Starting /dee2/code/volunteer_pipeline.sh ERR4018142
    current disk space = 387258196
    free memory = 195730784 
ERR4018142 SRAfilesize
1161f428433cb41739b8ebe875932e93  ERR4018142.sra
ERR4018142.sra file validated
ERR4018142 is single end
ERR4018142 is conventional basespace
ERR4018142 read1 length is 51 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	ERR4018142_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	31.59925	35.0	35.0	35.0	27.0	35.0
2	33.92975	35.0	35.0	35.0	27.0	35.0
3	34.23525	35.0	35.0	35.0	32.0	35.0
4	34.40675	35.0	35.0	35.0	33.0	35.0
5	33.8435	35.0	35.0	35.0	31.0	35.0
6	38.39525	39.0	39.0	40.0	36.0	40.0
7	39.01125	40.0	39.0	40.0	38.0	40.0
8	39.09525	40.0	39.0	40.0	38.0	40.0
9	39.0695	40.0	39.0	40.0	38.0	40.0
10	39.22125	40.0	39.0	40.0	38.0	40.0
11	39.2175	40.0	39.0	40.0	38.0	40.0
12	39.163	40.0	39.0	40.0	38.0	40.0
13	39.06625	40.0	39.0	40.0	38.0	40.0
14	39.07	40.0	39.0	40.0	38.0	40.0
15	39.12125	40.0	39.0	40.0	38.0	40.0
16	39.105	40.0	39.0	40.0	38.0	40.0
17	39.242	40.0	39.0	40.0	38.0	40.0
18	39.1155	40.0	39.0	40.0	38.0	40.0
19	39.2045	40.0	39.0	40.0	38.0	40.0
20	39.128	40.0	39.0	40.0	38.0	40.0
21	39.199	40.0	39.0	40.0	38.0	40.0
22	39.14925	40.0	39.0	40.0	38.0	40.0
23	39.16575	40.0	39.0	40.0	38.0	40.0
24	39.14225	40.0	39.0	40.0	38.0	40.0
25	39.19275	40.0	39.0	40.0	38.0	40.0
26	39.14275	40.0	39.0	40.0	38.0	40.0
27	39.28675	40.0	39.0	40.0	38.0	40.0
28	39.246	40.0	39.0	40.0	38.0	40.0
29	39.20775	40.0	39.0	40.0	38.0	40.0
30	39.20475	40.0	39.0	40.0	38.0	40.0
31	39.15725	40.0	39.0	40.0	38.0	40.0
32	39.07525	40.0	39.0	40.0	38.0	40.0
33	39.101	40.0	39.0	40.0	38.0	40.0
34	39.11925	40.0	39.0	40.0	38.0	40.0
35	39.10475	40.0	39.0	40.0	38.0	40.0
36	39.1065	40.0	39.0	40.0	38.0	40.0
37	39.0965	40.0	39.0	40.0	38.0	40.0
38	39.08475	40.0	39.0	40.0	38.0	40.0
39	39.07125	40.0	39.0	40.0	38.0	40.0
40	39.04975	40.0	39.0	40.0	38.0	40.0
41	39.11975	40.0	39.0	40.0	38.0	40.0
42	38.99125	40.0	39.0	40.0	38.0	40.0
43	39.0475	40.0	39.0	40.0	38.0	40.0
44	39.08675	40.0	39.0	40.0	38.0	40.0
45	38.98025	40.0	39.0	40.0	38.0	40.0
46	39.0475	40.0	39.0	40.0	38.0	40.0
47	39.08	40.0	39.0	40.0	38.0	40.0
48	39.0785	40.0	39.0	40.0	38.0	40.0
49	38.765	40.0	39.0	40.0	37.0	40.0
50	38.914	40.0	39.0	40.0	37.0	40.0
51	38.42875	39.0	39.0	40.0	36.0	40.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
18	1.0
19	0.0
20	0.0
21	0.0
22	0.0
23	0.0
24	0.0
25	1.0
26	1.0
27	2.0
28	7.0
29	8.0
30	12.0
31	15.0
32	22.0
33	32.0
34	53.0
35	69.0
36	130.0
37	306.0
38	1117.0
39	2224.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	25.184779633178213	17.574596222283052	36.76430331234602	20.47632083219272
2	43.25	13.850000000000001	32.2	10.7
3	22.625	37.425000000000004	11.4	28.549999999999997
4	15.049999999999999	40.1	19.125	25.724999999999998
5	18.7	41.525	16.75	23.025000000000002
6	25.374999999999996	18.275	46.925	9.425
7	55.925000000000004	5.875	29.225	8.975
8	28.575	50.05	12.25	9.125
