Starting /dee2/code/volunteer_pipeline.sh SRR17096858
    current disk space = 413950628
    free memory = 196415960 
SRR17096858 SRAfilesize
3c100d8477a85c2538bbd8bb13ede1dc  SRR17096858.sra
SRR17096858.sra file validated
SRR17096858 is single end
SRR17096858 is conventional basespace
SRR17096858 read1 length is 50 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR17096858_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	31.067	32.0	32.0	32.0	32.0	32.0
2	31.4765	32.0	32.0	32.0	32.0	32.0
3	31.381	32.0	32.0	32.0	32.0	32.0
4	31.56275	32.0	32.0	32.0	32.0	32.0
5	31.547	32.0	32.0	32.0	32.0	32.0
6	34.60925	36.0	36.0	36.0	32.0	36.0
7	34.5935	36.0	36.0	36.0	32.0	36.0
8	34.73125	36.0	36.0	36.0	32.0	36.0
9	34.722	36.0	36.0	36.0	32.0	36.0
10	34.79825	36.0	36.0	36.0	32.0	36.0
11	34.88525	36.0	36.0	36.0	36.0	36.0
12	34.904	36.0	36.0	36.0	36.0	36.0
13	34.93725	36.0	36.0	36.0	32.0	36.0
14	34.9645	36.0	36.0	36.0	36.0	36.0
15	34.9785	36.0	36.0	36.0	36.0	36.0
16	34.95575	36.0	36.0	36.0	36.0	36.0
17	35.043	36.0	36.0	36.0	36.0	36.0
18	34.96075	36.0	36.0	36.0	36.0	36.0
19	35.067	36.0	36.0	36.0	36.0	36.0
20	35.0415	36.0	36.0	36.0	36.0	36.0
21	35.148	36.0	36.0	36.0	36.0	36.0
22	34.83225	36.0	36.0	36.0	36.0	36.0
23	34.7225	36.0	36.0	36.0	32.0	36.0
24	34.78175	36.0	36.0	36.0	36.0	36.0
25	34.81325	36.0	36.0	36.0	32.0	36.0
26	34.72225	36.0	36.0	36.0	32.0	36.0
27	34.7125	36.0	36.0	36.0	32.0	36.0
28	34.88775	36.0	36.0	36.0	32.0	36.0
29	34.80025	36.0	36.0	36.0	36.0	36.0
30	34.769	36.0	36.0	36.0	36.0	36.0
31	34.452	36.0	36.0	36.0	32.0	36.0
32	34.67075	36.0	36.0	36.0	32.0	36.0
33	34.5775	36.0	36.0	36.0	32.0	36.0
34	34.5865	36.0	36.0	36.0	32.0	36.0
35	34.7545	36.0	36.0	36.0	32.0	36.0
36	34.5685	36.0	36.0	36.0	32.0	36.0
37	34.5575	36.0	36.0	36.0	32.0	36.0
38	34.58725	36.0	36.0	36.0	32.0	36.0
39	34.31525	36.0	36.0	36.0	32.0	36.0
40	34.306	36.0	36.0	36.0	32.0	36.0
41	34.2715	36.0	36.0	36.0	32.0	36.0
42	34.3335	36.0	36.0	36.0	32.0	36.0
43	34.222	36.0	36.0	36.0	32.0	36.0
44	34.3325	36.0	36.0	36.0	32.0	36.0
45	34.232	36.0	36.0	36.0	32.0	36.0
46	34.27575	36.0	36.0	36.0	32.0	36.0
47	34.2505	36.0	36.0	36.0	32.0	36.0
48	34.07725	36.0	36.0	36.0	32.0	36.0
49	34.20075	36.0	36.0	36.0	32.0	36.0
50	34.18625	36.0	36.0	36.0	32.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
20	1.0
21	2.0
22	4.0
23	7.0
24	9.0
25	21.0
26	17.0
27	38.0
28	51.0
29	61.0
30	91.0
31	128.0
32	210.0
33	326.0
34	690.0
35	2344.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	31.525	16.85	38.975	12.65
2	28.525	19.475	15.475	36.525
3	34.575	36.7	14.299999999999999	14.424999999999999
4	14.249999999999998	30.45	34.825	20.474999999999998
5	16.3	32.05	40.375	11.275
6	38.426853707414836	13.927855711422845	37.3496993987976	10.29559118236473
7	54.574999999999996	17.05	14.025000000000002	14.35
8	16.85	15.45	56.425000000000004	11.275
9	36.725	30.049999999999997	18.65	14.575
10	38.85	34.225	17.625	9.3
11	22.8	26.5	36.199999999999996	14.499999999999998
12	25.95	20.674999999999997	38.0	15.375
13	12.174999999999999	34.050000000000004	15.525	38.25
14	14.2	54.15	21.975	9.675
15	57.8	14.475	17.875	9.85
16	13.950000000000001	23.0	52.525	10.525
17	40.675	29.175	18.625	11.525
18	41.425	19.7	29.5	9.375
19	30.599999999999998	20.65	40.1	8.649999999999999
20	18.85	38.824999999999996	33.6	8.725
21	43.6	31.35	14.924999999999999	10.125
22	20.775	46.175	21.275	11.774999999999999
23	17.4	56.875	11.725	14.000000000000002
24	31.05	22.175	37.375	9.4
25	18.475	29.525000000000002	32.85	19.15
