Starting /dee2/code/volunteer_pipeline.sh SRR24450953
    current disk space = 401025605632
    free memory = 397899048 
SRR24450953 SRAfilesize
e3ea3369a6bfe5b8a9f369b7a8293c87  SRR24450953.sra
SRR24450953.sra file validated
SRR24450953 is single end
SRR24450953 is conventional basespace
SRR24450953 read1 length is 51 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR24450953_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	54
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	31.53875	32.0	32.0	32.0	32.0	32.0
2	31.60125	32.0	32.0	32.0	32.0	32.0
3	35.08875	37.0	37.0	37.0	27.0	37.0
4	35.53375	37.0	37.0	37.0	32.0	37.0
5	35.61	37.0	37.0	37.0	32.0	37.0
6	38.812	41.0	37.0	41.0	37.0	41.0
7	38.72775	41.0	37.0	41.0	32.0	41.0
8	39.4875	41.0	41.0	41.0	37.0	41.0
9	39.2155	41.0	37.0	41.0	37.0	41.0
10	39.295	41.0	41.0	41.0	37.0	41.0
11	38.44025	41.0	37.0	41.0	32.0	41.0
12	38.095	41.0	37.0	41.0	32.0	41.0
13	38.0555	41.0	37.0	41.0	32.0	41.0
14	38.46575	41.0	37.0	41.0	32.0	41.0
15	39.0005	41.0	37.0	41.0	37.0	41.0
16	38.918	41.0	37.0	41.0	37.0	41.0
17	38.8815	41.0	37.0	41.0	37.0	41.0
18	39.53325	41.0	41.0	41.0	37.0	41.0
19	39.4125	41.0	41.0	41.0	37.0	41.0
20	39.6185	41.0	41.0	41.0	37.0	41.0
21	39.247	41.0	37.0	41.0	37.0	41.0
22	39.47775	41.0	41.0	41.0	37.0	41.0
23	39.189	41.0	37.0	41.0	37.0	41.0
24	38.91325	41.0	37.0	41.0	37.0	41.0
25	38.80375	41.0	37.0	41.0	37.0	41.0
26	38.837	41.0	37.0	41.0	37.0	41.0
27	38.81575	41.0	37.0	41.0	37.0	41.0
28	38.38675	41.0	37.0	41.0	32.0	41.0
29	37.96725	41.0	37.0	41.0	32.0	41.0
30	37.9575	41.0	37.0	41.0	32.0	41.0
31	38.47875	41.0	37.0	41.0	32.0	41.0
32	38.786	41.0	37.0	41.0	37.0	41.0
33	38.74375	41.0	37.0	41.0	32.0	41.0
34	39.17	41.0	37.0	41.0	37.0	41.0
35	39.20625	41.0	41.0	41.0	37.0	41.0
36	38.582	41.0	41.0	41.0	32.0	41.0
37	38.0905	41.0	37.0	41.0	32.0	41.0
38	34.91175	41.0	32.0	41.0	22.0	41.0
39	34.6005	37.0	32.0	41.0	22.0	41.0
40	36.01575	41.0	37.0	41.0	27.0	41.0
41	35.19225	37.0	32.0	41.0	22.0	41.0
42	35.60675	37.0	32.0	41.0	27.0	41.0
43	36.30625	41.0	37.0	41.0	27.0	41.0
44	36.41775	41.0	37.0	41.0	22.0	41.0
45	37.7405	41.0	37.0	41.0	32.0	41.0
46	38.542	41.0	37.0	41.0	32.0	41.0
47	38.5685	41.0	37.0	41.0	32.0	41.0
48	38.053	41.0	37.0	41.0	32.0	41.0
49	38.2925	41.0	37.0	41.0	32.0	41.0
50	38.1565	41.0	37.0	41.0	32.0	41.0
51	35.4785	37.0	32.0	41.0	27.0	41.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
18	1.0
19	0.0
20	0.0
21	0.0
22	2.0
23	5.0
24	7.0
25	7.0
26	18.0
27	23.0
28	35.0
29	33.0
30	51.0
31	72.0
32	81.0
33	86.0
34	106.0
35	140.0
36	211.0
37	374.0
38	893.0
39	1730.0
40	125.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	23.474999999999998	25.15	21.475	29.9
2	41.775	25.025	12.4	20.8
3	53.400000000000006	19.1	12.9	14.6
4	40.1	36.175000000000004	9.75	13.975000000000001
5	29.075	50.875	7.449999999999999	12.6
6	52.925	32.1	4.95	10.025
7	38.025	48.025	2.325	11.625
8	49.775000000000006	43.55	1.8499999999999999	4.825
9	37.175000000000004	31.825	1.35	29.65
10	24.25	54.325	1.625	19.8
11	21.075	39.074999999999996	1.125	38.725
12	22.875	46.325	1.0250000000000001	29.775000000000002
13	12.775	37.4	4.825	45.0
14	33.125	24.65	2.85	39.375
15	20.75	21.475	28.299999999999997	29.475
16	16.375	19.275000000000002	19.775000000000002	44.574999999999996
17	14.524999999999999	14.924999999999999	34.475	36.075
18	36.825	14.325	27.975	20.875
19	26.950000000000003	29.4	21.175	22.475
20	18.45	44.35	22.125	15.075
21	14.625	29.75	19.1	36.525
22	13.675	22.95	33.1	30.275000000000002
23	9.85	26.650000000000002	24.525	38.975
24	12.25	21.025	13.3	53.425
25	4.625	40.050000000000004	15.6	39.725
26	25.624999999999996	27.200000000000003	13.225000000000001	33.95
