Starting /dee2/code/volunteer_pipeline.sh SRR17096857
    current disk space = 416933864
    free memory = 198867248 
SRR17096857 SRAfilesize
8f57dc87f547378e68e294d44cc4d6f7  SRR17096857.sra
SRR17096857.sra file validated
SRR17096857 is single end
SRR17096857 is conventional basespace
SRR17096857 read1 length is 50 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR17096857_1.fastq
File type	Conventional base calls
Encoding	Sanger / Illumina 1.9
Total Sequences	4000
Sequences flagged as poor quality	0
Sequence length	50
%GC	48
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	30.9725	32.0	32.0	32.0	32.0	32.0
2	31.38225	32.0	32.0	32.0	32.0	32.0
3	31.3665	32.0	32.0	32.0	32.0	32.0
4	31.4585	32.0	32.0	32.0	32.0	32.0
5	31.46975	32.0	32.0	32.0	32.0	32.0
6	34.5345	36.0	36.0	36.0	32.0	36.0
7	34.54475	36.0	36.0	36.0	32.0	36.0
8	34.552	36.0	36.0	36.0	32.0	36.0
9	34.55725	36.0	36.0	36.0	32.0	36.0
10	34.87975	36.0	36.0	36.0	36.0	36.0
11	34.94575	36.0	36.0	36.0	32.0	36.0
12	34.785	36.0	36.0	36.0	32.0	36.0
13	34.9175	36.0	36.0	36.0	36.0	36.0
14	34.9505	36.0	36.0	36.0	36.0	36.0
15	34.8715	36.0	36.0	36.0	36.0	36.0
16	34.96925	36.0	36.0	36.0	36.0	36.0
17	34.9125	36.0	36.0	36.0	32.0	36.0
18	34.84525	36.0	36.0	36.0	32.0	36.0
19	35.01425	36.0	36.0	36.0	36.0	36.0
20	35.08975	36.0	36.0	36.0	36.0	36.0
21	34.9385	36.0	36.0	36.0	36.0	36.0
22	34.718	36.0	36.0	36.0	32.0	36.0
23	34.498	36.0	36.0	36.0	32.0	36.0
24	34.74675	36.0	36.0	36.0	32.0	36.0
25	34.666	36.0	36.0	36.0	32.0	36.0
26	34.5655	36.0	36.0	36.0	32.0	36.0
27	34.69	36.0	36.0	36.0	32.0	36.0
28	34.7335	36.0	36.0	36.0	32.0	36.0
29	34.61975	36.0	36.0	36.0	32.0	36.0
30	34.8145	36.0	36.0	36.0	36.0	36.0
31	34.49775	36.0	36.0	36.0	32.0	36.0
32	34.58775	36.0	36.0	36.0	32.0	36.0
33	34.37675	36.0	36.0	36.0	32.0	36.0
34	34.63475	36.0	36.0	36.0	32.0	36.0
35	34.696	36.0	36.0	36.0	32.0	36.0
36	34.43425	36.0	36.0	36.0	32.0	36.0
37	34.33925	36.0	36.0	36.0	32.0	36.0
38	34.4675	36.0	36.0	36.0	32.0	36.0
39	34.24925	36.0	36.0	36.0	32.0	36.0
40	34.21475	36.0	36.0	36.0	32.0	36.0
41	34.134	36.0	36.0	36.0	32.0	36.0
42	34.25225	36.0	36.0	36.0	32.0	36.0
43	34.2715	36.0	36.0	36.0	32.0	36.0
44	34.249	36.0	36.0	36.0	32.0	36.0
45	34.377	36.0	36.0	36.0	32.0	36.0
46	33.90575	36.0	36.0	36.0	32.0	36.0
47	34.07525	36.0	36.0	36.0	32.0	36.0
48	34.04275	36.0	36.0	36.0	32.0	36.0
49	33.955	36.0	36.0	36.0	32.0	36.0
50	33.9915	36.0	36.0	36.0	32.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
20	1.0
21	3.0
22	6.0
23	9.0
24	8.0
25	17.0
26	18.0
27	40.0
28	60.0
29	86.0
30	107.0
31	134.0
32	207.0
33	314.0
34	749.0
35	2241.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	31.4	11.225	48.175000000000004	9.2
2	32.175	21.025	11.35	35.449999999999996
3	41.425	34.125	9.35	15.1
4	14.625	29.45	30.85	25.074999999999996
5	18.75	31.7	40.625	8.924999999999999
6	37.45928338762215	10.072663492858933	46.053620646454526	6.414432473064395
7	54.925000000000004	21.825	10.825	12.425
8	14.000000000000002	12.575	66.175	7.249999999999999
9	35.775	31.474999999999998	14.025000000000002	18.725
10	36.55	44.35	11.55	7.55
11	26.3	26.650000000000002	33.800000000000004	13.25
12	26.900000000000002	23.575	37.2	12.325
13	7.8	32.7	13.8	45.7
14	12.025	56.55	25.474999999999998	5.949999999999999
15	70.275	10.975	11.475	7.2749999999999995
