Starting /dee2/code/volunteer_pipeline.sh SRR34296817
    current disk space = 247838188
    free memory = 200040172 
SRR34296817 SRAfilesize
8c1da61f8238fd1928a0c8d60129facf  SRR34296817.sra
SRR34296817.sra file validated
SRR34296817 is single end
SRR34296817 is conventional basespace
SRR34296817 read1 length is 51 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR34296817_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	32.573	37.0	37.0	37.0	20.0	37.0
2	34.403	37.0	37.0	37.0	20.0	37.0
3	35.11125	37.0	37.0	37.0	37.0	37.0
4	35.34975	37.0	37.0	37.0	37.0	37.0
5	35.89475	37.0	37.0	37.0	37.0	37.0
6	35.9015	37.0	37.0	37.0	37.0	37.0
7	36.069	37.0	37.0	37.0	37.0	37.0
8	36.14525	37.0	37.0	37.0	37.0	37.0
9	35.7765	37.0	37.0	37.0	37.0	37.0
10	36.34525	37.0	37.0	37.0	37.0	37.0
11	36.521	37.0	37.0	37.0	37.0	37.0
12	36.24475	37.0	37.0	37.0	37.0	37.0
13	36.40825	37.0	37.0	37.0	37.0	37.0
14	36.298	37.0	37.0	37.0	37.0	37.0
15	36.5195	37.0	37.0	37.0	37.0	37.0
16	36.43425	37.0	37.0	37.0	37.0	37.0
17	36.557	37.0	37.0	37.0	37.0	37.0
18	36.4135	37.0	37.0	37.0	37.0	37.0
19	36.6765	37.0	37.0	37.0	37.0	37.0
20	36.5805	37.0	37.0	37.0	37.0	37.0
21	36.55775	37.0	37.0	37.0	37.0	37.0
22	36.49	37.0	37.0	37.0	37.0	37.0
23	36.616	37.0	37.0	37.0	37.0	37.0
24	36.54275	37.0	37.0	37.0	37.0	37.0
25	36.60125	37.0	37.0	37.0	37.0	37.0
26	36.38075	37.0	37.0	37.0	37.0	37.0
27	36.418	37.0	37.0	37.0	37.0	37.0
28	36.4015	37.0	37.0	37.0	37.0	37.0
29	36.38675	37.0	37.0	37.0	37.0	37.0
30	36.516	37.0	37.0	37.0	37.0	37.0
31	36.4515	37.0	37.0	37.0	37.0	37.0
32	36.42175	37.0	37.0	37.0	37.0	37.0
33	36.55325	37.0	37.0	37.0	37.0	37.0
34	36.55975	37.0	37.0	37.0	37.0	37.0
35	36.5185	37.0	37.0	37.0	37.0	37.0
36	36.4725	37.0	37.0	37.0	37.0	37.0
37	36.33	37.0	37.0	37.0	37.0	37.0
38	35.922	37.0	37.0	37.0	37.0	37.0
39	36.1585	37.0	37.0	37.0	37.0	37.0
40	36.175	37.0	37.0	37.0	37.0	37.0
41	36.215	37.0	37.0	37.0	37.0	37.0
42	36.46	37.0	37.0	37.0	37.0	37.0
43	36.54175	37.0	37.0	37.0	37.0	37.0
44	36.5495	37.0	37.0	37.0	37.0	37.0
45	36.397	37.0	37.0	37.0	37.0	37.0
46	36.464	37.0	37.0	37.0	37.0	37.0
47	36.4175	37.0	37.0	37.0	37.0	37.0
48	36.48425	37.0	37.0	37.0	37.0	37.0
49	36.17125	37.0	37.0	37.0	37.0	37.0
50	36.217	37.0	37.0	37.0	37.0	37.0
51	36.455	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	5.0
22	8.0
23	8.0
24	5.0
25	4.0
26	3.0
27	3.0
28	7.0
29	7.0
30	22.0
31	16.0
32	55.0
33	72.0
34	126.0
35	334.0
36	1785.0
37	1538.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	2.725	16.725	72.925	7.625
2	26.40080767289248	19.45986875315497	13.250883392226148	40.8884401817264
3	13.175	38.025	23.799999999999997	25.0
4	25.924999999999997	23.225	16.025	34.825
5	26.224999999999998	39.800000000000004	25.35	8.625
6	46.1	13.575000000000001	25.15	15.174999999999999
7	16.525000000000002	33.324999999999996	26.275	23.875
8	40.699999999999996	21.9	20.225	17.175
9	13.3	33.125	44.3	9.275
10	12.65	46.475	13.450000000000001	27.425
11	28.000000000000004	5.525	22.0	44.474999999999994
12	19.725	13.325000000000001	18.65	48.3
13	26.875	16.150000000000002	41.4	15.575
14	33.6	30.049999999999997	23.875	12.475
15	36.75	27.175	25.174999999999997	10.9
16	8.625	19.45	25.374999999999996	46.550000000000004
17	15.575	19.75	52.275000000000006	12.4
18	27.800000000000004	9.75	29.075	33.375
19	30.45	16.625	40.699999999999996	12.225
20	32.275	18.15	36.225	13.350000000000001
21	15.950000000000001	13.05	56.95	14.05
22	27.500000000000004	13.200000000000001	55.225	4.075
23	32.800000000000004	14.149999999999999	46.475	6.575
24	61.85000000000001	11.225	25.05	1.875
25	55.074999999999996	31.424999999999997	11.600000000000001	1.9
26	24.75	60.975	11.55	2.725
