Starting /dee2/code/volunteer_pipeline.sh SRR9060558
    current disk space = 813798280
    free memory = 111745196 
SRR9060558 SRAfilesize
bf46321cd83015d020984140f39b00c1  SRR9060558.sra
SRR9060558.sra file validated
SRR9060558 is single end
SRR9060558 is conventional basespace
SRR9060558 read1 length is 49-51 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR9060558_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	51
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	31.323	32.0	32.0	32.0	32.0	32.0
2	31.58125	32.0	32.0	32.0	32.0	32.0
3	31.75025	32.0	32.0	32.0	32.0	32.0
4	31.76875	32.0	32.0	32.0	32.0	32.0
5	31.75225	32.0	32.0	32.0	32.0	32.0
6	34.89925	36.0	36.0	36.0	36.0	36.0
7	35.22375	36.0	36.0	36.0	36.0	36.0
8	35.2865	36.0	36.0	36.0	36.0	36.0
9	35.412	36.0	36.0	36.0	36.0	36.0
10	35.381	36.0	36.0	36.0	36.0	36.0
11	35.41125	36.0	36.0	36.0	36.0	36.0
12	35.31875	36.0	36.0	36.0	36.0	36.0
13	35.43425	36.0	36.0	36.0	36.0	36.0
14	35.349	36.0	36.0	36.0	36.0	36.0
15	35.3375	36.0	36.0	36.0	36.0	36.0
16	35.443	36.0	36.0	36.0	36.0	36.0
17	35.4165	36.0	36.0	36.0	36.0	36.0
18	35.33975	36.0	36.0	36.0	36.0	36.0
19	35.33675	36.0	36.0	36.0	36.0	36.0
20	35.2365	36.0	36.0	36.0	36.0	36.0
21	35.437	36.0	36.0	36.0	36.0	36.0
22	35.35925	36.0	36.0	36.0	36.0	36.0
23	35.41825	36.0	36.0	36.0	36.0	36.0
24	35.26825	36.0	36.0	36.0	36.0	36.0
25	35.40575	36.0	36.0	36.0	36.0	36.0
26	35.451	36.0	36.0	36.0	36.0	36.0
27	35.3255	36.0	36.0	36.0	36.0	36.0
28	35.51125	36.0	36.0	36.0	36.0	36.0
29	35.39025	36.0	36.0	36.0	36.0	36.0
30	35.187	36.0	36.0	36.0	36.0	36.0
31	35.367	36.0	36.0	36.0	36.0	36.0
32	35.4005	36.0	36.0	36.0	36.0	36.0
33	35.25025	36.0	36.0	36.0	36.0	36.0
34	35.27725	36.0	36.0	36.0	36.0	36.0
35	35.405	36.0	36.0	36.0	36.0	36.0
36	35.291	36.0	36.0	36.0	36.0	36.0
37	35.268	36.0	36.0	36.0	36.0	36.0
38	35.26525	36.0	36.0	36.0	36.0	36.0
39	35.09425	36.0	36.0	36.0	36.0	36.0
40	35.04625	36.0	36.0	36.0	36.0	36.0
41	35.11025	36.0	36.0	36.0	36.0	36.0
42	35.1205	36.0	36.0	36.0	36.0	36.0
43	35.12625	36.0	36.0	36.0	36.0	36.0
44	35.23225	36.0	36.0	36.0	36.0	36.0
45	35.0865	36.0	36.0	36.0	36.0	36.0
46	35.10725	36.0	36.0	36.0	36.0	36.0
47	34.99125	36.0	36.0	36.0	36.0	36.0
48	34.743	36.0	36.0	36.0	36.0	36.0
49	34.8145	36.0	36.0	36.0	36.0	36.0
50	34.91171706263499	36.0	36.0	36.0	36.0	36.0
51	34.78407615750757	36.0	36.0	36.0	36.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
21	1.0
22	1.0
23	4.0
24	7.0
25	7.0
26	9.0
27	20.0
28	30.0
29	40.0
30	58.0
31	87.0
32	101.0
33	159.0
34	383.0
35	3093.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	19.325	40.75	14.924999999999999	25.0
2	16.175	33.925	31.275	18.625
3	26.0	16.3	38.800000000000004	18.9
4	30.825000000000003	19.125	26.474999999999998	23.575
5	47.975	18.55	16.575	16.900000000000002
6	25.460974993685277	22.4046476382925	38.82293508461733	13.3114422834049
7	32.175	20.65	20.075000000000003	27.1
