Starting /dee2/code/volunteer_pipeline.sh SRR17096854
    current disk space = 416876808
    free memory = 198945592 
SRR17096854 SRAfilesize
87079e883fe04408eef17071fe70448a  SRR17096854.sra
SRR17096854.sra file validated
SRR17096854 is single end
SRR17096854 is conventional basespace
SRR17096854 read1 length is 50 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR17096854_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	46
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	31.06625	32.0	32.0	32.0	32.0	32.0
2	31.35325	32.0	32.0	32.0	32.0	32.0
3	31.35375	32.0	32.0	32.0	32.0	32.0
4	31.429	32.0	32.0	32.0	32.0	32.0
5	31.4815	32.0	32.0	32.0	32.0	32.0
6	34.562	36.0	36.0	36.0	32.0	36.0
7	34.38075	36.0	36.0	36.0	32.0	36.0
8	34.5575	36.0	36.0	36.0	32.0	36.0
9	34.59375	36.0	36.0	36.0	32.0	36.0
10	34.99975	36.0	36.0	36.0	36.0	36.0
11	35.02675	36.0	36.0	36.0	36.0	36.0
12	34.9225	36.0	36.0	36.0	36.0	36.0
13	35.08325	36.0	36.0	36.0	36.0	36.0
14	34.97225	36.0	36.0	36.0	36.0	36.0
15	35.04575	36.0	36.0	36.0	36.0	36.0
16	35.0825	36.0	36.0	36.0	36.0	36.0
17	35.08075	36.0	36.0	36.0	36.0	36.0
18	34.949	36.0	36.0	36.0	36.0	36.0
19	34.97875	36.0	36.0	36.0	36.0	36.0
20	35.03125	36.0	36.0	36.0	36.0	36.0
21	35.016	36.0	36.0	36.0	36.0	36.0
22	34.75125	36.0	36.0	36.0	32.0	36.0
23	34.5595	36.0	36.0	36.0	32.0	36.0
24	34.72025	36.0	36.0	36.0	36.0	36.0
25	34.6725	36.0	36.0	36.0	32.0	36.0
26	34.66375	36.0	36.0	36.0	32.0	36.0
27	34.708	36.0	36.0	36.0	32.0	36.0
28	34.78225	36.0	36.0	36.0	32.0	36.0
29	34.74225	36.0	36.0	36.0	36.0	36.0
30	34.87675	36.0	36.0	36.0	36.0	36.0
31	34.35575	36.0	36.0	36.0	32.0	36.0
32	34.798	36.0	36.0	36.0	36.0	36.0
33	34.5145	36.0	36.0	36.0	32.0	36.0
34	34.56525	36.0	36.0	36.0	32.0	36.0
35	34.7445	36.0	36.0	36.0	32.0	36.0
36	34.54225	36.0	36.0	36.0	32.0	36.0
37	34.501	36.0	36.0	36.0	32.0	36.0
38	34.5695	36.0	36.0	36.0	32.0	36.0
39	34.35025	36.0	36.0	36.0	32.0	36.0
40	34.24675	36.0	36.0	36.0	32.0	36.0
41	34.20525	36.0	36.0	36.0	32.0	36.0
42	34.1945	36.0	36.0	36.0	32.0	36.0
43	34.3475	36.0	36.0	36.0	32.0	36.0
44	34.12025	36.0	36.0	36.0	32.0	36.0
45	34.4075	36.0	36.0	36.0	32.0	36.0
46	33.65225	36.0	36.0	36.0	32.0	36.0
47	33.97675	36.0	36.0	36.0	32.0	36.0
48	33.9045	36.0	36.0	36.0	32.0	36.0
49	34.03925	36.0	36.0	36.0	32.0	36.0
50	33.93425	36.0	36.0	36.0	32.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
19	2.0
20	0.0
21	1.0
22	2.0
23	6.0
24	14.0
25	16.0
26	26.0
27	35.0
28	52.0
29	79.0
30	107.0
31	148.0
32	186.0
33	308.0
34	730.0
35	2288.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	9.25	16.1	64.5	10.15
2	59.824999999999996	10.525	13.4	16.25
3	56.775	17.599999999999998	13.275	12.35
4	16.175	62.64999999999999	13.0	8.175
5	11.525	63.575	14.774999999999999	10.125
6	16.89681144865679	13.984433843836305	62.46547828270148	6.653276424805423
7	68.85	8.85	8.9	13.4
8	9.9	14.649999999999999	65.7	9.75
9	17.599999999999998	60.45	15.725	6.225
10	18.725	62.175000000000004	10.05	9.049999999999999
11	13.725000000000001	56.35	17.875	12.049999999999999
12	55.75	12.950000000000001	17.375	13.925
13	8.075000000000001	61.775000000000006	12.5	17.65
14	11.525	68.5	13.525	6.45
