Starting /dee2/code/volunteer_pipeline.sh ERR4018144
    current disk space = 374339688
    free memory = 198100336 
ERR4018144 SRAfilesize
bf820c5a39cb8f1ad5e7395054e9f7c3  ERR4018144.sra
ERR4018144.sra file validated
ERR4018144 is single end
ERR4018144 is conventional basespace
ERR4018144 read1 length is 51 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	ERR4018144_1.fastq
File type	Conventional base calls
Encoding	Sanger / Illumina 1.9
Total Sequences	4000
Sequences flagged as poor quality	0
Sequence length	51
%GC	45
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	31.4455	35.0	35.0	35.0	15.0	35.0
2	33.832	35.0	35.0	35.0	27.0	35.0
3	34.2685	35.0	35.0	35.0	33.0	35.0
4	34.42325	35.0	35.0	35.0	33.0	35.0
5	33.88475	35.0	35.0	35.0	31.0	35.0
6	38.49325	39.0	39.0	40.0	36.0	40.0
7	39.06575	40.0	39.0	40.0	38.0	40.0
8	39.1585	40.0	39.0	40.0	38.0	40.0
9	39.09775	40.0	39.0	40.0	38.0	40.0
10	39.251	40.0	39.0	40.0	39.0	40.0
11	39.2735	40.0	39.0	40.0	38.0	40.0
12	39.309	40.0	39.0	40.0	38.0	40.0
13	39.17425	40.0	39.0	40.0	38.0	40.0
14	39.05625	40.0	39.0	40.0	38.0	40.0
15	39.014	40.0	39.0	40.0	38.0	40.0
16	39.07425	40.0	39.0	40.0	38.0	40.0
17	39.27025	40.0	39.0	40.0	38.0	40.0
18	39.1705	40.0	39.0	40.0	38.0	40.0
19	39.2135	40.0	39.0	40.0	38.0	40.0
20	39.26275	40.0	39.0	40.0	38.0	40.0
21	39.29575	40.0	39.0	40.0	39.0	40.0
22	39.26475	40.0	39.0	40.0	38.0	40.0
23	39.1755	40.0	39.0	40.0	38.0	40.0
24	39.20175	40.0	39.0	40.0	38.0	40.0
25	39.1975	40.0	39.0	40.0	38.0	40.0
26	39.17375	40.0	39.0	40.0	38.0	40.0
27	39.222	40.0	39.0	40.0	38.0	40.0
28	39.23975	40.0	39.0	40.0	38.0	40.0
29	39.25325	40.0	39.0	40.0	38.0	40.0
30	39.273	40.0	39.0	40.0	38.0	40.0
31	39.1445	40.0	39.0	40.0	38.0	40.0
32	39.18425	40.0	39.0	40.0	38.0	40.0
33	39.18975	40.0	39.0	40.0	38.0	40.0
34	39.24675	40.0	39.0	40.0	38.0	40.0
35	39.2305	40.0	39.0	40.0	38.0	40.0
36	39.11975	40.0	39.0	40.0	38.0	40.0
37	39.18925	40.0	39.0	40.0	38.0	40.0
38	39.15925	40.0	39.0	40.0	38.0	40.0
39	39.14325	40.0	39.0	40.0	38.0	40.0
40	39.0595	40.0	39.0	40.0	38.0	40.0
41	39.12775	40.0	39.0	40.0	38.0	40.0
42	39.16	40.0	39.0	40.0	38.0	40.0
43	39.16775	40.0	39.0	40.0	38.0	40.0
44	39.1665	40.0	39.0	40.0	38.0	40.0
45	39.065	40.0	39.0	40.0	38.0	40.0
46	39.07175	40.0	39.0	40.0	38.0	40.0
47	39.1115	40.0	39.0	40.0	38.0	40.0
48	39.0665	40.0	39.0	40.0	38.0	40.0
49	38.82875	40.0	39.0	40.0	37.0	40.0
50	38.928	40.0	39.0	40.0	38.0	40.0
51	38.37575	39.0	39.0	40.0	35.0	40.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
24	1.0
25	1.0
26	1.0
27	4.0
28	10.0
29	8.0
30	8.0
31	11.0
32	20.0
33	32.0
34	43.0
35	65.0
36	111.0
37	282.0
38	1162.0
39	2241.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	26.033057851239672	15.206611570247933	37.988980716253444	20.771349862258955
2	39.45	14.799999999999999	35.825	9.925
3	24.925	34.9	11.899999999999999	28.275
4	16.1	42.5	15.925	25.474999999999998
5	18.475	45.95	15.1	20.474999999999998
6	21.425	19.75	48.975	9.85
7	55.25	6.4750000000000005	29.925	8.35
8	29.675	49.775000000000006	11.55	9.0
9	10.2	36.15	44.800000000000004	8.85
10	51.025	13.325000000000001	28.025	7.625
11	43.775	41.175	9.3	5.75
12	27.325	28.875	18.8	25.0
13	14.899999999999999	34.65	20.925	29.525000000000002