26	18.475	19.400000000000002	24.075	38.05
27	19.875	16.775000000000002	34.425	28.925
28	31.775	19.075	10.85	38.3
29	53.1	22.45	9.825000000000001	14.625
30	26.35	32.300000000000004	8.325000000000001	33.025
31	17.7	44.025	10.549999999999999	27.725
32	33.800000000000004	34.949999999999996	15.65	15.6
33	31.674999999999997	39.65	9.35	19.325
34	33.324999999999996	36.8	12.225	17.65
35	19.325	27.675	18.325	34.675
36	17.8	41.25	12.950000000000001	28.000000000000004
37	27.275	26.174999999999997	10.274999999999999	36.275
38	37.2	32.6	10.075000000000001	20.125
39	25.05	31.474999999999998	14.7	28.775000000000002
40	34.1	30.95	13.725000000000001	21.224999999999998
41	27.700000000000003	25.15	31.324999999999996	15.825
42	25.25	30.3	18.625	25.825
43	28.4	26.375	25.0	20.225
44	33.324999999999996	28.050000000000004	13.675	24.95
45	17.0	46.6	9.9	26.5
46	14.825	42.699999999999996	12.7	29.775000000000002
47	11.325000000000001	33.575	12.45	42.65
48	12.725	24.725	24.05	38.5
49	20.775	21.975	16.25	41.0
50	23.275000000000002	17.5	19.2	40.025
>>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	0.5
18	1.0
19	1.0
20	1.0
21	1.5
22	2.0
23	1.0
24	0.0
25	2.5
26	5.0
27	7.5
28	10.0
29	11.0
30	12.0
31	12.0
32	12.0
33	23.5
34	35.0
35	45.0
36	55.0
37	62.5
38	70.0
39	97.0
40	124.0
41	233.0
42	342.0
43	405.0
44	468.0
45	451.0
46	434.0
47	376.5
48	319.0
49	454.0
50	589.0
51	698.5
52	808.0
53	572.5
54	337.0
55	233.0
56	129.0
57	123.5
58	118.0
59	93.5
60	69.0
61	47.0
62	25.0
63	19.5
64	14.0
65	12.0
66	10.0
67	7.0
68	4.0
69	4.5
70	5.0
71	3.0
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	0.5
92	1.0
93	0.5
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	0.2
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	warn
#Total Deduplicated Percentage	54.0
#Duplication Level	Percentage of deduplicated	Percentage of total
1	90.18518518518519	48.699999999999996
2	4.490740740740741	4.8500000000000005
3	1.25	2.025
4	0.8333333333333334	1.7999999999999998
5	0.3703703703703704	1.0
6	0.4166666666666667	1.35
7	0.1851851851851852	0.7000000000000001
8	0.2777777777777778	1.2
9	0.23148148148148145	1.125
>10	1.3888888888888888	15.375
>50	0.23148148148148145	8.5
>100	0.1388888888888889	13.375
>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
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCAGATCGGAAGAGCACACGT	219	5.475	No Hit
TGGAATGTAAAGAAGTATGTATAGATCGGAAGAGCACACGTCTGAACTCC	181	4.5249999999999995	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTAGATCGGAAGAGCACACG	135	3.375	No Hit
TGGAATGTAAAGAAGTATGTAGATCGGAAGAGCACACGTCTGAACTCCAG	96	2.4	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TAGCTTATCAGACTGATGTTGACAGATCGGAAGAGCACACGTCTGAACTC	81	2.025	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCTAGATCGGAAGAGCACACGT	56	1.4000000000000001	No Hit
TCGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTAGATCG	54	1.35	No Hit
TAGCTTATCAGACTGATGTTGAAGATCGGAAGAGCACACGTCTGAACTCC	53	1.325	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TGGAATGTAAAGAAGTGTGTATAGATCGGAAGAGCACACGTCTGAACTCC	47	1.175	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
CTCGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTAGATC	43	1.075	No Hit
TGGAATGTAAAGAAGTATGTACAGATCGGAAGAGCACACGTCTGAACTCC	36	0.8999999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GCATGGGTGGTTCAGTGGTAGAATTCTCGCCAGATCGGAAGAGCACACGT	35	0.8750000000000001	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGAGATCGGAAGAGCACAC	33	0.8250000000000001	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCAGATCGGAAGAGCACACGTC	33	0.8250000000000001	No Hit
