Starting /dee2/code/volunteer_pipeline.sh SRR32454949
    current disk space = 1193258772
    free memory = 199986172 
SRR32454949 SRAfilesize
6664f8c0e404c58f07d25488b6905184  SRR32454949.sra
SRR32454949.sra file validated
SRR32454949 is single end
SRR32454949 is conventional basespace
SRR32454949 read1 length is 51 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR32454949_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	55
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	36.10025	37.0	37.0	37.0	37.0	37.0
2	36.116	37.0	37.0	37.0	37.0	37.0
3	36.254	37.0	37.0	37.0	37.0	37.0
4	36.4445	37.0	37.0	37.0	37.0	37.0
5	36.3735	37.0	37.0	37.0	37.0	37.0
6	36.4835	37.0	37.0	37.0	37.0	37.0
7	36.4285	37.0	37.0	37.0	37.0	37.0
8	36.5045	37.0	37.0	37.0	37.0	37.0
9	36.0675	37.0	37.0	37.0	37.0	37.0
10	36.549	37.0	37.0	37.0	37.0	37.0
11	36.482	37.0	37.0	37.0	37.0	37.0
12	36.483	37.0	37.0	37.0	37.0	37.0
13	36.39	37.0	37.0	37.0	37.0	37.0
14	36.538	37.0	37.0	37.0	37.0	37.0
15	36.325	37.0	37.0	37.0	37.0	37.0
16	36.221	37.0	37.0	37.0	37.0	37.0
17	36.2975	37.0	37.0	37.0	37.0	37.0
18	36.09	37.0	37.0	37.0	37.0	37.0
19	36.173	37.0	37.0	37.0	37.0	37.0
20	36.17	37.0	37.0	37.0	37.0	37.0
21	36.2245	37.0	37.0	37.0	37.0	37.0
22	36.415	37.0	37.0	37.0	37.0	37.0
23	36.306	37.0	37.0	37.0	37.0	37.0
24	36.4765	37.0	37.0	37.0	37.0	37.0
25	36.405	37.0	37.0	37.0	37.0	37.0
26	36.284	37.0	37.0	37.0	37.0	37.0
27	36.2625	37.0	37.0	37.0	37.0	37.0
28	36.2365	37.0	37.0	37.0	37.0	37.0
29	36.3455	37.0	37.0	37.0	37.0	37.0
30	36.261	37.0	37.0	37.0	37.0	37.0
31	36.4285	37.0	37.0	37.0	37.0	37.0
32	36.2695	37.0	37.0	37.0	37.0	37.0
33	36.27	37.0	37.0	37.0	37.0	37.0
34	36.318	37.0	37.0	37.0	37.0	37.0
35	36.075	37.0	37.0	37.0	37.0	37.0
36	35.8485	37.0	37.0	37.0	37.0	37.0
37	36.214	37.0	37.0	37.0	37.0	37.0
38	36.1665	37.0	37.0	37.0	37.0	37.0
39	36.041	37.0	37.0	37.0	37.0	37.0
40	36.147	37.0	37.0	37.0	37.0	37.0
41	36.1375	37.0	37.0	37.0	37.0	37.0
42	36.142	37.0	37.0	37.0	37.0	37.0
43	36.0175	37.0	37.0	37.0	37.0	37.0
44	36.1055	37.0	37.0	37.0	37.0	37.0
45	36.0155	37.0	37.0	37.0	37.0	37.0
46	36.03	37.0	37.0	37.0	37.0	37.0
47	35.722	37.0	37.0	37.0	37.0	37.0
48	35.9135	37.0	37.0	37.0	37.0	37.0
49	35.987	37.0	37.0	37.0	37.0	37.0
50	35.6895	37.0	37.0	37.0	37.0	37.0
51	35.588	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
23	1.0
24	2.0
25	7.0
26	9.0
27	11.0
28	22.0
29	28.0
30	42.0
31	68.0
32	55.0
33	76.0
34	89.0
35	225.0
36	1750.0
37	1615.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	53.97542011537497	24.78053674441936	10.283421118635566	10.960622021570103
2	30.2	10.274999999999999	6.4	53.125
3	20.474999999999998	47.5	5.75	26.275
4	25.75	7.575	46.800000000000004	19.875
5	38.7	7.825	33.7	19.775000000000002
6	61.675000000000004	4.675	12.65	21.0
7	62.2	8.9	10.775	18.125
8	22.475	9.775	54.87499999999999	12.875
9	65.825	8.450000000000001	10.775	14.95
10	64.4	9.4	12.875	13.325000000000001
11	23.025000000000002	4.55	50.949999999999996	21.475
12	22.8	10.8	53.65	12.75
13	17.325	8.85	24.625	49.2
14	26.875	54.225	12.049999999999999	6.8500000000000005
15	67.625	11.4	14.725	6.25
16	20.825	14.875	58.3	6.0
17	59.699999999999996	13.65	20.05	6.6000000000000005
18	57.15	15.15	18.75	8.95
19	15.525	14.6	61.775000000000006	8.1