9	10.025	37.6	43.325	9.049999999999999
10	52.55	12.675	27.150000000000002	7.625
11	42.325	43.275000000000006	8.25	6.15
12	28.65	30.3	16.375	24.675
13	15.2	34.625	19.925	30.25
14	10.2	39.425	33.7	16.675
15	16.3	22.0	37.8	23.9
16	13.475000000000001	30.975	35.55	20.0
17	21.275	24.975	15.9	37.85
18	17.525	31.874999999999996	31.0	19.6
19	14.424999999999999	31.924999999999997	34.075	19.575
20	15.15	23.674999999999997	36.449999999999996	24.725
21	21.875	15.4	54.275	8.450000000000001
22	33.074999999999996	22.075	30.775000000000002	14.075
23	28.199999999999996	30.2	11.5	30.099999999999998
24	33.475	26.200000000000003	20.325	20.0
25	31.525	23.724999999999998	13.875000000000002	30.875000000000004
26	26.05	21.025	22.7	30.225
27	31.825	21.05	12.025	35.099999999999994
28	17.825	18.95	30.5	32.725
29	29.275000000000002	17.825	30.075000000000003	22.825
30	33.650000000000006	16.525000000000002	28.275	21.55
31	27.450000000000003	27.05	26.900000000000002	18.6
32	27.925	21.725	21.275	29.075
33	13.4	29.349999999999998	17.775	39.475
34	12.525	20.200000000000003	33.2	34.075
35	26.3	27.150000000000002	24.7	21.85
36	32.025	39.95	10.575	17.45
37	11.924999999999999	47.975	22.25	17.849999999999998
38	20.65	34.75	10.775	33.825
39	22.2	32.300000000000004	29.125	16.375
40	30.95	21.775	21.25	26.025
41	33.074999999999996	27.35	21.349999999999998	18.224999999999998
42	19.475	41.175	28.199999999999996	11.15
43	21.4	29.549999999999997	23.7	25.35
44	26.174999999999997	38.175	22.1	13.55
45	23.075000000000003	44.074999999999996	16.075	16.775000000000002
46	23.200000000000003	32.6	23.175	21.025
47	12.0	32.275	36.65	19.075
48	23.45	40.35	20.349999999999998	15.85
49	11.200000000000001	40.65	32.975	15.174999999999999
50	23.599999999999998	21.45	20.474999999999998	34.475
51	26.674999999999997	22.1	23.724999999999998	27.500000000000004
>>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	0.5
20	1.0
21	0.5
22	0.0
23	0.0
24	0.0
25	3.0
26	3.0
27	0.0
28	12.5
29	25.0
30	35.0
31	45.0
32	31.5
33	18.0
34	61.5
35	105.0
36	336.5
37	568.0
38	503.5
39	439.0
40	422.0
41	405.0
42	272.0
43	139.0
44	145.0
45	151.0
46	256.0
47	361.0
48	452.5
49	544.0
50	483.5
51	423.0
52	325.5
53	228.0
54	199.0
55	170.0
56	153.5
57	137.0
58	125.0
59	113.0
60	84.0
61	55.0
62	34.0
63	13.0
64	11.5
65	10.0
66	11.5
67	13.0
68	15.0
69	17.0
70	15.0
71	13.0
72	7.0
73	1.0
74	0.5
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	8.674999999999999
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	32.775
#Duplication Level	Percentage of deduplicated	Percentage of total
1	79.78642257818458	26.150000000000002
2	7.856598016781083	5.1499999999999995
3	3.279938977879481	3.225
4	1.2967200610221206	1.7000000000000002
5	1.2967200610221206	2.125
6	0.9916094584286803	1.95
7	0.7627765064836003	1.7500000000000002
8	0.5339435545385203	1.4000000000000001
9	0.9916094584286803	2.9250000000000003
>10	2.364607170099161	16.275000000000002
