9
17	23.95	24.025	35.25	16.775000000000002
18	22.75	19.85	32.025	25.374999999999996
19	35.449999999999996	15.875	30.675	18.0
20	39.85	16.85	28.499999999999996	14.799999999999999
21	26.625	19.25	26.3	27.825
22	28.475	13.325000000000001	44.074999999999996	14.124999999999998
23	25.074999999999996	14.774999999999999	43.225	16.925
24	49.6	13.200000000000001	25.15	12.049999999999999
25	47.525	22.8	16.075	13.600000000000001
26	28.675	41.099999999999994	13.900000000000002	16.325
27	18.7	45.175	21.125	15.0
28	14.924999999999999	26.025	42.4	16.650000000000002
29	15.024999999999999	14.6	52.2	18.175
30	12.1	9.45	34.150000000000006	44.3
31	14.499999999999998	8.075000000000001	46.35	31.075000000000003
32	26.950000000000003	7.95	23.075000000000003	42.025
33	47.525	12.375	15.575	24.525
34	54.974999999999994	9.2	16.950000000000003	18.875
35	56.05	9.3	20.375	14.274999999999999
36	60.199999999999996	9.225	17.5	13.075000000000001
37	37.724999999999994	14.025000000000002	22.1	26.150000000000002
38	26.400000000000002	16.400000000000002	14.325	42.875
39	19.45	24.474999999999998	12.825000000000001	43.25
40	16.475	43.325	14.475	25.724999999999998
41	26.150000000000002	42.85	12.225	18.775
42	46.325	27.975	13.350000000000001	12.35
43	44.824999999999996	30.55	11.15	13.475000000000001
44	32.175	44.85	8.625	14.35
45	22.325	46.5	10.975	20.200000000000003
46	15.049999999999999	29.049999999999997	24.775	31.125000000000004
47	13.05	16.85	34.275	35.825
48	13.625000000000002	12.65	22.125	51.6
49	14.499999999999998	23.599999999999998	14.774999999999999	47.125
50	27.875	26.575	11.275	34.275
>>END_MODULE
>>Per sequence GC content	fail
#GC Content	Count
0	0.0
1	0.5
2	1.0
3	0.5
4	0.0
5	0.0
6	0.0
7	0.0
8	0.0
9	0.0
10	0.0
11	0.5
12	1.0
13	0.5
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	1.0
28	2.0
29	2.5
30	3.0
31	5.5
32	8.0
33	19.5
34	31.0
35	43.0
36	55.0
37	82.5
38	110.0
39	91.5
40	73.0
41	67.5
42	62.0
43	88.5
44	115.0
45	170.0
46	225.0
47	267.5
48	310.0
49	377.0
50	444.0
51	596.5
52	749.0
53	603.5
54	458.0
55	444.5
56	431.0
57	397.0
58	363.0
59	258.5
60	154.0
61	120.0
62	86.0
63	127.5
64	169.0
65	108.0
66	47.0
67	30.5
68	14.0
69	16.5
70	19.0
71	35.5
72	52.0
73	28.0
74	4.0
75	5.5
76	7.0
77	5.0
78	3.0
79	3.0
80	3.0
81	2.0
82	1.0
83	0.5
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	0.075
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	52.0
#Duplication Level	Percentage of deduplicated	Percentage of total
1	80.1923076923077	41.699999999999996
2	8.846153846153847	9.2
3	3.2692307692307696	5.1
4	1.4423076923076923	3.0
5	1.201923076923077	3.125
6	0.8653846153846154	2.7
7	0.4807692307692308	1.7500000000000002
8	0.4326923076923077	1.7999999999999998
9	0.4326923076923077	2.025
>10	2.6923076923076925	23.35
>50	0.09615384615384616	3.65
>100	0.04807692307692308	2.6
>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	104	2.6	RNA PCR Primer, Index 1 (100% over 27bp)
CGCGACCTCAGATCAGACGTGGCGACCCGCTGATGGAATTCTCGGGTGCC	92	2.3	No Hit
TCACAGTGAACCGGTCTCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	54	1.35	RNA PCR Primer, Index 1 (100% over 29bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGGGCCAAGGAACTCCA	40	1.0	RNA PCR Primer, Index 1 (96% over 28bp)
CAACGGAATCCCAAAAGCAGCTGTGGAATTCTCGGGTGCCAAGGAACTCC	36	0.8999999999999999	RNA PCR Primer, Index 1 (100% over 27bp)
