Starting /dee2/code/volunteer_pipeline.sh SRR34296842
    current disk space = 266863808
    free memory = 200503776 
SRR34296842 SRAfilesize
3f104313ecadc34b112442609c74e026  SRR34296842.sra
SRR34296842.sra file validated
SRR34296842 is single end
SRR34296842 is conventional basespace
SRR34296842 read1 length is 51 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR34296842_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	50
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	33.483	37.0	37.0	37.0	20.0	37.0
2	34.95925	37.0	37.0	37.0	37.0	37.0
3	35.16675	37.0	37.0	37.0	37.0	37.0
4	35.5755	37.0	37.0	37.0	37.0	37.0
5	35.91	37.0	37.0	37.0	37.0	37.0
6	35.96975	37.0	37.0	37.0	37.0	37.0
7	36.1305	37.0	37.0	37.0	37.0	37.0
8	36.24625	37.0	37.0	37.0	37.0	37.0
9	36.007	37.0	37.0	37.0	37.0	37.0
10	36.13675	37.0	37.0	37.0	37.0	37.0
11	36.5305	37.0	37.0	37.0	37.0	37.0
12	36.1895	37.0	37.0	37.0	37.0	37.0
13	36.3955	37.0	37.0	37.0	37.0	37.0
14	36.36425	37.0	37.0	37.0	37.0	37.0
15	36.44675	37.0	37.0	37.0	37.0	37.0
16	36.453	37.0	37.0	37.0	37.0	37.0
17	36.53625	37.0	37.0	37.0	37.0	37.0
18	36.3425	37.0	37.0	37.0	37.0	37.0
19	36.58625	37.0	37.0	37.0	37.0	37.0
20	36.5385	37.0	37.0	37.0	37.0	37.0
21	36.634	37.0	37.0	37.0	37.0	37.0
22	36.3115	37.0	37.0	37.0	37.0	37.0
23	36.4615	37.0	37.0	37.0	37.0	37.0
24	36.55325	37.0	37.0	37.0	37.0	37.0
25	36.64475	37.0	37.0	37.0	37.0	37.0
26	36.3825	37.0	37.0	37.0	37.0	37.0
27	36.3935	37.0	37.0	37.0	37.0	37.0
28	36.52625	37.0	37.0	37.0	37.0	37.0
29	36.51825	37.0	37.0	37.0	37.0	37.0
30	36.6145	37.0	37.0	37.0	37.0	37.0
31	36.60175	37.0	37.0	37.0	37.0	37.0
32	36.48075	37.0	37.0	37.0	37.0	37.0
33	36.6755	37.0	37.0	37.0	37.0	37.0
34	36.617	37.0	37.0	37.0	37.0	37.0
35	36.57525	37.0	37.0	37.0	37.0	37.0
36	36.58775	37.0	37.0	37.0	37.0	37.0
37	36.4685	37.0	37.0	37.0	37.0	37.0
38	36.2445	37.0	37.0	37.0	37.0	37.0
39	36.31675	37.0	37.0	37.0	37.0	37.0
40	36.2545	37.0	37.0	37.0	37.0	37.0
41	36.10775	37.0	37.0	37.0	37.0	37.0
42	36.51	37.0	37.0	37.0	37.0	37.0
43	36.5035	37.0	37.0	37.0	37.0	37.0
44	36.575	37.0	37.0	37.0	37.0	37.0
45	36.28625	37.0	37.0	37.0	37.0	37.0
46	36.46175	37.0	37.0	37.0	37.0	37.0
47	36.41925	37.0	37.0	37.0	37.0	37.0
48	36.47375	37.0	37.0	37.0	37.0	37.0
49	36.30325	37.0	37.0	37.0	37.0	37.0
50	36.323	37.0	37.0	37.0	37.0	37.0
51	36.45975	37.0	37.0	37.0	37.0	37.0
>>END_MODULE
>>Per tile sequence quality	pass
#Tile	Base	Mean
1101	1	0.0
1101	2	0.0
1101	3	0.0
1101	4	0.0
1101	5	0.0
1101	6	0.0
1101	7	0.0
1101	8	0.0
1101	9	0.0
1101	10	0.0
1101	11	0.0
1101	12	0.0
1101	13	0.0
1101	14	0.0
1101	15	0.0
1101	16	0.0
1101	17	0.0
1101	18	0.0
1101	19	0.0
1101	20	0.0
1101	21	0.0
1101	22	0.0
1101	23	0.0
1101	24	0.0
1101	25	0.0
1101	26	0.0
1101	27	0.0
1101	28	0.0
1101	29	0.0
1101	30	0.0
1101	31	0.0
1101	32	0.0
1101	33	0.0
1101	34	0.0
1101	35	0.0
1101	36	0.0
1101	37	0.0
1101	38	0.0
1101	39	0.0
1101	40	0.0
1101	41	0.0
1101	42	0.0
1101	43	0.0
1101	44	0.0
1101	45	0.0
1101	46	0.0
1101	47	0.0
1101	48	0.0
1101	49	0.0
1101	50	0.0
1101	51	0.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
20	2.0
21	6.0
22	3.0
23	3.0
24	4.0
25	3.0
26	5.0
27	3.0
28	8.0
29	9.0
30	14.0
31	28.0
32	45.0
33	80.0
34	124.0
35	299.0
36	1648.0
37	1716.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	2.85	15.675	73.97500000000001	7.5
2	26.648213387015602	17.86612984398591	13.865123301459487	41.620533467539005