8	29.375	23.724999999999998	20.150000000000002	26.75
9	27.450000000000003	27.275	31.4	13.875000000000002
10	33.35	18.4	32.550000000000004	15.7
11	45.074999999999996	17.775	20.325	16.825000000000003
12	17.375	18.7	41.05	22.875
13	29.625	19.900000000000002	31.65	18.825
14	19.3	18.2	45.25	17.25
15	31.900000000000002	14.674999999999999	35.5	17.925
16	36.6	17.8	22.45	23.150000000000002
17	33.5	16.875	29.425	20.200000000000003
18	34.375	25.25	25.25	15.125
19	27.1	29.825000000000003	28.7	14.374999999999998
20	29.125	17.75	28.000000000000004	25.124999999999996
21	33.125	18.2	23.05	25.624999999999996
22	24.775	28.825	22.2	24.2
23	30.099999999999998	19.875	31.35	18.675
24	18.825	17.95	42.85	20.375
25	21.125	31.724999999999998	27.375	19.775000000000002
26	31.874999999999996	20.3	18.825	28.999999999999996
27	25.424999999999997	26.0	34.175	14.399999999999999
28	45.925	19.225	21.15	13.700000000000001
29	37.325	21.8	15.85	25.025
30	23.799999999999997	31.374999999999996	29.525000000000002	15.299999999999999
31	39.25	21.5	24.775	14.475
32	22.175	17.0	48.1	12.725
33	25.025	17.375	34.975	22.625
34	31.7	20.7	22.55	25.05
35	35.875	19.1	33.975	11.05
36	25.474999999999998	27.250000000000004	34.225	13.05
37	31.374999999999996	29.175	27.224999999999998	12.225
38	32.324999999999996	22.0	32.75	12.925
39	23.625	26.525	33.925	15.925
40	16.7	25.6	32.45	25.25
41	21.825	14.424999999999999	42.55	21.2
42	22.775000000000002	8.75	36.6	31.874999999999996
43	32.375	6.75	25.8	35.075
44	39.0	9.375	24.55	27.075
45	41.05	11.700000000000001	17.625	29.625
46	45.475	11.3	20.474999999999998	22.75
47	53.77499999999999	12.925	14.575	18.725
48	40.9	18.4	12.425	28.275
49	29.15	21.925	17.599999999999998	31.324999999999996
50	31.749460043196542	24.622030237580994	12.931965442764579	30.69654427645788
51	28.732150584162703	0.0	19.03937689311986	52.22847252271744
>>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	0.5
10	1.0
11	0.5
12	0.0
13	0.5
14	1.0
15	0.5
16	0.0
17	0.5
18	1.0
19	0.5
20	0.0
21	1.0
22	2.0
23	1.0
24	0.0
25	0.5
26	1.5
27	1.5
28	0.5
29	0.0
30	0.5
31	1.5
32	3.5
33	5.0
34	6.0
35	7.5
36	10.5
37	13.0
38	24.0
39	41.0
40	60.0
41	72.0
42	78.0
43	94.5
44	189.0
45	291.0
46	333.5
47	384.5
48	437.5
49	489.0
50	471.0
51	410.0
52	495.5
53	817.5
54	976.0
55	698.5
56	421.0
57	352.0
58	289.5
59	209.5
60	137.5
61	72.0
62	33.0
63	16.0
64	17.5
65	14.0
66	6.5
67	3.0
68	2.0
69	0.5
70	0.0
71	0.0
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	0.5
98	1.0
99	0.5
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	1.0250000000000001
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	296.0
50	1393.0
51	2311.0
>>END_MODULE
>>Sequence Duplication Levels	warn
#Total Deduplicated Percentage	56.725
#Duplication Level	Percentage of deduplicated	Percentage of total
1	90.78889378580872	51.5
2	4.671661524900837	5.3
3	1.4543851917144115	2.475
4	0.6610841780520054	1.5