TGAAATGATGGCAATCATCTTTCGGGACTGACCTGAAATGAAGAGAAAAC	28	0.7000000000000001	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCAAGATCGGAAGAGCACACGT	25	0.625	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGCAGATCGGAAGAGCACA	24	0.6	No Hit
CGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTAGATCGG	23	0.575	No Hit
TGCACTGATGAAACTAGAAATAGGAAGTGCCGTCCGAAACGACAACTGAC	20	0.5	No Hit
GCATGGGTGGTTCAGTGGTAGAATTCTCGCCTAGATCGGAAGAGCACACG	20	0.5	No Hit
TGGAATGTAAAGAAGTATGTAAGATCGGAAGAGCACACGTCTGAACTCCA	19	0.475	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TGGAATGTAAAGAAGTGTGTAAGATCGGAAGAGCACACGTCTGAACTCCA	18	0.44999999999999996	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GCATTGTGGTTCAGTGGTAGAATTCTCGCCAGATCGGAAGAGCACACGTC	18	0.44999999999999996	No Hit
ACTGGACTTGGAGTCAGAAGGCAGATCGGAAGAGCACACGTCTGAACTCC	17	0.42500000000000004	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCCAGATCGGAAGAGCACACG	17	0.42500000000000004	No Hit
TGGAATGTAAAGAAGTATGCAGATCGGAAGAGCACACGTCTGAACTCCAG	17	0.42500000000000004	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TAGCTTATCAGACTGATGTTGACTAGATCGGAAGAGCACACGTCTGAACT	17	0.42500000000000004	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GCATTGTGGTTCAGTGGTAGAATTCTCGCCTAGATCGGAAGAGCACACGT	15	0.375	No Hit
GCATGGGTGGTTCAGTGGTAGAATTCTCGCTAGATCGGAAGAGCACACGT	14	0.35000000000000003	No Hit
GCCCGGCTAGCTCAGTCGGTAGAGCATGAGACTCAGATCGGAAGAGCACA	12	0.3	No Hit
TGGAATGTAAAGAAGTGTGTACAGATCGGAAGAGCACACGTCTGAACTCC	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TAGCTTATCAGACTGATGTTGATAGATCGGAAGAGCACACGTCTGAACTC	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TGGAATGTAAAGAAGTATGTAAAGATCGGAAGAGCACACGTCTGAACTCC	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGTAGATCGGAAGAGCACACGTC	10	0.25	No Hit
TTCAAGTAATCCAGGATAGGCTAGATCGGAAGAGCACACGTCTGAACTCC	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCAAGATCGGAAGAGCACACG	10	0.25	No Hit
TGAGGTAGTAGATTGTATAGTTAGATCGGAAGAGCACACGTCTGAACTCC	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TAGCTTATCAGACTGATGTTGACAAGATCGGAAGAGCACACGTCTGAACT	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
CTGGACGCGAGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACG	9	0.22499999999999998	TruSeq Adapter, Index 7 (97% over 35bp)
GCATGGGTGGTTCAGTGGTAGAATTCTCGCAGATCGGAAGAGCACACGTC	9	0.22499999999999998	No Hit
TGGAATGTAAGGAAGTGTGTGGAGATCGGAAGAGCACACGTCTGAACTCC	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTAAGATCGGAAGAGCACAC	9	0.22499999999999998	No Hit
AAGAAAGTATGCAAGAACTAGATCGGAAGAGCACACGTCTGAACTCCAGT	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
TTGCTGTGATGACTATCTTAGGACACCTTTGGATTAACCGTGAAATAAAA	8	0.2	No Hit
TCGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGCAGATCG	8	0.2	No Hit
GTGAAATGATGGCAATCATCTTTCGGGACTGACCTGAAATGAAGAGAAAA	8	0.2	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCAGATCGGAAGAGCACACGTCTG	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGAGATCGGAAGAGCACACGTCT	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
ATACATGATGATCTCACTCCAACTTGAACTCTCTCACTGATTACTTGATG	8	0.2	No Hit
TCAGTGCACTACAGAACTTTGTAGATCGGAAGAGCACACGTCTGAACTCC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TGGAATGTAAAGAAGTATGTAGAGATCGGAAGAGCACACGTCTGAACTCC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TGTAAACATCCCCGACTGGAAGCTAGATCGGAAGAGCACACGTCTGAACT	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGCTAGATCGGAAGAGCACAC	7	0.17500000000000002	No Hit