>50	0.30511060259344014	6.175
>100	0.5339435545385203	31.175000000000004
>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
AGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGTCAAATCTCGTATGC	262	6.550000000000001	TruSeq Adapter, Index 13 (98% over 50bp)
TGAAATGATGGCAATCATCTTTCGGGACTGACCTGAAATGAAGAGAAAACT	244	6.1	No Hit
GTAAATGATGAGATTTCCATTGGTCCGTGTTTCTGAACTCCATGATTTTTG	209	5.225	No Hit
TGCACTGATGAAACTAGAAATAGGAAGTGCCGTCCGAAACGACAACTGACG	175	4.375	No Hit
GTGAAATGATGGCAATCATCTTTCGGGACTGACCTGAAATGAAGAGAAAAC	141	3.5249999999999995	No Hit
TTGCTGTGATGACTATCTTAGGACACCTTTGGATTAACCGTGAAATAAAAC	111	2.775	No Hit
GGAAGAGCACACGTCTGAACTCCAGTCACAGTCAAATCTCGTATGCCGTCT	105	2.625	TruSeq Adapter, Index 13 (98% over 51bp)
CTCGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTAGATCG	71	1.775	No Hit
TACTGTGATGATAACATAGTTCAGCAGACGTGACTCTGGTGAACAATCATG	68	1.7000000000000002	No Hit
TTGCAATGATGTGAATCTTTTGCTGAAGTGACCTTGAAGTGTAATTCCTGA	57	1.425	No Hit
CACAATGATGACTTATGTTTTTGCCGTTTACCCAGCTGAGGGTTTCTTTGA	51	1.275	No Hit
ATACATGATGATCTCACTCCAACTTGAACTCTCTCACTGATTACTTGATGA	46	1.15	No Hit
CGCGACCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGTCAAAT	45	1.125	TruSeq Adapter, Index 13 (97% over 41bp)
GGTCTGTGATGAAACCCATTATCAGTGGACATCTATGGATGAGAAATGCGG	44	1.0999999999999999	No Hit
TGGAATGATGACATTCTCCGGAATCGCTGTACTGTCTTGATGAAAGTACTT	31	0.775	No Hit
NGAAATGATGGCAATCATCTTTCGGGACTGACCTGAAATGAAGAGAAAACT	30	0.75	No Hit
CTGCGATGATGTCATTTCTTAGGACACCTTTGGATTAATCATGAAAATAGC	29	0.7250000000000001	No Hit
TGCTGTGATGAGGACACCAGTAGGAAGTGCCGTCAGAGTCGATAACTGACG	28	0.7000000000000001	No Hit
GTTCTGTGATGAGACTCTGGAATGTGCGCTGGGCACAGCGCCCGAGTGAGA	26	0.65	No Hit
TCGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTAGATCGG	22	0.5499999999999999	No Hit
NGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGTCAAATCTCGTATGC	21	0.525	TruSeq Adapter, Index 13 (98% over 50bp)
CTTAATGATGATTGTCTATTTGATTGCTTGATGCAATGTGAAAACCACATT	21	0.525	No Hit
TTGAGTGATGACTTGTATTGTCGGATACCCCTTCACCCCGTTCATGGGTGA	21	0.525	No Hit
CACCCTGATGAACTGAATACCGCCCCAGTCTGATAGATGTGGAGAAAGGTA	20	0.5	No Hit
AGTAAATGATGAGATTTCCATTGGTCCGTGTTTCTGAACTCCATGATTTTT	19	0.475	No Hit
GGTCAATGATGTGTTGGCATGTATTATCTGAATTTGCTGATGTGTCCTAAC	19	0.475	No Hit
NTAAATGATGAGATTTCCATTGGTCCGTGTTTCTGAACTCCATGATTTTTG	18	0.44999999999999996	No Hit
NGCACTGATGAAACTAGAAATAGGAAGTGCCGTCCGAAACGACAACTGACG	18	0.44999999999999996	No Hit
TAGCTTATCAGACTGATGTTGACAGATCGGAAGAGCACACGTCTGAACTCC	17	0.42500000000000004	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
CACCCTGATGAACTGAATACCGCCCCAGTCTGATAGCTGTGGAGAAAGGTA	17	0.42500000000000004	No Hit
GCGGATGATGACACCTGGGTATGCTGCACATTCCCGACTGCGTCGTGGGGA	16	0.4	No Hit
NTGAAATGATGGCAATCATCTTTCGGGACTGACCTGAAATGAAGAGAAAAC	16	0.4	No Hit
ATCGATGTGGTGCTGCCGCGTTCTCTTCGGGCCGGGGCCTAAGCCGCGCCA	15	0.375	No Hit
CTTCTGTGATGACTTTACCCAAATGACTTTCGTTCTTCTGAGTTTGCTGAA	14	0.35000000000000003	No Hit
GCTAATGATGATACCGCACTAACTGAGCAGTTAGTAGTTGGTCCTTTGATT	14	0.35000000000000003	No Hit