27	18.325	17.849999999999998	32.074999999999996	31.75
28	11.774999999999999	15.375	24.825	48.025
29	15.8	35.675000000000004	13.225000000000001	35.3
30	13.750000000000002	25.7	16.325	44.224999999999994
31	32.4	18.15	14.524999999999999	34.925
32	24.75	16.8	32.725	25.724999999999998
33	16.625	14.549999999999999	25.1	43.725
34	17.8	33.6	13.15	35.449999999999996
35	36.55	29.25	13.05	21.15
36	48.775	15.6	15.8	19.825
37	34.75	35.949999999999996	11.25	18.05
38	23.549999999999997	29.45	34.525	12.475
39	23.35	19.950000000000003	20.275000000000002	36.425000000000004
40	22.825	19.25	35.449999999999996	22.475
41	17.75	14.174999999999999	31.45	36.625
42	33.800000000000004	13.175	23.724999999999998	29.299999999999997
43	20.625	10.274999999999999	46.375	22.725
44	16.475	27.474999999999998	35.699999999999996	20.349999999999998
45	14.399999999999999	19.7	44.3	21.6
46	36.175000000000004	12.425	35.825	15.575
47	29.375	12.875	24.325	33.425
48	20.1	12.049999999999999	24.325	43.525000000000006
49	37.574999999999996	8.95	20.4	33.074999999999996
50	29.349999999999998	8.525	37.5	24.625
51	20.5	3.375	30.099999999999998	46.025
>>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	1.0
18	2.0
19	1.0
20	0.0
21	0.0
22	0.0
23	1.5
24	3.0
25	2.0
26	1.5
27	2.0
28	1.5
29	1.0
30	1.0
31	1.0
32	2.0
33	3.0
34	3.5
35	4.0
36	5.0
37	6.0
38	6.0
39	6.0
40	5.0
41	4.0
42	5.0
43	6.0
44	11.0
45	16.0
46	27.5
47	39.0
48	88.0
49	137.0
50	224.0
51	311.0
52	455.5
53	600.0
54	933.5
55	1267.0
56	1339.5
57	1412.0
58	776.5
59	141.0
60	80.5
61	20.0
62	12.5
63	5.0
64	5.0
65	5.0
66	4.0
67	3.0
68	2.0
69	1.0
70	1.5
71	2.0
72	1.5
73	1.0
74	0.5
75	0.0
76	0.0
77	0.5
78	1.0
79	0.5
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	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	29.95
#Duplication Level	Percentage of deduplicated	Percentage of total
1	75.29215358931552	22.55
2	11.519198664440735	6.9
3	4.757929883138564	4.275
4	1.5025041736227045	1.7999999999999998
5	1.2520868113522539	1.875
6	0.667779632721202	1.2
7	0.7512520868113522	1.575
8	0.5008347245409015	1.2
9	0.25041736227045075	0.675
>10	3.005008347245409	17.849999999999998
>50	0.1669449081803005	3.4750000000000005
>100	0.25041736227045075	15.8
>500	0.08347245409015025	20.825
>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
CGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCGTC	833	20.825	TruSeq Adapter, Index 18 (97% over 35bp)
TCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCGT	402	10.05	TruSeq Adapter, Index 18 (97% over 36bp)
GAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCGTCTT	118	2.9499999999999997	TruSeq Adapter, Index 18 (96% over 33bp)
ATCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCG	112	2.8000000000000003	TruSeq Adapter, Index 18 (97% over 37bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCC	85	2.125	TruSeq Adapter, Index 18 (97% over 38bp)
GCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCGT	54	1.35	TruSeq Adapter, Index 18 (97% over 34bp)
GGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCGTCT	47	1.175	TruSeq Adapter, Index 18 (97% over 34bp)
GAGCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCC	47	1.175	TruSeq Adapter, Index 18 (97% over 36bp)
ACGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCGT	42	1.05	TruSeq Adapter, Index 18 (97% over 34bp)
AGATCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGC	37	0.9249999999999999	TruSeq Adapter, Index 18 (97% over 38bp)
GGTCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCC	36	0.8999999999999999	TruSeq Adapter, Index 18 (97% over 36bp)
CCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCGT	35	0.8750000000000001	TruSeq Adapter, Index 18 (97% over 34bp)
TCCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCG	32	0.8	TruSeq Adapter, Index 18 (97% over 35bp)
TTCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCG	24	0.6	TruSeq Adapter, Index 18 (97% over 35bp)
AGCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCG	23	0.575	TruSeq Adapter, Index 18 (97% over 35bp)
GTCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCG	23	0.575	TruSeq Adapter, Index 18 (97% over 35bp)
GACGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCG	22	0.5499999999999999	TruSeq Adapter, Index 18 (97% over 35bp)
GATCCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGC	20	0.5	TruSeq Adapter, Index 18 (97% over 34bp)
AGACGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCC	20	0.5	TruSeq Adapter, Index 18 (97% over 34bp)
AAGGCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGC	19	0.475	TruSeq Adapter, Index 18 (97% over 34bp)
AGGTCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGC	19	0.475	TruSeq Adapter, Index 18 (97% over 36bp)
AAGGTCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATG	19	0.475	TruSeq Adapter, Index 18 (97% over 36bp)
AGATTCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATG	17	0.42500000000000004	TruSeq Adapter, Index 18 (97% over 36bp)
TGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCGTC	17	0.42500000000000004	TruSeq Adapter, Index 18 (96% over 33bp)
AGTCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCC	16	0.4	TruSeq Adapter, Index 18 (97% over 36bp)
GTTCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCC	15	0.375	TruSeq Adapter, Index 18 (97% over 36bp)
GGCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCG	14	0.35000000000000003	TruSeq Adapter, Index 18 (97% over 35bp)
CGGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCGT	14	0.35000000000000003	TruSeq Adapter, Index 18 (97% over 34bp)
TCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGAGCTCGTATGCCGT	13	0.325	TruSeq Adapter, Index 18 (97% over 36bp)
GATTCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGC	13	0.325	TruSeq Adapter, Index 18 (97% over 36bp)
TACGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCG	13	0.325	TruSeq Adapter, Index 18 (97% over 35bp)
AGATCCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATG	12	0.3	TruSeq Adapter, Index 18 (97% over 34bp)
TGCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCG	12	0.3	TruSeq Adapter, Index 18 (97% over 35bp)
AAAGTCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATG	11	0.27499999999999997	TruSeq Adapter, Index 18 (97% over 36bp)
ATCCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCC	11	0.27499999999999997	TruSeq Adapter, Index 18 (97% over 34bp)
CGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGACCTCGTATGCCGTC	11	0.27499999999999997	TruSeq Adapter, Index 18 (97% over 35bp)
AAGCCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGC	10	0.25	TruSeq Adapter, Index 18 (97% over 34bp)
AACGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCG	10	0.25	TruSeq Adapter, Index 18 (97% over 35bp)
AAGACGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGC	10	0.25	TruSeq Adapter, Index 18 (97% over 34bp)
AAGTCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGC	10	0.25	TruSeq Adapter, Index 18 (97% over 36bp)
GAACGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCC	10	0.25	TruSeq Adapter, Index 18 (97% over 36bp)
CGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGAACTCGTATGCCGTC	10	0.25	TruSeq Adapter, Index 18 (97% over 35bp)
GGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCGTC	9	0.22499999999999998	TruSeq Adapter, Index 18 (96% over 33bp)
TTGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCGT	9	0.22499999999999998	TruSeq Adapter, Index 18 (97% over 34bp)
ATGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCGT	9	0.22499999999999998	TruSeq Adapter, Index 18 (97% over 34bp)
GGGCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCC	8	0.2	TruSeq Adapter, Index 18 (97% over 35bp)
AAAGGTCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTAT	8	0.2	TruSeq Adapter, Index 18 (97% over 36bp)
GAGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCGT	8	0.2	TruSeq Adapter, Index 18 (97% over 34bp)
CGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGAGCTCGTATGCCGTC	8	0.2	TruSeq Adapter, Index 18 (97% over 35bp)
AAAGGCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATG	8	0.2	TruSeq Adapter, Index 18 (97% over 34bp)
AAAAGGCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTAT	8	0.2	TruSeq Adapter, Index 18 (97% over 34bp)
CTCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCG	7	0.17500000000000002	TruSeq Adapter, Index 18 (97% over 35bp)
CGCGACCTCAGATCAGACGTGGCGACCCGCTGAATTTAAGCATATTAGTCA	7	0.17500000000000002	No Hit
TGGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCGT	7	0.17500000000000002	TruSeq Adapter, Index 18 (97% over 34bp)
TGTTCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGC	7	0.17500000000000002	TruSeq Adapter, Index 18 (97% over 36bp)
CACGTCCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTAT	7	0.17500000000000002	TruSeq Adapter, Index 18 (97% over 35bp)
ATTCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCC	7	0.17500000000000002	TruSeq Adapter, Index 18 (97% over 36bp)
GTGTCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGC	7	0.17500000000000002	TruSeq Adapter, Index 18 (97% over 36bp)
AAGATCCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTAT	7	0.17500000000000002	TruSeq Adapter, Index 18 (97% over 34bp)
AAGAGCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATG	7	0.17500000000000002	TruSeq Adapter, Index 18 (97% over 36bp)
AGCCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCC	6	0.15	TruSeq Adapter, Index 18 (97% over 34bp)
CGCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCG	6	0.15	TruSeq Adapter, Index 18 (97% over 35bp)
AAGATTCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTAT	6	0.15	TruSeq Adapter, Index 18 (97% over 36bp)
AGGCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCC	6	0.15	TruSeq Adapter, Index 18 (97% over 34bp)
GATACGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGC	6	0.15	TruSeq Adapter, Index 18 (97% over 34bp)
TCGGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCG	6	0.15	TruSeq Adapter, Index 18 (96% over 33bp)
AAGTTCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATG	6	0.15	TruSeq Adapter, Index 18 (97% over 36bp)
CACGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCG	6	0.15	TruSeq Adapter, Index 18 (97% over 35bp)
TTACGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCC	5	0.125	TruSeq Adapter, Index 18 (97% over 34bp)
CGGCAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCGTC	5	0.125	TruSeq Adapter, Index 18 (96% over 33bp)
ATGGTCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATG	5	0.125	TruSeq Adapter, Index 18 (97% over 36bp)
TGAGCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGC	5	0.125	TruSeq Adapter, Index 18 (97% over 36bp)
AGTCCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGC	5	0.125	TruSeq Adapter, Index 18 (97% over 35bp)
AGAGCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGC	5	0.125	TruSeq Adapter, Index 18 (97% over 36bp)
GTATCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGC	5	0.125	TruSeq Adapter, Index 18 (97% over 36bp)
AGTTCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGC	5	0.125	TruSeq Adapter, Index 18 (97% over 36bp)
GACTCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGC	5	0.125	TruSeq Adapter, Index 18 (97% over 36bp)
GGAGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCG	5	0.125	TruSeq Adapter, Index 18 (96% over 33bp)
GGGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCGT	5	0.125	TruSeq Adapter, Index 18 (97% over 34bp)
TATCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCC	5	0.125	TruSeq Adapter, Index 18 (97% over 36bp)
TAGTCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGC	5	0.125	TruSeq Adapter, Index 18 (97% over 36bp)
AAGATCGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATG	5	0.125	TruSeq Adapter, Index 18 (97% over 38bp)
ATCGGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCC	5	0.125	TruSeq Adapter, Index 18 (97% over 34bp)
>>END_MODULE
>>Adapter Content	pass
#Position	Illumina Universal Adapter	Illumina Small RNA 3' Adapter	Illumina Small RNA 5' Adapter	Nextera Transposase Sequence	SOLID Small RNA Adapter
1	0.925	0.0	0.0	0.0	0.0
2	1.175	0.0	0.0	0.0	0.0
3	1.325	0.0	0.0	0.0	0.0
4	1.45	0.0	0.0	0.0	0.0
5	1.475	0.0	0.0	0.0	0.0
6	1.625	0.0	0.0	0.0	0.0
7	1.975	0.0	0.0	0.0	0.0
8	2.275	0.0	0.0	0.0	0.0
9	2.5	0.0	0.0	0.0	0.0
10	2.825	0.0	0.0	0.0	0.0
11	3.125	0.0	0.0	0.0	0.0
12	3.575	0.0	0.0	0.0	0.0
13	4.35	0.0	0.0	0.0	0.0
14	4.55	0.0	0.0	0.0	0.0
15	4.6	0.0	0.0	0.0	0.0
16	4.625	0.0	0.0	0.0	0.0
17	4.7	0.0	0.0	0.0	0.0
18	4.725	0.0	0.0	0.0	0.0
19	4.75	0.0	0.0	0.0	0.0
20	4.8	0.0	0.0	0.0	0.0
21	4.8	0.0	0.0	0.0	0.0
22	4.8	0.0	0.0	0.0	0.0
23	4.825	0.0	0.0	0.0	0.0
24	4.825	0.0	0.0	0.0	0.0
25	4.825	0.0	0.0	0.0	0.0
26	4.825	0.0	0.0	0.0	0.0
27	4.825	0.0	0.0	0.0	0.0
28	4.825	0.0	0.0	0.0	0.0
29	4.825	0.0	0.0	0.0	0.0
30	4.825	0.0	0.0	0.0	0.0
31	4.85	0.0	0.0	0.0	0.0
32	4.85	0.0	0.0	0.0	0.0
33	4.85	0.0	0.0	0.0	0.0
34	4.85	0.0	0.0	0.0	0.0
35	4.85	0.0	0.0	0.0	0.0
36	4.85	0.0	0.0	0.0	0.0
37	4.85	0.0	0.0	0.0	0.0
38	4.85	0.0	0.0	0.0	0.0
39	4.85	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	fail
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
TGCCGTC	90	0.0	42.500004	45
ATGCCGT	155	0.0	24.677418	44
TATGCCG	200	0.0	19.125	43
GTATGCC	250	1.8189894E-12	15.299999	42
CGTATGC	280	7.2759576E-12	13.660714	41
TCGGAAG	210	1.8488026E-7	12.857142	1
ATCGGAA	105	0.008242682	12.857142	2
TCGTATG	310	3.8198777E-11	12.338709	40
TCTCGTA	305	4.7111826E-10	11.803279	38
CTCGTAT	325	8.367351E-11	11.76923	39
ATCTCGT	310	6.1118044E-10	11.612903	37
GATCTCG	315	7.894414E-10	11.428572	36
GGATCTC	320	1.0149961E-9	11.25	35
AGGATCT	325	1.2987584E-9	11.076922	34
CAGGATC	325	1.2987584E-9	11.076922	33
TCAGGAT	330	1.6552804E-9	10.909092	32
GTCAGGA	360	4.674803E-10	10.625001	31
CGGAAGA	345	3.3523975E-9	10.434783	1
CGTCAGG	370	7.403287E-10	10.337838	30
ACACGTC	380	1.1568773E-9	10.06579	10
>>END_MODULE
Rejected 64795 READS because READLEN < 1
Read 64795 spots for SRR24450953.sra
Written 64795 spots for SRR24450953.sra
Rejected 64795 READS because READLEN < 1
Read 64795 spots for SRR24450953.sra
Written 64795 spots for SRR24450953.sra
Rejected 64795 READS because READLEN < 1
Read 64795 spots for SRR24450953.sra
Written 64795 spots for SRR24450953.sra
Rejected 64795 READS because READLEN < 1
Read 64795 spots for SRR24450953.sra
Written 64795 spots for SRR24450953.sra
Rejected 64795 READS because READLEN < 1
Read 64795 spots for SRR24450953.sra
Written 64795 spots for SRR24450953.sra
Rejected 64795 READS because READLEN < 1
Read 64795 spots for SRR24450953.sra
Written 64795 spots for SRR24450953.sra
Rejected 64795 READS because READLEN < 1
Read 64795 spots for SRR24450953.sra
Written 64795 spots for SRR24450953.sra
Rejected 64795 READS because READLEN < 1
Read 64795 spots for SRR24450953.sra
Written 64795 spots for SRR24450953.sra
