Starting /dee2/code/volunteer_pipeline.sh SRR34296840
    current disk space = 265907960
    free memory = 200761680 
SRR34296840 SRAfilesize
1d2251dfab7031b70d55daa93fc0295b  SRR34296840.sra
SRR34296840.sra file validated
SRR34296840 is single end
SRR34296840 is conventional basespace
SRR34296840 read1 length is 51 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR34296840_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	33.19125	37.0	37.0	37.0	20.0	37.0
2	34.75525	37.0	37.0	37.0	20.0	37.0
3	35.1655	37.0	37.0	37.0	37.0	37.0
4	35.58	37.0	37.0	37.0	37.0	37.0
5	35.98225	37.0	37.0	37.0	37.0	37.0
6	35.926	37.0	37.0	37.0	37.0	37.0
7	36.02025	37.0	37.0	37.0	37.0	37.0
8	36.29475	37.0	37.0	37.0	37.0	37.0
9	35.7685	37.0	37.0	37.0	37.0	37.0
10	36.304	37.0	37.0	37.0	37.0	37.0
11	36.55775	37.0	37.0	37.0	37.0	37.0
12	36.488	37.0	37.0	37.0	37.0	37.0
13	36.40275	37.0	37.0	37.0	37.0	37.0
14	36.2545	37.0	37.0	37.0	37.0	37.0
15	36.47625	37.0	37.0	37.0	37.0	37.0
16	36.3715	37.0	37.0	37.0	37.0	37.0
17	36.5405	37.0	37.0	37.0	37.0	37.0
18	36.42125	37.0	37.0	37.0	37.0	37.0
19	36.589	37.0	37.0	37.0	37.0	37.0
20	36.61	37.0	37.0	37.0	37.0	37.0
21	36.66175	37.0	37.0	37.0	37.0	37.0
22	36.33	37.0	37.0	37.0	37.0	37.0
23	36.5745	37.0	37.0	37.0	37.0	37.0
24	36.593	37.0	37.0	37.0	37.0	37.0
25	36.639	37.0	37.0	37.0	37.0	37.0
26	36.50225	37.0	37.0	37.0	37.0	37.0
27	36.45825	37.0	37.0	37.0	37.0	37.0
28	36.36275	37.0	37.0	37.0	37.0	37.0
29	36.42075	37.0	37.0	37.0	37.0	37.0
30	36.61475	37.0	37.0	37.0	37.0	37.0
31	36.4915	37.0	37.0	37.0	37.0	37.0
32	36.48525	37.0	37.0	37.0	37.0	37.0
33	36.60875	37.0	37.0	37.0	37.0	37.0
34	36.636	37.0	37.0	37.0	37.0	37.0
35	36.5585	37.0	37.0	37.0	37.0	37.0
36	36.55675	37.0	37.0	37.0	37.0	37.0
37	36.466	37.0	37.0	37.0	37.0	37.0
38	35.946	37.0	37.0	37.0	37.0	37.0
39	36.1205	37.0	37.0	37.0	37.0	37.0
40	36.13775	37.0	37.0	37.0	37.0	37.0
41	36.1455	37.0	37.0	37.0	37.0	37.0
42	36.521	37.0	37.0	37.0	37.0	37.0
43	36.62925	37.0	37.0	37.0	37.0	37.0
44	36.55175	37.0	37.0	37.0	37.0	37.0
45	36.3825	37.0	37.0	37.0	37.0	37.0
46	36.4705	37.0	37.0	37.0	37.0	37.0
47	36.42225	37.0	37.0	37.0	37.0	37.0
48	36.57225	37.0	37.0	37.0	37.0	37.0
49	36.24775	37.0	37.0	37.0	37.0	37.0
50	36.22325	37.0	37.0	37.0	37.0	37.0
51	36.556	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
19	1.0
20	1.0
21	5.0
22	5.0
23	3.0
24	1.0
25	1.0
26	2.0
27	4.0
28	5.0
29	10.0
30	7.0
31	36.0
32	36.0
33	89.0
34	128.0
35	379.0
36	1672.0
37	1615.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	2.45	16.725	73.475	7.35
2	25.56031226391337	18.408461344749433	14.731805590531351	41.29942080080584
3	12.025	36.8	23.724999999999998	27.450000000000003
4	25.324999999999996	24.4	16.45	33.825
5	27.05	38.4	25.3	9.25
6	48.55	13.475000000000001	22.8	15.174999999999999
7	18.0	32.550000000000004	27.275	22.175
8	40.475	23.125	21.224999999999998	15.174999999999999
9	14.899999999999999	33.650000000000006	42.375	9.075
10	13.05	45.375	15.075	26.5
11	27.125	5.75	22.6	44.525
12	19.950000000000003	12.375	17.5	50.175000000000004
13	25.8	16.925	41.425	15.85
14	33.900000000000006	32.25	22.35	11.5
15	39.175	27.500000000000004	23.1	10.225
16	8.55	18.8	25.724999999999998	46.925
17	14.45	18.825	52.6	14.124999999999998
18	27.175	11.275	30.175	31.374999999999996
19	31.65	14.524999999999999	42.95	10.875
20	34.300000000000004	18.8	35.4	11.5
21	17.075000000000003	12.35	55.65	14.924999999999999
22	28.475	15.125	52.025	4.375
23	31.624999999999996	15.375	46.5	6.5
24	59.425	11.200000000000001	27.35	2.025
25	56.10000000000001	29.975	12.0	1.925
26	27.125	58.75	11.875	2.25