GGTCAATGATGAGCTGGCATGTATTCTGAATCTAAAGTTGATTAATAACCA	13	0.325	No Hit
CGACTCTTAGCGGTGGATCACTCGGCTCGTGAGATCGGAAGAGCACACGTC	13	0.325	No Hit
TGAAGTGATGATTCACAATCATGTCTCTTCTCTGAAGAATTCTTGGAGATT	13	0.325	No Hit
AACCCGTAGATCCGATCTTGTAGATCGGAAGAGCACACGTCTGAACTCCAG	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TTCTGTGATGAGACTCTGGAATGTGCGCTGGGCACAGCGCCCGAGTGAGAC	12	0.3	No Hit
TCAGTGCACTACAGAACTTTGTAGATCGGAAGAGCACACGTCTGAACTCCA	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GTGGAATGATGACATTCTCCGGAATCGCTGTACTGTCTTGATGAAAGTACT	10	0.25	No Hit
ACAAGTGATGACTAACAAAGGGACTTAATACTGAAACATCTGGGATTGAAA	9	0.22499999999999998	No Hit
CGCGACCTCAGATCAGACGTGGCGACCCGCTGAATTTAAGCATATTAGTCA	9	0.22499999999999998	No Hit
CGCGACCTTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGTCAAAT	9	0.22499999999999998	TruSeq Adapter, Index 13 (97% over 41bp)
CCGCGACCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGTCAAA	9	0.22499999999999998	TruSeq Adapter, Index 13 (97% over 39bp)
TGCTGTGATGACTATCTTAGGACACCTTTGGATTAACCGTGAAATAAAACA	9	0.22499999999999998	No Hit
ACTTAATGATGATTGTCTATTTGATTGCTTGATGCAATGTGAAAACCACAT	9	0.22499999999999998	No Hit
TTTGAGTGATGACTTGTATTGTCGGATACCCCTTCACCCCGTTCATGGGTG	9	0.22499999999999998	No Hit
AAATATGATGAGCATACAAAATGTTGATTACAGTGAAAAACAGTAAGATCC	9	0.22499999999999998	No Hit
ATCTATGATGATCCTATCCCGAATCTGAATTCCTGTTGAAAAAATATAATT	9	0.22499999999999998	No Hit
CGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTAGATCGGA	9	0.22499999999999998	No Hit
CTGCAGTGATGACTTTCTTAGGACACCTTTGGATTTACCGTGAAAATAAGT	9	0.22499999999999998	No Hit
ACCCCTGTGATGTTCAGCACTGGGCTCTGATCACCCTGAGGACATGGAGCT	9	0.22499999999999998	No Hit
CGCGACCTCAGATCAGACGTAGATCGGAAGAGCACACGTCTGAACTCCAGT	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
NTCGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTAGATCG	8	0.2	No Hit
CACCCGTAGAACCGACCTTGCGAGATCGGAAGAGCACACGTCTGAACTCCA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
ACAAATGATGAATCCTTTGACGGGCGGGCAGAATCTCTGTGCTGATTGTCA	8	0.2	No Hit
NGAAGAGCACACGTCTGAACTCCAGTCACAGTCAAATCTCGTATGCCGTCT	8	0.2	TruSeq Adapter, Index 13 (97% over 35bp)
GCACAATGATGACTTATGTTTTTGCCGTTTACCCAGCTGAGGGTTTCTTTG	8	0.2	No Hit
CGTTGGATCGATGTGGTGCTGCCGCGTTCTCTTCGGGCCGGGGCCTAAGCC	8	0.2	No Hit
CTACAATGATGGTAATATTTTTCGTCAACAGAGTTCACCTAGTGAGTGTTG	8	0.2	No Hit
TCGATGTGGTGCTGCCGCGTTCTCTTCGGGCCGGGGCCTAAGCCGCGCCAG	7	0.17500000000000002	No Hit
TGAGGTAGTAGTTTGTGCTGTTAGATCGGAAGAGCACACGTCTGAACTCCA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
NTGCTGTGATGACTATCTTAGGACACCTTTGGATTAACCGTGAAATAAAAC	7	0.17500000000000002	No Hit
TTCTGTGATGACTTTACCCAAATGACTTTCGTTCTTCTGAGTTTGCTGAAG	7	0.17500000000000002	No Hit
GACTCTTAGCGGTGGATCACTCGGCTCGTGCGAGATCGGAAGAGCACACGT	7	0.17500000000000002	No Hit
CGACTCTTAGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGTCAA	7	0.17500000000000002	TruSeq Adapter, Index 13 (100% over 39bp)