15	66.5	13.950000000000001	11.05	8.5
16	6.7	15.15	69.27499999999999	8.875
17	31.175000000000004	49.575	11.75	7.5
18	16.8	17.675	58.099999999999994	7.425
19	59.925	16.900000000000002	16.3	6.875000000000001
20	17.849999999999998	20.225	55.65	6.275
21	21.125	61.224999999999994	9.85	7.8
22	27.700000000000003	23.625	39.15	9.525
23	13.625000000000002	66.55	8.1	11.725
24	41.199999999999996	26.8	27.3	4.7
25	17.05	43.525000000000006	17.45	21.975
26	22.875	15.45	37.775	23.9
27	28.9	9.725	17.775	43.6
28	46.85	23.575	6.425	23.150000000000002
29	53.300000000000004	31.35	7.5249999999999995	7.825
30	32.175	48.6	4.125	15.1
31	18.925	66.95	4.0	10.125
32	56.125	31.4	5.675	6.800000000000001
33	24.8	46.025	3.55	25.624999999999996
34	41.9	38.025	5.65	14.424999999999999
35	13.55	18.825	8.200000000000001	59.425
36	8.1	62.35000000000001	5.4	24.15
37	11.625	27.0	3.85	57.525000000000006
38	30.85	43.85	4.3	21.0
39	18.475	19.400000000000002	20.474999999999998	41.65
40	44.525	13.750000000000002	12.525	29.2
41	16.975	9.35	58.199999999999996	15.475
42	23.974999999999998	13.100000000000001	22.900000000000002	40.025
43	18.2	24.125	43.0	14.674999999999999
44	43.925	31.8	12.375	11.899999999999999
45	13.25	53.474999999999994	8.7	24.575
46	7.8	54.55	19.400000000000002	18.25
47	8.35	21.725	11.55	58.375
48	5.4	14.725	38.800000000000004	41.075
49	8.924999999999999	23.325000000000003	16.400000000000002	51.349999999999994
50	22.3	14.75	10.575	52.37500000000001
>>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	0.5
8	1.0
9	1.0
10	1.0
11	0.5
12	0.0
13	0.5
14	1.0
15	0.5
16	0.0
17	1.5
18	3.0
19	1.5
20	0.0
21	0.0
22	0.0
23	0.0
24	0.0
25	1.5
26	3.0
27	2.5
28	2.0
29	4.5
30	7.0
31	8.0
32	9.0
33	14.5
34	20.0
35	27.0
36	34.0
37	44.0
38	54.0
39	113.5
40	173.0
41	484.5
42	796.0
43	890.5
44	985.0
45	681.5
46	378.0
47	360.0
48	342.0
49	401.0
50	460.0
51	464.0
52	468.0
53	310.5
54	153.0
55	112.5
56	72.0
57	45.0
58	18.0
59	13.5
60	9.0
61	7.0
62	5.0
63	4.0
64	3.0
65	2.0
66	1.0
67	0.5
68	0.0
69	0.5
70	1.0
71	1.0
72	1.0
73	0.5
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	0.42500000000000004
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	37.925
#Duplication Level	Percentage of deduplicated	Percentage of total
1	87.40936058009228	33.15
2	5.207646671061305	3.95
3	1.3183915622940012	1.5
4	1.186552406064601	1.7999999999999998
5	0.8569545154911009	1.625
6	0.1977587343441002	0.44999999999999996
7	0.3955174686882004	1.05
8	0.26367831245880025	0.8
9	0.1977587343441002	0.675
>10	2.4390243902439024	16.675
>50	0.26367831245880025	7.074999999999999
>100	0.1977587343441002	17.525
>500	0.06591957811470006	13.725000000000001
>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	549	13.725000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TGGAATGTAAAGAAGTATGTAGATCGGAAGAGCACACGTCTGAACTCCAG	376	9.4	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TGGAATGTAAAGAAGTGTGTATAGATCGGAAGAGCACACGTCTGAACTCC	218	5.45	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCAGATCGGAAGAGCACACGT	107	2.675	No Hit
CTCGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTAGATC	95	2.375	No Hit