16	10.424999999999999	24.175	57.699999999999996	7.7
17	40.875	26.525	23.95	8.649999999999999
18	48.075	13.4	30.775000000000002	7.75
19	33.7	15.024999999999999	45.65	5.625
20	17.175	34.9	42.925000000000004	5.0
21	47.925000000000004	33.4	11.1	7.575
22	19.35	50.24999999999999	22.925	7.475
23	13.675	60.099999999999994	8.924999999999999	17.299999999999997
24	31.075000000000003	26.35	36.95	5.625
25	20.549999999999997	32.1	31.35	16.0
26	16.650000000000002	20.849999999999998	26.474999999999998	36.025
27	17.125	12.475	39.175	31.225
28	36.449999999999996	14.075	8.05	41.425
29	60.5	20.150000000000002	6.7250000000000005	12.625
30	30.95	33.1	4.725	31.225
31	18.425	49.475	6.75	25.35
32	34.675	37.275000000000006	16.3	11.75
33	34.425	42.725	7.95	14.899999999999999
34	38.2	35.85	8.05	17.9
35	19.3	31.225	13.575000000000001	35.9
36	18.4	40.25	12.275	29.075
37	18.025	32.550000000000004	6.7	42.725
38	30.9	34.699999999999996	10.875	23.525
39	24.175	28.000000000000004	11.700000000000001	36.125
40	38.85	27.375	10.45	23.325000000000003
41	30.95	21.15	32.675	15.225
42	25.775	25.55	21.55	27.125
43	21.7	28.599999999999998	29.975	19.725
44	41.25	24.15	14.75	19.85
45	19.05	47.725	9.4	23.825
46	15.45	51.425	9.049999999999999	24.075
47	7.725	32.824999999999996	9.1	50.349999999999994
48	7.2749999999999995	27.900000000000002	24.775	40.050000000000004
49	13.075000000000001	17.075000000000003	17.8	52.05
50	19.525000000000002	18.3	15.4	46.775
>>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	0.5
12	1.0
13	1.5
14	2.0
15	1.0
16	0.0
17	0.5
18	1.0
19	1.5
20	2.0
21	1.5
22	1.0
23	1.0
24	1.0
25	0.5
26	0.0
27	1.0
28	2.0
29	2.0
30	2.0
31	5.0
32	8.0
33	9.0
34	10.0
35	16.5
36	23.0
37	30.5
38	38.0
39	59.5
40	81.0
41	232.5
42	384.0
43	443.5
44	503.0
45	559.0
46	615.0
47	463.5
48	312.0
49	427.0
50	542.0
51	635.5
52	729.0
53	539.5
54	350.0
55	253.0
56	156.0
57	135.0
58	114.0
59	100.0
60	86.0
61	54.0
62	22.0
63	14.5
64	7.0
65	5.0
66	3.0
67	2.0
68	1.0
69	2.0
70	3.0
71	1.5
72	0.0
73	0.5
74	1.0
75	0.5
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	0.22499999999999998
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
>>END_MODULE
>>Sequence Length Distribution	pass
#Length	Count
50	4000.0
>>END_MODULE
>>Sequence Duplication Levels	fail
#Total Deduplicated Percentage	42.925000000000004
#Duplication Level	Percentage of deduplicated	Percentage of total
1	85.49796156086197	36.7
2	6.173558532323821	5.3
3	2.44612696563774	3.15
4	0.7571345369831101	1.3
5	0.7571345369831101	1.625
6	0.64065230052417	1.6500000000000001
7	0.46592894583576006	1.4000000000000001
8	0.4076878276062901	1.4000000000000001
9	0.17472335468841002	0.675
>10	2.21316249271986	19.625
>50	0.17472335468841002	5.475
>100	0.29120559114735	21.7
>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
TGGAATGTAAAGAAGTATGTATAGATCGGAAGAGCACACGTCTGAACTCC	246	6.15	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TAGCTTATCAGACTGATGTTGACAGATCGGAAGAGCACACGTCTGAACTC	231	5.775	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTAGATCGGAAGAGCACACG	167	4.175	No Hit
TGGAATGTAAAGAAGTATGTAGATCGGAAGAGCACACGTCTGAACTCCAG	119	2.9749999999999996	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCAGATCGGAAGAGCACACGT	105	2.625	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGCAGATCGGAAGAGCACA	88	2.1999999999999997	No Hit