5	0.3966505068312032	1.125
6	0.3085059497576025	1.05
7	0.2644336712208021	1.05
8	0.22036139268400176	1.0
9	0.044072278536800354	0.22499999999999998
>10	0.9255178492728074	12.65
>50	0.13221683561040104	6.525
>100	0.13221683561040104	15.6
>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
GATTGTGCTTGCTTGCGGACGCTTTCTGGTGTTGGAATTCTCGGGTGCCA	337	8.425	No Hit
AAGAGAAGGTGTCTTGCTGGCGGTAGTGGAATTCTCGGGTGCCAAGGAACT	144	3.5999999999999996	RNA PCR Primer, Index 1 (100% over 25bp)
CTTGGTCAAGGTGTTGTATTCAGTAGAGCAGTCCTTGGAATTCTCGGGTGC	143	3.5749999999999997	No Hit
CTTGGTCAAGGTGTTGTATTCAGTAGAGCAGTCCTTTGGAATTCTCGGGTG	97	2.4250000000000003	No Hit
ATACTGCGATCTGTTGAGACTATCCTTTGATTGAGTGGAATTCTCGGGTGC	88	2.1999999999999997	No Hit
CCTCCAGTTGGTACGTCTGGTTCAGGGTTGTTTTGGAATTCTCGGGTGCC	76	1.9	No Hit
AGTGATTGTGCTTGCTTGCGGACGCTTTCTGGTGTTGGAATTCTCGGGTGC	49	1.225	No Hit
CTTGGTCAAGGTGTTGTATTCAGTAGAGCAGTCCTGGAATTCTCGGGTGCC	48	1.2	No Hit
CGGGGTGCAATTATTAGAACAGACCAAACTGGAATTCTCGGGTGCCAAGG	47	1.175	Illumina Small RNA Adapter 2 (100% over 21bp)
GATTGTGCTTGCTTGCGGACGCTTTCTGGTGTGGAATTCTCGGGTGCCA	35	0.8750000000000001	No Hit
TTGCGGACGCTTTCTGGTGTGTGCTTGGACCTTGGAATTCTCGGGTGCCA	34	0.8500000000000001	No Hit
TTGCGGACGCTTTCTGGTGTGTGCTTGGACCTCTGGAATTCTCGGGTGCC	34	0.8500000000000001	No Hit
TTGTGATCGTTGCCGGGTGTCGTTTCCTTGGAATTCTCGGGTGCCAAGGA	29	0.7250000000000001	RNA PCR Primer, Index 1 (100% over 22bp)
CTTGGTCAAGGTGTTGTATTCAGTAGAGCAGTCCTTTTGGAATTCTCGGGT	27	0.675	No Hit
AACTGTGGTCGTGACTTCTAATTTGCTGGTTTGGAATTCTCGGGTGCCA	25	0.625	No Hit
GTGCTTGGACCTCGGTTCTAGTATCCTGATCGCTCTGGAATTCTCGGGTGC	22	0.5499999999999999	No Hit
AACTGTGGTCGTGACTTCTAATTTGCTGGTTTTGGAATTCTCGGGTGCCA	19	0.475	No Hit
AACTGTGGTCGTGACTTCTAATTTGCTGGTTTGTGGAATTCTCGGGTGCC	18	0.44999999999999996	No Hit
GATTGTGCTTGCTTGCGGACGCTTTCTGGTTGGAATTCTCGGGTGCCAAGG	18	0.44999999999999996	Illumina Small RNA Adapter 2 (100% over 21bp)
TGCGGACGCTTTCTGGTGTGTGCTTGGACCTTGGAATTCTCGGGTGCCA	17	0.42500000000000004	No Hit
ATTGTGCTTGCTTGCGGACGCTTTCTGGTGTTGGAATTCTCGGGTGCCA	15	0.375	No Hit
GGCCAGTTGGTTGATGCTTGTCCGGCGCAGTTCTGGAATTCTCGGGTGCC	14	0.35000000000000003	No Hit
GGCCAGTTGGTTGATGCTTGTCCGGCGCAGTGGAATTCTCGGGTGCCAAGG	13	0.325	Illumina Small RNA Adapter 2 (100% over 21bp)
TGCGGACGCTTTCTGGTGTGTGCTTGGACCTCTGGAATTCTCGGGTGCCA	11	0.27499999999999997	No Hit
TGTGATCGTTGCCGGGTGTCGTTTCCTTGGAATTCTCGGGTGCCAAGGAAC	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 24bp)
TCTTGGTCAAGGTGTTGTATTCAGTAGAGCAGTCCTTGGAATTCTCGGGTG	10	0.25	No Hit
AACTGTGGTCGTGACTTCTAATTTGCTGGTGGAATTCTCGGGTGCCAAGG	10	0.25	Illumina Small RNA Adapter 2 (100% over 21bp)
TCTCAACCTGAACTCAGTCGTGATTACCCGCTGGAATTCTCGGGTGCCA	9	0.22499999999999998	No Hit
ACTGCGATCTGTTGAGACTATCCTTTGATTGAGTGGAATTCTCGGGTGCC	8	0.2	No Hit
TACCTGATTGATTCTGTCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC	8	0.2	RNA PCR Primer, Index 1 (100% over 33bp)
