Starting /dee2/code/volunteer_pipeline.sh SRR32454946
    current disk space = 1065602732
    free memory = 201384644 
SRR32454946 SRAfilesize
bd1172a35dedc908e40960989eb07f64  SRR32454946.sra
SRR32454946.sra file validated
SRR32454946 is single end
SRR32454946 is conventional basespace
SRR32454946 read1 length is 51 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR32454946_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	56
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	36.15475	37.0	37.0	37.0	37.0	37.0
2	36.0585	37.0	37.0	37.0	37.0	37.0
3	36.3965	37.0	37.0	37.0	37.0	37.0
4	36.2775	37.0	37.0	37.0	37.0	37.0
5	36.3365	37.0	37.0	37.0	37.0	37.0
6	36.5145	37.0	37.0	37.0	37.0	37.0
7	36.384	37.0	37.0	37.0	37.0	37.0
8	36.5395	37.0	37.0	37.0	37.0	37.0
9	35.836	37.0	37.0	37.0	37.0	37.0
10	36.473	37.0	37.0	37.0	37.0	37.0
11	36.3805	37.0	37.0	37.0	37.0	37.0
12	36.441	37.0	37.0	37.0	37.0	37.0
13	36.381	37.0	37.0	37.0	37.0	37.0
14	36.473	37.0	37.0	37.0	37.0	37.0
15	36.301	37.0	37.0	37.0	37.0	37.0
16	36.225	37.0	37.0	37.0	37.0	37.0
17	36.218	37.0	37.0	37.0	37.0	37.0
18	36.112	37.0	37.0	37.0	37.0	37.0
19	36.2485	37.0	37.0	37.0	37.0	37.0
20	36.198	37.0	37.0	37.0	37.0	37.0
21	36.2205	37.0	37.0	37.0	37.0	37.0
22	36.287	37.0	37.0	37.0	37.0	37.0
23	36.3065	37.0	37.0	37.0	37.0	37.0
24	36.2685	37.0	37.0	37.0	37.0	37.0
25	36.2485	37.0	37.0	37.0	37.0	37.0
26	36.1085	37.0	37.0	37.0	37.0	37.0
27	36.1485	37.0	37.0	37.0	37.0	37.0
28	36.035	37.0	37.0	37.0	37.0	37.0
29	36.154	37.0	37.0	37.0	37.0	37.0
30	35.9935	37.0	37.0	37.0	37.0	37.0
31	36.095	37.0	37.0	37.0	37.0	37.0
32	35.8125	37.0	37.0	37.0	37.0	37.0
33	36.07	37.0	37.0	37.0	37.0	37.0
34	35.9545	37.0	37.0	37.0	37.0	37.0
35	35.9325	37.0	37.0	37.0	37.0	37.0
36	35.6475	37.0	37.0	37.0	37.0	37.0
37	35.9075	37.0	37.0	37.0	37.0	37.0
38	35.902	37.0	37.0	37.0	37.0	37.0
39	35.9825	37.0	37.0	37.0	37.0	37.0
40	35.864	37.0	37.0	37.0	37.0	37.0
41	36.0485	37.0	37.0	37.0	37.0	37.0
42	36.0085	37.0	37.0	37.0	37.0	37.0
43	35.939	37.0	37.0	37.0	37.0	37.0
44	36.086	37.0	37.0	37.0	37.0	37.0
45	36.1345	37.0	37.0	37.0	37.0	37.0
46	36.0885	37.0	37.0	37.0	37.0	37.0
47	35.958	37.0	37.0	37.0	37.0	37.0
48	36.092	37.0	37.0	37.0	37.0	37.0
49	35.9685	37.0	37.0	37.0	37.0	37.0
50	35.7765	37.0	37.0	37.0	37.0	37.0
51	35.648	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
21	1.0
22	2.0
23	1.0
24	3.0
25	4.0
26	8.0
27	17.0
28	33.0
29	40.0
30	35.0
31	62.0
32	65.0
33	83.0
34	92.0
35	239.0
36	1870.0
37	1445.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	35.7984457257458	24.667836550513915	19.704186512910503	19.82953121082978
2	30.15	9.9	17.625	42.325
3	28.575	30.925000000000004	11.65	28.849999999999998
4	32.35	12.2	29.725	25.724999999999998
5	35.625	13.675	24.925	25.775
6	51.15	8.275	15.225	25.35
7	55.75	11.075	12.275	20.9
8	26.174999999999997	11.700000000000001	44.15	17.974999999999998
9	48.949999999999996	13.625000000000002	14.399999999999999	23.025000000000002
10	53.449999999999996	13.5	16.2	16.85
11	32.75	8.25	35.5	23.5
12	27.3	15.075	39.35	18.275
13	23.825	11.450000000000001	27.375	37.35
14	26.6	42.375	18.325	12.7
15	54.87499999999999	17.974999999999998	15.45	11.700000000000001
16	25.724999999999998	18.3	44.375	11.600000000000001
17	45.6	17.275	26.075	11.05
18	48.6	16.125	22.15	13.125
19	23.5	13.700000000000001	48.925000000000004	13.875000000000002
20	19.675	36.375	29.7	14.249999999999998
21	42.65	21.725	21.075	14.549999999999999
22	30.3	32.725	25.2	11.774999999999999
23	27.800000000000004	35.375	22.875	13.950000000000001
24	28.849999999999998	15.6	40.5	15.049999999999999
25	26.650000000000002	9.575	47.025	16.75
26	26.174999999999997	9.950000000000001	24.25	39.625
27	26.0	9.525	39.875	24.6