TAGCTTATCAGACTGATGTTGAAGATCGGAAGAGCACACGTCTGAACTCC	76	1.9	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
CTCGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTAGATC	55	1.375	No Hit
TGGAATGTAAAGAAGTGTGTATAGATCGGAAGAGCACACGTCTGAACTCC	46	1.15	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GCATGGGTGGTTCAGTGGTAGAATTCTCGCCAGATCGGAAGAGCACACGT	39	0.975	No Hit
GCATGGGTGGTTCAGTGGTAGAATTCTCGCCTAGATCGGAAGAGCACACG	38	0.95	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCTAGATCGGAAGAGCACACGT	36	0.8999999999999999	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGAGATCGGAAGAGCACAC	32	0.8	No Hit
GCCCGGCTAGCTCAGTCGGTAGAGCATGAGACTCAGATCGGAAGAGCACA	30	0.75	No Hit
TGGAATGTAAAGAAGTATGTACAGATCGGAAGAGCACACGTCTGAACTCC	30	0.75	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TAGCTTATCAGACTGATGTTGACTAGATCGGAAGAGCACACGTCTGAACT	29	0.7250000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TGAGGTAGTAGATTGTATAGTTAGATCGGAAGAGCACACGTCTGAACTCC	28	0.7000000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCAGATCGGAAGAGCACACGTC	27	0.675	No Hit
TGGAATGTAAAGAAGTGTGTAAGATCGGAAGAGCACACGTCTGAACTCCA	27	0.675	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TGGAATGTAAAGAAGTATGTAAGATCGGAAGAGCACACGTCTGAACTCCA	25	0.625	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGTAGATCGGAAGAGCACA	24	0.6	No Hit
TGAGGTAGTAGTTTGTGCTGTTAGATCGGAAGAGCACACGTCTGAACTCC	24	0.6	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TCGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTAGATCG	21	0.525	No Hit
TAGCTTATCAGACTGATGTTGACAAGATCGGAAGAGCACACGTCTGAACT	21	0.525	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GCATTGTGGTTCAGTGGTAGAATTCTCGCCTAGATCGGAAGAGCACACGT	19	0.475	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCAAGATCGGAAGAGCACACG	19	0.475	No Hit
GCCCGGCTAGCTCAGTCGGTAGAGCATGGGACTCAGATCGGAAGAGCACA	18	0.44999999999999996	No Hit
TGGAATGTAAAGAAGTATGTATTAGATCGGAAGAGCACACGTCTGAACTC	17	0.42500000000000004	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TAGCTTATCAGACTGATGTTGATAGATCGGAAGAGCACACGTCTGAACTC	16	0.4	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TCAGTGCACTACAGAACTTTGTAGATCGGAAGAGCACACGTCTGAACTCC	16	0.4	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
ACTGGACTTGGAGTCAGAAGGCAGATCGGAAGAGCACACGTCTGAACTCC	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GCATGGGTGGTTCAGTGGTAGAATTCTCGCTAGATCGGAAGAGCACACGT	15	0.375	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCAAGATCGGAAGAGCACACGT	15	0.375	No Hit
TGGAATGTAAAGAAGTATGTAAAGATCGGAAGAGCACACGTCTGAACTCC	14	0.35000000000000003	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCCAGATCGGAAGAGCACACG	14	0.35000000000000003	No Hit
TAGCTTATCAGACTGATGTTGACCAGATCGGAAGAGCACACGTCTGAACT	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TGAAATGATGGCAATCATCTTTCGGGACTGACCTGAAATGAAGAGAAAAC	13	0.325	No Hit
TGGAATGTAAAGAAGTATGCAGATCGGAAGAGCACACGTCTGAACTCCAG	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGCCAGATCGGAAGAGCAC	12	0.3	No Hit
TTCAAGTAATCCAGGATAGGCTAGATCGGAAGAGCACACGTCTGAACTCC	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GCCCGGCTAGCTCAGTCGGTAGAGCATGAGACTAGATCGGAAGAGCACAC	12	0.3	No Hit
TGGAATGTAAAGAAGTGTGTAGATCGGAAGAGCACACGTCTGAACTCCAG	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GCATGGGTGGTTCAGTGGTAGAATTCTCGCAGATCGGAAGAGCACACGTC	11	0.27499999999999997	No Hit