CTCCCATGATGTATAGCACTGGGCTCTGACCACCATGGTGACGTGTTGTGC	7	0.17500000000000002	No Hit
NTACATGATGATCTCACTCCAACTTGAACTCTCTCACTGATTACTTGATGA	7	0.17500000000000002	No Hit
TAGCTTATCAGACTGATGTTGACTAGATCGGAAGAGCACACGTCTGAACTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
CTTCGGTGATGACACGATGACGAGTCAGAAAGGCCACGTCTTGCTCTTGGG	7	0.17500000000000002	No Hit
AACAGTGATGACCACAACATGCCATCTGAGTTGCTTTGCTGAAATCCAGAG	6	0.15	No Hit
GTGCAATGATGTGTGAATTTCTTCACCTGAAATCACCGTGAAGAGTAATTT	6	0.15	No Hit
CGCGACCTCAGATCAGACGTGGCGACCCGCTGAAAGATCGGAAGAGCACAC	6	0.15	No Hit
TATCGATGATGTCCTAAAAGTAAATGTCTGAACATATGAATGCTATACTGA	6	0.15	No Hit
GACTCTTAGCGGTGGATCACTCGGCTCGTGCGTCGATGAAGAACGCAGCTA	6	0.15	No Hit
TTCAAGTAATCCAGGATAGGCTAGATCGGAAGAGCACACGTCTGAACTCCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
CTCGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGCAGATCG	6	0.15	No Hit
NACCCTGATGAACTGAATACCGCCCCAGTCTGATAGATGTGGAGAAAGGTA	6	0.15	No Hit
TGCAATGATGAAGGTTATGTTGGTAGGGACAACTGACCTTGTTGATGAATA	6	0.15	No Hit
CACAAGTGATGACTAACAAAGGGACTTAATACTGAAACATCTGGGATTGAA	6	0.15	No Hit
TTGCTGTGATGACTTTCATTGGGTTTCGCATATTGCTGAGTTCCCATGATG	6	0.15	No Hit
CGCGACCTCAGATCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGT	6	0.15	TruSeq Adapter, Index 8 (97% over 36bp)
GAGCAATGATGACCCCAACATGCCATCTGAGTTGCTTTGCTGAAATCCAGA	6	0.15	No Hit
AGTCTGTGATGAGCAATAATCACCATCTTTCGTTTGAGTCTCACGACTGTG	5	0.125	No Hit
CGCGACCTCAGATCAGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TCAAGTGATGGAGACATGACCCTGGGAGGCCCATGACCGAACTGTCTGTAT	5	0.125	No Hit
ATATATGATGACTTTCATAGAATCTCGTTCGGCTGATGATTGCTGTTGAGA	5	0.125	No Hit
TGCACTGATGAAACTAGAAATAGGAAGTGCCGTCCGAAACGACAACCGACG	5	0.125	No Hit
NGTCTGTGATGAAACCCATTATCAGTGGACATCTATGGATGAGAAATGCGG	5	0.125	No Hit
TGAGGTAGTAGGTTGTATAGTTAGATCGGAAGAGCACACGTCTGAACTCCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GACTCTTAGCGGTGGATCACTCGGCTCGTGAGATCGGAAGAGCACACGTCT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
GCAGATGATGGTATATTCTCACGATGGTCTTCGGATGCCACAGTGCCGATA	5	0.125	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCAGATCGGAAGAGCACACGTC	5	0.125	No Hit
TCAAATGATGATATCACCTTAAATAGCTGGAATTACCGGCAGATTGCTAGT	5	0.125	No Hit
ATACTGTGATGATAACATAGTTCAGCAGACGTGACTCTGGTGAACAATCAT	5	0.125	No Hit
CACAAATGATGAATCCTTTGACGGGCGGGCAGAATCTCTGTGCTGATTGTC	5	0.125	No Hit
AACTGTGATGAAAGATTTGGTCTATACAGTAATATATTTATTACTAATGAG	5	0.125	No Hit
TAGCTTATCAGACTGATGTTGACAAGATCGGAAGAGCACACGTCTGAACTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GGCTGGTCCGAAGGTAGTGAGTTATCTCAATTAGATCGGAAGAGCACACGT	5	0.125	No Hit
TGTCCCATTTGACTACCACATTTCCTACTGATAATAGATTTTGGTGGCTAT	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	6.85	0.0	0.0	0.0	0.0
2	6.925	0.0	0.0	0.0	0.0
3	6.95	0.0	0.0	0.0	0.0
4	6.95	0.0	0.0	0.0	0.0
5	7.0	0.0	0.0	0.0	0.0
6	7.05	0.0	0.0	0.0	0.0
7	7.125	0.0	0.0	0.0	0.0
8	7.225	0.0	0.0	0.0	0.0
9	7.425	0.0	0.0	0.0	0.0
10	9.3	0.0	0.0	0.0	0.0
11	9.925	0.0	0.0	0.0	0.0
12	10.325	0.0	0.0	0.0	0.0
13	10.675	0.0	0.0	0.0	0.0
