Starting /dee2/code/volunteer_pipeline.sh SRR9060567
    current disk space = 810618536
    free memory = 114603992 
SRR9060567 SRAfilesize
c34869984d52ba6dcd2ac6d0ef5dca92  SRR9060567.sra
SRR9060567.sra file validated
SRR9060567 is single end
SRR9060567 is conventional basespace
SRR9060567 read1 length is 49-51 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR9060567_1.fastq
File type	Conventional base calls
Encoding	Sanger / Illumina 1.9
Total Sequences	4000
Sequences flagged as poor quality	0
Sequence length	49-51
%GC	52
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	30.418	32.0	32.0	32.0	21.0	32.0
2	31.40775	32.0	32.0	32.0	32.0	32.0
3	31.7085	32.0	32.0	32.0	32.0	32.0
4	31.60025	32.0	32.0	32.0	32.0	32.0
5	31.71875	32.0	32.0	32.0	32.0	32.0
6	34.60675	36.0	36.0	36.0	36.0	36.0
7	35.1345	36.0	36.0	36.0	36.0	36.0
8	35.10525	36.0	36.0	36.0	36.0	36.0
9	35.12725	36.0	36.0	36.0	36.0	36.0
10	35.15725	36.0	36.0	36.0	36.0	36.0
11	35.292	36.0	36.0	36.0	36.0	36.0
12	35.1535	36.0	36.0	36.0	36.0	36.0
13	35.20975	36.0	36.0	36.0	36.0	36.0
14	35.334	36.0	36.0	36.0	36.0	36.0
15	35.21675	36.0	36.0	36.0	36.0	36.0
16	35.262	36.0	36.0	36.0	36.0	36.0
17	35.3275	36.0	36.0	36.0	36.0	36.0
18	35.1615	36.0	36.0	36.0	36.0	36.0
19	35.1755	36.0	36.0	36.0	36.0	36.0
20	35.19425	36.0	36.0	36.0	36.0	36.0
21	35.261	36.0	36.0	36.0	36.0	36.0
22	35.2755	36.0	36.0	36.0	36.0	36.0
23	35.33375	36.0	36.0	36.0	36.0	36.0
24	35.22075	36.0	36.0	36.0	36.0	36.0
25	35.0985	36.0	36.0	36.0	36.0	36.0
26	35.245	36.0	36.0	36.0	36.0	36.0
27	35.19525	36.0	36.0	36.0	36.0	36.0
28	35.31375	36.0	36.0	36.0	36.0	36.0
29	35.10625	36.0	36.0	36.0	36.0	36.0
30	34.88925	36.0	36.0	36.0	32.0	36.0
31	35.248	36.0	36.0	36.0	36.0	36.0
32	35.20025	36.0	36.0	36.0	36.0	36.0
33	35.127	36.0	36.0	36.0	36.0	36.0
34	35.20075	36.0	36.0	36.0	36.0	36.0
35	35.0885	36.0	36.0	36.0	36.0	36.0
36	35.0675	36.0	36.0	36.0	36.0	36.0
37	35.08725	36.0	36.0	36.0	36.0	36.0
38	35.041	36.0	36.0	36.0	36.0	36.0
39	34.9145	36.0	36.0	36.0	36.0	36.0
40	34.83525	36.0	36.0	36.0	36.0	36.0
41	34.8095	36.0	36.0	36.0	36.0	36.0
42	34.991	36.0	36.0	36.0	36.0	36.0
43	34.9145	36.0	36.0	36.0	36.0	36.0
44	35.01775	36.0	36.0	36.0	36.0	36.0
45	34.988	36.0	36.0	36.0	36.0	36.0
46	34.84275	36.0	36.0	36.0	36.0	36.0
47	34.7355	36.0	36.0	36.0	32.0	36.0
48	34.29	36.0	36.0	36.0	32.0	36.0
49	34.2865	36.0	36.0	36.0	32.0	36.0
50	34.43775317310289	36.0	36.0	36.0	32.0	36.0
51	33.63688633348076	36.0	36.0	36.0	27.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
21	1.0
22	2.0
23	1.0
24	5.0
25	12.0
26	12.0
27	31.0
28	31.0
29	50.0
30	67.0
31	98.0
32	143.0
33	243.0
34	588.0
35	2716.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	12.15	43.0	15.55	29.299999999999997
2	19.7	27.625	25.35	27.325
3	31.974999999999998	18.35	29.599999999999998	20.075000000000003
4	31.724999999999998	22.225	19.400000000000002	26.650000000000002
5	34.949999999999996	19.45	19.45	26.150000000000002
6	27.773546585427773	26.25031733942625	27.545062198527543	18.43107387661843