14	10.174999999999999	37.125	36.325	16.375
15	16.35	23.525	39.574999999999996	20.549999999999997
16	13.8	27.825	37.125	21.25
17	20.5	24.975	18.0	36.525
18	15.2	31.85	30.9	22.05
19	13.15	32.525	33.75	20.575
20	15.725	22.825	38.75	22.7
21	23.375	15.049999999999999	52.47500000000001	9.1
22	31.025000000000002	22.45	31.775	14.75
23	28.875	27.750000000000004	12.375	31.0
24	31.7	24.224999999999998	22.525000000000002	21.55
25	32.824999999999996	23.775	14.224999999999998	29.175
26	27.6	21.675	20.125	30.599999999999998
27	32.625	21.7	13.525	32.15
28	18.85	19.05	30.65	31.45
29	29.975	15.85	31.924999999999997	22.25
30	32.875	17.5	29.825000000000003	19.8
31	24.349999999999998	28.749999999999996	27.750000000000004	19.15
32	28.125	23.825	20.4	27.650000000000002
33	13.675	25.95	21.2	39.175
34	13.350000000000001	18.4	33.725	34.525
35	27.175	23.95	26.1	22.775000000000002
36	25.3	41.0	15.2	18.5
37	16.575	49.025	15.75	18.65
38	20.275000000000002	34.949999999999996	17.025000000000002	27.750000000000004
39	24.025	23.599999999999998	31.55	20.825
40	32.7	19.2	22.575	25.525
41	32.35	25.724999999999998	22.525000000000002	19.400000000000002
42	19.925	41.099999999999994	27.925	11.05
43	21.224999999999998	29.9	26.8	22.075
44	28.275	38.224999999999994	20.45	13.05
45	22.375	43.525000000000006	19.875	14.224999999999998
46	22.95	32.525	24.15	20.375
47	13.475000000000001	33.050000000000004	36.3	17.175
48	22.025	37.175000000000004	23.7	17.1
49	11.0	39.85	32.975	16.175
50	21.9	22.15	22.05	33.900000000000006
51	26.125	23.575	24.05	26.25
>>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	0.5
18	1.0
19	0.5
20	0.0
21	0.0
22	0.0
23	0.0
24	0.0
25	0.5
26	1.5
27	2.0
28	15.5
29	29.0
30	41.5
31	54.0
32	36.0
33	18.0
34	69.0
35	120.0
36	367.0
37	614.0
38	549.0
39	484.0
40	467.5
41	451.0
42	294.0
43	137.0
44	141.0
45	145.0
46	263.5
47	382.0
48	399.0
49	416.0
50	411.5
51	407.0
52	321.0
53	235.0
54	193.0
55	151.0
56	137.5
57	124.0
58	124.0
59	124.0
60	83.0
61	42.0
62	26.0
63	10.0
64	8.0
65	6.0
66	11.0
67	16.0
68	17.0
69	18.0
70	15.5
71	13.0
72	6.5
73	0.0
74	0.0
75	0.0
76	0.0
77	0.0
78	0.0
79	0.0
80	0.0
81	0.0
82	0.0
83	0.0
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	warn
#Base	N-Count
1	9.25
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
51	0.0
>>END_MODULE
>>Sequence Length Distribution	pass
#Length	Count
51	4000.0
>>END_MODULE
>>Sequence Duplication Levels	fail
#Total Deduplicated Percentage	32.800000000000004
#Duplication Level	Percentage of deduplicated	Percentage of total
1	78.8109756097561	25.85
2	8.460365853658537	5.55
3	3.125	3.075
4	1.1432926829268293	1.5
5	1.2195121951219512	2.0
6	1.0670731707317074	2.1
7	0.9146341463414633	2.1
8	0.6859756097560976	1.7999999999999998
9	0.6097560975609756	1.7999999999999998
>10	3.125	20.549999999999997
>50	0.45731707317073167	10.274999999999999
>100	0.38109756097560976	23.400000000000002
>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
TGAAATGATGGCAATCATCTTTCGGGACTGACCTGAAATGAAGAGAAAACT	238	5.949999999999999	No Hit
GTAAATGATGAGATTTCCATTGGTCCGTGTTTCTGAACTCCATGATTTTTG	227	5.675	No Hit
AGATCGGAAGAGCACACGTCTGAACTCCAGTCACATGTCAATCTCGTATGC	166	4.15	TruSeq Adapter, Index 15 (98% over 50bp)