27	8.924999999999999	54.2	32.925	3.95
28	4.1000000000000005	23.925	63.9	8.075000000000001
29	3.75	7.7	61.025	27.525
30	5.55	2.5749999999999997	48.85	43.025000000000006
31	11.275	1.125	44.474999999999994	43.125
32	34.375	1.075	21.349999999999998	43.2
33	68.575	1.25	9.3	20.875
34	81.39999999999999	1.55	8.774999999999999	8.275
35	66.85	1.7000000000000002	25.424999999999997	6.0249999999999995
36	51.0	2.45	36.95	9.6
37	45.4	4.75	18.425	31.424999999999997
38	22.225	10.4	6.3	61.075
39	10.625	32.425	2.325	54.625
40	11.4	62.6	1.4000000000000001	24.6
41	31.85	57.8	1.5	8.85
42	61.1	32.85	1.425	4.625
43	54.425000000000004	38.9	1.8499999999999999	4.825
44	24.349999999999998	63.2	3.15	9.3
45	8.6	55.074999999999996	7.1499999999999995	29.175
46	3.4000000000000004	25.5	25.25	45.85
47	2.55	10.875	36.95	49.625
48	3.875	9.8	19.175	67.15
49	7.9	26.25	8.475000000000001	57.375
50	25.8	38.3	8.450000000000001	27.450000000000003
51	37.325	21.6	25.2	15.875
>>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	0.0
29	0.0
30	0.5
31	1.0
32	1.0
33	1.0
34	1.0
35	1.0
36	2.0
37	3.0
38	3.5
39	4.0
40	10.5
41	17.0
42	29.5
43	42.0
44	251.5
45	461.0
46	467.0
47	473.0
48	559.0
49	645.0
50	822.5
51	1000.0
52	859.5
53	719.0
54	509.0
55	299.0
56	229.5
57	160.0
58	127.0
59	94.0
60	70.0
61	46.0
62	29.5
63	13.0
64	13.0
65	13.0
66	10.0
67	7.0
68	3.5
69	0.0
70	0.0
71	0.0
72	0.0
73	0.0
74	0.5
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	0.95
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	30.45
#Duplication Level	Percentage of deduplicated	Percentage of total
1	73.31691297208539	22.325
2	10.755336617405582	6.550000000000001
3	3.776683087027915	3.45
4	2.5451559934318557	3.1
5	1.3957307060755337	2.125
6	1.0673234811165846	1.95
7	0.8210180623973727	1.7500000000000002
8	0.7389162561576355	1.7999999999999998
9	0.5747126436781609	1.575
>10	4.1871921182266005	26.525
>50	0.49261083743842365	10.925
>100	0.3284072249589491	17.925
>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	266	6.65	RNA PCR Primer, Index 1 (100% over 30bp)
TCTTTGGTTATCTAGCTGTATGATGGAATTCTCGGGTGCCAAGGAACTCCA	167	4.175	RNA PCR Primer, Index 1 (100% over 28bp)
TCACAGTGAACCGGTCTCTTTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	166	4.15	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTAACTTGTGATGGAATTCTCGGGTGCCAAGGAACTCCAG	118	2.9499999999999997	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGTTTGTACAGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	89	2.225	RNA PCR Primer, Index 1 (100% over 29bp)
TCTTTGGTTATCTAGCTGTATTGGAATTCTCGGGTGCCAAGGAACTCCAGT	80	2.0	RNA PCR Primer, Index 1 (100% over 30bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	78	1.95	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGATTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	75	1.875	RNA PCR Primer, Index 1 (100% over 29bp)
TCTTTGGTTATCTAGCTGTATGTGGAATTCTCGGGTGCCAAGGAACTCCAG	60	1.5	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGGTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	55	1.375	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTAACTTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	50	1.25	RNA PCR Primer, Index 1 (100% over 31bp)
TAAGGCACGCGGTGAATGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA	48	1.2	RNA PCR Primer, Index 1 (100% over 32bp)
TAGCACCATCTGAAATCGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	47	1.175	RNA PCR Primer, Index 1 (100% over 30bp)
TAGCACCATCTGAAATCGGTTATGGAATTCTCGGGTGCCAAGGAACTCCAG	45	1.125	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCTACACTCTCAGCTTGGAATTCTCGGGTGCCAAGGAACTCC	42	1.05	RNA PCR Primer, Index 1 (100% over 27bp)
TCCCTGAGACCCTAACTTGTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT	39	0.975	RNA PCR Primer, Index 1 (100% over 30bp)
TGAGGTAGTAGGTTGTATGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	39	0.975	RNA PCR Primer, Index 1 (100% over 29bp)
ACTAATCCTAGCCCTAGCCCTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	35	0.8750000000000001	RNA PCR Primer, Index 1 (100% over 30bp)
AGCAGCATTGTACAGGGCTATGATGGAATTCTCGGGTGCCAAGGAACTCCA	32	0.8	RNA PCR Primer, Index 1 (100% over 28bp)
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	28	0.7000000000000001	RNA PCR Primer, Index 1 (100% over 29bp)
TAACAGTCTACAGCCATGGTCGTGGAATTCTCGGGTGCCAAGGAACTCCAG	26	0.65	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGTTTGTGCTGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	24	0.6	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTAACTTGTGAATGGAATTCTCGGGTGCCAAGGAACTCCA	24	0.6	RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCTACACTCTCAGCTGGAATTCTCGGGTGCCAAGGAACTCCA	24	0.6	RNA PCR Primer, Index 1 (100% over 28bp)
AACATTCAACGCTGTCGGTGAGTTGGAATTCTCGGGTGCCAAGGAACTCCA	22	0.5499999999999999	RNA PCR Primer, Index 1 (100% over 28bp)
AACCCGTAGATCCGATCTTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	22	0.5499999999999999	RNA PCR Primer, Index 1 (100% over 30bp)
TTTGAACCATCACTCGACTCCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	22	0.5499999999999999	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTTTAACCTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	21	0.525	RNA PCR Primer, Index 1 (100% over 29bp)
TCACAGTGAACCGGTCTCTTTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	20	0.5	RNA PCR Primer, Index 1 (100% over 28bp)
TCTTTGGTTATCTAGCTGTATGTTGGAATTCTCGGGTGCCAAGGAACTCCA	20	0.5	RNA PCR Primer, Index 1 (100% over 28bp)
CAACGGAATCCCAAAAGCAGCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	19	0.475	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGGTTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	18	0.44999999999999996	RNA PCR Primer, Index 1 (100% over 30bp)
TCACAGTGAACCGGTCTCTTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	18	0.44999999999999996	RNA PCR Primer, Index 1 (100% over 31bp)
AGAGGTAGTAGGTTGCATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 29bp)
TTCAAGTAATCCAGGATAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 30bp)
ACTAATCCTAGCCCTAGCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 31bp)
TCGGATCCGTCTGAGCTTGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 30bp)
TAAGGCACGCGGTGAATGCCATGGAATTCTCGGGTGCCAAGGAACTCCAGT	16	0.4	RNA PCR Primer, Index 1 (100% over 30bp)
TGAGGTAGGAGGTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	16	0.4	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTTTAACCTGTGTGGAATTCTCGGGTGCCAAGGAACTCCA	15	0.375	RNA PCR Primer, Index 1 (100% over 28bp)
TTTGAACCATCACTCGACTCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	15	0.375	RNA PCR Primer, Index 1 (100% over 30bp)
TGAGGTAGTAGATTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	15	0.375	RNA PCR Primer, Index 1 (100% over 30bp)
CTGGCCCTCTCTGCCCTTCCGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	15	0.375	RNA PCR Primer, Index 1 (100% over 29bp)
TCACAGTGAACCGGTCTCTTTATGGAATTCTCGGGTGCCAAGGAACTCCAG	15	0.375	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGTTTGTACAGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 30bp)
TGTAAACATCCTCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTCC	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 27bp)
ACTAATCCTAGCCCTAGCCCTACATGGAATTCTCGGGTGCCAAGGAACTCC	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 27bp)