7	31.874999999999996	20.974999999999998	22.925	24.224999999999998
8	31.125000000000004	18.099999999999998	28.725	22.05
9	31.175000000000004	21.875	31.0	15.950000000000001
10	35.975	24.5	25.724999999999998	13.8
11	36.475	26.125	20.95	16.45
12	20.474999999999998	23.325000000000003	39.25	16.950000000000003
13	22.975	31.525	26.85	18.65
14	21.325	19.85	36.3	22.525000000000002
15	28.425	17.349999999999998	34.425	19.8
16	29.049999999999997	22.400000000000002	27.975	20.575
17	30.575000000000003	18.15	24.2	27.075
18	30.85	23.025000000000002	27.725	18.4
19	35.35	24.925	22.875	16.85
20	38.775	18.85	22.825	19.55
21	30.525000000000002	20.200000000000003	28.449999999999996	20.825
22	30.3	22.95	27.525	19.225
23	25.7	23.674999999999997	25.424999999999997	25.2
24	19.425	25.6	28.925	26.05
25	24.575	31.35	20.724999999999998	23.35
26	31.2	27.700000000000003	21.4	19.7
27	33.4	27.275	23.875	15.45
28	34.35	26.75	24.224999999999998	14.674999999999999
29	31.525	24.25	23.75	20.474999999999998
30	31.075000000000003	29.45	23.674999999999997	15.8
31	28.625	24.525	30.475	16.375
32	27.05	18.6	38.074999999999996	16.275000000000002
33	28.050000000000004	21.425	31.275	19.25
34	26.424999999999997	27.400000000000002	26.05	20.125
35	35.475	22.175	29.45	12.9
36	31.624999999999996	22.3	32.35	13.725000000000001
37	29.15	28.225	26.5	16.125
38	24.15	29.15	28.775000000000002	17.925
39	18.3	25.224999999999998	32.95	23.525
40	20.775	20.349999999999998	35.375	23.5
41	31.175000000000004	9.55	30.725	28.549999999999997
42	31.95	5.075	33.45	29.525000000000002
43	32.65	4.55	25.825	36.975
44	40.625	10.549999999999999	24.325	24.5
45	41.075	13.15	15.975	29.799999999999997
46	46.025	14.524999999999999	13.850000000000001	25.6
47	39.050000000000004	18.3	20.075000000000003	22.575
48	36.175000000000004	23.849999999999998	15.525	24.45
49	26.174999999999997	23.75	18.825	31.25
50	31.05590062111801	17.09424790710235	11.423170402376453	40.42668106940319
51	29.234851835471034	0.0	20.123839009287924	50.641309155241046
>>END_MODULE
>>Per sequence GC content	warn
#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	1.0
20	1.0
21	1.5
22	2.0
23	1.5
24	1.0
25	0.5
26	0.0
27	1.5
28	3.0
29	2.0
30	1.5
31	2.0
32	2.5
33	3.0
34	3.0
35	3.0
36	5.5
37	11.0
38	25.0
39	39.5
40	59.5
41	82.0
42	97.0
43	119.5
44	187.0
45	268.5
46	292.5
47	310.0
48	365.5
49	442.0
50	487.0
51	439.0
52	474.0
53	719.0
54	826.5
55	613.0
56	417.5
57	364.5
58	350.5
59	329.0
60	259.0
61	202.5
62	112.0
63	33.5
64	19.5
65	6.0
66	3.5
67	1.5
68	1.5
69	2.5
70	2.0
71	0.5
72	0.0
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	pass
#Base	N-Count
1	0.0
2	0.0
3	0.0
4	0.0
5	0.0
6	1.525
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	warn
#Length	Count
49	297.0
50	1442.0
51	2261.0
>>END_MODULE
>>Sequence Duplication Levels	warn
#Total Deduplicated Percentage	63.349999999999994
#Duplication Level	Percentage of deduplicated	Percentage of total
1	88.51617995264404	56.074999999999996
2	5.761641673243883	7.3