AGCTGGTGTTGTGAATCAGGCCGTGGAATTCTCGGGTGCCAAGGAACTCC	33	0.8250000000000001	RNA PCR Primer, Index 1 (100% over 27bp)
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGGGCCAAGGAACTCCA	30	0.75	RNA PCR Primer, Index 1 (96% over 28bp)
TCGGATCCGTCTGAGCTTGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	29	0.7250000000000001	RNA PCR Primer, Index 1 (100% over 29bp)
TCGGATCCGTCTGAGCTTGGCTTTGGAATTCTCGGGTGCCAAGGAACTCC	26	0.65	RNA PCR Primer, Index 1 (100% over 27bp)
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	26	0.65	RNA PCR Primer, Index 1 (100% over 28bp)
GTTAGTACTTGGATGGGAGACCGCCTGGGAATACCGGGTGCTGTAGGCTT	24	0.6	No Hit
TCTTTGGTTATCTAGCTGTATGATGGAATTCTCGGGTGCCAAGGAACTCC	24	0.6	RNA PCR Primer, Index 1 (100% over 27bp)
TGTAAACATCCTACACTCTCAGCTTGGAATTCTCGGGTGCCAAGGAACTC	23	0.575	RNA PCR Primer, Index 1 (100% over 26bp)
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGGGCCAAGGAACTCCA	23	0.575	RNA PCR Primer, Index 1 (96% over 28bp)
GTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCACCGGATCTC	23	0.575	RNA PCR Primer, Index 30 (100% over 44bp)
GTAAATGATGAGATTCCATTGGTCCGTGTTTCTGAACTACATGATTTTCC	22	0.5499999999999999	No Hit
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGGGCCAAGGAACTCCA	21	0.525	RNA PCR Primer, Index 1 (96% over 28bp)
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA	18	0.44999999999999996	RNA PCR Primer, Index 1 (100% over 28bp)
CCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 33bp)
TGCTGTGATGAGATGACTAAGTAGGAAGTGCCGTCAGAGTCGATAACTGA	17	0.42500000000000004	No Hit
TGTAAACATCCCCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 26bp)
TCGGATCCGTCTGAGCTTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGT	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 30bp)
AATATAACACAGATGGCCTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 29bp)
TGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCA	16	0.4	RNA PCR Primer, Index 7 (100% over 35bp)
GCGGATGATGACACCTGGGTATGCTGCACACTCCCGACTGCGTCGTGGGG	16	0.4	No Hit
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA	16	0.4	RNA PCR Primer, Index 1 (100% over 28bp)
ACAAATGATGAACCTTTTGACGGGCGGACAGAAACTCTGTGCTGAATGTC	16	0.4	No Hit
TGTAAACATCCTCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	16	0.4	RNA PCR Primer, Index 1 (100% over 26bp)
TCACAGTGAACCGGTCTCTTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	15	0.375	RNA PCR Primer, Index 1 (100% over 28bp)
CACCCGTAGAACCGACCTTGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	15	0.375	RNA PCR Primer, Index 1 (100% over 29bp)
TTTGAACCATCACTCGACTCCTTGGAATTCTCGGGTGCCAAGGAACTCCA	15	0.375	RNA PCR Primer, Index 1 (100% over 28bp)
AGTCTATGATGATCCTATCCCGAACCTGAATTCCTGTTGAAAAACCATAA	14	0.35000000000000003	No Hit
TGAACTGATGATATCATTTCTTTCCCCGTCAGATCGACCCTGTTGATCTC	14	0.35000000000000003	No Hit
GACTCTTAGCGGTGGATCACTCGGCTCGTGCGTCGATGAAGAACGCAGCT	14	0.35000000000000003	No Hit
TGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTGGA	14	0.35000000000000003	No Hit
TCGGATCCGTCTGAGCTTGGCTATTGGAATTCTCGGGTGCCAAGGAACTC	13	0.325	RNA PCR Primer, Index 1 (100% over 26bp)
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCACCGGATCTCGTATGC	13	0.325	RNA PCR Primer, Index 30 (100% over 50bp)
TCCCTGAGACCCTTTAACCTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	13	0.325	RNA PCR Primer, Index 1 (100% over 28bp)
TCCCTGAGACCCTTTAACCTGTGATGGAATTCTCGGGTGCCAAGGAACTC	13	0.325	RNA PCR Primer, Index 1 (100% over 26bp)