AGGGAATCCGACTGTCTAATTAAAACTGGAATTCTCGGGTGCCAAGGAACT	8	0.2	RNA PCR Primer, Index 1 (100% over 25bp)
TCTCAACCTGAACTCAGTCGTGATTACCCGCTTGGAATTCTCGGGTGCCA	8	0.2	No Hit
ACGGCCTGGGAATCCTGGATGTTGTAAGCTTGGAATTCTCGGGTGCCAAGG	8	0.2	Illumina Small RNA Adapter 2 (100% over 21bp)
GGTTGATGGCGGACTAGTGATTGTGCTTTGGAATTCTCGGGTGCCAAGGA	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 22bp)
GGCCAGTTGGTTGATGCTTGTCCGGCGCAGTTCTTGGAATTCTCGGGTGCC	7	0.17500000000000002	No Hit
ACGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAATCTCG	7	0.17500000000000002	RNA PCR Primer, Index 4 (100% over 45bp)
CCGGCGCAGTTCTGTCTGCTTGATACTTTCTGGAATTCTCGGGTGCCAAGG	7	0.17500000000000002	Illumina Small RNA Adapter 2 (100% over 21bp)
TCTCAACCTGAACTCAGTCGTGATTACCCGCTGTGGAATTCTCGGGTGCC	7	0.17500000000000002	No Hit
CTTGGTCAAGGTGTTGTATTCAGTAGAGCAGTCCTTTTTGGAATTCTCGGG	7	0.17500000000000002	No Hit
AGTGATTGTGCTTGCTTGCGGACGCTTTCTGGTTGGAATTCTCGGGTGCC	6	0.15	No Hit
ATTGGTTTGAACCGGGTAAAAGTCGTAACTGGAATTCTCGGGTGCCAAGG	6	0.15	Illumina Small RNA Adapter 2 (100% over 21bp)
CGGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAATCTCG	6	0.15	RNA PCR Primer, Index 4 (100% over 45bp)
ATTGTGCTTGCTTGCGGACGCTTTCTGGTGTGGAATTCTCGGGTGCCAAGG	6	0.15	Illumina Small RNA Adapter 2 (100% over 21bp)
AAGCGGTGTTTAGCCGCACGAGATTGAGCGATAACTGGAATTCTCGGGTGC	6	0.15	No Hit
CTTGGTCAAGGTGTTGTATTCAGTAGAGCTGGAATTCTCGGGTGCCAAGG	6	0.15	Illumina Small RNA Adapter 2 (100% over 21bp)
GTGCTTGGACCTCGGTTCTAGTATCCTGATCGCTTGGAATTCTCGGGTGCC	6	0.15	No Hit
AAGCGGTGTTTAGCCGCACGAGATTGAGCGATTGGAATTCTCGGGTGCCA	5	0.125	No Hit
TCTCAACCTGAACTCAGTCGTGATTACCCGTGGAATTCTCGGGTGCCAAGG	5	0.125	Illumina Small RNA Adapter 2 (100% over 21bp)
AACTGTGGTCGTGACTTCTAATTTGCTGGTTGGAATTCTCGGGTGCCAAGG	5	0.125	Illumina Small RNA Adapter 2 (100% over 21bp)
GGTTGATGGCGGACTAGTGATTGTGCTTGCTGGAATTCTCGGGTGCCAAGG	5	0.125	Illumina Small RNA Adapter 2 (100% over 21bp)
GTGCTTGGACCTCGGTTCTAGTATCCTGATCGCTGGAATTCTCGGGTGCC	5	0.125	No Hit
ACCCGGTCCGGACACCATTAGGACTGACAGATTTGGAATTCTCGGGTGCC	5	0.125	No Hit
AATGATTAGAGGCCTTGGGGACGTTGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
GCATCGGTGGTTCAGTGGTAGAATGCTCGCCTGTGGAATTCTCGGGTGCC	5	0.125	No Hit
ACCGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAATCTCG	5	0.125	RNA PCR Primer, Index 4 (100% over 45bp)
>>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	0.1	0.0	0.0	0.0
2	0.0	0.1	0.0	0.0	0.0
3	0.0	0.1	0.0	0.0	0.0
4	0.0	0.1	0.0	0.0	0.0
5	0.0	0.15	0.0	0.0	0.0
6	0.0	0.475	0.0	0.0	0.0
7	0.0	1.9	0.0	0.0	0.0
8	0.0	3.75	0.0	0.0	0.0
9	0.0	4.775	0.0	0.0	0.0
10	0.0	5.325	0.0	0.0	0.0
11	0.0	5.775	0.0	0.0	0.0
12	0.0	6.2	0.0	0.0	0.0
13	0.0	6.475	0.0	0.0	0.0
14	0.0	6.85	0.0	0.0	0.0
15	0.0	7.325	0.0	0.0	0.0
16	0.0	7.575	0.0	0.0	0.0
17	0.0	7.95	0.0	0.0	0.0
18	0.0	8.425	0.0	0.0	0.0
19	0.0	9.075	0.0	0.0	0.0
20	0.0	9.45	0.0	0.0	0.0
21	0.0	9.95	0.0	0.0	0.0
22	0.0	10.425	0.0	0.0	0.0
23	0.0	10.875	0.0	0.0	0.0
24	0.0	11.125	0.0	0.0	0.0
25	0.0	11.825	0.0	0.0	0.0