3	2.091554853985793	3.975
4	0.9865824782951855	2.5
5	0.35516969218626676	1.125
6	0.4735595895816891	1.7999999999999998
7	0.2762430939226519	1.225
8	0.23677979479084454	1.2
9	0.15785319652722968	0.8999999999999999
>10	0.9471191791633782	9.35
>50	0.07892659826361484	3.5999999999999996
>100	0.11838989739542227	10.95
>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
CCTCCAGTTGGTACGTCTGGTTCAGGGTTGTTTTGGAATTCTCGGGTGCC	196	4.9	No Hit
AAGAGAAGGTGTCTTGCTGGCGGTAGTGGAATTCTCGGGTGCCAAGGAACT	136	3.4000000000000004	RNA PCR Primer, Index 1 (100% over 25bp)
CGGGGTGCAATTATTAGAACAGACCAAACTGGAATTCTCGGGTGCCAAGG	106	2.65	Illumina Small RNA Adapter 2 (100% over 21bp)
ATACTGCGATCTGTTGAGACTATCCTTTGATTGAGTGGAATTCTCGGGTGC	78	1.95	No Hit
GATTGTGCTTGCTTGCGGACGCTTTCTGGTGTTGGAATTCTCGGGTGCCA	66	1.6500000000000001	No Hit
CTTGGTCAAGGTGTTGTATTCAGTAGAGCAGTCCTTGGAATTCTCGGGTGC	38	0.95	No Hit
ATTGTGCTTGCTTGCGGACGCTTTCTGGTGTGGAATTCTCGGGTGCCAAGG	27	0.675	Illumina Small RNA Adapter 2 (100% over 21bp)
AACTGTGGTCGTGACTTCTAATTTGCTGGTTTGTGGAATTCTCGGGTGCC	23	0.575	No Hit
CTTGGTCAAGGTGTTGTATTCAGTAGAGCAGTCCTGGAATTCTCGGGTGCC	21	0.525	No Hit
GATTGTGCTTGCTTGCGGACGCTTTCTGGTGTGGAATTCTCGGGTGCCA	19	0.475	No Hit
ATTGTGCTTGCTTGCGGACGCTTTCTGGTGTTGGAATTCTCGGGTGCCA	18	0.44999999999999996	No Hit
TTGTGATCGTTGCCGGGTGTCGTTTCCTTGGAATTCTCGGGTGCCAAGGA	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 22bp)
ATTGGTTTGAACCGGGTAAAAGTCGTAACTGGAATTCTCGGGTGCCAAGG	16	0.4	Illumina Small RNA Adapter 2 (100% over 21bp)
ACGGACCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACATCTC	15	0.375	RNA PCR Primer, Index 11 (100% over 44bp)
GCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACATCTCG	15	0.375	RNA PCR Primer, Index 11 (100% over 45bp)
AAGCGGTGTTTAGCCGCACGAGATTGAGCGATAACTGGAATTCTCGGGTGC	14	0.35000000000000003	No Hit
AGTGATTGTGCTTGCTTGCGGACGCTTTCTGGTGTTGGAATTCTCGGGTGC	13	0.325	No Hit
TCAACTGTGGTCGTGACTTCTAATTTGCTGGTTTGTGGAATTCTCGGGTGC	13	0.325	No Hit
TGGGTTCGTGGCGGCTAGCGTTTAGTTACGCTAGTGGAATTCTCGGGTGCC	13	0.325	No Hit
GTGCTTGGACCTCGGTTCTAGTATCCTGATCGCTCTGGAATTCTCGGGTGC	13	0.325	No Hit
TTGCGGACGCTTTCTGGTGTGTGCTTGGACCTCTGGAATTCTCGGGTGCC	13	0.325	No Hit
TCTCAACCTGAACTCAGTCGTGATTACCCGTGGAATTCTCGGGTGCCAAGG	12	0.3	Illumina Small RNA Adapter 2 (100% over 21bp)
CGCGACCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACATCTC	12	0.3	RNA PCR Primer, Index 11 (100% over 44bp)
AACTGTGGTCGTGACTTCTAATTTGCTGGTTTTGGAATTCTCGGGTGCCA	11	0.27499999999999997	No Hit
ACGGCCTGGGAATCCTGGATGTTGTAAGCTTGGAATTCTCGGGTGCCAAGG	11	0.27499999999999997	Illumina Small RNA Adapter 2 (100% over 21bp)
ACGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACATCTCG	10	0.25	RNA PCR Primer, Index 11 (100% over 45bp)
CGCGACTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACATCTCG	10	0.25	RNA PCR Primer, Index 11 (100% over 45bp)
CGGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACATCTCG	10	0.25	RNA PCR Primer, Index 11 (100% over 45bp)
AAACGACCCGAAAGATGGTGAACTATGCCTGAGCTGGAATTCTCGGGTGCC	10	0.25	No Hit
TACCTGATTGATTCTGTCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 33bp)
ATTCACTGTTTGAAGGAATTGATCTATGCACAAAGTGGAATTCTCGGGTGC	9	0.22499999999999998	No Hit
TCTCAACCTGAACTCAGTCGTGATTACCCGCTTGGAATTCTCGGGTGCCA	9	0.22499999999999998	No Hit
TTTAGCCGCACGAGATTGAGCGATAACAGGTCTGTGGAATTCTCGGGTGCC	9	0.22499999999999998	No Hit
AGAACTGGCGCTGTGGGATGAACCAAACTGGAATTCTCGGGTGCCAAGGA	8	0.2	RNA PCR Primer, Index 1 (100% over 22bp)
AGTGATTGTGCTTGCTTGCGGACGCTTTCTGGTGTGGAATTCTCGGGTGCC	8	0.2	No Hit
CCCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACATCTC	8	0.2	RNA PCR Primer, Index 11 (100% over 44bp)
AGAGAGGACGGAAACCTCTCGTAGAGCAAAAGGGCTGGAATTCTCGGGTGC	8	0.2	No Hit
TCTCAACCTGAACTCAGTCGTGATTACCCGCTGGAATTCTCGGGTGCCA	8	0.2	No Hit
TTGTCTAGCGCCAGGTCGTAACGAGTAGGAAGTGGAATTCTCGGGTGCCA	8	0.2	No Hit
CCAGTTGGTTGATGCTTGTCCGGCGCAGTGGAATTCTCGGGTGCCAAGGA	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 22bp)
TCTCAACCTGAACTCAGTCGTGATTACCCGCTGTGGAATTCTCGGGTGCC	7	0.17500000000000002	No Hit
ATTGTGAAGAGTCATGAGAGGTGTAGCTGGAATTCTCGGGTGCCAAGGAAC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 24bp)
TCAACTGTGGTCGTGACTTCTAATTTGCTGGTTTTGGAATTCTCGGGTGCC	7	0.17500000000000002	No Hit
GGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACATCTCGT	7	0.17500000000000002	RNA PCR Primer, Index 11 (100% over 46bp)
GGCCAGTTGGTTGATGCTTGTCCGGCGCAGTGGAATTCTCGGGTGCCAAGG	7	0.17500000000000002	Illumina Small RNA Adapter 2 (100% over 21bp)
AGCACCAACTGGGCCTCCAGTTGGTACGTCTGGTTCTGGAATTCTCGGGTG	7	0.17500000000000002	No Hit
ATCTATTCCGGAAAACTCTGGAACCAGTTGAGAAGTGGAATTCTCGGGTGC	6	0.15	No Hit
TGCGGACGCTTTCTGGTGTGTGCTTGGACCTCTGGAATTCTCGGGTGCCA	6	0.15	No Hit
ACTGCGATCTGTTGAGACTATCCTTTGATTGAGTGGAATTCTCGGGTGCC	6	0.15	No Hit
TCAACTGTGGTCGTGACTTCTAATTTGCTGGTGGAATTCTCGGGTGCCA	6	0.15	No Hit
CCGGCGCAGTTCTGTCTGCTTGATACTTTCTGGAATTCTCGGGTGCCAAGG	6	0.15	Illumina Small RNA Adapter 2 (100% over 21bp)
CGGGGTGCAATTATTAGAACAGACCAAACGTGGAATTCTCGGGTGCCAAGG	6	0.15	Illumina Small RNA Adapter 2 (100% over 21bp)
AACTGTGGTCGTGACTTCTAATTTGCTGGTGGAATTCTCGGGTGCCAAGG	6	0.15	Illumina Small RNA Adapter 2 (100% over 21bp)
CCGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACATCTCG	6	0.15	RNA PCR Primer, Index 11 (100% over 45bp)
CGGACCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACATCTCG	6	0.15	RNA PCR Primer, Index 11 (100% over 45bp)
AAGCAGAACTGGCGCTGTGGGATGAACCTGGAATTCTCGGGTGCCAAGGA	6	0.15	RNA PCR Primer, Index 1 (100% over 22bp)
CTCCATTGAGCCTTGGAATTGAAACAGCTGTGGAATTCTCGGGTGCCAAGG	6	0.15	Illumina Small RNA Adapter 2 (100% over 21bp)
ATTGCGAAGCAGAATTCGCCAAGCGTTGGATTGTTCTGGAATTCTCGGGTG	6	0.15	No Hit
ATCCTGATCGCTCATCTAAACTGGAATTCTCGGGTGCCAAGGAACTCCAGT	5	0.125	RNA PCR Primer, Index 1 (100% over 30bp)
ACATGCGAGACCCGGGTTCATTTCCCGGCCGGGGAGTGGAATTCTCGGGTG	5	0.125	No Hit
CCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACATCTCG	5	0.125	RNA PCR Primer, Index 11 (100% over 45bp)
GTTGGTACGTCTGGTTCAGGGTTGTTTTGGAATTCTCGGGTGCCAAGGAAC	5	0.125	RNA PCR Primer, Index 1 (100% over 24bp)