27	9.15	55.225	31.2	4.425
28	4.175	26.174999999999997	61.775000000000006	7.875
29	3.6249999999999996	7.9750000000000005	61.975	26.424999999999997
30	5.75	2.5250000000000004	49.725	42.0
31	11.35	1.225	43.925	43.5
32	33.425	0.975	23.175	42.425000000000004
33	65.925	1.125	10.174999999999999	22.775000000000002
34	81.27499999999999	1.275	8.5	8.95
35	67.85	2.025	24.325	5.800000000000001
36	51.525	2.625	35.575	10.274999999999999
37	44.95	4.875	20.325	29.849999999999998
38	24.025	10.45	6.5	59.025000000000006
39	11.375	30.925000000000004	2.325	55.375
40	11.35	60.224999999999994	1.55	26.875
41	30.575000000000003	58.85	1.0999999999999999	9.475
42	58.550000000000004	35.5	1.7500000000000002	4.2
43	55.425000000000004	37.425000000000004	1.55	5.6000000000000005
44	26.575	60.85	3.6249999999999996	8.95
45	8.75	56.325	6.775	28.15
46	3.75	27.575	24.075	44.6
47	2.25	11.175	36.35	50.224999999999994
48	4.1000000000000005	9.4	21.125	65.375
49	7.324999999999999	25.224999999999998	9.35	58.099999999999994
50	24.075	36.95	8.125	30.85
51	36.325	23.525	24.6	15.55
>>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	0.5
26	0.5
27	0.0
28	0.0
29	0.0
30	0.0
31	0.0
32	0.5
33	1.0
34	1.5
35	2.0
36	2.0
37	2.0
38	1.5
39	1.0
40	6.5
41	12.0
42	28.0
43	44.0
44	262.0
45	480.0
46	457.0
47	434.0
48	565.0
49	696.0
50	844.5
51	993.0
52	844.5
53	696.0
54	490.0
55	284.0
56	225.5
57	167.0
58	132.0
59	97.0
60	68.5
61	40.0
62	27.5
63	15.0
64	18.0
65	21.0
66	14.5
67	8.0
68	7.0
69	6.0
70	3.0
71	0.0
72	0.0
73	0.0
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	0.7250000000000001
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	30.7
#Duplication Level	Percentage of deduplicated	Percentage of total
1	74.3485342019544	22.825
2	9.120521172638437	5.6000000000000005
3	4.5602605863192185	4.2
4	2.44299674267101	3.0
5	1.6286644951140066	2.5
6	0.8957654723127036	1.6500000000000001
7	0.40716612377850164	0.8750000000000001
8	0.5700325732899023	1.4000000000000001
9	0.7328990228013029	2.025
>10	4.397394136807818	26.224999999999998
>50	0.5700325732899023	12.125
>100	0.32573289902280134	17.575
>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	251	6.275	RNA PCR Primer, Index 1 (100% over 30bp)
TCTTTGGTTATCTAGCTGTATGATGGAATTCTCGGGTGCCAAGGAACTCCA	191	4.775	RNA PCR Primer, Index 1 (100% over 28bp)
TCACAGTGAACCGGTCTCTTTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	132	3.3000000000000003	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTAACTTGTGATGGAATTCTCGGGTGCCAAGGAACTCCAG	129	3.225	RNA PCR Primer, Index 1 (100% over 29bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	95	2.375	RNA PCR Primer, Index 1 (100% over 29bp)
TCTTTGGTTATCTAGCTGTATTGGAATTCTCGGGTGCCAAGGAACTCCAGT	89	2.225	RNA PCR Primer, Index 1 (100% over 30bp)
TGAGGTAGTAGTTTGTACAGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	65	1.625	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGGTTGTATGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	64	1.6	RNA PCR Primer, Index 1 (100% over 29bp)
TCTTTGGTTATCTAGCTGTATGTGGAATTCTCGGGTGCCAAGGAACTCCAG	60	1.5	RNA PCR Primer, Index 1 (100% over 29bp)
TAAGGCACGCGGTGAATGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA	57	1.425	RNA PCR Primer, Index 1 (100% over 32bp)
TAGCACCATCTGAAATCGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	55	1.375	RNA PCR Primer, Index 1 (100% over 30bp)
TGAGGTAGTAGATTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	48	1.2	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCTACACTCTCAGCTTGGAATTCTCGGGTGCCAAGGAACTCC	44	1.0999999999999999	RNA PCR Primer, Index 1 (100% over 27bp)
TGAGGTAGTAGGTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	43	1.075	RNA PCR Primer, Index 1 (100% over 29bp)
AGCAGCATTGTACAGGGCTATGATGGAATTCTCGGGTGCCAAGGAACTCCA	40	1.0	RNA PCR Primer, Index 1 (100% over 28bp)
TCCCTGAGACCCTAACTTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	35	0.8750000000000001	RNA PCR Primer, Index 1 (100% over 31bp)
TCCCTGAGACCCTAACTTGTGAATGGAATTCTCGGGTGCCAAGGAACTCCA	34	0.8500000000000001	RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCTACACTCTCAGCTGGAATTCTCGGGTGCCAAGGAACTCCA	31	0.775	RNA PCR Primer, Index 1 (100% over 28bp)
AACCCGTAGATCCGATCTTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	28	0.7000000000000001	RNA PCR Primer, Index 1 (100% over 30bp)
TAGCACCATCTGAAATCGGTTATGGAATTCTCGGGTGCCAAGGAACTCCAG	28	0.7000000000000001	RNA PCR Primer, Index 1 (100% over 29bp)
TTTGAACCATCACTCGACTCCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	27	0.675	RNA PCR Primer, Index 1 (100% over 29bp)
TCACAGTGAACCGGTCTCTTTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	26	0.65	RNA PCR Primer, Index 1 (100% over 28bp)
TCGGATCCGTCTGAGCTTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	26	0.65	RNA PCR Primer, Index 1 (100% over 31bp)
TTCAAGTAATCCAGGATAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	24	0.6	RNA PCR Primer, Index 1 (100% over 30bp)
AACATTCAACGCTGTCGGTGAGTTGGAATTCTCGGGTGCCAAGGAACTCCA	23	0.575	RNA PCR Primer, Index 1 (100% over 28bp)
TGAGGTAGTAGTTTGTGCTGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	23	0.575	RNA PCR Primer, Index 1 (100% over 29bp)
TAACAGTCTACAGCCATGGTCGTGGAATTCTCGGGTGCCAAGGAACTCCAG	23	0.575	RNA PCR Primer, Index 1 (100% over 29bp)
TTAAGGCACGCGGTGAATGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	22	0.5499999999999999	RNA PCR Primer, Index 1 (100% over 31bp)
ACTAATCCTAGCCCTAGCCCTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	20	0.5	RNA PCR Primer, Index 1 (100% over 30bp)
TGAGGTAGTAGATTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	20	0.5	RNA PCR Primer, Index 1 (100% over 30bp)
TCTTTGGTTATCTAGCTGTATGTTGGAATTCTCGGGTGCCAAGGAACTCCA	19	0.475	RNA PCR Primer, Index 1 (100% over 28bp)
TCACAGTGAACCGGTCTCTTTATGGAATTCTCGGGTGCCAAGGAACTCCAG	19	0.475	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTAACTTGTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT	18	0.44999999999999996	RNA PCR Primer, Index 1 (100% over 30bp)
TGTAAACATCCCCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTCC	18	0.44999999999999996	RNA PCR Primer, Index 1 (100% over 27bp)
TTCACAGTGGCTAAGTTCTGCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	18	0.44999999999999996	RNA PCR Primer, Index 1 (100% over 30bp)
AGAGGTAGTAGGTTGCATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 29bp)
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 29bp)
AACCCGTAGATCCGATCTTGTGTGGAATTCTCGGGTGCCAAGGAACTCCAG	16	0.4	RNA PCR Primer, Index 1 (100% over 29bp)
CACCCGTAGAACCGACCTTGCGTGGAATTCTCGGGTGCCAAGGAACTCCAG	16	0.4	RNA PCR Primer, Index 1 (100% over 29bp)
ACTAATCCTAGCCCTAGCCCTACATGGAATTCTCGGGTGCCAAGGAACTCC	15	0.375	RNA PCR Primer, Index 1 (100% over 27bp)
CAACGGAATCCCAAAAGCAGCTGTGGAATTCTCGGGTGCCAAGGAACTCCA	15	0.375	RNA PCR Primer, Index 1 (100% over 28bp)
TCCCTGAGACCCTTTAACCTGTGTGGAATTCTCGGGTGCCAAGGAACTCCA	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 28bp)
TGAGGTAGTAGGTTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 30bp)
TGAGGTAGTAGTTTGTACAGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 30bp)
TCACAGTGAACCGGTCTCTTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 31bp)
TGTAAACATCCTTGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTCC	13	0.325	RNA PCR Primer, Index 1 (100% over 27bp)
TTCAAGTAATCCAGGATAGGCTTTGGAATTCTCGGGTGCCAAGGAACTCCA	13	0.325	RNA PCR Primer, Index 1 (100% over 28bp)
TCTACAGTGCACGTGTCTCCAGTTGGAATTCTCGGGTGCCAAGGAACTCCA	13	0.325	RNA PCR Primer, Index 1 (100% over 28bp)
TGAGGTAGGAGGTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	13	0.325	RNA PCR Primer, Index 1 (100% over 29bp)
TCGAGGAGCTCACAGTCTAGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	13	0.325	RNA PCR Primer, Index 1 (100% over 30bp)
TCCCTGAGACCCTTTAACCTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	13	0.325	RNA PCR Primer, Index 1 (100% over 29bp)
CTTTGGTTATCTAGCTGTATGATGGAATTCTCGGGTGCCAAGGAACTCCAG	13	0.325	RNA PCR Primer, Index 1 (100% over 29bp)
AGCTACATTGTCTGCTGGGTTTCTGGAATTCTCGGGTGCCAAGGAACTCCA	13	0.325	RNA PCR Primer, Index 1 (100% over 28bp)
TCACAGTGAACCGGTCTCTTTCTGGAATTCTCGGGTGCCAAGGAACTCCAG	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)
TGAGGTAGTAGGTTGTGTGGTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	12	0.3	RNA PCR Primer, Index 1 (100% over 28bp)
TGAGGTAGTAGGTTGTATGGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	12	0.3	RNA PCR Primer, Index 1 (100% over 30bp)
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	12	0.3	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGTTTGTGCTGTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 28bp)
ACTAATCCTAGCCCTAGCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 31bp)
TCCCTGAGACCCTAACTTGTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	10	0.25	RNA PCR Primer, Index 1 (100% over 29bp)
ATCATGATGGGCTCCTCGGTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	10	0.25	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCTCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTCC	10	0.25	RNA PCR Primer, Index 1 (100% over 27bp)
AACATTCAACGCTGTCGGTGAGTTTTGGAATTCTCGGGTGCCAAGGAACTC	10	0.25	RNA PCR Primer, Index 1 (100% over 26bp)
TGTAAACATCCCCGACTGGAATGGAATTCTCGGGTGCCAAGGAACTCCAGT	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 30bp)
TAACAGTCTACAGCCATGGTCGTTGGAATTCTCGGGTGCCAAGGAACTCCA	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCTCGACTGGAAGCTGGAATTCTCGGGTGCCAAGGAACTCCA	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 28bp)
TAAGGCACGCGGTGAATGCCATGGAATTCTCGGGTGCCAAGGAACTCCAGT	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 30bp)
TGTAAACATCCCCGACTGGATGGAATTCTCGGGTGCCAAGGAACTCCAGTC	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 31bp)
ATAAAGCTAGATAACCGAAAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTTTAACCTGTGATGGAATTCTCGGGTGCCAAGGAACTCC	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 27bp)
TTTGAACCATCACTCGACTCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 30bp)
AACATTCAACGCTGTCGGTGAGTTTGGAATTCTCGGGTGCCAAGGAACTCC	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 27bp)
TCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCA	8	0.2	No Hit
TCCCTGAGACCCTAACTTGTGAAATGGAATTCTCGGGTGCCAAGGAACTCC	8	0.2	RNA PCR Primer, Index 1 (100% over 27bp)
CTAGCACCATCTGAAATCGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGGTTGTGTGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCCCGACTGGAAGTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCCCGACTGGAAGCTGGAATTCTCGGGTGCCAAGGAACTCCA	8	0.2	RNA PCR Primer, Index 1 (100% over 28bp)
TGAGGTAGTAGGTTGTATAGTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	8	0.2	RNA PCR Primer, Index 1 (100% over 28bp)
TTGTGCTTGATCTAACCATGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 30bp)
CAACGGAATCCCAAAAGCAGCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 30bp)