20	11.25	50.74999999999999	27.900000000000002	10.100000000000001
21	50.425	19.0	18.325	12.25
22	21.525	45.225	21.675	11.575000000000001
23	20.925	44.85	20.8	13.425
24	21.75	11.1	53.425	13.725000000000001
25	22.15	3.5000000000000004	59.62499999999999	14.725
26	24.099999999999998	5.025	18.65	52.225
27	23.474999999999998	4.825	51.575	20.125
28	28.775000000000002	6.25	12.25	52.725
29	60.675000000000004	10.274999999999999	9.2	19.85
30	21.675	11.225	9.925	57.175
31	25.124999999999996	15.024999999999999	21.425	38.425
32	34.925	17.7	32.1	15.275
33	59.724999999999994	19.55	8.75	11.975
34	48.575	35.725	6.4	9.3
35	18.175	62.075	7.675	12.075
36	13.900000000000002	48.1	24.125	13.875000000000002
37	12.425	19.675	49.025	18.875
38	9.025	17.424999999999997	40.475	33.074999999999996
39	8.625	16.55	27.650000000000002	47.175
40	12.475	12.7	35.6	39.225
41	25.8	14.799999999999999	14.35	45.050000000000004
42	54.37499999999999	14.224999999999998	9.15	22.25
43	54.55	14.325	11.425	19.7
44	38.925	15.725	24.25	21.099999999999998
45	26.55	16.950000000000003	34.875	21.625
46	32.800000000000004	14.725	12.775	39.7
47	6.75	19.175	10.100000000000001	63.975
48	4.5249999999999995	34.225	9.575	51.675000000000004
49	5.4	57.99999999999999	12.65	23.95
50	19.400000000000002	47.025	14.174999999999999	19.400000000000002
51	44.275	24.349999999999998	12.825000000000001	18.55
>>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	0.5
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	0.5
37	1.0
38	0.5
39	0.0
40	0.0
41	0.0
42	0.0
43	0.0
44	0.5
45	1.0
46	7.0
47	13.0
48	25.0
49	37.0
50	121.0
51	205.0
52	679.5
53	1154.0
54	1200.5
55	1247.0
56	978.5
57	710.0
58	518.5
59	327.0
60	240.0
61	153.0
62	116.5
63	80.0
64	58.5
65	37.0
66	24.5
67	12.0
68	16.0
69	20.0
70	10.5
71	1.0
72	0.5
73	0.0
74	0.0
75	0.5
76	1.0
77	0.5
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	0.325
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	0.0
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	25.4
#Duplication Level	Percentage of deduplicated	Percentage of total
1	68.99606299212599	17.525
2	14.468503937007874	7.35
3	4.133858267716536	3.15
4	2.3622047244094486	2.4
5	1.3779527559055118	1.7500000000000002
6	0.6889763779527559	1.05
7	1.279527559055118	2.275
8	0.4921259842519685	1.0
9	0.5905511811023622	1.35
>10	4.822834645669291	22.75
>50	0.39370078740157477	6.15
>100	0.39370078740157477	33.25
>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
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAAG	457	11.425	No Hit
GCATGGGTGGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAAG	411	10.274999999999999	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCTGGAATTCTCGGGTGCCAAGG	255	6.375	Illumina Small RNA Adapter 2 (100% over 21bp)
GCATGGGTGGTTCAGTGGTAGAATTCTCGCTGGAATTCTCGGGTGCCAAGG	207	5.175	Illumina Small RNA Adapter 2 (100% over 21bp)
CGCGACCTCAGATTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCA	80	2.0	RNA PCR Primer, Index 13 (97% over 38bp)
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGTGGAATTCTCGGGTGCCAAG	60	1.5	No Hit
AGGGCTGGGTCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCATA	55	1.375	RNA PCR Primer, Index 25 (97% over 40bp)
AGAAGCCCGGCTCGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTC	51	1.275	RNA PCR Primer, Index 13 (97% over 37bp)