CTGCTGCTCTTGCATATGGATTGGATAAAGTGGAATTCTCGGGTGCCAAGG	5	0.125	Illumina Small RNA Adapter 2 (100% over 21bp)
CTTGGTCAAGGTGTTGTATTCAGTAGAGCAGTCCTTTGGAATTCTCGGGTG	5	0.125	No Hit
CCACGTTCCCGTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCT	5	0.125	RNA PCR Primer, Index 11 (100% over 37bp)
GCATCGGTGGTTCAGTGGTAGAATGCTCGCCTGTGGAATTCTCGGGTGCC	5	0.125	No Hit
CCTCCAGTTGGTACGTCTGGTTCAGGGTTGTTTGGAATTCTCGGGTGCCA	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	0.125	0.0	0.0	0.0
2	0.0	0.15	0.0	0.0	0.0
3	0.0	0.15	0.0	0.0	0.0
4	0.0	0.15	0.0	0.0	0.0
5	0.0	0.275	0.0	0.0	0.0
6	0.0	1.05	0.0	0.0	0.0
7	0.0	4.625	0.0	0.0	0.0
8	0.0	8.375	0.0	0.0	0.0
9	0.0	11.7	0.0	0.0	0.0
10	0.0	13.2	0.0	0.0	0.0
11	0.0	13.775	0.0	0.0	0.0
12	0.0	14.475	0.0	0.0	0.0
13	0.0	14.8	0.0	0.0	0.0
14	0.0	15.05	0.0	0.0	0.0
15	0.0	15.675	0.0	0.0	0.0
16	0.0	16.1	0.0	0.0	0.0
17	0.0	16.425	0.0	0.0	0.0
18	0.025	16.875	0.0	0.0	0.0
19	0.025	17.5	0.0	0.0	0.0
20	0.025	18.175	0.0	0.0	0.0
21	0.025	18.425	0.0	0.0	0.0
22	0.025	18.95	0.0	0.0	0.0
23	0.025	19.325	0.0	0.0	0.0
24	0.025	19.775	0.0	0.0	0.0
25	0.025	20.2	0.0	0.0	0.0
26	0.025	20.55	0.0	0.0	0.0
27	0.025	24.825	0.0	0.0	0.0
28	0.025	26.575	0.0	0.0	0.0
29	0.025	29.7	0.0	0.0	0.0
30	0.025	36.875	0.0	0.0	0.0
31	0.025	43.825	0.0	0.0	0.0
32	0.025	50.6	0.0	0.0	0.0
33	0.025	59.15	0.0	0.0	0.0
34	0.025	73.075	0.0	0.0	0.0
35	0.025	81.45	0.0	0.0	0.0
36	0.025	91.5	0.0	0.0	0.0
37	0.025	95.425	0.0	0.0	0.0
38	0.025	96.675	0.0	0.0	0.0
39	0.025	97.175	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
CATCTCG	15	0.0014412429	75.61702	45
ACATCTC	45	6.2976505E-7	50.411346	45
TACATCT	60	1.099013E-4	24.342466	44
CTACATC	65	3.610235E-4	20.503847	43
GCTACAT	70	5.956998E-4	19.039286	42
GGCTACA	70	5.956998E-4	19.039286	41
CGGCTAC	75	9.4835187E-4	17.769999	40
ACGGCTA	75	9.4835187E-4	17.769999	39
CACGGCT	75	9.4835187E-4	17.769999	38
TCACGGC	80	0.0014634249	16.659376	37
GTCACGG	85	0.0021972186	15.679412	36
CAGTCAC	95	0.0046175136	14.028947	34
CCAGTCA	95	0.0046175136	14.028947	33
AGTCACG	95	0.0046175136	14.028947	35
CTGGAAT	135	1.9702158E-4	13.162963	7
ACTCCAG	105	0.00897577	12.692857	30
TCCAGTC	105	0.00897577	12.692857	32
AACTCCA	105	0.00897577	12.692857	29
>>END_MODULE
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
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Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
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Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
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Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
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Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
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Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
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Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
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Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