14	11.275	0.0	0.0	0.0	0.0
15	11.775	0.0	0.0	0.0	0.0
16	12.15	0.0	0.0	0.0	0.0
17	12.525	0.0	0.0	0.0	0.0
18	13.1	0.0	0.0	0.0	0.0
19	13.65	0.0	0.0	0.0	0.0
20	13.9	0.0	0.0	0.0	0.0
21	14.75	0.0	0.0	0.0	0.0
22	16.225	0.0	0.0	0.0	0.0
23	19.55	0.0	0.0	0.0	0.0
24	21.675	0.0	0.0	0.0	0.0
25	22.75	0.0	0.0	0.0	0.0
26	23.175	0.0	0.0	0.0	0.0
27	23.525	0.0	0.0	0.0	0.0
28	23.825	0.0	0.0	0.0	0.0
29	24.275	0.0	0.0	0.0	0.0
30	24.475	0.0	0.0	0.0	0.0
31	25.25	0.0	0.0	0.0	0.0
32	26.35	0.0	0.0	0.0	0.0
33	27.125	0.0	0.0	0.0	0.0
34	27.45	0.0	0.0	0.0	0.0
35	27.7	0.0	0.0	0.0	0.0
36	28.025	0.0	0.0	0.0	0.0
37	28.35	0.0	0.0	0.0	0.0
38	28.725	0.0	0.0	0.0	0.0
39	28.85	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
GTAAATG	20	4.519348E-4	47.93334	1
TTGCTGT	20	4.519348E-4	47.93334	1
GTTCTGT	15	0.0092103155	47.933334	1
ATGACTA	30	1.6876074E-6	44.937504	9
TTCTGTG	30	1.6876074E-6	44.937504	2
AACCGTG	25	3.2628042E-5	44.9375	36
CATTGGT	25	3.2628042E-5	44.9375	18
CCGTGAA	25	3.2628042E-5	44.9375	38
TAAATGA	20	6.2657724E-4	44.9375	2
ATCTTAG	25	3.2628042E-5	44.9375	15
ATGATTT	25	3.2628042E-5	44.9375	42
TGACTAT	25	3.2628042E-5	44.9375	10
TTTCCAT	25	3.2628042E-5	44.9375	14
TGATTTT	25	3.2628042E-5	44.9375	43
ATTGGTC	25	3.2628042E-5	44.9375	19
CTCCATG	25	3.2628042E-5	44.9375	38
GAAAACT	40	4.4110493E-9	44.9375	45
AAATAAA	25	3.2628042E-5	44.9375	43
ACCGTGA	25	3.2628042E-5	44.9375	37
ACTCCAT	25	3.2628042E-5	44.9375	37
>>END_MODULE
Rejected 2699743 READS because READLEN < 1
Read 2699743 spots for ERR4018142.sra
Written 2699743 spots for ERR4018142.sra
Rejected 2699743 READS because READLEN < 1
Read 2699743 spots for ERR4018142.sra
Written 2699743 spots for ERR4018142.sra
Rejected 2699743 READS because READLEN < 1
Read 2699743 spots for ERR4018142.sra
Written 2699743 spots for ERR4018142.sra
Rejected 2699743 READS because READLEN < 1
Read 2699743 spots for ERR4018142.sra
Written 2699743 spots for ERR4018142.sra
Rejected 2699743 READS because READLEN < 1
Read 2699743 spots for ERR4018142.sra
Written 2699743 spots for ERR4018142.sra
Rejected 2699743 READS because READLEN < 1
Read 2699743 spots for ERR4018142.sra
Written 2699743 spots for ERR4018142.sra
Rejected 2699743 READS because READLEN < 1
Read 2699743 spots for ERR4018142.sra
Written 2699743 spots for ERR4018142.sra
Rejected 2699744 READS because READLEN < 1
Read 2699744 spots for ERR4018142.sra
Written 2699744 spots for ERR4018142.sra
SRR ids: ['ERR4018142.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_napxm13l
ERR4018142.sra spots: 21597945
blocks: [[1, 2699743], [2699744, 5399486], [5399487, 8099229], [8099230, 10798972], [10798973, 13498715], [13498716, 16198458], [16198459, 18898201], [18898202, 21597945]]
ERR4018142 file size 3057700
ERR4018142 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 ERR4018142 ERR4018142_1.fastq
Input file:	ERR4018142_1.fastq
trimmed:	ERR4018142-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 15:00:59 2025 >> started