GTGAAATGATGGCAATCATCTTTCGGGACTGACCTGAAATGAAGAGAAAAC	157	3.925	No Hit
TGCACTGATGAAACTAGAAATAGGAAGTGCCGTCCGAAACGACAACTGACG	148	3.6999999999999997	No Hit
CTCGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTAGATCG	83	2.075	No Hit
GGAAGAGCACACGTCTGAACTCCAGTCACATGTCAATCTCGTATGCCGTCT	81	2.025	TruSeq Adapter, Index 15 (98% over 51bp)
TTGCTGTGATGACTATCTTAGGACACCTTTGGATTAACCGTGAAATAAAAC	80	2.0	No Hit
TTGCAATGATGTGAATCTTTTGCTGAAGTGACCTTGAAGTGTAATTCCTGA	63	1.575	No Hit
TGGAATGATGACATTCTCCGGAATCGCTGTACTGTCTTGATGAAAGTACTT	53	1.325	No Hit
CACAATGATGACTTATGTTTTTGCCGTTTACCCAGCTGAGGGTTTCTTTGA	51	1.275	No Hit
ATACATGATGATCTCACTCCAACTTGAACTCTCTCACTGATTACTTGATGA	49	1.225	No Hit
TACTGTGATGATAACATAGTTCAGCAGACGTGACTCTGGTGAACAATCATG	47	1.175	No Hit
CGCGACCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATGTCAAT	47	1.175	TruSeq Adapter, Index 15 (97% over 41bp)
CTGCGATGATGTCATTTCTTAGGACACCTTTGGATTAATCATGAAAATAGC	42	1.05	No Hit
GGTCTGTGATGAAACCCATTATCAGTGGACATCTATGGATGAGAAATGCGG	31	0.775	No Hit
TAGCTTATCAGACTGATGTTGACAGATCGGAAGAGCACACGTCTGAACTCC	30	0.75	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
NTAAATGATGAGATTTCCATTGGTCCGTGTTTCTGAACTCCATGATTTTTG	28	0.7000000000000001	No Hit
CTTAATGATGATTGTCTATTTGATTGCTTGATGCAATGTGAAAACCACATT	27	0.675	No Hit
TTGAGTGATGACTTGTATTGTCGGATACCCCTTCACCCCGTTCATGGGTGA	26	0.65	No Hit
GGTCAATGATGTGTTGGCATGTATTATCTGAATTTGCTGATGTGTCCTAAC	26	0.65	No Hit
TGCTGTGATGAGGACACCAGTAGGAAGTGCCGTCAGAGTCGATAACTGACG	24	0.6	No Hit
NGAAATGATGGCAATCATCTTTCGGGACTGACCTGAAATGAAGAGAAAACT	23	0.575	No Hit
TCGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTAGATCGG	22	0.5499999999999999	No Hit
GCTAATGATGATACCGCACTAACTGAGCAGTTAGTAGTTGGTCCTTTGATT	22	0.5499999999999999	No Hit
NTGAAATGATGGCAATCATCTTTCGGGACTGACCTGAAATGAAGAGAAAAC	21	0.525	No Hit
CACCCTGATGAACTGAATACCGCCCCAGTCTGATAGATGTGGAGAAAGGTA	21	0.525	No Hit
NGCACTGATGAAACTAGAAATAGGAAGTGCCGTCCGAAACGACAACTGACG	20	0.5	No Hit
GCGGATGATGACACCTGGGTATGCTGCACATTCCCGACTGCGTCGTGGGGA	18	0.44999999999999996	No Hit
CTTCTGTGATGACTTTACCCAAATGACTTTCGTTCTTCTGAGTTTGCTGAA	17	0.42500000000000004	No Hit
TTCTGTGATGAGACTCTGGAATGTGCGCTGGGCACAGCGCCCGAGTGAGAC	17	0.42500000000000004	No Hit
GTTCTGTGATGAGACTCTGGAATGTGCGCTGGGCACAGCGCCCGAGTGAGA	17	0.42500000000000004	No Hit
TCAGTGCACTACAGAACTTTGTAGATCGGAAGAGCACACGTCTGAACTCCA	16	0.4	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
CACCCTGATGAACTGAATACCGCCCCAGTCTGATAGCTGTGGAGAAAGGTA	15	0.375	No Hit
GGTCAATGATGAGCTGGCATGTATTCTGAATCTAAAGTTGATTAATAACCA	14	0.35000000000000003	No Hit
AACCCGTAGATCCGATCTTGTAGATCGGAAGAGCACACGTCTGAACTCCAG	14	0.35000000000000003	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
ACAAATGATGAATCCTTTGACGGGCGGGCAGAATCTCTGTGCTGATTGTCA	14	0.35000000000000003	No Hit
ATCGATGTGGTGCTGCCGCGTTCTCTTCGGGCCGGGGCCTAAGCCGCGCCA	14	0.35000000000000003	No Hit
GTGGAATGATGACATTCTCCGGAATCGCTGTACTGTCTTGATGAAAGTACT	13	0.325	No Hit
TTTGAGTGATGACTTGTATTGTCGGATACCCCTTCACCCCGTTCATGGGTG	13	0.325	No Hit
CACAAGTGATGACTAACAAAGGGACTTAATACTGAAACATCTGGGATTGAA	13	0.325	No Hit
AGTAAATGATGAGATTTCCATTGGTCCGTGTTTCTGAACTCCATGATTTTT	13	0.325	No Hit
CGACTCTTAGCGGTGGATCACTCGGCTCGTGCGTCGATGAAGAACGCAGCT	12	0.3	No Hit