TGGAATGTAAAGAAGTGTGTACAGATCGGAAGAGCACACGTCTGAACTCC	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TGTAAACATCCCCGACTGGAAGCTAGATCGGAAGAGCACACGTCTGAACT	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GCATTGTGGTTCAGTGGTAGAATTCTCGCCAGATCGGAAGAGCACACGTC	11	0.27499999999999997	No Hit
TGTAAACATCCTCGACTGGAAGCAGATCGGAAGAGCACACGTCTGAACTC	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TGGAATGTAAAGAAGTATGTAGAGATCGGAAGAGCACACGTCTGAACTCC	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TAGCTTATCAGACTGATGTTGAGATCGGAAGAGCACACGTCTGAACTCCA	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
CTCGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGCAGATC	8	0.2	No Hit
TGGAATGTAAAGAAGTATGTGTAGATCGGAAGAGCACACGTCTGAACTCC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TAGCTTATCAGACTGATGTTGACGAGATCGGAAGAGCACACGTCTGAACT	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TTCACAGTGGCTAAGTTCTGCAGATCGGAAGAGCACACGTCTGAACTCCA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGCTCAGATCGGAAGAGCACA	8	0.2	No Hit
TGAGGTAGTAGATTGTATAGTAGATCGGAAGAGCACACGTCTGAACTCCA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGAAGATCGGAAGAGCACA	8	0.2	No Hit
GCATTGTGGTTCAGTGGTAGAATTCTCGCCTGAGATCGGAAGAGCACACG	7	0.17500000000000002	No Hit
TAGCTTATCAGACTGATGTTGAAAGATCGGAAGAGCACACGTCTGAACTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GCATGGGTGGTTCAGTGGTAGAATTCTCGCCCAGATCGGAAGAGCACACG	7	0.17500000000000002	No Hit
TGGAATGTAAGGAAGTGTGTGGAGATCGGAAGAGCACACGTCTGAACTCC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
AGGAATGTAAAGAAGTATGTATAGATCGGAAGAGCACACGTCTGAACTCC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TGAGGTAGTAGTTTGTACAGTTAGATCGGAAGAGCACACGTCTGAACTCC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGCTAGATCGGAAGAGCAC	7	0.17500000000000002	No Hit
TGGAAGACTAGTGATTTTGTTGTTAGATCGGAAGAGCACACGTCTGAACT	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GCATGGGTGGTTCAGTGGTAGAATTCTCGCAAGATCGGAAGAGCACACGT	6	0.15	No Hit
AAGCTTATCAGACTGATGTTGACAGATCGGAAGAGCACACGTCTGAACTC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GCATGGGTGGTTCAGTGGTAGAATTCTCGCCTGAGATCGGAAGAGCACAC	6	0.15	No Hit
TGTAAACATCCTCGACTGGAAGCTAGATCGGAAGAGCACACGTCTGAACT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TGAGATGAAGCACTGTAGCTCTAGATCGGAAGAGCACACGTCTGAACTCC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
AACCCGTAGATCCGATCTTGTAGATCGGAAGAGCACACGTCTGAACTCCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
ACTGGACTTGGAGTCAGAAGGAGATCGGAAGAGCACACGTCTGAACTCCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
CGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTAGATCGG	6	0.15	No Hit
TGTAAACATCCTCGACTGGAAAGATCGGAAGAGCACACGTCTGAACTCCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GCATGGGTGGTTCAGTGGTAGAATTCTCGCCAAGATCGGAAGAGCACACG	6	0.15	No Hit
ACTGGACTTGGAGTCAGAAGGTAGATCGGAAGAGCACACGTCTGAACTCC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TTCACAGTGGCTAAGTTCTGAGATCGGAAGAGCACACGTCTGAACTCCAG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TGGGATGTAAAGAAGTATGTATAGATCGGAAGAGCACACGTCTGAACTCC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GTGAAATGATGGCAATCATCTTTCGGGACTGACCTGAAATGAAGAGAAAA	5	0.125	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGTAGATCGGAAGAGCACACGTC	5	0.125	No Hit