TGGAATGTAAAGAAGTATGTATTAGATCGGAAGAGCACACGTCTGAACTC	75	1.875	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TGGAATGTAAAGAAGTATGTACAGATCGGAAGAGCACACGTCTGAACTCC	62	1.55	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TGGAATGTAAAGAAGTGTGTAAGATCGGAAGAGCACACGTCTGAACTCCA	51	1.275	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TGGAATGTAAAGAAGTATGTAAGATCGGAAGAGCACACGTCTGAACTCCA	46	1.15	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
ACTGGACTTGGAGTCAGAAGGAGATCGGAAGAGCACACGTCTGAACTCCA	44	1.0999999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TGGAATGTAAAGAAGTATGGAGATCGGAAGAGCACACGTCTGAACTCCAG	34	0.8500000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TCGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTAGATCG	29	0.7250000000000001	No Hit
TGGAATGTAAAGAAGTGTGTACAGATCGGAAGAGCACACGTCTGAACTCC	27	0.675	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TGTAAACATCCTCGACTGGAAGCAGATCGGAAGAGCACACGTCTGAACTC	24	0.6	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TGGAATGTAAAGAAGTATGCAGATCGGAAGAGCACACGTCTGAACTCCAG	23	0.575	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTAGATCGGAAGAGCACACG	23	0.575	No Hit
TGGAATGTAAAGAAGTATGTAGAGATCGGAAGAGCACACGTCTGAACTCC	22	0.5499999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TGGAATGTAAGGAAGTGTGTGGAGATCGGAAGAGCACACGTCTGAACTCC	20	0.5	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TGGAATGTAAAGAAGTGTGTAGATCGGAAGAGCACACGTCTGAACTCCAG	19	0.475	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
CTCGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGGAGATC	18	0.44999999999999996	No Hit
TGAGGTAGTAGATTGTATAGTTAGATCGGAAGAGCACACGTCTGAACTCC	18	0.44999999999999996	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCTAGATCGGAAGAGCACACGT	18	0.44999999999999996	No Hit
TGGAATGTAAAGAAGTATGTAAAGATCGGAAGAGCACACGTCTGAACTCC	17	0.42500000000000004	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TGTAAACATCCTCGACTGGAAGCTAGATCGGAAGAGCACACGTCTGAACT	17	0.42500000000000004	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TTCAAGTAATCCAGGATAGGAGATCGGAAGAGCACACGTCTGAACTCCAG	17	0.42500000000000004	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TGGAATGTAAAGAAGTGTGTAGAGATCGGAAGAGCACACGTCTGAACTCC	16	0.4	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TGTAAACATCCTCGACTGGAAGAGATCGGAAGAGCACACGTCTGAACTCC	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TTCAAGTAATCCAGGATAGGCTAGATCGGAAGAGCACACGTCTGAACTCC	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TGGAATGTAAAGAAGTGTGTATTAGATCGGAAGAGCACACGTCTGAACTC	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
ACTGGACTTGGAGTCAGAAGGCAGATCGGAAGAGCACACGTCTGAACTCC	14	0.35000000000000003	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCAGATCGGAAGAGCACACGTC	14	0.35000000000000003	No Hit
ACTGGACTTGGAGTCAGAAGAGATCGGAAGAGCACACGTCTGAACTCCAG	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TTCACAGTGGCTAAGTTCTGCAGATCGGAAGAGCACACGTCTGAACTCCA	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TGGAATGTAAAGAAGTATGTATAAGATCGGAAGAGCACACGTCTGAACTC	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TGAGATGAAGCACTGTAGCTAGATCGGAAGAGCACACGTCTGAACTCCAG	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