TGAGGTAGTAGTTTGTGCTGTTAGATCGGAAGAGCACACGTCTGAACTCCA	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
CTCGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGCAGATCG	11	0.27499999999999997	No Hit
ATACTGTGATGATAACATAGTTCAGCAGACGTGACTCTGGTGAACAATCAT	11	0.27499999999999997	No Hit
CGCGACCTTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATGTCAAT	11	0.27499999999999997	TruSeq Adapter, Index 15 (97% over 41bp)
CGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTAGATCGGA	11	0.27499999999999997	No Hit
ACCCCTGTGATGTTCAGCACTGGGCTCTGATCACCCTGAGGACATGGAGCT	11	0.27499999999999997	No Hit
CCGCGACCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATGTCAA	10	0.25	TruSeq Adapter, Index 15 (97% over 39bp)
NGATCGGAAGAGCACACGTCTGAACTCCAGTCACATGTCAATCTCGTATGC	10	0.25	TruSeq Adapter, Index 15 (98% over 50bp)
CGTTGGATCGATGTGGTGCTGCCGCGTTCTCTTCGGGCCGGGGCCTAAGCC	10	0.25	No Hit
NTGCTGTGATGACTATCTTAGGACACCTTTGGATTAACCGTGAAATAAAAC	9	0.22499999999999998	No Hit
ACAAGTGATGACTAACAAAGGGACTTAATACTGAAACATCTGGGATTGAAA	9	0.22499999999999998	No Hit
NGAAGAGCACACGTCTGAACTCCAGTCACATGTCAATCTCGTATGCCGTCT	9	0.22499999999999998	TruSeq Adapter, Index 15 (97% over 35bp)
AATACATGATGATCTCACTCCAACTTGAACTCTCTCACTGATTACTTGATG	9	0.22499999999999998	No Hit
TTCAAGTAATCCAGGATAGGCTAGATCGGAAGAGCACACGTCTGAACTCCA	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
CTCCCATGATGTATAGCACTGGGCTCTGACCACCATGGTGACGTGTTGTGC	9	0.22499999999999998	No Hit
TGAAGTGATGATTCACAATCATGTCTCTTCTCTGAAGAATTCTTGGAGATT	9	0.22499999999999998	No Hit
TAGCTTATCAGACTGATGTTGATAGATCGGAAGAGCACACGTCTGAACTCC	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GTGCAATGATGTGTGAATTTCTTCACCTGAAATCACCGTGAAGAGTAATTT	8	0.2	No Hit
GGAGATGATGAACTGACTCAGCCTGACCTTCAGAAATGGAGGTGATAAAAC	8	0.2	No Hit
CGCGACCTCAGATCAGACGTGGCGACCCGCTGAATTTAAGCATATTAGTCA	8	0.2	No Hit
GAAGCTGATGATACCACTTCTTTCCCCATCAGATCGACCCTGTTGATCTCA	8	0.2	No Hit
TGAGGTAGTAGATTGTATAGTTAGATCGGAAGAGCACACGTCTGAACTCCA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
AAATATGATGAGCATACAAAATGTTGATTACAGTGAAAAACAGTAAGATCC	8	0.2	No Hit
ATCTATGATGATCCTATCCCGAATCTGAATTCCTGTTGAAAAAATATAATT	8	0.2	No Hit
TGCAATGATGAAGGTTATGTTGGTAGGGACAACTGACCTTGTTGATGAATA	8	0.2	No Hit
TTTCTGTGATGAATCAACTAGCTCACTATGACTGCTAATGAAAACACTGGA	8	0.2	No Hit
AACAGTGATGACCACAACATGCCATCTGAGTTGCTTTGCTGAAATCCAGAG	7	0.17500000000000002	No Hit
TCGATGTGGTGCTGCCGCGTTCTCTTCGGGCCGGGGCCTAAGCCGCGCCAG	7	0.17500000000000002	No Hit
NACAATGATGACTTATGTTTTTGCCGTTTACCCAGCTGAGGGTTTCTTTGA	7	0.17500000000000002	No Hit
TATCGATGATGTCCTAAAAGTAAATGTCTGAACATATGAATGCTATACTGA	7	0.17500000000000002	No Hit
GACTCTTAGCGGTGGATCACTCGGCTCGTGCGTCGATGAAGAACGCAGCTA	7	0.17500000000000002	No Hit
NTCGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTAGATCG	7	0.17500000000000002	No Hit
CACAAATGATGAATCCTTTGACGGGCGGGCAGAATCTCTGTGCTGATTGTC	7	0.17500000000000002	No Hit
NACTGTGATGATAACATAGTTCAGCAGACGTGACTCTGGTGAACAATCATG	7	0.17500000000000002	No Hit
TAGGGTGATGAAAAAGTATCCTTAGGCGTGGTTCTGGCCGTCTTGGTCACC	7	0.17500000000000002	No Hit
CTTCGGTGATGACACGATGACGAGTCAGAAAGGCCACGTCTTGCTCTTGGG	7	0.17500000000000002	No Hit
TGCAATGATGTGTGAATTTCTTCACCTGAAATCACCGTGAAGAGTAATTTA	7	0.17500000000000002	No Hit
TTCCGCTGATGATGTCTGTTAGTGCCACGTGTCTGGGCCACTGAGAGCACA	7	0.17500000000000002	No Hit