TATGCAAGGGCAAGCTCTCTTCTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
AGCTACATTGTCTGCTGGGTTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
CTTTTTGCGGTCTGGGCTTGCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 30bp)
TGAGATGAAGCACTGTAGCTCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGGTTGTATGGTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
TTCACAGTGGCTAAGTTCTGTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	6	0.15	RNA PCR Primer, Index 1 (100% over 31bp)
AACCCGTAGATCCGAACTTGTGTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
ACCGTGGCTTTCGATTGTTACTTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
TATTGCACTCGTCCCGGCCTCCTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
TCTGGCTCCGTGTCTTCACTCCCTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
TCACAGTGAACCGGTCTCTTTTATGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
GCCTGCTGGGGTGGAACCTGGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
CCCTGAGACCCTAACTTGTGATGGAATTCTCGGGTGCCAAGGAACTCCAGT	6	0.15	RNA PCR Primer, Index 1 (100% over 30bp)
TAGCACCATCTGAAATCGGTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	5	0.125	RNA PCR Primer, Index 1 (100% over 31bp)
TGAGGTAGTAGGTTGTGTGGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	5	0.125	RNA PCR Primer, Index 1 (100% over 30bp)
TAAAGCTAGATAACCGAAAGTATGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGGTTGTATGGTTATGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TCGTACCGTGAGTAATAATGCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	5	0.125	RNA PCR Primer, Index 1 (100% over 30bp)
TCAGTGCACTACAGAACTTTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGTTTGTACAGTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
AGCTACATCTGGCTACTGGGTCTCTGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
CTATACGACCTGCTGCCTTTCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
AATATAACACAGATGGCCTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	5	0.125	RNA PCR Primer, Index 1 (100% over 30bp)
TCACAGTGAACCGGTCTCTTTAATGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TGAGGTAGTAGTTTGTGCTGTTATGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
AAGGAGCTTACAATCTAGCTGGTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TAGCACCATCTGAAATCGGTTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
CACCCGTAGAACCGACCTTGCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	5	0.125	RNA PCR Primer, Index 1 (100% over 30bp)
AACCCGTAGATCCGATCTTGTGATGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TGGCTCAGTTCAGCAGGAACTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	5	0.125	RNA PCR Primer, Index 1 (100% over 31bp)
AACATTCATTGCTGTCGGTGGGTTTGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
TCACAGTGAACCGGTCTCTTTCTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TAGCTTATCAGACTGATGTTGATGGAATTCTCGGGTGCCAAGGAACTCCAG	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	0.025	0.0	0.0	0.0
7	0.0	0.025	0.0	0.0	0.0
8	0.0	0.025	0.0	0.0	0.0
9	0.0	0.025	0.0	0.0	0.0
10	0.0	0.025	0.0	0.0	0.0
11	0.0	0.05	0.0	0.0	0.0
12	0.0	0.075	0.0	0.0	0.0
13	0.0	0.175	0.0	0.0	0.0
14	0.0	0.25	0.0	0.0	0.0
15	0.0	0.475	0.0	0.0	0.0
16	0.0	0.675	0.0	0.0	0.0
17	0.0	1.175	0.0	0.0	0.0
18	0.0	2.025	0.0	0.0	0.0
19	0.0	3.025	0.0	0.0	0.0
20	0.0	5.75	0.0	0.0	0.0
21	0.0	11.75	0.0	0.0	0.0
22	0.0	34.4	0.0	0.0	0.0
23	0.0	69.075	0.0	0.0	0.0
24	0.0	88.575	0.0	0.0	0.0
25	0.0	94.625	0.0	0.0	0.0
26	0.0	96.075	0.0	0.0	0.0
27	0.0	96.675	0.0	0.0	0.0
28	0.0	96.8	0.0	0.0	0.0
29	0.0	97.075	0.0	0.0	0.0
30	0.0	97.15	0.0	0.0	0.0
31	0.0	97.275	0.0	0.0	0.0
32	0.0	97.325	0.0	0.0	0.0