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Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
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Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
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Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
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Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
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Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
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Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
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Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
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Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365835 READS because READLEN < 1
Read 365835 spots for SRR9060567.sra
Written 365835 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
Rejected 365790 READS because READLEN < 1
Read 365790 spots for SRR9060567.sra
Written 365790 spots for SRR9060567.sra
SRR ids: ['SRR9060567.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_argww_jz
SRR9060567.sra spots: 23410605
blocks: [[1, 365790], [365791, 731580], [731581, 1097370], [1097371, 1463160], [1463161, 1828950], [1828951, 2194740], [2194741, 2560530], [2560531, 2926320], [2926321, 3292110], [3292111, 3657900], [3657901, 4023690], [4023691, 4389480], [4389481, 4755270], [4755271, 5121060], [5121061, 5486850], [5486851, 5852640], [5852641, 6218430], [6218431, 6584220], [6584221, 6950010], [6950011, 7315800], [7315801, 7681590], [7681591, 8047380], [8047381, 8413170], [8413171, 8778960], [8778961, 9144750], [9144751, 9510540], [9510541, 9876330], [9876331, 10242120], [10242121, 10607910], [10607911, 10973700], [10973701, 11339490], [11339491, 11705280], [11705281, 12071070], [12071071, 12436860], [12436861, 12802650], [12802651, 13168440], [13168441, 13534230], [13534231, 13900020], [13900021, 14265810], [14265811, 14631600], [14631601, 14997390], [14997391, 15363180], [15363181, 15728970], [15728971, 16094760], [16094761, 16460550], [16460551, 16826340], [16826341, 17192130], [17192131, 17557920], [17557921, 17923710], [17923711, 18289500], [18289501, 18655290], [18655291, 19021080], [19021081, 19386870], [19386871, 19752660], [19752661, 20118450], [20118451, 20484240], [20484241, 20850030], [20850031, 21215820], [21215821, 21581610], [21581611, 21947400], [21947401, 22313190], [22313191, 22678980], [22678981, 23044770], [23044771, 23410605]]
SRR9060567 file size 3293140
SRR9060567 completed basic pipeline successfully
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	skewer -l 18 -q 10 -k inf -t 64 -o SRR9060567 SRR9060567_1.fastq
Input file:	SRR9060567_1.fastq
trimmed:	SRR9060567-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):	32
Thu Feb 13 06:44:57 2020 >> started

Thu Feb 13 06:45:17 2020 >> done (20.705s)