Rejected 64795 READS because READLEN < 1
Read 64795 spots for SRR24450953.sra
Written 64795 spots for SRR24450953.sra
Rejected 64795 READS because READLEN < 1
Read 64795 spots for SRR24450953.sra
Written 64795 spots for SRR24450953.sra
Rejected 64795 READS because READLEN < 1
Read 64795 spots for SRR24450953.sra
Written 64795 spots for SRR24450953.sra
Rejected 64795 READS because READLEN < 1
Read 64795 spots for SRR24450953.sra
Written 64795 spots for SRR24450953.sra
Rejected 64795 READS because READLEN < 1
Read 64795 spots for SRR24450953.sra
Written 64795 spots for SRR24450953.sra
Rejected 64806 READS because READLEN < 1
Read 64806 spots for SRR24450953.sra
Written 64806 spots for SRR24450953.sra
Rejected 64795 READS because READLEN < 1
Read 64795 spots for SRR24450953.sra
Written 64795 spots for SRR24450953.sra
Rejected 64795 READS because READLEN < 1
Read 64795 spots for SRR24450953.sra
Written 64795 spots for SRR24450953.sra
SRR ids: ['SRR24450953.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_uc3j8ctc
SRR24450953.sra spots: 1036731
blocks: [[1, 64795], [64796, 129590], [129591, 194385], [194386, 259180], [259181, 323975], [323976, 388770], [388771, 453565], [453566, 518360], [518361, 583155], [583156, 647950], [647951, 712745], [712746, 777540], [777541, 842335], [842336, 907130], [907131, 971925], [971926, 1036731]]
SRR24450953 file size 1
SRR24450953 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 16 -o SRR24450953 SRR24450953_1.fastq
Input file:	SRR24450953_1.fastq
trimmed:	SRR24450953-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):	16
Thu Jul 16 19:29:15 2026 >> started

Thu Jul 16 19:29:16 2026 >> done (0.695s)
1036731 reads processed; of these:
 149492 (14.42%) short reads filtered out after trimming by size control
 121804 (11.75%) empty reads filtered out after trimming by size control
 765435 (73.83%) reads available; of these:
   1301 ( 0.17%) trimmed reads available after processing
 764134 (99.83%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	   829	  0.11%
 19	   472	  0.06%
 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	     0	  0.00%
 50	     0	  0.00%
 51	764134	 99.83%
765435 reads passed initial QC


criterion=sequence-density
sequence-density=79.84
sequence-density-rank=1
fanout-score=24.08
fanout-score-rank=4
prefix-density=17.08
prefix-fanout=24.1
sequence=CGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCGTCTTC


criterion=fanout-score
sequence-density=0.50
sequence-density-rank=8
fanout-score=187.82
fanout-score-rank=1
prefix-density=92.97
prefix-fanout=1.0
sequence=TCACGTCAGGACCTCGTATGCCG
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 16 -x CGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCGTCTTC -o SRR24450953 -
Input file:	STDIN
trimmed:	SRR24450953-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	CGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCGTCTTC
-- 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):	16
Thu Jul 16 19:29:20 2026 >> started

Thu Jul 16 19:29:21 2026 >> done (0.655s)
746299 reads processed; of these:
418505 (56.08%) short reads filtered out after trimming by size control
283975 (38.05%) empty reads filtered out after trimming by size control
 43819 ( 5.87%) reads available; of these:
  4644 (10.60%) trimmed reads available after processing
 39175 (89.40%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  920	  2.10%
 19	  516	  1.18%
 20	  101	  0.23%
 21	  130	  0.30%
 22	  144	  0.33%
 23	  155	  0.35%
 24	  362	  0.83%
 25	  315	  0.72%
 26	  258	  0.59%
 27	  223	  0.51%
 28	  255	  0.58%
 29	  212	  0.48%
 30	  126	  0.29%
 31	  116	  0.26%