ATATATGATGACTTTCATAGAATCTCGTTCGGCTGATGATTGCTGTTGAGA	6	0.15	No Hit
TACCTGGTTGATCCTGCCAGTAGCATATGCTTGTCTCAAAGATTAAGCCAT	6	0.15	No Hit
TTCTGTGATGACTTTACCCAAATGACTTTCGTTCTTCTGAGTTTGCTGAAG	6	0.15	No Hit
CGCGACCTCAGATCAGACGTGGCGACCCGCTGAATTAGATCGGAAGAGCAC	6	0.15	No Hit
GACTCTTAGCGGTGGATCACTCGGCTCGTGCGAGATCGGAAGAGCACACGT	6	0.15	No Hit
NGCTGTGATGAGGACACCAGTAGGAAGTGCCGTCAGAGTCGATAACTGACG	6	0.15	No Hit
GAAATATGATGAGCATACAAAATGTTGATTACAGTGAAAAACAGTAAGATC	6	0.15	No Hit
NTGCGATGATGTCATTTCTTAGGACACCTTTGGATTAATCATGAAAATAGC	6	0.15	No Hit
CCCCTGTGATGTTCAGCACTGGGCTCTGATCACCCTGAGGACATGGAGCTA	6	0.15	No Hit
CGACTCTTAGCGGTGGATCACTCGGCTCGTGAGATCGGAAGAGCACACGTC	6	0.15	No Hit
CGACTCTTAGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATGTCA	6	0.15	TruSeq Adapter, Index 15 (100% over 39bp)
CTGCAGTGATGACTTTCTTAGGACACCTTTGGATTTACCGTGAAAATAAGT	6	0.15	No Hit
TAGCTTATCAGACTGATGTTGACTAGATCGGAAGAGCACACGTCTGAACTC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GATCTATGATGATCCTATCCCGAATCTGAATTCCTGTTGAAAAAATATAAT	6	0.15	No Hit
CGCGACCTCAGATCAGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
CGCGACCTAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATGTCAAT	5	0.125	TruSeq Adapter, Index 15 (97% over 41bp)
TGGCGGTGATGACCCACTTGCCCTCACTGAGGACAAAGTTCGTTGGTGAGA	5	0.125	No Hit
GACTCTTAGCGGTGGATCACTCGGCTCGTGAGATCGGAAGAGCACACGTCT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
CTTGATGATGAATGTATTATAAATGACAAGCATATGGCTGAACTTAGGTGA	5	0.125	No Hit
CTACGGGGATGATTTAGAAGCTGAACTCTCTCTTTCTGATGGTTTAGTGGA	5	0.125	No Hit
CACCCGTAGAACCGACCTTGCGAGATCGGAAGAGCACACGTCTGAACTCCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TCAAATGATGATATCACCTTAAATAGCTGGAATTACCGGCAGATTGCTAGT	5	0.125	No Hit
ACTTAATGATGATTGTCTATTTGATTGCTTGATGCAATGTGAAAACCACAT	5	0.125	No Hit
TAGCTTATCAGACTGATGTTGACAAGATCGGAAGAGCACACGTCTGAACTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
NTGCAATGATGTGAATCTTTTGCTGAAGTGACCTTGAAGTGTAATTCCTGA	5	0.125	No Hit
TTGCTGTGATGACTTTCATTGGGTTTCGCATATTGCTGAGTTCCCATGATG	5	0.125	No Hit
TGAGGTAGTAGGTTGTATGGTTAGATCGGAAGAGCACACGTCTGAACTCCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TGTCCCATTTGACTACCACATTTCCTACTGATAATAGATTTTGGTGGCTAT	5	0.125	No Hit
CTACAATGATGGTAATATTTTTCGTCAACAGAGTTCACCTAGTGAGTGTTG	5	0.125	No Hit
CGCGACCTCAGATCAGACGTAGATCGGAAGAGCACACGTCTGAACTCCAGT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
>>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	4.4	0.0	0.0	0.0	0.0
2	4.4	0.0	0.0	0.0	0.0
3	4.4	0.0	0.0	0.0	0.0
4	4.425	0.0	0.0	0.0	0.0
5	4.45	0.0	0.0	0.0	0.0
6	4.45	0.0	0.0	0.0	0.0
7	4.525	0.0	0.0	0.0	0.0
8	4.65	0.0	0.0	0.0	0.0
9	4.85	0.0	0.0	0.0	0.0
10	6.825	0.0	0.0	0.0	0.0
11	7.45	0.0	0.0	0.0	0.0
12	7.95	0.0	0.0	0.0	0.0
13	8.15	0.0	0.0	0.0	0.0
14	8.525	0.0	0.0	0.0	0.0
15	9.025	0.0	0.0	0.0	0.0
16	9.275	0.0	0.0	0.0	0.0
17	9.5	0.0	0.0	0.0	0.0
18	10.025	0.0	0.0	0.0	0.0
19	10.775	0.0	0.0	0.0	0.0
20	11.2	0.0	0.0	0.0	0.0
21	11.825	0.0	0.0	0.0	0.0
22	13.45	0.0	0.0	0.0	0.0
23	17.1	0.0	0.0	0.0	0.0
24	19.5	0.0	0.0	0.0	0.0
25	20.825	0.0	0.0	0.0	0.0
26	21.125	0.0	0.0	0.0	0.0
27	21.35	0.0	0.0	0.0	0.0
28	21.6	0.0	0.0	0.0	0.0
29	21.875	0.0	0.0	0.0	0.0
30	22.025	0.0	0.0	0.0	0.0
31	22.275	0.0	0.0	0.0	0.0
32	23.025	0.0	0.0	0.0	0.0