33	0.0	97.375	0.0	0.0	0.0
34	0.0	97.675	0.0	0.0	0.0
35	0.0	97.825	0.0	0.0	0.0
36	0.0	97.825	0.0	0.0	0.0
37	0.0	97.825	0.0	0.0	0.0
38	0.0	97.925	0.0	0.0	0.0
39	0.0	97.975	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	fail
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
ACAGTGA	65	0.0	45.000004	3
ACCGGTC	65	0.0	45.000004	10
AACCGGT	65	0.0	45.000004	9
GGTCTCT	65	0.0	45.000004	13
GAACCGG	65	0.0	45.000004	8
GTCTCTT	65	0.0	45.000004	14
AGTGAAC	65	0.0	45.000004	5
TCTCTTT	65	0.0	45.000004	15
GTGAACC	65	0.0	45.000004	6
CGGTCTC	65	0.0	45.000004	12
TGAACCG	65	0.0	45.000004	7
CAGTGAA	65	0.0	45.000004	4
CCGGTCT	65	0.0	45.000004	11
CTGAGCT	20	6.222983E-4	45.0	11
CCTAACT	25	3.236105E-5	45.0	11
CTCTTTT	50	1.0913936E-11	45.0	16
GAGCTTG	20	6.222983E-4	45.0	13
GGATCCG	20	6.222983E-4	45.0	3
CCGTCTG	20	6.222983E-4	45.0	7
TCGGATC	20	6.222983E-4	45.0	1
>>END_MODULE
Read 2032644 spots for SRR34296840.sra
Written 2032644 spots for SRR34296840.sra
Read 2032644 spots for SRR34296840.sra
Written 2032644 spots for SRR34296840.sra
Read 2032644 spots for SRR34296840.sra
Written 2032644 spots for SRR34296840.sra
Read 2032644 spots for SRR34296840.sra
Written 2032644 spots for SRR34296840.sra
Read 2032644 spots for SRR34296840.sra
Written 2032644 spots for SRR34296840.sra
Read 2032644 spots for SRR34296840.sra
Written 2032644 spots for SRR34296840.sra
Read 2032649 spots for SRR34296840.sra
Written 2032649 spots for SRR34296840.sra
Read 2032644 spots for SRR34296840.sra
Written 2032644 spots for SRR34296840.sra
SRR ids: ['SRR34296840.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_wfeqfilj
SRR34296840.sra spots: 16261157
blocks: [[1, 2032644], [2032645, 4065288], [4065289, 6097932], [6097933, 8130576], [8130577, 10163220], [10163221, 12195864], [12195865, 14228508], [14228509, 16261157]]
SRR34296840 file size 2808060
SRR34296840 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 SRR34296840 SRR34296840_1.fastq
Input file:	SRR34296840_1.fastq
trimmed:	SRR34296840-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 08:52:09 2026 >> started

Thu Feb 19 08:52:13 2026 >> done (3.975s)
16261157 reads processed; of these:
       0 ( 0.00%) short reads filtered out after trimming by size control
     117 ( 0.00%) empty reads filtered out after trimming by size control
16261040 (100.00%) reads available; of these:
     296 ( 0.00%) trimmed reads available after processing
16260744 (100.00%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 50	     296	  0.00%
 51	16260744	100.00%
16261040 reads passed initial QC


criterion=sequence-density
sequence-density=98.17
sequence-density-rank=1
fanout-score=16.98
fanout-score-rank=1
prefix-density=98.40
prefix-fanout=16.9
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGTAGCCATCTGGGG


criterion=fanout-score
sequence-density=98.17
sequence-density-rank=1
fanout-score=16.98
fanout-score-rank=1
prefix-density=98.40
prefix-fanout=16.9
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGTAGCCATCTGGGG
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 TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGTAGCCATCTGGGG -o SRR34296840 -
Input file:	STDIN
trimmed:	SRR34296840-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGTAGCCATCTGGGG
-- 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 08:52:27 2026 >> started

Thu Feb 19 08:52:33 2026 >> done (6.630s)
15932534 reads processed; of these:
  283680 ( 1.78%) short reads filtered out after trimming by size control
     348 ( 0.00%) empty reads filtered out after trimming by size control