GTAAATGATGAGATTTCCATTGGTCCGTGTTTCTGAACTCCATGATTTTT	6	0.15	No Hit
TGGAATGTAAAGAAGTGTGTAGATCGGAAGAGCACACGTCTGAACTCCAG	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GCATGGGTGGTTCAGTGGTAGAATTCTCGCCTGAGATCGGAAGAGCACAC	6	0.15	No Hit
GCCCGGCTAGCTCAGTCGGTAGAGCATGAGACTAGATCGGAAGAGCACAC	6	0.15	No Hit
AACCCGTAGATCCGATCTTGTAGATCGGAAGAGCACACGTCTGAACTCCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TTCACAGTGGCTAAGTTCTGCAGATCGGAAGAGCACACGTCTGAACTCCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TAGCTTATCAGACTGATGTTGAGATCGGAAGAGCACACGTCTGAACTCCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCGAGATCGGAAGAGCACACG	6	0.15	No Hit
TGAGGTAGTAGTTTGTGCTGTTAGATCGGAAGAGCACACGTCTGAACTCC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
AACCCGTAGATCCGAACTTGTGAGATCGGAAGAGCACACGTCTGAACTCC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TGGAATGTAAAGAAGTATGTATTAGATCGGAAGAGCACACGTCTGAACTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TGAGGTAGTAGTTTGTACAGTTAGATCGGAAGAGCACACGTCTGAACTCC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TTTCTGTGATGAATCAACTAGCTCACTATGACTGCTAATGAAAACACTGG	5	0.125	No Hit
CGTTCGCGCTCTCCCCTGAGATCGGAAGAGCACACGTCTGAACTCCAGTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
CTGGACGCGAGCCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAC	5	0.125	TruSeq Adapter, Index 7 (97% over 35bp)
GCATTTGTGGTTCAGTGGTAGAATTCTCGCCAGATCGGAAGAGCACACGT	5	0.125	No Hit
CTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTAGATCGGAA	5	0.125	No Hit
>>END_MODULE
>>Adapter Content	fail
#Position	Illumina Universal Adapter	Illumina Small RNA 3' Adapter	Illumina Small RNA 5' Adapter	Nextera Transposase Sequence	SOLID Small RNA Adapter
1	0.05	0.0	0.0	0.0	0.0
2	0.05	0.0	0.0	0.0	0.0
3	0.05	0.0	0.0	0.0	0.0
4	0.05	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	0.075	0.0	0.0	0.0	0.0
8	0.15	0.0	0.0	0.0	0.0
9	0.275	0.0	0.0	0.0	0.0
10	0.475	0.0	0.0	0.0	0.0
11	0.75	0.0	0.0	0.0	0.0
12	1.275	0.0	0.0	0.0	0.0
13	2.325	0.0	0.0	0.0	0.0
14	3.375	0.0	0.0	0.0	0.0
15	4.15	0.0	0.0	0.0	0.0
16	5.3	0.0	0.0	0.0	0.0
17	6.65	0.0	0.0	0.0	0.0
18	7.9	0.0	0.0	0.0	0.0
19	9.275	0.0	0.0	0.0	0.0
20	10.9	0.0	0.0	0.0	0.0
21	16.625	0.0	0.0	0.0	0.0
22	20.35	0.0	0.0	0.0	0.0
23	35.575	0.0	0.0	0.0	0.0
24	40.725	0.0	0.0	0.0	0.0
25	42.775	0.0	0.0	0.0	0.0
26	43.925	0.0	0.0	0.0	0.0
27	45.05	0.0	0.0	0.0	0.0
28	46.25	0.0	0.0	0.0	0.0
29	47.75	0.0	0.0	0.0	0.0
30	49.0	0.0	0.0	0.0	0.0
31	52.375	0.0	0.0	0.0	0.0
32	63.65	0.0	0.0	0.0	0.0
33	70.35	0.0	0.0	0.0	0.0
34	73.175	0.0	0.0	0.0	0.0
35	75.475	0.0	0.0	0.0	0.0
36	76.475	0.0	0.0	0.0	0.0
37	77.3	0.0	0.0	0.0	0.0
38	78.175	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	fail
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
AAGTATG	45	2.728484E-10	44.000004	13
CATTGGT	65	0.0	44.000004	2
AGAAGTA	45	2.728484E-10	44.000004	11
ATTGGTG	65	0.0	44.000004	3
GAAGTAT	45	2.728484E-10	44.000004	12
CGCCAGA	40	5.315087E-9	44.000004	28
ATCAGAC	20	6.952051E-4	44.000004	7
TCGCCAG	40	5.315087E-9	44.000004	27
CAGACTG	20	6.952051E-4	44.000004	9
GGTGGTT	80	0.0	44.000004	6
TTGGTGG	65	0.0	44.000004	4
TGGTGGT	65	0.0	44.000004	5
GCATTGG	65	0.0	44.000004	1
CTCGCCA	40	5.315087E-9	44.000004	26
GTATGTA	35	1.02281774E-7	44.0	15
TATGTAT	25	3.6958358E-5	44.0	16
GAATGTA	50	1.4551915E-11	44.0	3
GTATAGA	25	3.6958358E-5	44.0	19
AGTATGT	35	1.02281774E-7	44.0	14
ATAGATC	25	3.6958358E-5	44.0	21
>>END_MODULE
Rejected 1030375 READS because READLEN < 1
Read 1030375 spots for SRR17096858.sra
Written 1030375 spots for SRR17096858.sra