GCATTTGTGGTTCAGTGGTAGAATTCTCGCCTGCAGATCGGAAGAGCACA	5	0.125	No Hit
GCATGGGTGGTTCAGTGGTAGAATTCTCGCCGAGATCGGAAGAGCACACG	5	0.125	No Hit
GCCCGGCTAGCTCAGTCGGTAGAGCATGAGACAGATCGGAAGAGCACACG	5	0.125	No Hit
TTTCTGTGATGAATCAACTAGCTCACTATGACTGCTAATGAAAACACTGG	5	0.125	No Hit
TGCACTGATGAAACTAGAAATAGGAAGTGCCGTCCGAAACGACAACTGAC	5	0.125	No Hit
GCATTGTGGTTCAGTGGTAGAATTCTCGCCTGCAGATCGGAAGAGCACAC	5	0.125	No Hit
TCGTACCGTGAGTAATAATGCAGATCGGAAGAGCACACGTCTGAACTCCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GGCCGTGATCGTATAGTGGTTAGTACTCTGCGTTAGATCGGAAGAGCACA	5	0.125	No Hit
TGGAATGTAAAGAAGTATGGAGATCGGAAGAGCACACGTCTGAACTCCAG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
>>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	0.075	0.0	0.0	0.0	0.0
2	0.075	0.0	0.0	0.0	0.0
3	0.075	0.0	0.0	0.0	0.0
4	0.075	0.0	0.0	0.0	0.0
5	0.075	0.0	0.0	0.0	0.0
6	0.075	0.0	0.0	0.0	0.0
7	0.125	0.0	0.0	0.0	0.0
8	0.175	0.0	0.0	0.0	0.0
9	0.35	0.0	0.0	0.0	0.0
10	0.55	0.0	0.0	0.0	0.0
11	0.725	0.0	0.0	0.0	0.0
12	1.15	0.0	0.0	0.0	0.0
13	1.825	0.0	0.0	0.0	0.0
14	2.75	0.0	0.0	0.0	0.0
15	3.575	0.0	0.0	0.0	0.0
16	4.425	0.0	0.0	0.0	0.0
17	5.35	0.0	0.0	0.0	0.0
18	6.275	0.0	0.0	0.0	0.0
19	7.1	0.0	0.0	0.0	0.0
20	8.15	0.0	0.0	0.0	0.0
21	14.125	0.0	0.0	0.0	0.0
22	19.15	0.0	0.0	0.0	0.0
23	39.175	0.0	0.0	0.0	0.0
24	49.725	0.0	0.0	0.0	0.0
25	53.675	0.0	0.0	0.0	0.0
26	54.275	0.0	0.0	0.0	0.0
27	54.9	0.0	0.0	0.0	0.0
28	55.5	0.0	0.0	0.0	0.0
29	56.2	0.0	0.0	0.0	0.0
30	57.0	0.0	0.0	0.0	0.0
31	59.625	0.0	0.0	0.0	0.0
32	67.85	0.0	0.0	0.0	0.0
33	76.6	0.0	0.0	0.0	0.0
34	79.475	0.0	0.0	0.0	0.0
35	85.675	0.0	0.0	0.0	0.0
36	86.95	0.0	0.0	0.0	0.0
37	87.45	0.0	0.0	0.0	0.0
38	87.725	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
GTAGAGC	20	6.952051E-4	44.000004	19
TGTTGAC	20	6.952051E-4	44.000004	17
GTTGACA	20	6.952051E-4	44.000004	18
CAGTCGG	20	6.952051E-4	44.000004	13
AGCTCAG	20	6.952051E-4	44.000004	9
GCTAGCT	20	6.952051E-4	44.000004	6
CGCCTGC	20	6.952051E-4	44.000004	28
CCTGCAG	20	6.952051E-4	44.000004	30
CCCGGCT	20	6.952051E-4	44.000004	2
TCGGTAG	20	6.952051E-4	44.000004	16
GAGCATG	20	6.952051E-4	44.000004	22
TCAGTCG	20	6.952051E-4	44.000004	12
AGAGCAT	20	6.952051E-4	44.000004	21
AGTCGGT	20	6.952051E-4	44.000004	14
CTCAGTC	20	6.952051E-4	44.000004	11
ATAGATC	45	2.728484E-10	44.000004	21
TTGACAG	20	6.952051E-4	44.000004	19
GGTAGAG	20	6.952051E-4	44.000004	18
GGCTAGC	20	6.952051E-4	44.000004	5
TAGAGCA	20	6.952051E-4	44.000004	20
>>END_MODULE
Rejected 1002352 READS because READLEN < 1
Read 1002352 spots for SRR17096857.sra
Written 1002352 spots for SRR17096857.sra
Rejected 1002359 READS because READLEN < 1
Read 1002359 spots for SRR17096857.sra
Written 1002359 spots for SRR17096857.sra
Rejected 1002352 READS because READLEN < 1
Read 1002352 spots for SRR17096857.sra
Written 1002352 spots for SRR17096857.sra
Rejected 1002352 READS because READLEN < 1
Read 1002352 spots for SRR17096857.sra
Written 1002352 spots for SRR17096857.sra
Rejected 1002352 READS because READLEN < 1
Read 1002352 spots for SRR17096857.sra
Written 1002352 spots for SRR17096857.sra
Rejected 1002352 READS because READLEN < 1
Read 1002352 spots for SRR17096857.sra
Written 1002352 spots for SRR17096857.sra
Rejected 1002352 READS because READLEN < 1
Read 1002352 spots for SRR17096857.sra
Written 1002352 spots for SRR17096857.sra