Sun Dec 28 15:01:06 2025 >> done (6.105s)
21597945 reads processed; of these:
 1365249 ( 6.32%) short reads filtered out after trimming by size control
 1693324 ( 7.84%) empty reads filtered out after trimming by size control
18539372 (85.84%) reads available; of these:
  199044 ( 1.07%) trimmed reads available after processing
18340328 (98.93%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  106072	  0.57%
 19	   92862	  0.50%
 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	      54	  0.00%
 50	      56	  0.00%
 51	18340328	 98.93%
18539372 reads passed initial QC


criterion=sequence-density
sequence-density=17.56
sequence-density-rank=1
fanout-score=34.67
fanout-score-rank=1
prefix-density=18.31
prefix-fanout=33.3
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGTCAAATCTCGTATGCCGTCTTC


criterion=fanout-score
sequence-density=17.56
sequence-density-rank=1
fanout-score=34.67
fanout-score-rank=1
prefix-density=18.31
prefix-fanout=33.3
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGTCAAATCTCGTATGCCGTCTTC
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 AGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGTCAAATCTCGTATGCCGTCTTC -o ERR4018142 -
Input file:	STDIN
trimmed:	ERR4018142-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	AGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGTCAAATCTCGTATGCCGTCTTC
-- 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 15:01:18 2025 >> started

Sun Dec 28 15:01:28 2025 >> done (10.279s)
16479442 reads processed; of these:
    6209 ( 0.04%) short reads filtered out after trimming by size control
    2815 ( 0.02%) empty reads filtered out after trimming by size control
16470418 (99.95%) reads available; of these:
 4282769 (26.00%) trimmed reads available after processing
12187649 (74.00%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	   91559	  0.56%
 19	   84068	  0.51%
 20	  136902	  0.83%
 21	  293228	  1.78%
 22	  616226	  3.74%
 23	  415856	  2.52%
 24	  251004	  1.52%
 25	   94143	  0.57%
 26	   68752	  0.42%
 27	   67952	  0.41%
 28	   86602	  0.53%
 29	   60572	  0.37%
 30	  116729	  0.71%
 31	  208038	  1.26%
 32	  145163	  0.88%
 33	   75452	  0.46%
 34	   72541	  0.44%
 35	   51182	  0.31%
 36	   71056	  0.43%
 37	   64976	  0.39%
 38	   43440	  0.26%
 39	   48215	  0.29%
 40	   30019	  0.18%
 41	   30302	  0.18%
 42	   54294	  0.33%
 43	   90836	  0.55%
 44	  139686	  0.85%
 45	  563932	  3.42%
 46	   87398	  0.53%
 47	   41890	  0.25%
 48	  253212	  1.54%
 49	      30	  0.00%
 50	      37	  0.00%
 51	12015126	 72.95%


criterion=sequence-density
sequence-density=4.98
sequence-density-rank=1
fanout-score=1.99
fanout-score-rank=10
prefix-density=0.02
prefix-fanout=2.0
sequence=GTGAAATGATGGCAATCATCTTTCGGGACTGACCTGAAATGAAGAGAAAACTCTCTGCTGATC


criterion=fanout-score
sequence-density=0.50
sequence-density-rank=12
fanout-score=36.68