TATTGCACTCGTCCCGGCCTCCTGGAATTCTCGGGTGCCAAGGAACTCCA	12	0.3	RNA PCR Primer, Index 1 (100% over 28bp)
TACCATGATGATAACATAGTTCAGCAGACTTAACTCTGATGAACAATCAT	12	0.3	No Hit
TGAGGTAGTAGATTGTATAGTTTGGAATTCTCGGGGGCCAAGGAACTCCA	12	0.3	RNA PCR Primer, Index 1 (96% over 28bp)
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGTGCCAAGGAACTCCA	12	0.3	RNA PCR Primer, Index 1 (100% over 28bp)
GTCCATGATGAAACCCATTATCAGTGGACATCTATGGATGAGAAATGCGG	12	0.3	No Hit
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGGGCCAAGGAACTCCG	11	0.27499999999999997	RNA PCR Primer, Index 1 (96% over 27bp)
TTCAAGTAATCCAGGATAGGCTTTGGAATTCTCGGGTGCCAAGGAACTCC	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 27bp)
ACTTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTT	11	0.27499999999999997	No Hit
TCGGATCCGTCTGAGCTTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGC	11	0.27499999999999997	RNA PCR Primer, Index 1 (96% over 29bp)
TTGCAATGATGACTTATATATCTGTCAATCCCCTGAGAGATCACTGACGA	11	0.27499999999999997	No Hit
AGCAGCATTGTACAGGGCTATGATGGAATTCTCGGGTGCCAAGGAACTCC	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 27bp)
TTGCTGTGATGACTATCTTAGGACACCTTTGGATTAACCGTGAAATCAAA	11	0.27499999999999997	No Hit
ATACATGATGATCTCACACAACTTGAACTCTCTCACTGATTACTTGATGA	11	0.27499999999999997	No Hit
CTTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTG	10	0.25	No Hit
ACTAATCCTAGCCCTAGCCCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	10	0.25	RNA PCR Primer, Index 1 (100% over 29bp)
GCCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA	10	0.25	RNA PCR Primer, Index 1 (100% over 32bp)
CATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTTGGAATTC	10	0.25	No Hit
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGGGCCAAGGAACTCCG	10	0.25	RNA PCR Primer, Index 1 (96% over 27bp)
TTGCTGTGATGACTATCTTAGGACACCTTTGGATTAACCGTGGAATTCTC	10	0.25	No Hit
TGAGGTAGTAGGTTGTATGGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	10	0.25	RNA PCR Primer, Index 1 (100% over 28bp)
GCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTGGAA	9	0.22499999999999998	No Hit
AGTCTATGATGATCCTATCCCGAACCTGAATTCCTGTTGAAAAACCATAC	9	0.22499999999999998	No Hit
ACATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTTGGAATT	9	0.22499999999999998	No Hit
CACCCTGATGAACTGAATACCGCCCCAGTCTGATAGCTGTGGAGAAAGGT	9	0.22499999999999998	No Hit
TCCCTGAGACCCTTTAACCTGTTGGAATTCTCGGGGGCCAAGGAACTCCA	9	0.22499999999999998	RNA PCR Primer, Index 1 (96% over 28bp)
TCTTTGGTTATCTAGCTGTATGTTGGAATTCTCGGGTGCCAAGGAACTCC	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 27bp)
TTCAAGTAATCCAGGATAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGATTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTAACTTGTGAATGGAATTCTCGGGTGCCAAGGAACTCC	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 27bp)
TATTGCACTCGTCCCGGCCTCTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGGGCCAAGGAACTCCG	8	0.2	RNA PCR Primer, Index 1 (96% over 27bp)
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGGGCCAAGGAATTCCA	8	0.2	RNA PCR Primer, Index 1 (95% over 23bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGCCATGGAATTCTCGGGT	8	0.2	No Hit
AACATTCAACGCTGTCGGTGAGTTTGGAATTCTCGGGTGCCAAGGAACTC	8	0.2	RNA PCR Primer, Index 1 (100% over 26bp)
TTTGAACCATCACTCGACTCCTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
TTCACAGTGGCTAAGTTCTGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
ACATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTCCTCCCG	8	0.2	No Hit
GTCTATGATGATCCTATCCCGAACCTGAATTCCTGTTGAAAAACCATACT	8	0.2	No Hit
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGGGCCAAGGAATTCCG	7	0.17500000000000002	RNA PCR Primer, Index 1 (95% over 23bp)
TGAGGTAGTAGATTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 28bp)
AACATTCAACGCTGTCGGTGATGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
CGCGACCTCAGATCAGACGTGGCGACCCGCTGCTGGAATTCTCGGGTGCC	7	0.17500000000000002	No Hit
AGCTACATCTGGCTACTGGGTCTCTGGAATTCTCGGGTGCCAAGGAACTC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 26bp)
AGCCCATGATGGTATGAGAGTAGTGGACAGAAGGGATTTCTGAAAAACAC	7	0.17500000000000002	No Hit
TGAGGTAGTAGGTTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGGGCCAAGGAACTCCG	7	0.17500000000000002	RNA PCR Primer, Index 1 (96% over 27bp)
TGTAAACATCCTTGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 26bp)
TTTGAACCATCACTCGACTCCTTGGAATTCTCGGGGGCCAAGGAACTCCA	7	0.17500000000000002	RNA PCR Primer, Index 1 (96% over 28bp)
GGTCCATGATGAAACCCATTATCAGTGGACATCTATGGATGAGAAATGCG	6	0.15	No Hit
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGGGCCAAGGAATTCCA	6	0.15	RNA PCR Primer, Index 1 (95% over 23bp)
GTCTCTACGGAGACTGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACC	6	0.15	RNA PCR Primer, Index 2 (100% over 34bp)
CGACTCTTAGCGGTGGATCACTCGGCTCGTGCGTCGATGAAGAACGCAGC	6	0.15	No Hit
CACAAATGATGAACCTTTTGACGGGCGGACAGAAACTCTGTGCTGAATGT	6	0.15	No Hit
TCGAGGAGCTCACAGTCTAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
TCGGATCCGTCTGAGCTTGGCTATGGAATTCTCGGGTGCCAAGGAACTCC	6	0.15	RNA PCR Primer, Index 1 (100% over 27bp)
TCGGATCCGTCTGAGCTTGGCTTTTTGGAATTCTCGGGTGCCAAGGAACT	6	0.15	RNA PCR Primer, Index 1 (100% over 25bp)
TCGGATCCGTCTGAGCTTGGCTTTTGGAATTCTCGGGTGCCAAGGAACTC	6	0.15	RNA PCR Primer, Index 1 (100% over 26bp)
CCCTGAGACCCTAACTTGTGATGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
CATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTCCTCCCGG	6	0.15	No Hit
CCTGCATGATGACGAACAAATACTGACTACCTGAAGATCTTATTAGCTCT	6	0.15	No Hit
TGCGGGGCTAGGGCTAACAGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
TCGGATCCGTCTGAGCTTGGCATTGGAATTCTCGGGTGCCAAGGAACTCC	6	0.15	RNA PCR Primer, Index 1 (100% over 27bp)
GTCTATGATGATCCTATCCCGAACCTGAATTCCTGTTGAAAAACCATAAT	6	0.15	No Hit
CATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTGGAATTCT	6	0.15	No Hit
AACATTCAACCTGTCGGTGAGTTTGGAATTCTCGGGTGCCAAGGAACTCC	6	0.15	RNA PCR Primer, Index 1 (100% over 27bp)
GTGAAATGATGGCAAATCATCTTTCGGGACTGACCTGAAATGAAGAGAAT	6	0.15	No Hit
TGAGGTAGTAGGTTGTATGGTTTGGAATTCTCGGGGGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (96% over 28bp)
ACCACGTTCCCGTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCA	5	0.125	RNA PCR Primer, Index 7 (100% over 35bp)
TGAGGTAGTAGGTTGTATGGTTTTGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
TCTTTGGTTATCTAGCTGTATTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
GCATGTGATGACATTATTTAGCGACCAAAGTCTGATAAAGATGATTGTGA	5	0.125	No Hit
TCTTAGATCGATGTGGTGCTCCGGAGTTCTCTTCGGGCCAGGGCCTAAGC	5	0.125	No Hit
TGTAAACATCCCCGACTGGAAGCTGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
CATTATTACTTTTGGTACGCGTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
ATATATGATGACTTTCATAGAATCTCGTTCGGCTGATGATTGCTGTTGAG	5	0.125	No Hit