AACCCGTAGATCCGATCTTGTAGATCGGAAGAGCACACGTCTGAACTCCA	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TGAGGTAGTAGTTTGTACAGTTAGATCGGAAGAGCACACGTCTGAACTCC	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TCAGTGCACTACAGAACTTTGTAGATCGGAAGAGCACACGTCTGAACTCC	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
AGGAATGTAAAGAAGTATGTATAGATCGGAAGAGCACACGTCTGAACTCC	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TTGGTCCCCTTCAACCAGCTGTAGATCGGAAGAGCACACGTCTGAACTCC	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TGAGATGAAGCACTGTAGCTCTAGATCGGAAGAGCACACGTCTGAACTCC	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TGGAATGTAAAGAAGTATGTACTAGATCGGAAGAGCACACGTCTGAACTC	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TGAAATGATGGCAATCATCTTTCGGGACTGACCTGAAATGAAGAGAAAAC	10	0.25	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCGAGATCGGAAGAGCACACG	10	0.25	No Hit
ACTGGACTTGGAGTCAGAAGGAAGATCGGAAGAGCACACGTCTGAACTCC	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
CTCGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGCAGATC	9	0.22499999999999998	No Hit
TGGAATGTAAAGAAGTATGTACCAGATCGGAAGAGCACACGTCTGAACTC	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TGTAAACATCCCCGACTGGAAGCAGATCGGAAGAGCACACGTCTGAACTC	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TGGAATGTAAAGAAGTGTGTAAAGATCGGAAGAGCACACGTCTGAACTCC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TGAGGTAGTAGATTGTATAGTAGATCGGAAGAGCACACGTCTGAACTCCA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TCGTACCGTGAGTAATAATGCAGATCGGAAGAGCACACGTCTGAACTCCA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
ACTGGACTTGGAGTCAGAAGGTAGATCGGAAGAGCACACGTCTGAACTCC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
CTGGACGCGAGCCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACATT	7	0.17500000000000002	TruSeq Adapter, Index 8 (97% over 36bp)
CGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTAGATCGG	7	0.17500000000000002	No Hit
AGGAATGTAAAGAAGTATGTAGATCGGAAGAGCACACGTCTGAACTCCAG	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GCATGGGTGGTTCAGTGGTAGAATTCTCGCCAGATCGGAAGAGCACACGT	7	0.17500000000000002	No Hit
TGTAAACATCCCCGACTGGAAGAGATCGGAAGAGCACACGTCTGAACTCC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
CGGAATGTAAAGAAGTATGTATAGATCGGAAGAGCACACGTCTGAACTCC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
AAACCGTTACCATTACTGAGTAGATCGGAAGAGCACACGTCTGAACTCCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TGGAATGTAAAGAGGTATGTATAGATCGGAAGAGCACACGTCTGAACTCC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TGAGGTAGTAGTTTGTGCTGTTAGATCGGAAGAGCACACGTCTGAACTCC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
CGGAATGTAAAGAAGTATGTAGATCGGAAGAGCACACGTCTGAACTCCAG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TTTCTGTGATGAATCAACTAGCTCACTATGACTGCTAATGAAAACACTGG	5	0.125	No Hit
TTCAAGTAATCCAGGATAGGCAGATCGGAAGAGCACACGTCTGAACTCCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TCGTACCGTGAGTAATAATGAGATCGGAAGAGCACACGTCTGAACTCCAG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TGGAATGTAAAGAAGTGTGTATAAGATCGGAAGAGCACACGTCTGAACTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