AGCTACATTGTCTGCTGGGTTTCTGGAATTCTCGGGTGCCAAGGAACTCCA	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCCCGACTGGAAGCTGGAATTCTCGGGTGCCAAGGAACTCCA	13	0.325	RNA PCR Primer, Index 1 (100% over 28bp)
TTAAGGCACGCGGTGAATGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	13	0.325	RNA PCR Primer, Index 1 (100% over 31bp)
TCCCTGAGACCCTTTAACCTGTGATGGAATTCTCGGGTGCCAAGGAACTCC	12	0.3	RNA PCR Primer, Index 1 (100% over 27bp)
TCGGATCCGTCTGAGCTTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	12	0.3	RNA PCR Primer, Index 1 (100% over 31bp)
TGTAAACATCCCCGACTGGAATGGAATTCTCGGGTGCCAAGGAACTCCAGT	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 30bp)
TGTAAACATCCTTGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTCC	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 27bp)
TTCAAGTAATCCAGGATAGGCTTTGGAATTCTCGGGTGCCAAGGAACTCCA	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 28bp)
TGAGGTAGTAGGTTGTATGGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 30bp)
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 29bp)
TAACAGTCTACAGCCATGGTCGTTGGAATTCTCGGGTGCCAAGGAACTCCA	10	0.25	RNA PCR Primer, Index 1 (100% over 28bp)
CTAGCACCATCTGAAATCGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	10	0.25	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCCCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTCC	10	0.25	RNA PCR Primer, Index 1 (100% over 27bp)
TGAGGTAGTAGGTTGTGTGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	10	0.25	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGTTTGTGCTGTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 28bp)
TGAGGTAGTAGGTTGTATGGTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 28bp)
TTCACAGTGGCTAAGTTCTGCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 30bp)
TGTAAACATCCCCGACTGGAAGTGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
CTTTTTGCGGTCTGGGCTTGCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 30bp)
CTTTGGTTATCTAGCTGTATGATGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCTCGACTGGAAGTGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGATGAAGCACTGTAGCTCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
TTGTGCTTGATCTAACCATGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	8	0.2	RNA PCR Primer, Index 1 (100% over 30bp)
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
ATAAAGCTAGATAACCGAAAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
AACATTCAACGCTGTCGGTGAGTTTTGGAATTCTCGGGTGCCAAGGAACTC	8	0.2	RNA PCR Primer, Index 1 (100% over 26bp)
TACAGTACTGTGATAACTGAAGTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
TAGCTTATCAGACTGATGTTGATGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
CACCCGTAGAACCGACCTTGCGTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
TCACAGTGAACCGGTCTCTTTCTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
ATCATGATGGGCTCCTCGGTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCTCGACTGGAAGCTGGAATTCTCGGGTGCCAAGGAACTCCA	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 28bp)
AACCCGTAGATCCGATCTTGTGTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
AACCCGTAGATCCGAACTTGTGTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
CGCGACCTCAGATCAGATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACG	7	0.17500000000000002	RNA PCR Primer, Index 6 (100% over 34bp)
AGCTACATTGTCTGCTGGGTTTCTTGGAATTCTCGGGTGCCAAGGAACTCC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 27bp)
TTAAGGCACGCGGTGAATTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 33bp)
TAAGGCACGCGGTGAATGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 31bp)
TGAGGTAGTAGTTTGTGCTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 30bp)
TATGGCTTTTTATTCCTATGTGATGGAATTCTCGGGTGCCAAGGAACTCCA	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 28bp)
AGCTACATCTGGCTACTGGGTCTTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCCCGACTGGATGGAATTCTCGGGTGCCAAGGAACTCCAGTC	6	0.15	RNA PCR Primer, Index 1 (100% over 31bp)
TCTACAGTGCACGTGTCTCCAGTTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
ACTAATCCTAGCCCTAGCCCTATGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
AAGGGATTCTGATGTTGGTCACACTTGGAATTCTCGGGTGCCAAGGAACTC	6	0.15	RNA PCR Primer, Index 1 (100% over 26bp)
AATATAACACAGATGGCCTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	6	0.15	RNA PCR Primer, Index 1 (100% over 30bp)
CACAGCTCCCATCTCAGAACATGGAATTCTCGGGTGCCAAGGAACTCCAGT	6	0.15	RNA PCR Primer, Index 1 (100% over 30bp)
AAGCCCTTACCCCAAAAAGCATTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
TGGCTCAGTTCAGCAGGAACTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	6	0.15	RNA PCR Primer, Index 1 (100% over 31bp)
TACAGTACTGTGATAACTGAATTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
TNACAGTGAACCGGTCTCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	6	0.15	RNA PCR Primer, Index 1 (100% over 30bp)
CCCTGAGACCCTAACTTGTGATGGAATTCTCGGGTGCCAAGGAACTCCAGT	6	0.15	RNA PCR Primer, Index 1 (100% over 30bp)
ACTAATCCTAGCCCTAGCCCTACTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
TAGCACCATCTGAAATCGGTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	5	0.125	RNA PCR Primer, Index 1 (100% over 31bp)
ACTAATCCTAGCCCTAGCCCTACACTGGAATTCTCGGGTGCCAAGGAACTC	5	0.125	RNA PCR Primer, Index 1 (100% over 26bp)
TGAGGTAGTAGGTTGTGTGGTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TGCGGGGCTAGGGCTAACAGCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	5	0.125	RNA PCR Primer, Index 1 (100% over 30bp)
TGTCTGCCCGAGTGCCTGCCTCTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TATACAAGGGCAAGCTCTCTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
CTATACGACCTGCTGCCTTTCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCTACACTCTCAGTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
ACCGTGGCTTTCGATTGTTACTTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TGGAAGACTAGTGATTTTGTTGTTTGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
ACCATTCGTAGACGACCTGCTTCTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TCGGATCCGTCTGAGCTTGGATGGAATTCTCGGGTGCCAAGGAACTCCAGT	5	0.125	RNA PCR Primer, Index 1 (100% over 30bp)
AACATTCAACGCTGTCGGTGATGGAATTCTCGGGTGCCAAGGAACTCCAGT	5	0.125	RNA PCR Primer, Index 1 (100% over 30bp)
AATAATACATGGTTGATCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	5	0.125	RNA PCR Primer, Index 1 (100% over 30bp)
ACTGGACTTGGAGTCAGAAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TAGCACCATCTGAAATCGGTTATTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TCGGATCCGTCTGAGCTTGGCTATTGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
>>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	0.025	0.0	0.0	0.0
3	0.0	0.025	0.0	0.0	0.0
4	0.0	0.025	0.0	0.0	0.0
5	0.0	0.05	0.0	0.0	0.0
6	0.0	0.05	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	0.05	0.0	0.0	0.0
10	0.0	0.075	0.0	0.0	0.0
11	0.0	0.075	0.0	0.0	0.0
12	0.0	0.15	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	0.475	0.0	0.0	0.0
16	0.0	0.85	0.0	0.0	0.0
17	0.0	1.4	0.0	0.0	0.0
18	0.0	2.0	0.0	0.0	0.0
19	0.0	3.1	0.0	0.0	0.0
20	0.0	5.525	0.0	0.0	0.0
21	0.0	11.675	0.0	0.0	0.0
22	0.0	35.625	0.0	0.0	0.0
23	0.0	71.45	0.0	0.0	0.0
24	0.0	89.025	0.0	0.0	0.0
25	0.0	94.675	0.0	0.0	0.0
26	0.0	96.275	0.0	0.0	0.0
27	0.0	96.675	0.0	0.0	0.0
28	0.0	96.95	0.0	0.0	0.0
29	0.0	97.175	0.0	0.0	0.0
30	0.0	97.3	0.0	0.0	0.0
31	0.0	97.375	0.0	0.0	0.0
32	0.0	97.425	0.0	0.0	0.0
33	0.0	97.525	0.0	0.0	0.0
34	0.0	97.7	0.0	0.0	0.0
35	0.0	97.825	0.0	0.0	0.0
36	0.0	97.925	0.0	0.0	0.0