23410605 reads processed; of these:
       0 ( 0.00%) short reads filtered out after trimming by size control
       0 ( 0.00%) empty reads filtered out after trimming by size control
23410605 (100.00%) reads available; of these:
     185 ( 0.00%) trimmed reads available after processing
23410420 (100.00%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 40	       1	  0.00%
 41	       4	  0.00%
 42	       2	  0.00%
 43	       2	  0.00%
 44	       5	  0.00%
 45	     253	  0.00%
 46	     355	  0.00%
 47	     381	  0.00%
 48	    3416	  0.01%
 49	 1785879	  7.63%
 50	 8188979	 34.98%
 51	13431328	 57.37%
23410605 reads passed initial QC


criterion=sequence-density
sequence-density=97.56
sequence-density-rank=1
fanout-score=26.50
fanout-score-rank=1
prefix-density=98.11
prefix-fanout=26.4
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACATCTCGTATGCC


criterion=fanout-score
sequence-density=97.56
sequence-density-rank=1
fanout-score=26.50
fanout-score-rank=1
prefix-density=98.11
prefix-fanout=26.4
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACATCTCGTATGCC
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 64 -x TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACATCTCGTATGCC -o SRR9060567 -
Input file:	STDIN
trimmed:	SRR9060567-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACATCTCGTATGCC
-- 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):	32
Thu Feb 13 06:46:16 2020 >> started

Thu Feb 13 06:47:23 2020 >> done (66.863s)
22932838 reads processed; of these:
 4099894 (17.88%) short reads filtered out after trimming by size control
   45214 ( 0.20%) empty reads filtered out after trimming by size control
18787730 (81.93%) reads available; of these:
18590279 (98.95%) trimmed reads available after processing
  197451 ( 1.05%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  157767	  0.84%
 19	   99868	  0.53%
 20	   95182	  0.51%
 21	  143401	  0.76%
 22	  181360	  0.97%
 23	   73730	  0.39%
 24	  116652	  0.62%
 25	  120434	  0.64%
 26	  925215	  4.92%
 27	  353548	  1.88%
 28	  648858	  3.45%
 29	 1517703	  8.08%
 30	 1640702	  8.73%
 31	 1556238	  8.28%
 32	 1985927	 10.57%
 33	 3358741	 17.88%
 34	 1791460	  9.54%
 35	 2327430	 12.39%
 36	  949001	  5.05%
 37	  282134	  1.50%
 38	  130977	  0.70%
 39	   46239	  0.25%
 40	   21772	  0.12%
 41	   32847	  0.17%
 42	    4977	  0.03%
 43	    9078	  0.05%
 44	    4282	  0.02%
 45	    3751	  0.02%
 46	    3523	  0.02%
 47	    3596	  0.02%
 48	    5332	  0.03%
 49	   13418	  0.07%
 50	   76577	  0.41%
 51	  106010	  0.56%


criterion=sequence-density
sequence-density=0.65
sequence-density-rank=1
fanout-score=1.69
fanout-score-rank=10
prefix-density=0.04
prefix-fanout=1.7
sequence=GAATTCCACCACGTTCCCGTGG


criterion=fanout-score
sequence-density=0.18
sequence-density-rank=4
fanout-score=21.73
fanout-score-rank=1
prefix-density=3.86
prefix-fanout=1.0
sequence=TTGCTGGTTTGAGGTTGGGTTCGCCCTTC
                                 Started job on |	Feb 13 06:49:44