Rejected 1030373 READS because READLEN < 1
Read 1030373 spots for SRR17096858.sra
Written 1030373 spots for SRR17096858.sra
Rejected 1030373 READS because READLEN < 1
Read 1030373 spots for SRR17096858.sra
Written 1030373 spots for SRR17096858.sra
Rejected 1030373 READS because READLEN < 1
Read 1030373 spots for SRR17096858.sra
Written 1030373 spots for SRR17096858.sra
Rejected 1030373 READS because READLEN < 1
Read 1030373 spots for SRR17096858.sra
Written 1030373 spots for SRR17096858.sra
Rejected 1030373 READS because READLEN < 1
Read 1030373 spots for SRR17096858.sra
Written 1030373 spots for SRR17096858.sra
Rejected 1030373 READS because READLEN < 1
Read 1030373 spots for SRR17096858.sra
Written 1030373 spots for SRR17096858.sra
Rejected 1030373 READS because READLEN < 1
Read 1030373 spots for SRR17096858.sra
Written 1030373 spots for SRR17096858.sra
SRR ids: ['SRR17096858.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_x327xuiq
SRR17096858.sra spots: 8242986
blocks: [[1, 1030373], [1030374, 2060746], [2060747, 3091119], [3091120, 4121492], [4121493, 5151865], [5151866, 6182238], [6182239, 7212611], [7212612, 8242986]]
SRR17096858 file size 1148952
SRR17096858 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 SRR17096858 SRR17096858_1.fastq
Input file:	SRR17096858_1.fastq
trimmed:	SRR17096858-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 13:48:19 2025 >> started

Wed Nov 26 13:48:23 2025 >> done (3.524s)
8242986 reads processed; of these:
 725121 ( 8.80%) short reads filtered out after trimming by size control
   5109 ( 0.06%) empty reads filtered out after trimming by size control
7512756 (91.14%) reads available; of these:
 113876 ( 1.52%) trimmed reads available after processing
7398880 (98.48%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	 113715	  1.51%
 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	     15	  0.00%
 49	    146	  0.00%
 50	7398880	 98.48%
7512756 reads passed initial QC


criterion=sequence-density
sequence-density=75.16
sequence-density-rank=1
fanout-score=24.89
fanout-score-rank=2
prefix-density=77.98
prefix-fanout=24.0
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAC


criterion=fanout-score
sequence-density=0.65
sequence-density-rank=14
fanout-score=34.88
fanout-score-rank=1
prefix-density=22.16
prefix-fanout=1.0
sequence=GAATTCTCGCCCAGATCGGAA
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 AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAC -o SRR17096858 -
Input file:	STDIN
trimmed:	SRR17096858-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAC
-- 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 13:48:32 2025 >> started

Wed Nov 26 13:48:38 2025 >> done (5.205s)
7315052 reads processed; of these:
   4098 ( 0.06%) short reads filtered out after trimming by size control
      6 ( 0.00%) empty reads filtered out after trimming by size control
7310948 (99.94%) reads available; of these:
6467341 (88.46%) trimmed reads available after processing
 843607 (11.54%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	 109788	  1.50%
 19	 119537	  1.64%
 20	 491567	  6.72%
 21	 334613	  4.58%
 22	1223153	 16.73%
 23	 442599	  6.05%
 24	 212980	  2.91%
 25	  82868	  1.13%
 26	  77245	  1.06%
 27	  92652	  1.27%
 28	 124237	  1.70%
 29	 126233	  1.73%
 30	 300589	  4.11%
 31	 826179	 11.30%
 32	 556791	  7.62%
 33	 229502	  3.14%
 34	 151374	  2.07%
 35	  86809	  1.19%
 36	  62774	  0.86%
 37	  61598	  0.84%
 38	  64169	  0.88%