3	12.525	37.35	25.124999999999996	25.0
4	24.55	23.724999999999998	17.65	34.075
5	26.25	39.550000000000004	25.074999999999996	9.125
6	47.65	14.499999999999998	22.675	15.174999999999999
7	18.5	31.624999999999996	27.125	22.75
8	40.175	22.0	21.825	16.0
9	14.649999999999999	32.875	43.375	9.1
10	12.35	46.75	14.45	26.450000000000003
11	26.625	5.35	23.575	44.45
12	19.55	12.15	18.675	49.625
13	26.05	16.525000000000002	41.4	16.025
14	34.475	32.425	22.125	10.975
15	38.1	27.250000000000004	24.65	10.0
16	9.025	18.625	24.575	47.775
17	14.799999999999999	19.025	53.55	12.625
18	28.775000000000002	10.0	27.975	33.25
19	31.0	15.325	42.5	11.175
20	32.525	19.925	35.025	12.525
21	16.375	13.125	55.55	14.95
22	28.799999999999997	14.299999999999999	52.349999999999994	4.55
23	30.65	15.2	46.975	7.175
24	59.575	11.25	27.275	1.9
25	56.2	28.799999999999997	12.950000000000001	2.0500000000000003
26	27.950000000000003	58.85	11.075	2.125
27	10.325	55.325	30.025000000000002	4.324999999999999
28	4.05	26.8	62.3	6.8500000000000005
29	3.6249999999999996	8.725	61.625	26.025
30	5.8999999999999995	1.925	50.0	42.175000000000004
31	10.375	1.375	45.324999999999996	42.925000000000004
32	31.974999999999998	1.375	22.35	44.3
33	65.325	1.425	11.275	21.975
34	81.22500000000001	1.575	7.9	9.3
35	68.72500000000001	1.825	23.799999999999997	5.65
36	51.625	2.4	36.675000000000004	9.3
37	46.150000000000006	4.925	19.875	29.049999999999997
38	23.075000000000003	9.975000000000001	7.775	59.175
39	12.049999999999999	29.925	2.075	55.95
40	10.674999999999999	60.12499999999999	1.4749999999999999	27.725
41	29.15	58.85	1.55	10.45
42	59.475	34.875	1.4000000000000001	4.25
43	55.974999999999994	37.3	1.25	5.475
44	27.6	60.875	3.3000000000000003	8.225
45	9.65	56.75	6.4	27.200000000000003
46	3.125	28.175	23.599999999999998	45.1
47	2.1999999999999997	12.275	36.7	48.825
48	4.0	8.450000000000001	20.3	67.25
49	6.425	24.7	10.274999999999999	58.599999999999994
50	23.549999999999997	37.775	7.35	31.324999999999996
51	36.7	23.025000000000002	23.825	16.45
>>END_MODULE
>>Per sequence GC content	warn
#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	0.0
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	0.5
29	1.0
30	0.5
31	0.0
32	0.5
33	1.0
34	3.0
35	5.0
36	3.5
37	2.0
38	3.5
39	5.0
40	7.0
41	9.0
42	23.5
43	38.0
44	262.5
45	487.0
46	459.5
47	432.0
48	546.5
49	661.0
50	829.5
51	998.0
52	863.5
53	729.0
54	512.0
55	295.0
56	226.5
57	158.0
58	126.0
59	94.0
60	67.0
61	40.0
62	26.5
63	13.0
64	17.0
65	21.0
66	15.0
67	9.0
68	5.0
69	1.0
70	0.5
71	0.0
72	0.5
73	1.0
74	0.5
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	0.65
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	30.4
#Duplication Level	Percentage of deduplicated	Percentage of total
1	73.51973684210526	22.35
2	9.868421052631579	6.0
3	4.440789473684211	4.05
4	2.631578947368421	3.2
5	1.2335526315789473	1.875
6	1.151315789473684	2.1
7	0.575657894736842	1.225
8	0.575657894736842	1.4000000000000001
9	0.4934210526315789	1.35
>10	4.605263157894736	26.525
>50	0.575657894736842	11.25
>100	0.3289473684210526	18.675
>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
TCACAGTGAACCGGTCTCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	268	6.7	RNA PCR Primer, Index 1 (100% over 30bp)
TCTTTGGTTATCTAGCTGTATGATGGAATTCTCGGGTGCCAAGGAACTCCA	202	5.050000000000001	RNA PCR Primer, Index 1 (100% over 28bp)
TCACAGTGAACCGGTCTCTTTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	150	3.75	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTAACTTGTGATGGAATTCTCGGGTGCCAAGGAACTCCAG	127	3.175	RNA PCR Primer, Index 1 (100% over 29bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	94	2.35	RNA PCR Primer, Index 1 (100% over 29bp)
TCTTTGGTTATCTAGCTGTATTGGAATTCTCGGGTGCCAAGGAACTCCAGT	74	1.8499999999999999	RNA PCR Primer, Index 1 (100% over 30bp)
TGAGGTAGTAGTTTGTACAGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	68	1.7000000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
TCTTTGGTTATCTAGCTGTATGTGGAATTCTCGGGTGCCAAGGAACTCCAG	59	1.4749999999999999	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGATTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	53	1.325	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGGTTGTATGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	51	1.275	RNA PCR Primer, Index 1 (100% over 29bp)
TAAGGCACGCGGTGAATGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA	51	1.275	RNA PCR Primer, Index 1 (100% over 32bp)
TGAGGTAGTAGGTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	50	1.25	RNA PCR Primer, Index 1 (100% over 29bp)
TAGCACCATCTGAAATCGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	50	1.25	RNA PCR Primer, Index 1 (100% over 30bp)
TGTAAACATCCTACACTCTCAGCTTGGAATTCTCGGGTGCCAAGGAACTCC	43	1.075	RNA PCR Primer, Index 1 (100% over 27bp)
TCCCTGAGACCCTAACTTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	40	1.0	RNA PCR Primer, Index 1 (100% over 31bp)
AGCAGCATTGTACAGGGCTATGATGGAATTCTCGGGTGCCAAGGAACTCCA	35	0.8750000000000001	RNA PCR Primer, Index 1 (100% over 28bp)
TCTTTGGTTATCTAGCTGTATGTTGGAATTCTCGGGTGCCAAGGAACTCCA	33	0.8250000000000001	RNA PCR Primer, Index 1 (100% over 28bp)
TAGCACCATCTGAAATCGGTTATGGAATTCTCGGGTGCCAAGGAACTCCAG	33	0.8250000000000001	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCTACACTCTCAGCTGGAATTCTCGGGTGCCAAGGAACTCCA	31	0.775	RNA PCR Primer, Index 1 (100% over 28bp)
TCCCTGAGACCCTAACTTGTGAATGGAATTCTCGGGTGCCAAGGAACTCCA	25	0.625	RNA PCR Primer, Index 1 (100% over 28bp)
TAACAGTCTACAGCCATGGTCGTGGAATTCTCGGGTGCCAAGGAACTCCAG	25	0.625	RNA PCR Primer, Index 1 (100% over 29bp)
AACCCGTAGATCCGATCTTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	24	0.6	RNA PCR Primer, Index 1 (100% over 30bp)
TCCCTGAGACCCTAACTTGTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT	24	0.6	RNA PCR Primer, Index 1 (100% over 30bp)
TTTGAACCATCACTCGACTCCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	24	0.6	RNA PCR Primer, Index 1 (100% over 29bp)
TCGGATCCGTCTGAGCTTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	23	0.575	RNA PCR Primer, Index 1 (100% over 31bp)
ACTAATCCTAGCCCTAGCCCTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	22	0.5499999999999999	RNA PCR Primer, Index 1 (100% over 30bp)
TCACAGTGAACCGGTCTCTTTCTGGAATTCTCGGGTGCCAAGGAACTCCAG	22	0.5499999999999999	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTTTAACCTGTGATGGAATTCTCGGGTGCCAAGGAACTCC	21	0.525	RNA PCR Primer, Index 1 (100% over 27bp)
TTCAAGTAATCCAGGATAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	21	0.525	RNA PCR Primer, Index 1 (100% over 30bp)
TGAGGTAGTAGTTTGTGCTGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	20	0.5	RNA PCR Primer, Index 1 (100% over 29bp)