Rejected 1002352 READS because READLEN < 1
Read 1002352 spots for SRR17096857.sra
Written 1002352 spots for SRR17096857.sra
SRR ids: ['SRR17096857.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_fjypfcpp
SRR17096857.sra spots: 8018823
blocks: [[1, 1002352], [1002353, 2004704], [2004705, 3007056], [3007057, 4009408], [4009409, 5011760], [5011761, 6014112], [6014113, 7016464], [7016465, 8018823]]
SRR17096857 file size 1117648
SRR17096857 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 SRR17096857 SRR17096857_1.fastq
Input file:	SRR17096857_1.fastq
trimmed:	SRR17096857-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
Wed Nov 26 13:47:08 2025 >> started

Wed Nov 26 13:47:11 2025 >> done (2.867s)
8018823 reads processed; of these:
 534724 ( 6.67%) short reads filtered out after trimming by size control
   4378 ( 0.05%) empty reads filtered out after trimming by size control
7479721 (93.28%) reads available; of these:
  75002 ( 1.00%) trimmed reads available after processing
7404719 (99.00%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  74828	  1.00%
 19	      0	  0.00%
 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	      6	  0.00%
 49	    168	  0.00%
 50	7404719	 99.00%
7479721 reads passed initial QC


criterion=sequence-density
sequence-density=86.97
sequence-density-rank=1
fanout-score=22.16
fanout-score-rank=1
prefix-density=88.68
prefix-fanout=21.7
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCG


criterion=fanout-score
sequence-density=86.97
sequence-density-rank=1
fanout-score=22.16
fanout-score-rank=1
prefix-density=88.68
prefix-fanout=21.7
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCG
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 AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCG -o SRR17096857 -
Input file:	STDIN
trimmed:	SRR17096857-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCG
-- 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
Wed Nov 26 13:47:18 2025 >> started

Wed Nov 26 13:47:23 2025 >> done (4.831s)
7307774 reads processed; of these:
   3496 ( 0.05%) short reads filtered out after trimming by size control
      7 ( 0.00%) empty reads filtered out after trimming by size control
7304271 (99.95%) reads available; of these:
6960309 (95.29%) trimmed reads available after processing
 343962 ( 4.71%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  72106	  0.99%
 19	  75935	  1.04%
 20	 491267	  6.73%
 21	 378794	  5.19%
 22	1705818	 23.35%
 23	 841989	 11.53%
 24	 338673	  4.64%
 25	  52232	  0.72%
 26	  48191	  0.66%
 27	  49051	  0.67%
 28	  57860	  0.79%
 29	  65587	  0.90%
 30	 210282	  2.88%
 31	 598324	  8.19%
 32	 650412	  8.90%
 33	 273194	  3.74%
 34	 469951	  6.43%
 35	  97622	  1.34%
 36	  42013	  0.58%
 37	  31026	  0.42%
 38	  32719	  0.45%
 39	  32862	  0.45%
 40	  26020	  0.36%
 41	  25306	  0.35%
 42	  25030	  0.34%
 43	  41106	  0.56%
 44	  88399	  1.21%
 45	 161805	  2.22%
 46	  23835	  0.33%
 47	  22939	  0.31%
 48	      0	  0.00%
 49	      3	  0.00%
 50	 273920	  3.75%


criterion=sequence-density
sequence-density=19.12
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=13
prefix-density=0.00
prefix-fanout=1.0
sequence=TGGAATGTAAAGAAGTATGTATT


criterion=fanout-score
sequence-density=0.16