TCCCTGAGACCCTAACTTGTGATGGAATTCTCGGGGGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (96% over 28bp)
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGTGCCAAGGAACTCCG	5	0.125	RNA PCR Primer, Index 1 (96% over 27bp)
TGAGGTAGTAGGTTGTATAGTTTGGAATTCTCGGGGGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (96% over 28bp)
TTCAAGTAATCCAGGATAGGCTATGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
GTTTCCGTAGTGTAGTGGTTATCACGTTCGCCTGGAATTCTCGGGTGCCA	5	0.125	No Hit
TAACAGTCTACAGCCATGGTCGTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
GAGACCGCCTGGGAATACCGGGTGCTGTAGGCTTTGGAATTCTCGGGTGC	5	0.125	No Hit
TCGGATCCGTCTGAGCTTGGCAATGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
TGAGGTAGTAGGTTGTATGGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGGGCCAAGGAATTCCG	5	0.125	RNA PCR Primer, Index 1 (95% over 23bp)
ACAAATGATGAACCTTTTGACGGGCGGACAGAAACTCTGTGCTGAATGTA	5	0.125	No Hit
TGAAATGATGGCAAATCATCTTTCGGGACTGACCTGAAATGAAGAGAATA	5	0.125	No Hit
CGCGACCTCAGATCAGACGTGGCGACCCGCTGAATTTAAGCATATTATGG	5	0.125	No Hit
TCGGATCCGTCTGAGCTTGGTGGAATTCTCGGGGGCCAAGGAACTCCAGC	5	0.125	RNA PCR Primer, Index 1 (96% over 29bp)
CCGCGACCTCAGATCAGACGTGGCGACCCGCTGATGGAATTCTCGGGTGC	5	0.125	No Hit
TCGGATCCGTCTGAGCTTGGATGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
>>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	0.35	0.0	0.0	0.0
2	0.0	0.35	0.0	0.0	0.0
3	0.0	0.4	0.0	0.0	0.0
4	0.0	0.4	0.0	0.0	0.0
5	0.0	0.45	0.0	0.0	0.0
6	0.0	0.525	0.0	0.0	0.0
7	0.0	1.275	0.0	0.0	0.0
8	0.0	1.45	0.0	0.0	0.0
9	0.0	1.525	0.0	0.0	0.0
10	0.0	1.775	0.0	0.0	0.0
11	0.0	1.95	0.0	0.0	0.0
12	0.0	2.25	0.0	0.0	0.0
13	0.0	2.525	0.0	0.0	0.0
14	0.0	2.65	0.0	0.0	0.0
15	0.0	2.975	0.0	0.0	0.0
16	0.0	3.95	0.0	0.0	0.0
17	0.0	4.5	0.0	0.0	0.0
18	0.0	5.45	0.0	0.0	0.0
19	0.0	6.075	0.0	0.0	0.0
20	0.0	6.775	0.0	0.0	0.0
21	0.0	10.425	0.0	0.0	0.0
22	0.0	18.95	0.0	0.0	0.0
23	0.0	44.475	0.0	0.0	0.0
24	0.0	56.15	0.0	0.0	0.0
25	0.0	61.575	0.0	0.0	0.0
26	0.0	62.925	0.0	0.0	0.0
27	0.0	63.8	0.0	0.0	0.0
28	0.0	64.625	0.0	0.0	0.0
29	0.0	64.75	0.0	0.0	0.0
30	0.0	65.225	0.0	0.0	0.0
31	0.0	66.175	0.0	0.0	0.0
32	0.0	66.875	0.0	0.0	0.0
33	0.0	67.775	0.0	0.0	0.0
34	0.0	71.375	0.0	0.0	0.0
35	0.0	72.65	0.0	0.0	0.0
36	0.0	73.1	0.0	0.0	0.0
37	0.0	74.15	0.0	0.0	0.0
38	0.0	74.55	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
GAGGTAG	20	6.952051E-4	44.000004	2
AGGAATT	20	6.952051E-4	44.000004	41
GAGCTTG	20	6.952051E-4	44.000004	13
GGATCCG	20	6.952051E-4	44.000004	3
CCGTCTG	20	6.952051E-4	44.000004	7
TCGGATC	20	6.952051E-4	44.000004	1
CGGATCC	20	6.952051E-4	44.000004	2
GTGAGTT	20	6.952051E-4	44.000004	18
GAGTTGG	20	6.952051E-4	44.000004	20
CTTGGCT	20	6.952051E-4	44.000004	16
GATCCGT	20	6.952051E-4	44.000004	4
GGCTTGG	20	6.952051E-4	44.000004	19
GGCCAAG	45	2.728484E-10	44.000004	36
GGTAGTA	20	6.952051E-4	44.000004	4
GCTTGGC	20	6.952051E-4	44.000004	15
TGAGGTA	20	6.952051E-4	44.000004	1
TCCGTCT	20	6.952051E-4	44.000004	6
AAGGAAT	20	6.952051E-4	44.000004	40
AGGTAGT	20	6.952051E-4	44.000004	3
ATCCGTC	20	6.952051E-4	44.000004	5
>>END_MODULE
Read 256537 spots for SRR5030897.sra
Written 256537 spots for SRR5030897.sra
Read 256537 spots for SRR5030897.sra
Written 256537 spots for SRR5030897.sra
Read 256537 spots for SRR5030897.sra
Written 256537 spots for SRR5030897.sra
Read 256537 spots for SRR5030897.sra
Written 256537 spots for SRR5030897.sra
Read 256537 spots for SRR5030897.sra