33	23.775	0.0	0.0	0.0	0.0
34	24.075	0.0	0.0	0.0	0.0
35	24.25	0.0	0.0	0.0	0.0
36	24.525	0.0	0.0	0.0	0.0
37	24.85	0.0	0.0	0.0	0.0
38	25.0	0.0	0.0	0.0	0.0
39	25.275	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
CGCGACC	25	2.0291971E-5	48.56757	1
GTAAATG	25	2.0291971E-5	48.56757	1
TGCACTG	15	0.008734513	48.567566	1
GTGAAAT	20	4.2277688E-4	48.567566	1
TGATGAT	30	1.6908471E-6	44.925003	6
GTGTTTC	30	1.6908471E-6	44.925003	27
CCGTGTT	30	1.6908471E-6	44.925003	25
TAGGAAG	30	1.6908471E-6	44.925003	21
ATGATTT	30	1.6908471E-6	44.925003	42
ACTGACG	30	1.6908471E-6	44.925003	45
TTTCCAT	30	1.6908471E-6	44.925003	14
GTCCGTG	30	1.6908471E-6	44.925003	23
GGTCCGT	30	1.6908471E-6	44.925003	22
TGATTTT	30	1.6908471E-6	44.925003	43
GAAGTGC	30	1.6908471E-6	44.925003	24
CTCCATG	30	1.6908471E-6	44.925003	38
TGTTTCT	30	1.6908471E-6	44.925003	28
GTTTCTG	30	1.6908471E-6	44.925003	29
AGGAAGT	30	1.6908471E-6	44.925003	22
CCATGAT	30	1.6908471E-6	44.925003	40
>>END_MODULE
Rejected 2857660 READS because READLEN < 1
Read 2857660 spots for ERR4018144.sra
Written 2857660 spots for ERR4018144.sra
Rejected 2857658 READS because READLEN < 1
Read 2857658 spots for ERR4018144.sra
Written 2857658 spots for ERR4018144.sra
Rejected 2857658 READS because READLEN < 1
Read 2857658 spots for ERR4018144.sra
Written 2857658 spots for ERR4018144.sra
Rejected 2857658 READS because READLEN < 1
Read 2857658 spots for ERR4018144.sra
Written 2857658 spots for ERR4018144.sra
Rejected 2857658 READS because READLEN < 1
Read 2857658 spots for ERR4018144.sra
Written 2857658 spots for ERR4018144.sra
Rejected 2857658 READS because READLEN < 1
Read 2857658 spots for ERR4018144.sra
Written 2857658 spots for ERR4018144.sra
Rejected 2857658 READS because READLEN < 1
Read 2857658 spots for ERR4018144.sra
Written 2857658 spots for ERR4018144.sra
Rejected 2857658 READS because READLEN < 1
Read 2857658 spots for ERR4018144.sra
Written 2857658 spots for ERR4018144.sra
SRR ids: ['ERR4018144.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd__ydk1a8p
ERR4018144.sra spots: 22861266
blocks: [[1, 2857658], [2857659, 5715316], [5715317, 8572974], [8572975, 11430632], [11430633, 14288290], [14288291, 17145948], [17145949, 20003606], [20003607, 22861266]]
ERR4018144 file size 3237820
ERR4018144 completed basic pipeline successfully
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	/usr/local/bin/skewer -f sanger -l 18 -q 10 -k inf -t 8 -o ERR4018144 ERR4018144_1.fastq
Input file:	ERR4018144_1.fastq
trimmed:	ERR4018144-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 
-- minimum overlap length for adapter detection (-k):	inf
-- number of concurrent threads (-t):	8
Sun Dec 28 15:02:28 2025 >> started

Sun Dec 28 15:02:35 2025 >> done (7.350s)
22861266 reads processed; of these:
 1270952 ( 5.56%) short reads filtered out after trimming by size control
  991034 ( 4.33%) empty reads filtered out after trimming by size control
20599280 (90.11%) reads available; of these:
  185394 ( 0.90%) trimmed reads available after processing
20413886 (99.10%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  101060	  0.49%
 19	   84216	  0.41%
 20	       0	  0.00%
 21	       0	  0.00%