AGATCGGAAGAGCACACGTCTGAACTCCAGTCACATTCCTATCTCGTATG	5	0.125	TruSeq Adapter, Index 27 (97% over 49bp)
AAGAAAGTATGCAAGAACTAGATCGGAAGAGCACACGTCTGAACTCCAGT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
TGAGATGAAGCACTGTAGCGAGATCGGAAGAGCACACGTCTGAACTCCAG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGCCAGATCGGAAGAGCAC	5	0.125	No Hit
AACCCGTAGATCCGATCTTGTGAAGATCGGAAGAGCACACGTCTGAACTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TGGAATGTAAAGAAGTATGTATTTAGATCGGAAGAGCACACGTCTGAACT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCGAGATCGGAAGAGCACACGT	5	0.125	No Hit
TCAGTGCACTACAGAACTTTGGAGATCGGAAGAGCACACGTCTGAACTCC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
>>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	0.15	0.0	0.0	0.0	0.0
2	0.15	0.0	0.0	0.0	0.0
3	0.15	0.0	0.0	0.0	0.0
4	0.15	0.0	0.0	0.0	0.0
5	0.15	0.0	0.0	0.0	0.0
6	0.15	0.0	0.0	0.0	0.0
7	0.15	0.0	0.0	0.0	0.0
8	0.15	0.0	0.0	0.0	0.0
9	0.175	0.0	0.0	0.0	0.0
10	0.25	0.0	0.0	0.0	0.0
11	0.375	0.0	0.0	0.0	0.0
12	0.5	0.0	0.0	0.0	0.0
13	0.8	0.0	0.0	0.0	0.0
14	1.625	0.0	0.0	0.0	0.0
15	2.225	0.0	0.0	0.0	0.0
16	2.925	0.0	0.0	0.0	0.0
17	3.525	0.0	0.0	0.0	0.0
18	4.2	0.0	0.0	0.0	0.0
19	4.9	0.0	0.0	0.0	0.0
20	5.575	0.0	0.0	0.0	0.0
21	21.6	0.0	0.0	0.0	0.0
22	29.325	0.0	0.0	0.0	0.0
23	63.275	0.0	0.0	0.0	0.0
24	70.825	0.0	0.0	0.0	0.0
25	72.875	0.0	0.0	0.0	0.0
26	73.5	0.0	0.0	0.0	0.0
27	74.1	0.0	0.0	0.0	0.0
28	74.625	0.0	0.0	0.0	0.0
29	75.375	0.0	0.0	0.0	0.0
30	75.8	0.0	0.0	0.0	0.0
31	76.975	0.0	0.0	0.0	0.0
32	81.575	0.0	0.0	0.0	0.0
33	83.225	0.0	0.0	0.0	0.0
34	83.775	0.0	0.0	0.0	0.0
35	84.475	0.0	0.0	0.0	0.0
36	85.15	0.0	0.0	0.0	0.0
37	85.525	0.0	0.0	0.0	0.0
38	86.0	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
CGCTGCG	20	6.578812E-4	44.481014	3
GAGGTAG	20	6.578812E-4	44.481014	2
ATTGGTG	20	6.578812E-4	44.481014	3
TGCGATC	20	6.578812E-4	44.481014	6
GAATGTA	185	0.0	44.481014	3
CTGCGAT	20	6.578812E-4	44.481014	5
GCTGCGA	20	6.578812E-4	44.481014	4
TCGCTGC	20	6.578812E-4	44.481014	2
GGTAGTA	20	6.578812E-4	44.481014	4
TGAGGTA	20	6.578812E-4	44.481014	1
GGTGGTT	25	3.457498E-5	44.481014	6
TTGGTGG	20	6.578812E-4	44.481014	4
AGGTAGT	20	6.578812E-4	44.481014	3
TGGTGGT	20	6.578812E-4	44.481014	5
GCATTGG	20	6.578812E-4	44.481014	1
GGAATGT	185	0.0	44.481014	2
CTCGCTG	20	6.578812E-4	44.481014	1
GTAGTAG	20	6.578812E-4	44.481014	5
TGGAATG	175	0.0	44.48101	1
AATGTAA	180	0.0	44.48101	4
>>END_MODULE
Rejected 1223026 READS because READLEN < 1
Read 1223026 spots for SRR17096854.sra
Written 1223026 spots for SRR17096854.sra
Rejected 1223026 READS because READLEN < 1
Read 1223026 spots for SRR17096854.sra
Written 1223026 spots for SRR17096854.sra
Rejected 1223026 READS because READLEN < 1
Read 1223026 spots for SRR17096854.sra
Written 1223026 spots for SRR17096854.sra
Rejected 1223026 READS because READLEN < 1
Read 1223026 spots for SRR17096854.sra
Written 1223026 spots for SRR17096854.sra
Rejected 1223026 READS because READLEN < 1
Read 1223026 spots for SRR17096854.sra
Written 1223026 spots for SRR17096854.sra
Rejected 1223026 READS because READLEN < 1
Read 1223026 spots for SRR17096854.sra
Written 1223026 spots for SRR17096854.sra
Rejected 1223028 READS because READLEN < 1