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGCTGGAATTCTCGGGTGCCAA	47	1.175	No Hit
CGCGACCTCAGATCAGACGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA	34	0.8500000000000001	RNA PCR Primer, Index 1 (100% over 32bp)
AGGGCAAAAGCTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAC	32	0.8	RNA PCR Primer, Index 5 (100% over 35bp)
AGAAGCCCGGCTCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCA	32	0.8	RNA PCR Primer, Index 13 (97% over 38bp)
GCATTGTGGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAAGG	31	0.775	Illumina Small RNA Adapter 2 (100% over 21bp)
GACTCTTAGCGGTGGATTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACA	30	0.75	RNA PCR Primer, Index 1 (100% over 34bp)
AGGGCTGGGTCGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCAT	29	0.7250000000000001	RNA PCR Primer, Index 25 (97% over 39bp)
AGGGCAAAAGCTCGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACT	28	0.7000000000000001	RNA PCR Primer, Index 8 (100% over 36bp)
TCCCTGTGGTCTAGTGGTTAGGATTCGGCGTGGAATTCTCGGGTGCCAAGG	28	0.7000000000000001	Illumina Small RNA Adapter 2 (100% over 21bp)
GTTTCCGTAGTGTAGTGGTTATCACGTTCGCCTGGAATTCTCGGGTGCCAA	27	0.675	No Hit
AGCAGGACGGTGGCCATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAC	26	0.65	RNA PCR Primer, Index 5 (100% over 35bp)
GCATTGGTTGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAAG	25	0.625	No Hit
GACTCTTAGCGGTGGATCACTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	25	0.625	RNA PCR Primer, Index 1 (100% over 31bp)
GGGCTGGAGAGATGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACA	25	0.625	RNA PCR Primer, Index 1 (100% over 34bp)
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCTGGAATTCTCGGGTGCCAAGG	23	0.575	Illumina Small RNA Adapter 2 (100% over 21bp)
AGAAGCCGGCGGGAGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAC	23	0.575	RNA PCR Primer, Index 5 (100% over 35bp)
GCATGGGTTGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAAG	23	0.575	No Hit
ATGGGTGGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAAGGA	22	0.5499999999999999	RNA PCR Primer, Index 1 (100% over 22bp)
AGCGCCCGTCCGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCA	21	0.525	RNA PCR Primer, Index 13 (97% over 38bp)
TCCCTGTGGTCTAGTGGTTAGGATTCGGCGCTGGAATTCTCGGGTGCCAAG	21	0.525	No Hit
CGGCGCGACTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCATATC	20	0.5	RNA PCR Primer, Index 25 (97% over 42bp)
AGAAGCCCGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCATA	19	0.475	RNA PCR Primer, Index 25 (97% over 40bp)
CGCGACCTCAGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTC	17	0.42500000000000004	RNA PCR Primer, Index 13 (97% over 37bp)
CGCGACCTCAGATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCAT	15	0.375	RNA PCR Primer, Index 25 (97% over 39bp)
GCCCGGATAGCTCAGTCGGTAGAGCATCAGATGGAATTCTCGGGTGCCAAG	15	0.375	No Hit
GTGCTGTAGGCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTC	14	0.35000000000000003	RNA PCR Primer, Index 13 (97% over 37bp)
GGTGCTGTAGGCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACT	14	0.35000000000000003	RNA PCR Primer, Index 8 (100% over 36bp)
AGAAGCCCGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCAT	13	0.325	RNA PCR Primer, Index 25 (97% over 39bp)
AAGCCCGGCTCGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCAT	13	0.325	RNA PCR Primer, Index 25 (97% over 39bp)
GACTCTTAGCGGTGGATCACTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	13	0.325	RNA PCR Primer, Index 1 (100% over 30bp)
AGCCCGGCTCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCATAT	12	0.3	RNA PCR Primer, Index 25 (97% over 41bp)
GGCTGGTCCGAAGGTAGTGAGTTATCTCAATTGGAATTCTCGGGTGCCAAG	12	0.3	No Hit
AGCGCCCGTCCGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCAT	12	0.3	RNA PCR Primer, Index 25 (97% over 39bp)
TTCCGGAGAGGGAGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACT	12	0.3	RNA PCR Primer, Index 8 (100% over 36bp)
GCATTGTGGTTCAGTGGTAGAATTCTCGCTGGAATTCTCGGGTGCCAAGGA	12	0.3	RNA PCR Primer, Index 1 (100% over 22bp)
GCATGGGTTGTTCAGTGGTAGAATTCTCGCTGGAATTCTCGGGTGCCAAGG	12	0.3	Illumina Small RNA Adapter 2 (100% over 21bp)
AAGGGCCCCGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCATAT	11	0.27499999999999997	RNA PCR Primer, Index 25 (97% over 41bp)
AGCGCCCGTCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCATA	11	0.27499999999999997	RNA PCR Primer, Index 25 (97% over 40bp)
GCATGGGTGGTTCAGTGGTAGAATTCTCGTGGAATTCTCGGGTGCCAAGGA	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 22bp)
AGCGCCCGTCCGCGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTC	10	0.25	RNA PCR Primer, Index 13 (97% over 37bp)
CGCGGCGCCTCGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTC	10	0.25	RNA PCR Primer, Index 13 (97% over 37bp)
GACTCTTAGCGGTGGATCACTCGGCTGGAATTCTCGGGTGCCAAGGAACTC	10	0.25	RNA PCR Primer, Index 1 (100% over 26bp)
GTGCTGTAGGCTTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCA	10	0.25	RNA PCR Primer, Index 13 (97% over 38bp)
ATTCCGGAGAGGGAGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAC	10	0.25	RNA PCR Primer, Index 5 (100% over 35bp)
GACTCTTAGCGGTGGATCATGGAATTCTCGGGTGCCAAGGAACTCCAGTCA	10	0.25	RNA PCR Primer, Index 1 (100% over 32bp)
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGCTTGGAATTCTCGGGTGCCA	10	0.25	No Hit
AGGGCTGGGTCGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCA	10	0.25	RNA PCR Primer, Index 13 (97% over 38bp)
ACTCTTAGCGGTGGATCACTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	10	0.25	RNA PCR Primer, Index 1 (100% over 31bp)
GCATTGGTTGTTCAGTGGTAGAATTCTCGCTGGAATTCTCGGGTGCCAAGG	10	0.25	Illumina Small RNA Adapter 2 (100% over 21bp)
TCCCTGGTCTAGTGGTTAGGATTCGGCGCTGGAATTCTCGGGTGCCAAGGA	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 22bp)
AAAGGGGGGCGGTCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTC	9	0.22499999999999998	RNA PCR Primer, Index 13 (97% over 37bp)
TCCCTGGTCTAGTGGTTAGGATTCGGCGTGGAATTCTCGGGTGCCAAGGAA	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 23bp)
AAGCCCGGCTCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCATA	9	0.22499999999999998	RNA PCR Primer, Index 25 (97% over 40bp)
GGGCTGGAGAGATGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAC	9	0.22499999999999998	RNA PCR Primer, Index 5 (100% over 35bp)
GGGTGCTGTAGGCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAC	9	0.22499999999999998	RNA PCR Primer, Index 5 (100% over 35bp)
GACTCTTAGCGGTGGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC	8	0.2	RNA PCR Primer, Index 1 (100% over 33bp)