26	0.0	12.325	0.0	0.0	0.0
27	0.0	17.35	0.0	0.0	0.0
28	0.0	19.65	0.0	0.0	0.0
29	0.0	22.325	0.0	0.0	0.0
30	0.0	27.025	0.0	0.0	0.0
31	0.0	31.975	0.0	0.0	0.0
32	0.0	38.675	0.0	0.0	0.0
33	0.0	53.9	0.0	0.0	0.0
34	0.0	63.95	0.0	0.0	0.0
35	0.0	72.025	0.0	0.0	0.0
36	0.0	85.5	0.0	0.0	0.0
37	0.0	93.275	0.0	0.0	0.0
38	0.0	96.25	0.0	0.0	0.0
39	0.0	97.5	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
GAGAAGG	25	3.4743385E-5	44.4625	3
GTGTCTT	25	3.4743385E-5	44.4625	9
TAGTGGA	20	6.60279E-4	44.4625	24
AGAAGGT	25	3.4743385E-5	44.4625	4
TGTCTTG	25	3.4743385E-5	44.4625	10
GCTGGCG	25	3.4743385E-5	44.4625	16
GCGGTAG	25	3.4743385E-5	44.4625	20
TGCTGGC	25	3.4743385E-5	44.4625	15
AGGTGTC	25	3.4743385E-5	44.4625	7
CTTGGTC	55	0.0	44.4625	1
CTGGCGG	25	3.4743385E-5	44.4625	17
CCTTTGG	20	6.60279E-4	44.4625	33
GTCTTGC	25	3.4743385E-5	44.4625	11
TCTTGCT	25	3.4743385E-5	44.4625	12
GGTAGTG	25	3.4743385E-5	44.4625	22
AGAGAAG	25	3.4743385E-5	44.4625	2
CTTGCTG	25	3.4743385E-5	44.4625	13
TGGCGGT	25	3.4743385E-5	44.4625	18
CGGTAGT	25	3.4743385E-5	44.4625	21
GTAGTGG	20	6.60279E-4	44.4625	23
>>END_MODULE
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274309 READS because READLEN < 1
Read 274309 spots for SRR9060558.sra
Written 274309 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
Rejected 274295 READS because READLEN < 1
Read 274295 spots for SRR9060558.sra
Written 274295 spots for SRR9060558.sra
SRR ids: ['SRR9060558.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_eiksa9wl
SRR9060558.sra spots: 17554894
blocks: [[1, 274295], [274296, 548590], [548591, 822885], [822886, 1097180], [1097181, 1371475], [1371476, 1645770], [1645771, 1920065], [1920066, 2194360], [2194361, 2468655], [2468656, 2742950], [2742951, 3017245], [3017246, 3291540], [3291541, 3565835], [3565836, 3840130], [3840131, 4114425], [4114426, 4388720], [4388721, 4663015], [4663016, 4937310], [4937311, 5211605], [5211606, 5485900], [5485901, 5760195], [5760196, 6034490], [6034491, 6308785], [6308786, 6583080], [6583081, 6857375], [6857376, 7131670], [7131671, 7405965], [7405966, 7680260], [7680261, 7954555], [7954556, 8228850], [8228851, 8503145], [8503146, 8777440], [8777441, 9051735], [9051736, 9326030], [9326031, 9600325], [9600326, 9874620], [9874621, 10148915], [10148916, 10423210], [10423211, 10697505], [10697506, 10971800], [10971801, 11246095], [11246096, 11520390], [11520391, 11794685], [11794686, 12068980], [12068981, 12343275], [12343276, 12617570], [12617571, 12891865], [12891866, 13166160], [13166161, 13440455], [13440456, 13714750], [13714751, 13989045], [13989046, 14263340], [14263341, 14537635], [14537636, 14811930], [14811931, 15086225], [15086226, 15360520], [15360521, 15634815], [15634816, 15909110], [15909111, 16183405], [16183406, 16457700], [16457701, 16731995], [16731996, 17006290], [17006291, 17280585], [17280586, 17554894]]
SRR9060558 file size 2464304