Read 1223028 spots for SRR17096854.sra
Written 1223028 spots for SRR17096854.sra
Rejected 1223026 READS because READLEN < 1
Read 1223026 spots for SRR17096854.sra
Written 1223026 spots for SRR17096854.sra
SRR ids: ['SRR17096854.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_x5rjjf5x
SRR17096854.sra spots: 9784210
blocks: [[1, 1223026], [1223027, 2446052], [2446053, 3669078], [3669079, 4892104], [4892105, 6115130], [6115131, 7338156], [7338157, 8561182], [8561183, 9784210]]
SRR17096854 file size 1364184
SRR17096854 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 SRR17096854 SRR17096854_1.fastq
Input file:	SRR17096854_1.fastq
trimmed:	SRR17096854-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 13:45:40 2025 >> started

Wed Nov 26 13:45:43 2025 >> done (2.662s)
9784210 reads processed; of these:
 385813 ( 3.94%) short reads filtered out after trimming by size control
   6149 ( 0.06%) empty reads filtered out after trimming by size control
9392248 (95.99%) reads available; of these:
  98438 ( 1.05%) trimmed reads available after processing
9293810 (98.95%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  98235	  1.05%
 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	     10	  0.00%
 49	    193	  0.00%
 50	9293810	 98.95%
9392248 reads passed initial QC


criterion=sequence-density
sequence-density=84.54
sequence-density-rank=1
fanout-score=9.63
fanout-score-rank=4
prefix-density=86.37
prefix-fanout=9.4
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCA


criterion=fanout-score
sequence-density=1.32
sequence-density-rank=6
fanout-score=16.70
fanout-score-rank=1
prefix-density=1.36
prefix-fanout=16.2
sequence=ACCAGATCGGAA
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 AGATCGGAAGAGCACACGTCTGAACTCCAGTCA -o SRR17096854 -
Input file:	STDIN
trimmed:	SRR17096854-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	AGATCGGAAGAGCACACGTCTGAACTCCAGTCA
-- 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 13:45:50 2025 >> started

Wed Nov 26 13:45:55 2025 >> done (4.397s)
9171254 reads processed; of these:
   6947 ( 0.08%) short reads filtered out after trimming by size control
      2 ( 0.00%) empty reads filtered out after trimming by size control
9164305 (99.92%) reads available; of these:
8717885 (95.13%) trimmed reads available after processing
 446420 ( 4.87%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  91819	  1.00%
 19	 104675	  1.14%
 20	1476111	 16.11%
 21	 783313	  8.55%
 22	3359046	 36.65%
 23	 735062	  8.02%
 24	 198625	  2.17%
 25	  62993	  0.69%
 26	  52736	  0.58%
 27	  53491	  0.58%
 28	  60300	  0.66%
 29	  56135	  0.61%
 30	 125752	  1.37%
 31	 414150	  4.52%
 32	 163610	  1.79%
 33	  57493	  0.63%
 34	  61179	  0.67%
 35	  60740	  0.66%
 36	  44097	  0.48%
 37	  39458	  0.43%
 38	  45765	  0.50%
 39	  51872	  0.57%
 40	  38545	  0.42%
 41	  37545	  0.41%
 42	  35787	  0.39%
 43	  52633	  0.57%
 44	 136008	  1.48%
 45	 333027	  3.63%
 46	  40847	  0.45%
 47	  34148	  0.37%
 48	      1	  0.00%
 49	      3	  0.00%
 50	 357339	  3.90%


criterion=sequence-density
sequence-density=45.90
sequence-density-rank=1