GCATGGGTGGTTCAGTGGTAGAATTCTCGCCTTGGAATTCTCGGGTGCCAA	8	0.2	No Hit
GGCTGGTCCGAAGGTAGTGAGTTATCTCAATGGAATTCTCGGGTGCCAAGG	8	0.2	Illumina Small RNA Adapter 2 (100% over 21bp)
AAAGCGGGGCCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCAT	8	0.2	RNA PCR Primer, Index 25 (97% over 39bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGTGGAATTCTCGGGTGCCAAGGA	8	0.2	RNA PCR Primer, Index 1 (100% over 22bp)
GTTTCCGTAGTGTAGTGGTTATCACGCTCGCCTGGAATTCTCGGGTGCCAA	7	0.17500000000000002	No Hit
AGGGGGCCGCCCTCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACT	7	0.17500000000000002	RNA PCR Primer, Index 8 (100% over 36bp)
CGCGACCTCAGATCAGACGTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 31bp)
AGCCCGGCTCGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCATA	7	0.17500000000000002	RNA PCR Primer, Index 25 (97% over 40bp)
CGCGACCTCAGATCAGATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACA	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 34bp)
GGTGCTGTAGGCTTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTC	7	0.17500000000000002	RNA PCR Primer, Index 13 (97% over 37bp)
GCCCGGCTAGCTCAGTCGGTAGAGCATGAGACTGGAATTCTCGGGTGCCAA	7	0.17500000000000002	No Hit
AGAAGCCGGCGGGAGCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 33bp)
ACTCTTAGCGGTGGATTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAC	7	0.17500000000000002	RNA PCR Primer, Index 5 (100% over 35bp)
GCCCGGATAGCTCAGTCGGTAGAGCATCAGACTGGAATTCTCGGGTGCCAA	7	0.17500000000000002	No Hit
AAGCCCGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCATAT	7	0.17500000000000002	RNA PCR Primer, Index 25 (97% over 41bp)
AGCGGGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCATATC	7	0.17500000000000002	RNA PCR Primer, Index 25 (97% over 42bp)
CGGCGCGACCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCATAT	7	0.17500000000000002	RNA PCR Primer, Index 25 (97% over 41bp)
GGGAGCCTGAGAATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCA	6	0.15	RNA PCR Primer, Index 13 (97% over 38bp)
AGAGGGACGGCCGGGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAC	6	0.15	RNA PCR Primer, Index 5 (100% over 35bp)
CGCGACCTCAGATCAGACTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC	6	0.15	RNA PCR Primer, Index 1 (100% over 33bp)
AGAAGCCCGGCTCGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACT	6	0.15	RNA PCR Primer, Index 8 (100% over 36bp)
TCCCACATGGTCTAGCGGTTAGGATTCCTGGTTTTGGAATTCTCGGGTGCC	6	0.15	No Hit
AAGGGGGCCGCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCA	6	0.15	RNA PCR Primer, Index 13 (97% over 38bp)
AGGGAGCCGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCATAT	6	0.15	RNA PCR Primer, Index 25 (97% over 41bp)
GCCGATCGAAAGGGAGTCGGGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCCTGTGGTCTAGTGGTTAGGATTCGGCGTGGAATTCTCGGGTGCCAAG	5	0.125	No Hit
GACTCTTAGCGGTGGATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAC	5	0.125	RNA PCR Primer, Index 5 (100% over 35bp)
GACTCTTAGCGGTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACT	5	0.125	RNA PCR Primer, Index 8 (100% over 36bp)
GCTGTAGGCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCAT	5	0.125	RNA PCR Primer, Index 25 (97% over 39bp)
GGGAGCCTGAGAAATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTC	5	0.125	RNA PCR Primer, Index 13 (97% over 37bp)
GCATTTGTGGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAAG	5	0.125	No Hit
GACTCTTAGCGGTGGATCACTCGTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
GTTTCCGTAGTGTAGTGGTTATCACGTTCGCCTTGGAATTCTCGGGTGCCA	5	0.125	No Hit
AGAGGGAGGGAACGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACT	5	0.125	RNA PCR Primer, Index 8 (100% over 36bp)
GGGAGCCGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCATATC	5	0.125	RNA PCR Primer, Index 25 (97% over 42bp)
CGGCGACGACCCATTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACT	5	0.125	RNA PCR Primer, Index 8 (100% over 36bp)
ATGGGTGGTTCAGTGGTAGAATTCTCGCTGGAATTCTCGGGTGCCAAGGAA	5	0.125	RNA PCR Primer, Index 1 (100% over 23bp)
AGCGGGGCCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCATAT	5	0.125	RNA PCR Primer, Index 25 (97% over 41bp)
>>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	0.05	0.0	0.0	0.0
2	0.0	0.05	0.0	0.0	0.0
3	0.0	0.05	0.0	0.0	0.0
4	0.0	0.075	0.0	0.0	0.0
5	0.0	0.125	0.0	0.0	0.0
6	0.0	0.125	0.0	0.0	0.0
7	0.0	0.175	0.0	0.0	0.0
8	0.0	0.45	0.0	0.0	0.0
9	0.0	1.0	0.0	0.0	0.0
10	0.0	2.775	0.0	0.0	0.0
11	0.0	5.35	0.0	0.0	0.0
12	0.0	9.6	0.0	0.0	0.0
13	0.0	13.875	0.0	0.0	0.0
14	0.0	20.15	0.0	0.0	0.0
15	0.0	25.575	0.0	0.0	0.0
16	0.0	29.55	0.0	0.0	0.0
17	0.0	34.625	0.0	0.0	0.0
18	0.025	37.65	0.0	0.0	0.0
19	0.025	39.275	0.0	0.0	0.0
20	0.025	41.65	0.0	0.0	0.0
21	0.025	43.2	0.0	0.0	0.0
22	0.025	44.425	0.0	0.0	0.0
23	0.025	45.725	0.0	0.0	0.0
24	0.025	46.525	0.0	0.0	0.0
25	0.025	47.025	0.0	0.0	0.0
26	0.025	47.725	0.0	0.0	0.0
27	0.025	47.95	0.0	0.0	0.0
28	0.025	48.35	0.0	0.0	0.0
29	0.025	49.1	0.0	0.0	0.0
30	0.025	51.175	0.0	0.0	0.0
31	0.025	66.35	0.0	0.0	0.0
32	0.025	93.425	0.0	0.0	0.0
33	0.025	96.75	0.0	0.0	0.0
34	0.025	97.35	0.0	0.0	0.0
35	0.025	97.925	0.0	0.0	0.0
36	0.025	98.175	0.0	0.0	0.0
37	0.025	98.225	0.0	0.0	0.0
38	0.025	98.225	0.0	0.0	0.0
39	0.025	98.225	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	fail
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
CATTGGT	65	0.0	45.000004	2
ATTGGTG	65	0.0	45.000004	3
TTGGTGG	65	0.0	45.000004	4
GCATTGG	65	0.0	45.000004	1
ATGGGTG	80	0.0	45.0	3
CGCGACC	35	8.569259E-8	45.0	1
AGCTCAG	20	6.222983E-4	45.0	9
GCGACCT	35	8.569259E-8	45.0	2
TAGCTCA	20	6.222983E-4	45.0	8
TCTCGCT	40	4.3564796E-9	45.0	25
TCGCTGG	40	4.3564796E-9	45.0	27
TCAGATT	20	6.222983E-4	45.0	8
CTCAGAT	35	8.569259E-8	45.0	7
CCTCAGA	35	8.569259E-8	45.0	6
GCATGGG	80	0.0	45.0	1
CAGATTG	20	6.222983E-4	45.0	9
ACCTCAG	35	8.569259E-8	45.0	5
GGTGGTT	145	0.0	45.0	6
TGGGTGG	80	0.0	45.0	4
CATGGGT	80	0.0	45.0	2
>>END_MODULE
Read 4091121 spots for SRR32454949.sra
Written 4091121 spots for SRR32454949.sra
Read 4091121 spots for SRR32454949.sra
Written 4091121 spots for SRR32454949.sra
Read 4091121 spots for SRR32454949.sra
Written 4091121 spots for SRR32454949.sra
Read 4091121 spots for SRR32454949.sra
Written 4091121 spots for SRR32454949.sra
Read 4091121 spots for SRR32454949.sra
Written 4091121 spots for SRR32454949.sra
Read 4091121 spots for SRR32454949.sra
Written 4091121 spots for SRR32454949.sra
Read 4091121 spots for SRR32454949.sra
Written 4091121 spots for SRR32454949.sra
Read 4091123 spots for SRR32454949.sra
Written 4091123 spots for SRR32454949.sra
SRR ids: ['SRR32454949.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_imtnpaks