sequence-density-rank=32
fanout-score=83.74
fanout-score-rank=1
prefix-density=13.31
prefix-fanout=1.0
sequence=GACTGATGTTGGCT
                                 Started job on |	Nov 26 13:47:33
                             Started mapping on |	Nov 26 13:47:33
                                    Finished on |	Nov 26 13:48:06
       Mapping speed, Million of reads per hour |	815.59

                          Number of input reads |	7476218
                      Average input read length |	28
                                    UNIQUE READS:
                   Uniquely mapped reads number |	3919432
                        Uniquely mapped reads % |	52.43%
                          Average mapped length |	24.33
                       Number of splices: Total |	26273
            Number of splices: Annotated (sjdb) |	22507
                       Number of splices: GT/AG |	25625
                       Number of splices: GC/AG |	180
                       Number of splices: AT/AC |	44
               Number of splices: Non-canonical |	424
                      Mismatch rate per base, % |	0.24%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.32
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.15
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	1783075
             % of reads mapped to multiple loci |	23.85%
        Number of reads mapped to too many loci |	1505319
             % of reads mapped to too many loci |	20.13%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	3.48%
                     % of reads unmapped: other |	0.11%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	1773711	1773711	1773711
N_multimapping	1783075	1783075	1783075
N_noFeature	355609	752746	3511876
N_ambiguous	39191	28760	18
UnstrandedReadsAssigned:3524632 PositiveStrandReadsAssigned:3137926 NegativeStrandReadsAssigned:407538
Dataset is classified positive stranded
MeadianReadLen=24 20thPercentileLength=22 echo kmer=19
SRR17096857 Starting Kallisto single end mapping to ensembl reference transcriptome. kmer=19

[quant] fragment length distribution is truncated gaussian with mean = 100, sd = 20
[index] k-mer length: 19
[index] number of targets: 31,715
[index] number of k-mers: 49,362,984
[index] number of equivalence classes: 166,181
[quant] running in single-end mode
[quant] will process file 1: SRR17096857-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 7,476,218 reads, 336,439 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 838 rounds

  31716 SRR17096857.ke.tsv
  32883 SRR17096857.se.tsv
  64599 total
==> SRR17096857.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
ENSRNOT00000047550.4	955	856	2877	13487.5
ENSRNOT00000040993.4	1039	940	2844	12141.3
ENSRNOT00000050156.3	1545	1446	22615	62761.4
ENSRNOT00000043693.3	684	585	9266	63562.5
ENSRNOT00000046201.3	204	105	446	17045.5
ENSRNOT00000046108.3	681	582	2977	20526.8
ENSRNOT00000049683.3	784	685	3977	23298.6
ENSRNOT00000041241.3	348	249	302	4867.12
ENSRNOT00000044582.3	297	198	318	6445.05

==> SRR17096857.se.tsv <==
ENSRNOG00000046319	0
ENSRNOG00000047964	0
ENSRNOG00000050370	0
ENSRNOG00000032365	0
ENSRNOG00000040300	0
ENSRNOG00000058808	2
ENSRNOG00000061316	8
ENSRNOG00000050129	0
ENSRNOG00000040316	0
ENSRNOG00000023659	1
SRR17096857 completed mapping pipeline successfully