 32	  174	  0.40%
 33	  160	  0.37%
 34	  165	  0.38%
 35	  134	  0.31%
 36	  101	  0.23%
 37	  105	  0.24%
 38	   64	  0.15%
 39	  114	  0.26%
 40	   86	  0.20%
 41	   66	  0.15%
 42	   77	  0.18%
 43	   82	  0.19%
 44	   78	  0.18%
 45	   61	  0.14%
 46	   82	  0.19%
 47	  111	  0.25%
 48	  380	  0.87%
 49	    0	  0.00%
 50	    0	  0.00%
 51	37946	 86.60%


criterion=sequence-density
sequence-density=24.72
sequence-density-rank=1
fanout-score=4.50
fanout-score-rank=3
prefix-density=2.00
prefix-fanout=4.5
sequence=CGGAAGAGCACACGTCTGAACTCCAGTCACGTCAGGATCTCGTATGCCGTCTTC


criterion=fanout-score
sequence-density=0.22
sequence-density-rank=16
fanout-score=137.74
fanout-score-rank=1
prefix-density=29.43
prefix-fanout=1.0
sequence=TCACGTCAGGACCTCGTATGCCG
                                 Started job on |	Jul 16 19:29:39
                             Started mapping on |	Jul 16 19:29:40
                                    Finished on |	Jul 16 19:29:45
       Mapping speed, Million of reads per hour |	45.33

                          Number of input reads |	62955
                      Average input read length |	48
                                    UNIQUE READS:
                   Uniquely mapped reads number |	18458
                        Uniquely mapped reads % |	29.32%
                          Average mapped length |	47.69
                       Number of splices: Total |	965
            Number of splices: Annotated (sjdb) |	861
                       Number of splices: GT/AG |	914
                       Number of splices: GC/AG |	8
                       Number of splices: AT/AC |	1
               Number of splices: Non-canonical |	42
                      Mismatch rate per base, % |	1.11%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.45
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.05
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	8531
             % of reads mapped to multiple loci |	13.55%
        Number of reads mapped to too many loci |	821
             % of reads mapped to too many loci |	1.30%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	54.79%
                     % of reads unmapped: other |	1.04%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	35966	35966	35966
N_multimapping	8531	8531	8531
N_noFeature	3777	3900	15821
N_ambiguous	2649	138	1978
UnstrandedReadsAssigned:12032 PositiveStrandReadsAssigned:14420 NegativeStrandReadsAssigned:659
Dataset is classified positive stranded
MeadianReadLen=51 20thPercentileLength=51 echo kmer=47
SRR24450953 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: 109,282
[index] number of k-mers: 95,711,799
[index] number of equivalence classes: 391,900
[quant] running in single-end mode
[quant] will process file 1: SRR24450953-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 62,955 reads, 11,798 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 594 rounds

 109283 SRR24450953.ke.tsv
  52636 SRR24450953.se.tsv
 161919 total
==> SRR24450953.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
ENSMUST00000177564.1	16	4.59059	0	0
ENSMUST00000196221.1	9	3.70903	0	0
ENSMUST00000179664.1	11	4.02702	0	0
ENSMUST00000178537.1	12	4.16231	0	0
ENSMUST00000178862.1	14	4.39563	0	0
ENSMUST00000179520.1	11	4.02702	0	0
ENSMUST00000179883.1	16	4.59059	0	0
ENSMUST00000195858.1	10	3.87667	0	0
ENSMUST00000179932.1	12	4.16231	0	0

==> SRR24450953.se.tsv <==
ENSMUSG00000102693	0
ENSMUSG00000064842	0
ENSMUSG00000051951	0
ENSMUSG00000102851	0
ENSMUSG00000103377	0
ENSMUSG00000104017	0
ENSMUSG00000103025	0
ENSMUSG00000089699	0
ENSMUSG00000103201	0
ENSMUSG00000103147	0
SRR24450953 completed mapping pipeline successfully