SRR32454949.sra spots: 32728970
blocks: [[1, 4091121], [4091122, 8182242], [8182243, 12273363], [12273364, 16364484], [16364485, 20455605], [20455606, 24546726], [24546727, 28637847], [28637848, 32728970]]
SRR32454949 file size 5629384
SRR32454949 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 SRR32454949 SRR32454949_1.fastq
Input file:	SRR32454949_1.fastq
trimmed:	SRR32454949-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
Sat Nov  1 20:09:43 2025 >> started

Sat Nov  1 20:10:14 2025 >> done (31.674s)
32728970 reads processed; of these:
     310 ( 0.00%) short reads filtered out after trimming by size control
       3 ( 0.00%) empty reads filtered out after trimming by size control
32728657 (100.00%) reads available; of these:
     461 ( 0.00%) trimmed reads available after processing
32728196 (100.00%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	       1	  0.00%
 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	       0	  0.00%
 49	       0	  0.00%
 50	     460	  0.00%
 51	32728196	100.00%
32728657 reads passed initial QC


criterion=sequence-density
sequence-density=62.27
sequence-density-rank=1
fanout-score=4.00
fanout-score-rank=7
prefix-density=62.42
prefix-fanout=4.0
sequence=CTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCATATCTCGTATGCC


criterion=fanout-score
sequence-density=3.87
sequence-density-rank=5
fanout-score=20.29
fanout-score-rank=1
prefix-density=3.84
prefix-fanout=20.3
sequence=GGTGGAATTCTC
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 CTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCATATCTCGTATGCC -o SRR32454949 -
Input file:	STDIN
trimmed:	SRR32454949-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	CTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTCATATCTCGTATGCC
-- 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
Sat Nov  1 20:13:17 2025 >> started

Sat Nov  1 20:13:49 2025 >> done (32.114s)
31689652 reads processed; of these:
12181119 (38.44%) short reads filtered out after trimming by size control
   22924 ( 0.07%) empty reads filtered out after trimming by size control
19485609 (61.49%) reads available; of these:
19317863 (99.14%) trimmed reads available after processing
  167746 ( 0.86%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  772991	  3.97%
 19	  466342	  2.39%
 20	  486923	  2.50%
 21	  362396	  1.86%
 22	  263835	  1.35%
 23	  201324	  1.03%
 24	  176874	  0.91%
 25	  101399	  0.52%
 26	   96980	  0.50%
 27	  322753	  1.66%
 28	  790337	  4.06%
 29	 5089502	 26.12%
 30	 8564342	 43.95%
 31	 1193154	  6.12%
 32	  204000	  1.05%
 33	  164923	  0.85%
 34	   43859	  0.23%
 35	    9095	  0.05%
 36	    4073	  0.02%
 37	    1037	  0.01%
 38	     582	  0.00%
 39	     253	  0.00%
 40	     142	  0.00%
 41	      80	  0.00%
 42	      63	  0.00%
 43	      91	  0.00%
 44	      43	  0.00%
 45	      26	  0.00%
 46	      63	  0.00%
 47	      70	  0.00%
 48	     312	  0.00%
 49	       0	  0.00%
 50	      44	  0.00%
 51	  167701	  0.86%


criterion=sequence-density
sequence-density=61.27
sequence-density-rank=1
fanout-score=2.01
fanout-score-rank=6
prefix-density=61.10
prefix-fanout=2.0
sequence=GGTGGTTCAGTGGTAGAATTCTCGCCTGGAATT


criterion=fanout-score