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	20	0.5	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCTTGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTCC	19	0.475	RNA PCR Primer, Index 1 (100% over 27bp)
TGAGGTAGTAGGTTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	19	0.475	RNA PCR Primer, Index 1 (100% over 30bp)
TTCACAGTGGCTAAGTTCTGCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	19	0.475	RNA PCR Primer, Index 1 (100% over 30bp)
TCCCTGAGACCCTTTAACCTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	19	0.475	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCCCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTCC	18	0.44999999999999996	RNA PCR Primer, Index 1 (100% over 27bp)
TCACAGTGAACCGGTCTCTTTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	16	0.4	RNA PCR Primer, Index 1 (100% over 28bp)
AGAGGTAGTAGGTTGCATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	16	0.4	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGTTTGTACAGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	16	0.4	RNA PCR Primer, Index 1 (100% over 30bp)
TTAAGGCACGCGGTGAATGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	16	0.4	RNA PCR Primer, Index 1 (100% over 31bp)
TTTGAACCATCACTCGACTCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	15	0.375	RNA PCR Primer, Index 1 (100% over 30bp)
TCACAGTGAACCGGTCTCTTTATGGAATTCTCGGGTGCCAAGGAACTCCAG	15	0.375	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGGAGGTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCTCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTCC	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 27bp)
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 29bp)
AACCCGTAGATCCGATCTTGTGTGGAATTCTCGGGTGCCAAGGAACTCCAG	13	0.325	RNA PCR Primer, Index 1 (100% over 29bp)
TCACAGTGAACCGGTCTCTTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	13	0.325	RNA PCR Primer, Index 1 (100% over 31bp)
TGAGGTAGTAGATTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	13	0.325	RNA PCR Primer, Index 1 (100% over 30bp)
CTTTGGTTATCTAGCTGTATGATGGAATTCTCGGGTGCCAAGGAACTCCAG	13	0.325	RNA PCR Primer, Index 1 (100% over 29bp)
TCGGATCCGTCTGAGCTTGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	13	0.325	RNA PCR Primer, Index 1 (100% over 30bp)
CAACGGAATCCCAAAAGCAGCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	12	0.3	RNA PCR Primer, Index 1 (100% over 29bp)
AACATTCAACGCTGTCGGTGAGTTGGAATTCTCGGGTGCCAAGGAACTCCA	12	0.3	RNA PCR Primer, Index 1 (100% over 28bp)
ACTAATCCTAGCCCTAGCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	12	0.3	RNA PCR Primer, Index 1 (100% over 31bp)
CAACGGAATCCCAAAAGCAGCTGTGGAATTCTCGGGTGCCAAGGAACTCCA	12	0.3	RNA PCR Primer, Index 1 (100% over 28bp)
TAAGGCACGCGGTGAATGCCATGGAATTCTCGGGTGCCAAGGAACTCCAGT	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 30bp)
TAAGGCACGCGGTGAATGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 31bp)
TGTAAACATCCCCGACTGGAATGGAATTCTCGGGTGCCAAGGAACTCCAGT	10	0.25	RNA PCR Primer, Index 1 (100% over 30bp)
TGTAAACATCCTCGACTGGAAGCTGGAATTCTCGGGTGCCAAGGAACTCCA	10	0.25	RNA PCR Primer, Index 1 (100% over 28bp)
TCTACAGTGCACGTGTCTCCAGTTGGAATTCTCGGGTGCCAAGGAACTCCA	10	0.25	RNA PCR Primer, Index 1 (100% over 28bp)
ACTAATCCTAGCCCTAGCCCTATGGAATTCTCGGGTGCCAAGGAACTCCAG	10	0.25	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGGTTGTATGGTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	10	0.25	RNA PCR Primer, Index 1 (100% over 28bp)
ATAAAGCTAGATAACCGAAAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	10	0.25	RNA PCR Primer, Index 1 (100% over 29bp)
CTATACGACCTGCTGCCTTTCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	10	0.25	RNA PCR Primer, Index 1 (100% over 29bp)
AACCCGTAGATCCGAACTTGTGTGGAATTCTCGGGTGCCAAGGAACTCCAG	10	0.25	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCCCGACTGGAAGCTGGAATTCTCGGGTGCCAAGGAACTCCA	10	0.25	RNA PCR Primer, Index 1 (100% over 28bp)
CACCCGTAGAACCGACCTTGCGTGGAATTCTCGGGTGCCAAGGAACTCCAG	10	0.25	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGTTTGTGCTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	10	0.25	RNA PCR Primer, Index 1 (100% over 30bp)
ATCACATTGCCAGGGATTTCCATGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
ACTAATCCTAGCCCTAGCCCTACATGGAATTCTCGGGTGCCAAGGAACTCC	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 27bp)
AGCTACATTGTCTGCTGGGTTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGGTTGTATGGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 30bp)
TCACAGTGAACCGGTCTCTTTCTTGGAATTCTCGGGTGCCAAGGAACTCCA	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 28bp)
AGCTACATTGTCTGCTGGGTTTCTGGAATTCTCGGGTGCCAAGGAACTCCA	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 28bp)
TTGTGCTTGATCTAACCATGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	8	0.2	RNA PCR Primer, Index 1 (100% over 30bp)
CTAGCACCATCTGAAATCGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGGTTGTGTGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
CGCGACCTCAGATCAGATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACC	8	0.2	RNA PCR Primer, Index 2 (100% over 34bp)
AACATTCAACGCTGTCGGTGAGTTTGGAATTCTCGGGTGCCAAGGAACTCC	8	0.2	RNA PCR Primer, Index 1 (100% over 27bp)
TTATCAGAATCTCCAGGGGTACTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
CCCTGAGACCCTAACTTGTGATGGAATTCTCGGGTGCCAAGGAACTCCAGT	8	0.2	RNA PCR Primer, Index 1 (100% over 30bp)
TGAGGTAGTAGGTTGTGTGGTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 28bp)
ATCATGATGGGCTCCTCGGTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
TAAAGCTAGATAACCGAAAGTATGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
AGCTACATCTGGCTACTGGGTCTCTGGAATTCTCGGGTGCCAAGGAACTCC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 27bp)
TATGCAAGGGCAAGCTCTCTTCTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGGAGGTTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 30bp)
TGAGATGAAGCACTGTAGCTCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGTTTGTGCTGTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
TAACAGTCTACAGCCATGGTCGTTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
TGCGGGGCTAGGGCTAACAGCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	6	0.15	RNA PCR Primer, Index 1 (100% over 30bp)
TCCCTGAGACCCTTTAACCTGTGTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
TTCAAGTAATCCAGGATAGGCTTTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCTCGACTGGAATGGAATTCTCGGGTGCCAAGGAACTCCAGT	6	0.15	RNA PCR Primer, Index 1 (100% over 30bp)
TATACAAGGGCAAGCTCTCTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGTTTGTACAGTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCCCGACTGGAAGTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
AACATTCAACGCTGTCGGTGAGTTTTGGAATTCTCGGGTGCCAAGGAACTC	6	0.15	RNA PCR Primer, Index 1 (100% over 26bp)
TGTAAACATCCTTGACTGGAAGCTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
TCGAGGAGCTCACAGTCTAGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	6	0.15	RNA PCR Primer, Index 1 (100% over 30bp)
CTGAAGCTCAGAGGGCTCTGATTTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
ACTAATCCTAGCCCTAGCCCTACACTGGAATTCTCGGGTGCCAAGGAACTC	5	0.125	RNA PCR Primer, Index 1 (100% over 26bp)
TAAGGCACGCGGTGAATGCCAATGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGGTTGTGTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	5	0.125	RNA PCR Primer, Index 1 (100% over 31bp)
AGCAGCATTGTACAGGGCTATGTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TTAAGGCACGCGGTGAATGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA	5	0.125	RNA PCR Primer, Index 1 (100% over 32bp)
TCGGATCCGTCTGAGCTTGGCTTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
AGGTTACCCGAGCAACTTTGCATTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
ACCTTGGCTCTAGACTGCTTACTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
AAGCCCTTACCCCAAAAAGCATTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
AACATTCATTGCTGTCGGTGGGTTTGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
AGCTACATTGTCTGCTGGGTTTCTTGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
CTGGCCCTCTCTGCCCTTCCGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGATTGTATAGTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TTCAAGTAATCCAGGATAGGCATGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
GCCTGCTGGGGTGGAACCTGGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
>>END_MODULE
>>Adapter Content	fail
#Position	Illumina Universal Adapter	Illumina Small RNA 3' Adapter	Illumina Small RNA 5' Adapter	Nextera Transposase Sequence	SOLID Small RNA Adapter
1	0.0	0.0	0.0	0.0	0.0
2	0.0	0.0	0.0	0.0	0.0
3	0.0	0.0	0.0	0.0	0.0
4	0.0	0.0	0.0	0.0	0.0
5	0.0	0.0	0.0	0.0	0.0
6	0.0	0.0	0.0	0.0	0.0
7	0.0	0.05	0.0	0.0	0.0
8	0.0	0.05	0.0	0.0	0.0
9	0.0	0.075	0.0	0.0	0.0
10	0.0	0.1	0.0	0.0	0.0
11	0.0	0.15	0.0	0.0	0.0
12	0.0	0.175	0.0	0.0	0.0
13	0.0	0.225	0.0	0.0	0.0
14	0.0	0.325	0.0	0.0	0.0
15	0.0	0.6	0.0	0.0	0.0
16	0.0	1.125	0.0	0.0	0.0
17	0.0	1.65	0.0	0.0	0.0
18	0.0	2.4	0.0	0.0	0.0
19	0.0	3.175	0.0	0.0	0.0
20	0.0	5.95	0.0	0.0	0.0
21	0.0	11.275	0.0	0.0	0.0
22	0.0	33.5	0.0	0.0	0.0
23	0.0	69.05	0.0	0.0	0.0
24	0.0	88.0	0.0	0.0	0.0
25	0.0	94.975	0.0	0.0	0.0
26	0.0	96.3	0.0	0.0	0.0
27	0.0	96.75	0.0	0.0	0.0
28	0.0	97.2	0.0	0.0	0.0
29	0.0	97.475	0.0	0.0	0.0
30	0.0	97.6	0.0	0.0	0.0
31	0.0	97.675	0.0	0.0	0.0
32	0.0	97.85	0.0	0.0	0.0
33	0.0	98.025	0.0	0.0	0.0
34	0.0	98.15	0.0	0.0	0.0
35	0.0	98.275	0.0	0.0	0.0
36	0.0	98.35	0.0	0.0	0.0
37	0.0	98.35	0.0	0.0	0.0
38	0.0	98.375	0.0	0.0	0.0
39	0.0	98.375	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	fail
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
TCCCTGA	45	2.2009772E-10	45.000004	1
ACAGTGA	50	1.0913936E-11	45.0	3
ACCGGTC	50	1.0913936E-11	45.0	10
GAGGTAG	40	4.3564796E-9	45.0	2
GTATGGT	20	6.222983E-4	45.0	15
AACCGGT	50	1.0913936E-11	45.0	9
TTGTATG	20	6.222983E-4	45.0	13
AAATCGG	20	6.222983E-4	45.0	13
GAAATCG	20	6.222983E-4	45.0	12
ACCATCT	20	6.222983E-4	45.0	5
CTCTTTT	50	1.0913936E-11	45.0	16
CATCTGA	20	6.222983E-4	45.0	7
TAGCACC	20	6.222983E-4	45.0	1
CTGAAAT	20	6.222983E-4	45.0	10
ATCGGTT	20	6.222983E-4	45.0	15
CCATCTG	20	6.222983E-4	45.0	6
GAACCGG	50	1.0913936E-11	45.0	8