 22	       0	  0.00%
 23	       0	  0.00%
 24	       0	  0.00%
 25	       0	  0.00%
 26	       0	  0.00%
 27	       0	  0.00%
 28	       0	  0.00%
 29	       0	  0.00%
 30	       0	  0.00%
 31	       0	  0.00%
 32	       0	  0.00%
 33	       0	  0.00%
 34	       0	  0.00%
 35	       0	  0.00%
 36	       0	  0.00%
 37	       0	  0.00%
 38	       0	  0.00%
 39	       0	  0.00%
 40	       0	  0.00%
 41	       0	  0.00%
 42	       0	  0.00%
 43	       0	  0.00%
 44	       0	  0.00%
 45	       0	  0.00%
 46	       0	  0.00%
 47	       0	  0.00%
 48	       0	  0.00%
 49	      38	  0.00%
 50	      80	  0.00%
 51	20413886	 99.10%
20599280 reads passed initial QC


criterion=sequence-density
sequence-density=16.42
sequence-density-rank=1
fanout-score=30.96
fanout-score-rank=1
prefix-density=17.18
prefix-fanout=29.6
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACATGTCAATCTCGTATGCCGTCTTC


criterion=fanout-score
sequence-density=16.42
sequence-density-rank=1
fanout-score=30.96
fanout-score-rank=1
prefix-density=17.18
prefix-fanout=29.6
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACATGTCAATCTCGTATGCCGTCTTC
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:	/usr/local/bin/skewer -f sanger -l 18 -t 8 -x AGATCGGAAGAGCACACGTCTGAACTCCAGTCACATGTCAATCTCGTATGCCGTCTTC -o ERR4018144 -
Input file:	STDIN
trimmed:	ERR4018144-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	AGATCGGAAGAGCACACGTCTGAACTCCAGTCACATGTCAATCTCGTATGCCGTCTTC
-- 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):		Sanger/Illumina 1.8+ FASTQ 
-- minimum overlap length for adapter detection (-k):	3
-- number of concurrent threads (-t):	8
Sun Dec 28 15:02:51 2025 >> started

Sun Dec 28 15:03:01 2025 >> done (10.563s)
18175835 reads processed; of these:
    8358 ( 0.05%) short reads filtered out after trimming by size control
    4037 ( 0.02%) empty reads filtered out after trimming by size control
18163440 (99.93%) reads available; of these:
 4482847 (24.68%) trimmed reads available after processing
13680593 (75.32%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	   86943	  0.48%
 19	   76309	  0.42%
 20	  125941	  0.69%
 21	  309874	  1.71%
 22	  750106	  4.13%
 23	  535501	  2.95%
 24	  313630	  1.73%
 25	   89264	  0.49%
 26	   61375	  0.34%
 27	   61270	  0.34%
 28	   77946	  0.43%
 29	   53906	  0.30%
 30	   99287	  0.55%
 31	  162459	  0.89%
 32	  117767	  0.65%
 33	   62263	  0.34%
 34	   56447	  0.31%
 35	   43070	  0.24%
 36	   60360	  0.33%
 37	   55878	  0.31%
 38	   39678	  0.22%
 39	   43142	  0.24%
 40	   28713	  0.16%
 41	   28916	  0.16%
 42	   51908	  0.29%
 43	   92405	  0.51%
 44	  140949	  0.78%
 45	  574244	  3.16%
 46	  107424	  0.59%
 47	   44560	  0.25%
 48	  290886	  1.60%
 49	      21	  0.00%
 50	      48	  0.00%
 51	13520950	 74.44%


criterion=sequence-density
sequence-density=5.27
sequence-density-rank=1
fanout-score=1.98
fanout-score-rank=10
prefix-density=0.01
prefix-fanout=2.0
sequence=GTGAAATGATGGCAATCATCTTTCGGGACTGACCTGAAATGAAGAGAAAACTCTCTGCTGATC


criterion=fanout-score
sequence-density=0.47
sequence-density-rank=13
fanout-score=37.63
fanout-score-rank=1
prefix-density=5.04
prefix-fanout=3.5