fanout-score-rank=1
prefix-density=4.79
prefix-fanout=3.8
sequence=TGATGACTTTCAT
                                 Started job on |	Dec 28 15:01:37
                             Started mapping on |	Dec 28 15:01:37
                                    Finished on |	Dec 28 15:02:11
       Mapping speed, Million of reads per hour |	1962.04

                          Number of input reads |	18530348
                      Average input read length |	46
                                    UNIQUE READS:
                   Uniquely mapped reads number |	13226372
                        Uniquely mapped reads % |	71.38%
                          Average mapped length |	47.66
                       Number of splices: Total |	11966
            Number of splices: Annotated (sjdb) |	2599
                       Number of splices: GT/AG |	11182
                       Number of splices: GC/AG |	194
                       Number of splices: AT/AC |	2
               Number of splices: Non-canonical |	588
                      Mismatch rate per base, % |	0.38%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.07
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.23
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	3285393
             % of reads mapped to multiple loci |	17.73%
        Number of reads mapped to too many loci |	409113
             % of reads mapped to too many loci |	2.21%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	8.59%
                     % of reads unmapped: other |	0.10%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	2018583	2018583	2018583
N_multimapping	3285393	3285393	3285393
N_noFeature	359291	463275	12715019
N_ambiguous	1100856	693440	49
UnstrandedReadsAssigned:11766225 PositiveStrandReadsAssigned:12069657 NegativeStrandReadsAssigned:511304
Dataset is classified positive stranded
MeadianReadLen=51 20thPercentileLength=43 echo kmer=39
ERR4018142 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: ERR4018142-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 18,530,348 reads, 124,374 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 597 rounds

  31716 ERR4018142.ke.tsv
  32883 ERR4018142.se.tsv
  64599 total
==> ERR4018142.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
ENSRNOT00000047550.4	955	856	74	471.901
ENSRNOT00000040993.4	1039	940	124	720.09
ENSRNOT00000050156.3	1545	1446	882	3329.61
ENSRNOT00000043693.3	684	585	295	2752.7
ENSRNOT00000046201.3	204	105	141	7330.32
ENSRNOT00000046108.3	681	582	59	553.378
ENSRNOT00000049683.3	784	685	78	621.58
ENSRNOT00000041241.3	348	249	45	986.52
ENSRNOT00000044582.3	297	198	64	1764.44

==> ERR4018142.se.tsv <==
ENSRNOG00000046319	0
ENSRNOG00000047964	0
ENSRNOG00000050370	0
ENSRNOG00000032365	0
ENSRNOG00000040300	0
ENSRNOG00000058808	0
ENSRNOG00000061316	0
ENSRNOG00000050129	0
ENSRNOG00000040316	0
ENSRNOG00000023659	0
ERR4018142 completed mapping pipeline successfully