fanout-score=1.00
fanout-score-rank=8
prefix-density=0.01
prefix-fanout=1.0
sequence=TGGAATGTAAAGAAGTATGTATTT


criterion=fanout-score
sequence-density=0.39
sequence-density-rank=13
fanout-score=96.07
fanout-score-rank=1
prefix-density=36.61
prefix-fanout=1.0
sequence=AGAAGTATGTAC
                                 Started job on |	Nov 26 13:46:05
                             Started mapping on |	Nov 26 13:46:05
                                    Finished on |	Nov 26 13:46:57
       Mapping speed, Million of reads per hour |	649.75

                          Number of input reads |	9385299
                      Average input read length |	26
                                    UNIQUE READS:
                   Uniquely mapped reads number |	6662195
                        Uniquely mapped reads % |	70.99%
                          Average mapped length |	23.59
                       Number of splices: Total |	47933
            Number of splices: Annotated (sjdb) |	39000
                       Number of splices: GT/AG |	47001
                       Number of splices: GC/AG |	451
                       Number of splices: AT/AC |	20
               Number of splices: Non-canonical |	461
                      Mismatch rate per base, % |	0.22%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.27
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.13
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	1813225
             % of reads mapped to multiple loci |	19.32%
        Number of reads mapped to too many loci |	601013
             % of reads mapped to too many loci |	6.40%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	3.23%
                     % of reads unmapped: other |	0.06%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	909879	909879	909879
N_multimapping	1813225	1813225	1813225
N_noFeature	373707	1679346	5336842
N_ambiguous	52719	32965	46
UnstrandedReadsAssigned:6235769 PositiveStrandReadsAssigned:4949884 NegativeStrandReadsAssigned:1325307
Dataset is classified unstranded
MeadianReadLen=22 20thPercentileLength=21 echo kmer=19
SRR17096854 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: SRR17096854-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 9,385,299 reads, 710,014 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 960 rounds

  31716 SRR17096854.ke.tsv
  32883 SRR17096854.se.tsv
  64599 total
==> SRR17096854.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
ENSRNOT00000047550.4	955	856	14794	24399.2
ENSRNOT00000040993.4	1039	940	29039	43613.1
ENSRNOT00000050156.3	1545	1446	61956	60489.2
ENSRNOT00000043693.3	684	585	40377	97440.9
ENSRNOT00000046201.3	204	105	6414	86238.8
ENSRNOT00000046108.3	681	582	19460	47204.4
ENSRNOT00000049683.3	784	685	37929	78170.6
ENSRNOT00000041241.3	348	249	2577	14610.9
ENSRNOT00000044582.3	297	198	2126	15158.7

==> SRR17096854.se.tsv <==
ENSRNOG00000046319	0
ENSRNOG00000047964	0
ENSRNOG00000050370	0
ENSRNOG00000032365	0
ENSRNOG00000040300	0
ENSRNOG00000058808	0
ENSRNOG00000061316	1
ENSRNOG00000050129	0
ENSRNOG00000040316	0
ENSRNOG00000023659	0
SRR17096854 completed mapping pipeline successfully