SRR9060558 completed basic pipeline successfully
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	skewer -l 18 -q 10 -k inf -t 64 -o SRR9060558 SRR9060558_1.fastq
Input file:	SRR9060558_1.fastq
trimmed:	SRR9060558-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 06:33:50 2020 >> started

Thu Feb 13 06:34:07 2020 >> done (16.390s)
17554894 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
17554894 (100.00%) reads available; of these:
     132 ( 0.00%) trimmed reads available after processing
17554762 (100.00%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 41	       2	  0.00%
 42	       1	  0.00%
 43	       3	  0.00%
 44	       0	  0.00%
 45	     147	  0.00%
 46	     147	  0.00%
 47	     192	  0.00%
 48	    2102	  0.01%
 49	 1259083	  7.17%
 50	 6145891	 35.01%
 51	10147326	 57.80%
17554894 reads passed initial QC


criterion=sequence-density
sequence-density=97.55
sequence-density-rank=1
fanout-score=25.68
fanout-score-rank=2
prefix-density=98.36
prefix-fanout=25.5
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAATCTCGTATGCC


criterion=fanout-score
sequence-density=2.18
sequence-density-rank=3
fanout-score=32.60
fanout-score-rank=1
prefix-density=2.13
prefix-fanout=32.6
sequence=GACTGGAATTCT
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 TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAATCTCGTATGCC -o SRR9060558 -
Input file:	STDIN
trimmed:	SRR9060558-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAATCTCGTATGCC
-- 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 06:34:49 2020 >> started

Thu Feb 13 06:35:16 2020 >> done (27.502s)
17196631 reads processed; of these:
 1594423 ( 9.27%) short reads filtered out after trimming by size control
   14523 ( 0.08%) empty reads filtered out after trimming by size control
15587685 (90.64%) reads available; of these:
15435771 (99.03%) trimmed reads available after processing
  151914 ( 0.97%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	   94954	  0.61%
 19	   66378	  0.43%
 20	   76420	  0.49%
 21	   82534	  0.53%
 22	   73926	  0.47%
 23	   51431	  0.33%
 24	  109397	  0.70%
 25	  151382	  0.97%
 26	  938586	  6.02%
 27	  344613	  2.21%
 28	  485043	  3.11%
 29	  731028	  4.69%
 30	  846162	  5.43%
 31	 1146350	  7.35%
 32	 2532557	 16.25%
 33	 1863271	 11.95%
 34	 1331716	  8.54%
 35	 2308268	 14.81%
 36	 1286290	  8.25%
 37	  580516	  3.72%
 38	  207727	  1.33%
 39	   55341	  0.36%
 40	   22295	  0.14%
 41	   17126	  0.11%
 42	    6074	  0.04%
 43	   10185	  0.07%
 44	    4128	  0.03%
 45	    3127	  0.02%
 46	    4302	  0.03%
 47	    2253	  0.01%
 48	    3121	  0.02%
 49	   11628	  0.07%
 50	   52662	  0.34%
 51	   86894	  0.56%


criterion=sequence-density
sequence-density=0.26
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=19
prefix-density=0.00
prefix-fanout=1.0
sequence=TACCTGATTGATTCTGTCAGCGCGATATGCTCAAGT