GTCTCTT	50	1.0913936E-11	45.0	14
CACCATC	20	6.222983E-4	45.0	4
TCTGAAA	20	6.222983E-4	45.0	9
>>END_MODULE
Read 1656910 spots for SRR34296842.sra
Written 1656910 spots for SRR34296842.sra
Read 1656910 spots for SRR34296842.sra
Written 1656910 spots for SRR34296842.sra
Read 1656910 spots for SRR34296842.sra
Written 1656910 spots for SRR34296842.sra
Read 1656910 spots for SRR34296842.sra
Written 1656910 spots for SRR34296842.sra
Read 1656910 spots for SRR34296842.sra
Written 1656910 spots for SRR34296842.sra
Read 1656910 spots for SRR34296842.sra
Written 1656910 spots for SRR34296842.sra
Read 1656910 spots for SRR34296842.sra
Written 1656910 spots for SRR34296842.sra
Read 1656914 spots for SRR34296842.sra
Written 1656914 spots for SRR34296842.sra
SRR ids: ['SRR34296842.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_92vlnwxr
SRR34296842.sra spots: 13255284
blocks: [[1, 1656910], [1656911, 3313820], [3313821, 4970730], [4970731, 6627640], [6627641, 8284550], [8284551, 9941460], [9941461, 11598370], [11598371, 13255284]]
SRR34296842 file size 2287000
SRR34296842 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 SRR34296842 SRR34296842_1.fastq
Input file:	SRR34296842_1.fastq
trimmed:	SRR34296842-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
Thu Feb 19 08:58:02 2026 >> started

Thu Feb 19 08:58:05 2026 >> done (3.104s)
13255284 reads processed; of these:
       0 ( 0.00%) short reads filtered out after trimming by size control
      97 ( 0.00%) empty reads filtered out after trimming by size control
13255187 (100.00%) reads available; of these:
     259 ( 0.00%) trimmed reads available after processing
13254928 (100.00%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 50	     259	  0.00%
 51	13254928	100.00%
13255187 reads passed initial QC


criterion=sequence-density
sequence-density=98.29
sequence-density-rank=1
fanout-score=16.67
fanout-score-rank=1
prefix-density=98.53
prefix-fanout=16.6
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGTACGATCTGGGGG


criterion=fanout-score
sequence-density=98.29
sequence-density-rank=1
fanout-score=16.67
fanout-score-rank=1
prefix-density=98.53
prefix-fanout=16.6
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGTACGATCTGGGGG
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 TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGTACGATCTGGGGG -o SRR34296842 -
Input file:	STDIN
trimmed:	SRR34296842-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGTACGATCTGGGGG
-- 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
Thu Feb 19 08:58:16 2026 >> started

Thu Feb 19 08:58:21 2026 >> done (4.710s)
12987406 reads processed; of these:
  303096 ( 2.33%) short reads filtered out after trimming by size control
     356 ( 0.00%) empty reads filtered out after trimming by size control
12683954 (97.66%) reads available; of these:
12644969 (99.69%) trimmed reads available after processing
   38985 ( 0.31%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  134311	  1.06%
 19	  346563	  2.73%
 20	  785878	  6.20%
 21	 2980134	 23.50%
 22	 4633695	 36.53%
 23	 2421985	 19.09%
 24	  805625	  6.35%
 25	  197598	  1.56%
 26	   73104	  0.58%
 27	   50128	  0.40%
 28	   38412	  0.30%
 29	   21727	  0.17%
 30	   16713	  0.13%
 31	   19835	  0.16%
 32	   24985	  0.20%
 33	   33618	  0.27%
 34	   11341	  0.09%