sequence-density=0.19
sequence-density-rank=21
fanout-score=134.29
fanout-score-rank=1
prefix-density=10.97
prefix-fanout=2.3
sequence=TGGTCTAGTGGCTAGGATTCGGC
                                 Started job on |	Nov 01 20:14:48
                             Started mapping on |	Nov 01 20:14:48
                                    Finished on |	Nov 01 20:15:35
       Mapping speed, Million of reads per hour |	1572.10

                          Number of input reads |	20524614
                      Average input read length |	29
                                    UNIQUE READS:
                   Uniquely mapped reads number |	415012
                        Uniquely mapped reads % |	2.02%
                          Average mapped length |	22.04
                       Number of splices: Total |	6429
            Number of splices: Annotated (sjdb) |	887
                       Number of splices: GT/AG |	6043
                       Number of splices: GC/AG |	85
                       Number of splices: AT/AC |	0
               Number of splices: Non-canonical |	301
                      Mismatch rate per base, % |	0.66%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.35
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.38
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	9283008
             % of reads mapped to multiple loci |	45.23%
        Number of reads mapped to too many loci |	9560548
             % of reads mapped to too many loci |	46.58%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	6.13%
                     % of reads unmapped: other |	0.04%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	10826594	10826594	10826594
N_multimapping	9283008	9283008	9283008
N_noFeature	125055	147934	389484
N_ambiguous	41483	38809	25
UnstrandedReadsAssigned:248474 PositiveStrandReadsAssigned:228269 NegativeStrandReadsAssigned:25503
Dataset is classified positive stranded
MeadianReadLen=30 20thPercentileLength=28 echo kmer=23
SRR32454949 Starting Kallisto single end mapping to ensembl reference transcriptome. kmer=23

[quant] fragment length distribution is truncated gaussian with mean = 100, sd = 20
[index] k-mer length: 23
[index] number of targets: 31,715
[index] number of k-mers: 49,679,782
[index] number of equivalence classes: 94,248
[quant] running in single-end mode
[quant] will process file 1: SRR32454949-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 20,524,614 reads, 24,403 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 553 rounds

  31716 SRR32454949.ke.tsv
  32883 SRR32454949.se.tsv
  64599 total
==> SRR32454949.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
ENSRNOT00000047550.4	955	856	0	0
ENSRNOT00000040993.4	1039	940	0	0
ENSRNOT00000050156.3	1545	1446	11	119.051
ENSRNOT00000043693.3	684	585	0	0
ENSRNOT00000046201.3	204	105	0	0
ENSRNOT00000046108.3	681	582	0	0
ENSRNOT00000049683.3	784	685	1	22.8464
ENSRNOT00000041241.3	348	249	0	0
ENSRNOT00000044582.3	297	198	0	0

==> SRR32454949.se.tsv <==
ENSRNOG00000046319	0
ENSRNOG00000047964	0
ENSRNOG00000050370	0
ENSRNOG00000032365	0
ENSRNOG00000040300	0
ENSRNOG00000058808	0
ENSRNOG00000061316	0
ENSRNOG00000050129	0
ENSRNOG00000040316	0
ENSRNOG00000023659	0
SRR32454949 completed mapping pipeline successfully