criterion=fanout-score
sequence-density=0.15
sequence-density-rank=4
fanout-score=13.91
fanout-score-rank=1
prefix-density=0.18
prefix-fanout=11.8
sequence=TGGAATTCTCGG
                                 Started job on |	Feb 13 06:36:01
                             Started mapping on |	Feb 13 06:36:01
                                    Finished on |	Feb 13 06:37:05
       Mapping speed, Million of reads per hour |	896.96

                          Number of input reads |	15945948
                      Average input read length |	32
                                    UNIQUE READS:
                   Uniquely mapped reads number |	10665301
                        Uniquely mapped reads % |	66.88%
                          Average mapped length |	31.71
                       Number of splices: Total |	518575
            Number of splices: Annotated (sjdb) |	508411
                       Number of splices: GT/AG |	513362
                       Number of splices: GC/AG |	2814
                       Number of splices: AT/AC |	75
               Number of splices: Non-canonical |	2324
                      Mismatch rate per base, % |	0.08%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.33
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.02
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	4639781
             % of reads mapped to multiple loci |	29.10%
        Number of reads mapped to too many loci |	332034
             % of reads mapped to too many loci |	2.08%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	1.94%
                     % of reads unmapped: other |	0.00%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	640866	640866	640866
N_multimapping	4639781	4639781	4639781
N_noFeature	34447	40423	10617931
N_ambiguous	50785	9698	153
UnstrandedReadsAssigned:10580069 PositiveStrandReadsAssigned:10615180 NegativeStrandReadsAssigned:47217
Dataset is classified positive stranded
MeadianReadLen=33 20thPercentileLength=29 echo kmer=25
SRR9060558 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: SRR9060558-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 15,945,948 reads, 5,622,601 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 1,300 rounds

  33747 SRR9060558.ke.tsv
  46739 SRR9060558.se.tsv
  80486 total
==> SRR9060558.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Y110A7A.10	1787	1688	165	16.025
F27C8.1	1940	1841	19	1.69195
F07C3.7	1728	1629	17	1.71086
F52H2.2a	1739	1640	14	1.39949
F52H2.2b	1840	1741	0	0
T13A10.10a	1734	1635	36	3.6097
T13A10.10b	1598	1499	0	0
C55C2.5a	1840	1741	29.7607	2.80241
C55C2.5b	1606	1507	14.2388	1.54898

==> SRR9060558.se.tsv <==
WBGene00197333	0
WBGene00198386	0
WBGene00015153	2
WBGene00002061	3527
WBGene00255704	0
WBGene00235314	0
WBGene00001177	92
WBGene00169236	0
WBGene00219784	0
WBGene00015152	1
SRR9060558 completed mapping pipeline successfully