 39	  61935	  0.85%
 40	  55537	  0.76%
 41	  66429	  0.91%
 42	  50884	  0.70%
 43	 115996	  1.59%
 44	 200653	  2.74%
 45	 140730	  1.92%
 46	  50829	  0.70%
 47	  54025	  0.74%
 48	      2	  0.00%
 49	     15	  0.00%
 50	 736656	 10.08%


criterion=sequence-density
sequence-density=17.57
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=12
prefix-density=0.00
prefix-fanout=1.0
sequence=GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGCCACG


criterion=fanout-score
sequence-density=0.19
sequence-density-rank=26
fanout-score=68.57
fanout-score-rank=1
prefix-density=12.70
prefix-fanout=1.0
sequence=AAGAAGTATGTGT
                                 Started job on |	Nov 26 13:48:48
                             Started mapping on |	Nov 26 13:48:48
                                    Finished on |	Nov 26 13:49:16
       Mapping speed, Million of reads per hour |	965.40

                          Number of input reads |	7508652
                      Average input read length |	31
                                    UNIQUE READS:
                   Uniquely mapped reads number |	3873482
                        Uniquely mapped reads % |	51.59%
                          Average mapped length |	28.87
                       Number of splices: Total |	62106
            Number of splices: Annotated (sjdb) |	57327
                       Number of splices: GT/AG |	60894
                       Number of splices: GC/AG |	429
                       Number of splices: AT/AC |	58
               Number of splices: Non-canonical |	725
                      Mismatch rate per base, % |	0.31%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.30
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.19
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	1707226
             % of reads mapped to multiple loci |	22.74%
        Number of reads mapped to too many loci |	1623864
             % of reads mapped to too many loci |	21.63%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	3.80%
                     % of reads unmapped: other |	0.25%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	1927944	1927944	1927944
N_multimapping	1707226	1707226	1707226
N_noFeature	678609	984748	3544550
N_ambiguous	72708	49872	51
UnstrandedReadsAssigned:3122165 PositiveStrandReadsAssigned:2838862 NegativeStrandReadsAssigned:328881
Dataset is classified positive stranded
MeadianReadLen=30 20thPercentileLength=22 echo kmer=19
SRR17096858 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: SRR17096858-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 7,508,652 reads, 772,362 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 852 rounds

  31716 SRR17096858.ke.tsv
  32883 SRR17096858.se.tsv
  64599 total
==> SRR17096858.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
ENSRNOT00000047550.4	955	856	7855	17133.7
ENSRNOT00000040993.4	1039	940	8539	16961.2
ENSRNOT00000050156.3	1545	1446	61223	79054.1
ENSRNOT00000043693.3	684	585	26903	85866.4
ENSRNOT00000046201.3	204	105	1273	22636.9
ENSRNOT00000046108.3	681	582	9705	31135.1
ENSRNOT00000049683.3	784	685	12925	35230.5
ENSRNOT00000041241.3	348	249	1143	8570.88
ENSRNOT00000044582.3	297	198	1165	10986

==> SRR17096858.se.tsv <==
ENSRNOG00000046319	0
ENSRNOG00000047964	0
ENSRNOG00000050370	0
ENSRNOG00000032365	0
ENSRNOG00000040300	0
ENSRNOG00000058808	3
ENSRNOG00000061316	14
ENSRNOG00000050129	0
ENSRNOG00000040316	0
ENSRNOG00000023659	1
SRR17096858 completed mapping pipeline successfully