Written 256537 spots for SRR5030897.sra
Read 256537 spots for SRR5030897.sra
Written 256537 spots for SRR5030897.sra
Read 256537 spots for SRR5030897.sra
Written 256537 spots for SRR5030897.sra
Read 256537 spots for SRR5030897.sra
Written 256537 spots for SRR5030897.sra
Read 256537 spots for SRR5030897.sra
Written 256537 spots for SRR5030897.sra
Read 256537 spots for SRR5030897.sra
Written 256537 spots for SRR5030897.sra
Read 256537 spots for SRR5030897.sra
Written 256537 spots for SRR5030897.sra
Read 256538 spots for SRR5030897.sra
Written 256538 spots for SRR5030897.sra
SRR ids: ['SRR5030897.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_n2g693x5
SRR5030897.sra spots: 3078445
blocks: [[1, 256537], [256538, 513074], [513075, 769611], [769612, 1026148], [1026149, 1282685], [1282686, 1539222], [1539223, 1795759], [1795760, 2052296], [2052297, 2308833], [2308834, 2565370], [2565371, 2821907], [2821908, 3078445]]
SRR5030897 file size 532483
SRR5030897 completed basic pipeline successfully
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	skewer -l 18 -q 10 -k inf -t 12 -o SRR5030897 SRR5030897_1.fastq
Input file:	SRR5030897_1.fastq
trimmed:	SRR5030897-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 06:39:54 2020 >> started

Wed Mar  4 06:39:56 2020 >> done (2.136s)
3078445 reads processed; of these:
    176 ( 0.01%) short reads filtered out after trimming by size control
      5 ( 0.00%) empty reads filtered out after trimming by size control
3078264 (99.99%) reads available; of these:
 383062 (12.44%) trimmed reads available after processing
2695202 (87.56%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	     58	  0.00%
 19	     75	  0.00%
 20	    157	  0.01%
 21	    186	  0.01%
 22	    343	  0.01%
 23	    468	  0.02%
 24	    501	  0.02%
 25	    655	  0.02%
 26	    594	  0.02%
 27	    759	  0.02%
 28	    941	  0.03%
 29	   1443	  0.05%
 30	    952	  0.03%
 31	   1445	  0.05%
 32	   3815	  0.12%
 33	  10331	  0.34%
 34	  24308	  0.79%
 35	   5735	  0.19%
 36	   5890	  0.19%
 37	   3860	  0.13%
 38	   7421	  0.24%
 39	   7272	  0.24%
 40	  12697	  0.41%
 41	   7943	  0.26%
 42	  18366	  0.60%
 43	   9042	  0.29%
 44	  36354	  1.18%
 45	  26810	  0.87%
 46	  23764	  0.77%
 47	  26437	  0.86%
 48	  70930	  2.30%
 49	  73510	  2.39%
 50	2695202	 87.56%
3078264 reads passed initial QC


criterion=sequence-density
sequence-density=73.87
sequence-density-rank=1
fanout-score=22.06
fanout-score-rank=2
prefix-density=76.58
prefix-fanout=21.3
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCACCGGATCTCGTATGCC


criterion=fanout-score
sequence-density=3.08
sequence-density-rank=2
fanout-score=75.31
fanout-score-rank=1
prefix-density=76.05
prefix-fanout=3.0
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 TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCACCGGATCTCGTATGCC -o SRR5030897 -
Input file:	STDIN
trimmed:	SRR5030897-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCACCGGATCTCGTATGCC
-- 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 06:40:13 2020 >> started

Wed Mar  4 06:40:18 2020 >> done (4.623s)
2995068 reads processed; of these:
 138948 ( 4.64%) short reads filtered out after trimming by size control
  18844 ( 0.63%) empty reads filtered out after trimming by size control
2837276 (94.73%) reads available; of these:
2333615 (82.25%) trimmed reads available after processing