37	0.0	97.925	0.0	0.0	0.0
38	0.0	98.05	0.0	0.0	0.0
39	0.0	98.1	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	fail
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
GAGGTAG	80	0.0	45.544304	2
TCAAGTA	20	5.8554666E-4	45.544304	2
TTCAAGT	20	5.8554666E-4	45.544304	1
TAGCACC	20	5.8554666E-4	45.544304	1
CCCTGAG	25	3.0068217E-5	45.544304	2
TGAGGTA	75	0.0	45.544304	1
AGCACCA	20	5.8554666E-4	45.544304	2
CTTTGGT	45	1.9281288E-10	45.544304	2
TCTTTGG	45	1.9281288E-10	45.544304	1
TCACAGT	35	7.759627E-8	45.544304	1
CACAGTG	35	7.759627E-8	45.544304	2
TGTAAAC	25	3.0068217E-5	45.544304	1
GTAAACA	25	3.0068217E-5	45.544304	2
TCCCTGA	25	3.0068217E-5	45.544304	1
TGAGACC	25	3.246753E-5	44.975002	5
GTAGATT	20	6.2400557E-4	44.975002	8
ACAGTGA	35	8.606912E-8	44.975002	3
CTACACT	25	3.246753E-5	44.975002	11
ACCGGTC	35	8.606912E-8	44.975002	10
ATCCTAC	25	3.246753E-5	44.975002	8
>>END_MODULE
Read 2499981 spots for SRR34296817.sra
Written 2499981 spots for SRR34296817.sra
Read 2499981 spots for SRR34296817.sra
Written 2499981 spots for SRR34296817.sra
Read 2499981 spots for SRR34296817.sra
Written 2499981 spots for SRR34296817.sra
Read 2499982 spots for SRR34296817.sra
Written 2499982 spots for SRR34296817.sra
Read 2499981 spots for SRR34296817.sra
Written 2499981 spots for SRR34296817.sra
Read 2499981 spots for SRR34296817.sra
Written 2499981 spots for SRR34296817.sra
Read 2499981 spots for SRR34296817.sra
Written 2499981 spots for SRR34296817.sra
Read 2499981 spots for SRR34296817.sra
Written 2499981 spots for SRR34296817.sra
SRR ids: ['SRR34296817.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_6vzqrh05
SRR34296817.sra spots: 19999849
blocks: [[1, 2499981], [2499982, 4999962], [4999963, 7499943], [7499944, 9999924], [9999925, 12499905], [12499906, 14999886], [14999887, 17499867], [17499868, 19999849]]
SRR34296817 file size 3456192
SRR34296817 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 SRR34296817 SRR34296817_1.fastq
Input file:	SRR34296817_1.fastq
trimmed:	SRR34296817-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 09:20:24 2026 >> started

Thu Feb 19 09:20:30 2026 >> done (5.777s)
19999849 reads processed; of these:
       0 ( 0.00%) short reads filtered out after trimming by size control
     171 ( 0.00%) empty reads filtered out after trimming by size control
19999678 (100.00%) reads available; of these:
     418 ( 0.00%) trimmed reads available after processing
19999260 (100.00%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 50	     418	  0.00%
 51	19999260	100.00%
19999678 reads passed initial QC


criterion=sequence-density
sequence-density=98.01
sequence-density-rank=1
fanout-score=16.54
fanout-score-rank=1
prefix-density=98.25
prefix-fanout=16.5
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGAACTATCTGGGG


criterion=fanout-score
sequence-density=98.01
sequence-density-rank=1
fanout-score=16.54
fanout-score-rank=1
prefix-density=98.25
prefix-fanout=16.5
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGAACTATCTGGGG
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 TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGAACTATCTGGGG -o SRR34296817 -
Input file:	STDIN
trimmed:	SRR34296817-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGAACTATCTGGGG
-- 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 09:20:46 2026 >> started

Thu Feb 19 09:20:56 2026 >> done (9.278s)
19595644 reads processed; of these:
  421643 ( 2.15%) short reads filtered out after trimming by size control
     429 ( 0.00%) empty reads filtered out after trimming by size control
19173572 (97.85%) reads available; of these:
19072095 (99.47%) trimmed reads available after processing
  101477 ( 0.53%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  207508	  1.08%
 19	  535913	  2.80%
 20	 1202281	  6.27%
 21	 4523043	 23.59%
 22	 7040418	 36.72%
 23	 3593152	 18.74%
 24	 1201036	  6.26%
 25	  284040	  1.48%
 26	  101109	  0.53%
 27	   66320	  0.35%
 28	   49236	  0.26%
 29	   26721	  0.14%
 30	   21618	  0.11%
 31	   26516	  0.14%
 32	   36399	  0.19%
 33	   52704	  0.27%
 34	   18398	  0.10%
 35	   12770	  0.07%
 36	   10207	  0.05%
 37	   11962	  0.06%
 38	    6672	  0.03%
 39	    5544	  0.03%
 40	    7065	  0.04%
 41	    5141	  0.03%
 42	    4188	  0.02%
 43	    4246	  0.02%
 44	    4595	  0.02%
 45	    8403	  0.04%
 46	    1524	  0.01%
 47	    1044	  0.01%
 48	    2322	  0.01%
 49	       0	  0.00%
 50	       2	  0.00%
 51	  101475	  0.53%


criterion=sequence-density
sequence-density=9.44
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=10
prefix-density=0.00
prefix-fanout=1.0
sequence=TCTTTGGTTATCTAGCTGTATGAAA


criterion=fanout-score
sequence-density=0.79
sequence-density-rank=18
fanout-score=7.63
fanout-score-rank=1
prefix-density=5.98
prefix-fanout=1.0
sequence=TAGTAGGTTGTGTGGTTTT
                                 Started job on |	Feb 19 09:21:06
                             Started mapping on |	Feb 19 09:21:07
                                    Finished on |	Feb 19 09:22:21
       Mapping speed, Million of reads per hour |	952.42

                          Number of input reads |	19577606
                      Average input read length |	22
                                    UNIQUE READS:
                   Uniquely mapped reads number |	9032517
                        Uniquely mapped reads % |	46.14%
                          Average mapped length |	22.08
                       Number of splices: Total |	9567
            Number of splices: Annotated (sjdb) |	2283
                       Number of splices: GT/AG |	9399
                       Number of splices: GC/AG |	103
                       Number of splices: AT/AC |	0
               Number of splices: Non-canonical |	65
                      Mismatch rate per base, % |	0.11%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.47
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.09
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	9777174
             % of reads mapped to multiple loci |	49.94%
        Number of reads mapped to too many loci |	89209
             % of reads mapped to too many loci |	0.46%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	2.92%
                     % of reads unmapped: other |	0.55%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	767915	767915	767915
N_multimapping	9777174	9777174	9777174
N_noFeature	264504	288102	7349839
N_ambiguous	3356552	1977648	36545
UnstrandedReadsAssigned:5411461 PositiveStrandReadsAssigned:6766767 NegativeStrandReadsAssigned:1646133
Dataset is classified unstranded
MeadianReadLen=22 20thPercentileLength=21 echo kmer=19
SRR34296817 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: SRR34296817-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 19,577,606 reads, 2,197,719 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 871 rounds

 109283 SRR34296817.ke.tsv
  52636 SRR34296817.se.tsv
 161919 total
==> SRR34296817.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

==> SRR34296817.se.tsv <==
ENSMUSG00000102693	0
ENSMUSG00000064842	0
ENSMUSG00000051951	5
ENSMUSG00000102851	0
ENSMUSG00000103377	0
ENSMUSG00000104017	1
ENSMUSG00000103025	0
ENSMUSG00000089699	0
ENSMUSG00000103201	0
ENSMUSG00000103147	0
SRR34296817 completed mapping pipeline successfully