sequence=TGATGACTTTCAT
                                 Started job on |	Dec 28 15:03:11
                             Started mapping on |	Dec 28 15:03:11
                                    Finished on |	Dec 28 15:03:54
       Mapping speed, Million of reads per hour |	1723.55

                          Number of input reads |	20586885
                      Average input read length |	46
                                    UNIQUE READS:
                   Uniquely mapped reads number |	15156719
                        Uniquely mapped reads % |	73.62%
                          Average mapped length |	47.51
                       Number of splices: Total |	11728
            Number of splices: Annotated (sjdb) |	3109
                       Number of splices: GT/AG |	10877
                       Number of splices: GC/AG |	166
                       Number of splices: AT/AC |	7
               Number of splices: Non-canonical |	678
                      Mismatch rate per base, % |	0.37%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.07
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.17
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	3581638
             % of reads mapped to multiple loci |	17.40%
        Number of reads mapped to too many loci |	315212
             % of reads mapped to too many loci |	1.53%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	7.37%
                     % of reads unmapped: other |	0.07%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	1848528	1848528	1848528
N_multimapping	3581638	3581638	3581638
N_noFeature	384781	508943	14518334
N_ambiguous	1296823	782547	54
UnstrandedReadsAssigned:13475115 PositiveStrandReadsAssigned:13865229 NegativeStrandReadsAssigned:638331
Dataset is classified positive stranded
MeadianReadLen=51 20thPercentileLength=45 echo kmer=41
ERR4018144 Starting Kallisto single end mapping to ensembl reference transcriptome. kmer=31

[quant] fragment length distribution is truncated gaussian with mean = 100, sd = 20
[index] k-mer length: 31
[index] number of targets: 31,715
[index] number of k-mers: 49,915,185
[index] number of equivalence classes: 70,351
[quant] running in single-end mode
[quant] will process file 1: ERR4018144-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 20,586,885 reads, 139,365 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 675 rounds

  31716 ERR4018144.ke.tsv
  32883 ERR4018144.se.tsv
  64599 total
==> ERR4018144.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
ENSRNOT00000047550.4	955	856	97	560.066
ENSRNOT00000040993.4	1039	940	153	804.461
ENSRNOT00000050156.3	1545	1446	1103	3770.06
ENSRNOT00000043693.3	684	585	265	2238.88
ENSRNOT00000046201.3	204	105	125	5883.86
ENSRNOT00000046108.3	681	582	60	509.53
ENSRNOT00000049683.3	784	685	67	483.421
ENSRNOT00000041241.3	348	249	48	952.76
ENSRNOT00000044582.3	297	198	75	1872.14

==> ERR4018144.se.tsv <==
ENSRNOG00000046319	0
ENSRNOG00000047964	0
ENSRNOG00000050370	0
ENSRNOG00000032365	0
ENSRNOG00000040300	0
ENSRNOG00000058808	0
ENSRNOG00000061316	0
ENSRNOG00000050129	0
ENSRNOG00000040316	0
ENSRNOG00000023659	0
ERR4018144 completed mapping pipeline successfully