15648506 (98.22%) reads available; of these:
15578136 (99.55%) trimmed reads available after processing
   70370 ( 0.45%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  159408	  1.02%
 19	  441480	  2.82%
 20	  962891	  6.15%
 21	 3570722	 22.82%
 22	 5792644	 37.02%
 23	 3013957	 19.26%
 24	 1014449	  6.48%
 25	  238408	  1.52%
 26	   85257	  0.54%
 27	   55824	  0.36%
 28	   42323	  0.27%
 29	   21787	  0.14%
 30	   17455	  0.11%
 31	   21018	  0.13%
 32	   27088	  0.17%
 33	   41643	  0.27%
 34	   12631	  0.08%
 35	    8295	  0.05%
 36	    7037	  0.04%
 37	    8778	  0.06%
 38	    5021	  0.03%
 39	    3920	  0.03%
 40	    5126	  0.03%
 41	    3888	  0.02%
 42	    3026	  0.02%
 43	    2797	  0.02%
 44	    2969	  0.02%
 45	    5385	  0.03%
 46	     916	  0.01%
 47	     591	  0.00%
 48	    1402	  0.01%
 49	       0	  0.00%
 50	       2	  0.00%
 51	   70368	  0.45%


criterion=sequence-density
sequence-density=9.12
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=0.74
sequence-density-rank=20
fanout-score=7.76
fanout-score-rank=1
prefix-density=5.70
prefix-fanout=1.0
sequence=GTAGTAGGTTGCATAGTTT
                                 Started job on |	Feb 19 08:52:42
                             Started mapping on |	Feb 19 08:52:42
                                    Finished on |	Feb 19 08:53:30
       Mapping speed, Million of reads per hour |	1198.28

                          Number of input reads |	15977012
                      Average input read length |	22
                                    UNIQUE READS:
                   Uniquely mapped reads number |	7466526
                        Uniquely mapped reads % |	46.73%
                          Average mapped length |	22.05
                       Number of splices: Total |	6834
            Number of splices: Annotated (sjdb) |	1940
                       Number of splices: GT/AG |	6740
                       Number of splices: GC/AG |	57
                       Number of splices: AT/AC |	1
               Number of splices: Non-canonical |	36
                      Mismatch rate per base, % |	0.10%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.61
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.00
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	7908774
             % of reads mapped to multiple loci |	49.50%
        Number of reads mapped to too many loci |	64261
             % of reads mapped to too many loci |	0.40%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	2.86%
                     % of reads unmapped: other |	0.51%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	601712	601712	601712
N_multimapping	7908774	7908774	7908774
N_noFeature	208708	227345	6059596
N_ambiguous	2781007	1622847	28601
UnstrandedReadsAssigned:4476811 PositiveStrandReadsAssigned:5616334 NegativeStrandReadsAssigned:1378329
Dataset is classified unstranded
MeadianReadLen=22 20thPercentileLength=21 echo kmer=19
SRR34296840 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: SRR34296840-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 15,977,012 reads, 1,817,341 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 983 rounds

 109283 SRR34296840.ke.tsv
  52636 SRR34296840.se.tsv
 161919 total
==> SRR34296840.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

==> SRR34296840.se.tsv <==
ENSMUSG00000102693	0
ENSMUSG00000064842	0
ENSMUSG00000051951	3
ENSMUSG00000102851	0
ENSMUSG00000103377	0
ENSMUSG00000104017	0
ENSMUSG00000103025	0
ENSMUSG00000089699	0
ENSMUSG00000103201	0
ENSMUSG00000103147	0
SRR34296840 completed mapping pipeline successfully