                             Started mapping on |	Feb 13 06:49:44
                                    Finished on |	Feb 13 06:50:45
       Mapping speed, Million of reads per hour |	1136.98

                          Number of input reads |	19265497
                      Average input read length |	32
                                    UNIQUE READS:
                   Uniquely mapped reads number |	12549652
                        Uniquely mapped reads % |	65.14%
                          Average mapped length |	31.50
                       Number of splices: Total |	673347
            Number of splices: Annotated (sjdb) |	657693
                       Number of splices: GT/AG |	664645
                       Number of splices: GC/AG |	3982
                       Number of splices: AT/AC |	92
               Number of splices: Non-canonical |	4628
                      Mismatch rate per base, % |	0.10%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.40
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.03
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	5574596
             % of reads mapped to multiple loci |	28.94%
        Number of reads mapped to too many loci |	574463
             % of reads mapped to too many loci |	2.98%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	2.94%
                     % of reads unmapped: other |	0.00%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	1141249	1141249	1141249
N_multimapping	5574596	5574596	5574596
N_noFeature	42096	55385	12486548
N_ambiguous	63188	14614	262
UnstrandedReadsAssigned:12444368 PositiveStrandReadsAssigned:12479653 NegativeStrandReadsAssigned:62842
Dataset is classified positive stranded
MeadianReadLen=32 20thPercentileLength=29 echo kmer=25
SRR9060567 Starting Kallisto single end mapping to ensembl reference transcriptome. kmer=25

[quant] fragment length distribution is truncated gaussian with mean = 100, sd = 20
[index] k-mer length: 25
[index] number of targets: 33,746
[index] number of k-mers: 28,932,940
[index] number of equivalence classes: 56,957
[quant] running in single-end mode
[quant] will process file 1: SRR9060567-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 19,265,497 reads, 8,213,008 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 1,295 rounds

  33747 SRR9060567.ke.tsv
  46739 SRR9060567.se.tsv
  80486 total
==> SRR9060567.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Y110A7A.10	1787	1688	313	21.8684
F27C8.1	1940	1841	19	1.21715
F07C3.7	1728	1629	17	1.23076
F52H2.2a	1739	1640	18	1.29442
F52H2.2b	1840	1741	0	0
T13A10.10a	1734	1635	0	0
T13A10.10b	1598	1499	6	0.472058
C55C2.5a	1840	1741	0	0
C55C2.5b	1606	1507	44.9985	3.52152

==> SRR9060567.se.tsv <==
WBGene00197333	0
WBGene00198386	0
WBGene00015153	2
WBGene00002061	6958
WBGene00255704	2
WBGene00235314	0
WBGene00001177	94
WBGene00169236	0
WBGene00219784	0
WBGene00015152	0
SRR9060567 completed mapping pipeline successfully