 503661 (17.75%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  18907	  0.67%
 19	  25678	  0.91%
 20	 116716	  4.11%
 21	 287611	 10.14%
 22	 744312	 26.23%
 23	 352648	 12.43%
 24	 155954	  5.50%
 25	  43392	  1.53%
 26	  23862	  0.84%
 27	  21571	  0.76%
 28	  22434	  0.79%
 29	  19399	  0.68%
 30	  23567	  0.83%
 31	  26101	  0.92%
 32	  30118	  1.06%
 33	 105019	  3.70%
 34	  35484	  1.25%
 35	  27047	  0.95%
 36	  36507	  1.29%
 37	  17019	  0.60%
 38	  19594	  0.69%
 39	  19514	  0.69%
 40	  29077	  1.02%
 41	  32175	  1.13%
 42	  39316	  1.39%
 43	  26397	  0.93%
 44	  25702	  0.91%
 45	  27305	  0.96%
 46	  23051	  0.81%
 47	  19679	  0.69%
 48	   8374	  0.30%
 49	  15319	  0.54%
 50	 418427	 14.75%


criterion=sequence-density
sequence-density=5.58
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=0.51
sequence-density-rank=24
fanout-score=11.59
fanout-score-rank=1
prefix-density=5.91
prefix-fanout=1.0
sequence=TGAGCTTGGCTATT
                                 Started job on |	Mar 04 06:40:41
                             Started mapping on |	Mar 04 06:40:41
                                    Finished on |	Mar 04 06:41:04
       Mapping speed, Million of reads per hour |	457.12

                          Number of input reads |	2920472
                      Average input read length |	30
                                    UNIQUE READS:
                   Uniquely mapped reads number |	1551059
                        Uniquely mapped reads % |	53.11%
                          Average mapped length |	29.36
                       Number of splices: Total |	2030
            Number of splices: Annotated (sjdb) |	403
                       Number of splices: GT/AG |	1867
                       Number of splices: GC/AG |	30
                       Number of splices: AT/AC |	3
               Number of splices: Non-canonical |	130
                      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 |	1.06
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	918387
             % of reads mapped to multiple loci |	31.45%
        Number of reads mapped to too many loci |	69229
             % of reads mapped to too many loci |	2.37%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	12.57%
                     % of reads unmapped: other |	0.50%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	451026	451026	451026
N_multimapping	918387	918387	918387
N_noFeature	85751	106158	1156491
N_ambiguous	840817	505838	22459
UnstrandedReadsAssigned:624491 PositiveStrandReadsAssigned:939063 NegativeStrandReadsAssigned:372109
Dataset is classified unstranded
MeadianReadLen=23 20thPercentileLength=22 echo kmer=19
SRR5030897 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: SRR5030897-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 2,920,472 reads, 680,069 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 1,127 rounds

 109283 SRR5030897.ke.tsv
  52636 SRR5030897.se.tsv
 161919 total
==> SRR5030897.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

==> SRR5030897.se.tsv <==
ENSMUSG00000102693	0
ENSMUSG00000064842	0
ENSMUSG00000051951	1
ENSMUSG00000102851	0
ENSMUSG00000103377	0
ENSMUSG00000104017	0
ENSMUSG00000103025	0
ENSMUSG00000089699	0
ENSMUSG00000103201	0
ENSMUSG00000103147	0
SRR5030897 completed mapping pipeline successfully