 35	    8024	  0.06%
 36	    6354	  0.05%
 37	    7021	  0.06%
 38	    3956	  0.03%
 39	    3200	  0.03%
 40	    3674	  0.03%
 41	    2957	  0.02%
 42	    2476	  0.02%
 43	    2392	  0.02%
 44	    2514	  0.02%
 45	    4560	  0.04%
 46	     801	  0.01%
 47	     401	  0.00%
 48	     987	  0.01%
 49	       0	  0.00%
 50	       2	  0.00%
 51	   38983	  0.31%


criterion=sequence-density
sequence-density=9.69
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=8
prefix-density=0.00
prefix-fanout=1.0
sequence=TCTTTGGTTATCTAGCTGTATGAAA


criterion=fanout-score
sequence-density=0.76
sequence-density-rank=20
fanout-score=7.96
fanout-score-rank=1
prefix-density=5.94
prefix-fanout=1.0
sequence=GTAGTAGGTTGCATAGTTT
                                 Started job on |	Feb 19 08:58:28
                             Started mapping on |	Feb 19 08:58:29
                                    Finished on |	Feb 19 08:59:08
       Mapping speed, Million of reads per hour |	1195.54

                          Number of input reads |	12951735
                      Average input read length |	22
                                    UNIQUE READS:
                   Uniquely mapped reads number |	6027999
                        Uniquely mapped reads % |	46.54%
                          Average mapped length |	22.03
                       Number of splices: Total |	5438
            Number of splices: Annotated (sjdb) |	1888
                       Number of splices: GT/AG |	5343
                       Number of splices: GC/AG |	62
                       Number of splices: AT/AC |	0
               Number of splices: Non-canonical |	33
                      Mismatch rate per base, % |	0.12%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.45
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.14
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	6439032
             % of reads mapped to multiple loci |	49.72%
        Number of reads mapped to too many loci |	55768
             % of reads mapped to too many loci |	0.43%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	2.82%
                     % of reads unmapped: other |	0.49%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	484704	484704	484704
N_multimapping	6439032	6439032	6439032
N_noFeature	176197	190643	4912834
N_ambiguous	2219056	1292743	23914
UnstrandedReadsAssigned:3632746 PositiveStrandReadsAssigned:4544613 NegativeStrandReadsAssigned:1091251
Dataset is classified unstranded
MeadianReadLen=22 20thPercentileLength=21 echo kmer=19
SRR34296842 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: 109,282
[index] number of k-mers: 92,755,666
[index] number of equivalence classes: 769,752
[quant] running in single-end mode
[quant] will process file 1: SRR34296842-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 12,951,735 reads, 1,463,376 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 921 rounds

 109283 SRR34296842.ke.tsv
  52636 SRR34296842.se.tsv
 161919 total
==> SRR34296842.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

==> SRR34296842.se.tsv <==
ENSMUSG00000102693	0
ENSMUSG00000064842	0
ENSMUSG00000051951	4
ENSMUSG00000102851	0
ENSMUSG00000103377	0
ENSMUSG00000104017	0
ENSMUSG00000103025	0
ENSMUSG00000089699	0
ENSMUSG00000103201	0
ENSMUSG00000103147	0
SRR34296842 completed mapping pipeline successfully