28	30.275000000000002	10.7	20.474999999999998	38.550000000000004
29	46.875	13.175	15.475	24.474999999999998
30	28.599999999999998	14.475	15.775	41.15
31	32.925	17.0	20.5	29.575000000000003
32	36.199999999999996	18.425	26.200000000000003	19.175
33	48.775	18.8	14.674999999999999	17.75
34	43.15	28.999999999999996	12.5	15.35
35	23.75	44.6	12.575	19.075
36	22.25	37.1	19.650000000000002	21.0
37	21.125	23.525	31.65	23.7
38	16.950000000000003	24.95	28.249999999999996	29.849999999999998
39	17.05	23.925	21.3	37.724999999999994
40	19.2	20.75	26.05	34.0
41	24.25	23.400000000000002	16.35	36.0
42	39.775	20.4	11.924999999999999	27.900000000000002
43	39.550000000000004	19.5	13.5	27.450000000000003
44	32.1	21.525	18.95	27.425
45	28.4	20.375	23.549999999999997	27.675
46	30.3	17.075000000000003	14.725	37.9
47	16.950000000000003	20.75	12.75	49.55
48	13.350000000000001	30.3	12.2	44.15
49	12.049999999999999	44.5	12.525	30.925000000000004
50	20.7	38.75	14.424999999999999	26.125
51	31.900000000000002	27.325	12.575	28.199999999999996
>>END_MODULE
>>Per sequence GC content	pass
#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	0.5
20	1.0
21	0.5
22	0.0
23	0.5
24	1.0
25	0.5
26	0.0
27	0.0
28	0.5
29	1.0
30	1.0
31	1.0
32	1.0
33	1.0
34	1.5
35	2.0
36	2.0
37	2.0
38	1.0
39	0.0
40	0.5
41	1.0
42	4.5
43	8.0
44	8.0
45	8.0
46	26.5
47	45.0
48	52.5
49	60.0
50	142.0
51	224.0
52	438.5
53	653.0
54	709.0
55	765.0
56	856.5
57	948.0
58	764.5
59	581.0
60	481.5
61	382.0
62	285.0
63	188.0
64	137.5
65	87.0
66	56.0
67	25.0
68	19.0
69	13.0
70	7.0
71	1.0
72	1.5
73	2.0
74	1.0
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	0.27499999999999997
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	49.425000000000004
#Duplication Level	Percentage of deduplicated	Percentage of total
1	78.14871016691957	38.625
2	13.707637835103693	13.55
3	2.8831562974203337	4.275
4	1.2139605462822458	2.4
5	1.112797167425392	2.75
6	0.6575619625695498	1.95
7	0.30349013657056145	1.05
8	0.10116337885685382	0.4
9	0.10116337885685382	0.44999999999999996
>10	1.4668689934243804	13.325000000000001
>50	0.05058168942842691	1.325
>100	0.25290844714213456	19.900000000000002
>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	215	5.375	No Hit
GCATGGGTGGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAAG	211	5.2749999999999995	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCTGGAATTCTCGGGTGCCAAGG	139	3.4750000000000005	Illumina Small RNA Adapter 2 (100% over 21bp)
CGCGACCTCAGATTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCATC	116	2.9000000000000004	RNA PCR Primer, Index 45 (97% over 37bp)
GCATGGGTGGTTCAGTGGTAGAATTCTCGCTGGAATTCTCGGGTGCCAAGG	115	2.875	Illumina Small RNA Adapter 2 (100% over 21bp)
AGGGCTGGGTCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCATCAA	53	1.325	RNA PCR Primer, Index 45 (97% over 37bp)
TGGACGGCGGGGTTCTTGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA	41	1.0250000000000001	RNA PCR Primer, Index 1 (100% over 32bp)
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGTGGAATTCTCGGGTGCCAAG	40	1.0	No Hit
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGCTGGAATTCTCGGGTGCCAA	33	0.8250000000000001	No Hit
CGCGACCTCAGATCAGACGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA	32	0.8	RNA PCR Primer, Index 1 (100% over 32bp)
AGGGCTGGGTCGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCATCA	28	0.7000000000000001	RNA PCR Primer, Index 45 (97% over 37bp)
AGGGCAAAAGCTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGC	27	0.675	RNA PCR Primer, Index 5 (97% over 35bp)
TCCCTGTGGTCTAGTGGTTAGGATTCGGCGCTGGAATTCTCGGGTGCCAAG	25	0.625	No Hit
TCCCTGTGGTCTAGTGGTTAGGATTCGGCGTGGAATTCTCGGGTGCCAAGG	23	0.575	Illumina Small RNA Adapter 2 (100% over 21bp)
AGCCCGGCTCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCATCAAT	18	0.44999999999999996	RNA PCR Primer, Index 45 (97% over 37bp)
GTTTCCGTAGTGTAGTGGTTATCACGTTCGCCTGGAATTCTCGGGTGCCAA	17	0.42500000000000004	No Hit
CGCGACCTCAGATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCATCA	17	0.42500000000000004	RNA PCR Primer, Index 45 (97% over 37bp)
CTATGGTTACGGCTGGCGGTATGGAATTCTCGGGTGCCAAGGAACTCCAGT	16	0.4	RNA PCR Primer, Index 1 (100% over 30bp)
CGGCGCGACTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCATCAATC	16	0.4	RNA PCR Primer, Index 45 (97% over 37bp)
GTGCTGTAGGCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCAT	15	0.375	RNA PCR Primer, Index 45 (97% over 37bp)
TGGACGGCGGGGTTCTTGCGGATGGAATTCTCGGGTGCCAAGGAACTCCAG	15	0.375	RNA PCR Primer, Index 1 (100% over 29bp)
GCATTGGTTGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAAG	14	0.35000000000000003	No Hit
TGGACGGCGGGGTTCTTGCGTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 31bp)
GGTGCTGTAGGCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCA	14	0.35000000000000003	RNA PCR Primer, Index 5 (97% over 36bp)
GCATGGGTTGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAAG	13	0.325	No Hit
GGGGCTGTAGCTCAGATGGGAGAGCGCTGCATGGAATTCTCGGGTGCCAAG	13	0.325	No Hit
TCATGAGAACGATCAAGTGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	13	0.325	RNA PCR Primer, Index 1 (100% over 31bp)
ATGGGTGGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAAGGA	12	0.3	RNA PCR Primer, Index 1 (100% over 22bp)
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGCTTGGAATTCTCGGGTGCCA	12	0.3	No Hit
GCATTGTGGTTCAGTGGTAGAATTCTCGCTGGAATTCTCGGGTGCCAAGGA	12	0.3	RNA PCR Primer, Index 1 (100% over 22bp)
CGCGACCTCAGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCAT	12	0.3	RNA PCR Primer, Index 45 (97% over 37bp)
AGGGCTGGGTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCATCAAT	11	0.27499999999999997	RNA PCR Primer, Index 45 (97% over 37bp)
AGGGCAAAAGCTCGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCA	10	0.25	RNA PCR Primer, Index 5 (97% over 36bp)
AGCCCGGCTCGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCATCAA	10	0.25	RNA PCR Primer, Index 45 (97% over 37bp)
GGGGCTGTAGCTCAGATGGGAGAGCGCTGCAATTGGAATTCTCGGGTGCCA	10	0.25	No Hit
GCATTGTGGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAAGG	9	0.22499999999999998	Illumina Small RNA Adapter 2 (100% over 21bp)
CGCGACCTCAGATCAGATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACG	9	0.22499999999999998	RNA PCR Primer, Index 6 (100% over 34bp)
AGCGGGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCATCAATC	8	0.2	RNA PCR Primer, Index 45 (97% over 37bp)
GGGCTGGAGAGATGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACG	8	0.2	RNA PCR Primer, Index 6 (100% over 34bp)
CGCGGGGTGGAGCAGCCCGGTAGCTCGTCAGGCTTGGAATTCTCGGGTGCC	7	0.17500000000000002	No Hit
AGAAGCCGGCGGGAGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGC	7	0.17500000000000002	RNA PCR Primer, Index 5 (97% over 35bp)
GCCCGGATAGCTCAGTCGGTAGAGCATCAGACTTTGGAATTCTCGGGTGCC	7	0.17500000000000002	No Hit
AAGCCCGGCTCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCATCAA	7	0.17500000000000002	RNA PCR Primer, Index 45 (97% over 37bp)
TGGACGGCGGGGTTCTTGCGGTGGAATTCTCGGGTGCCAAGGAACTCCAGT	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 30bp)
GCATGGGTTGTTCAGTGGTAGAATTCTCGCTGGAATTCTCGGGTGCCAAGG	7	0.17500000000000002	Illumina Small RNA Adapter 2 (100% over 21bp)
CGCGACCTCAGATCAGACTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC	6	0.15	RNA PCR Primer, Index 1 (100% over 33bp)
GCGGGTGTAGCTCAGGGGTAGAGCACAACTGGAATTCTCGGGTGCCAAGGA	6	0.15	RNA PCR Primer, Index 1 (100% over 22bp)
GGGGCTGTAGCTCAGATGGGAGAGCGCTGCTGGAATTCTCGGGTGCCAAGG	6	0.15	Illumina Small RNA Adapter 2 (100% over 21bp)
TGGGGGATCGTCTAACGGTAGGACCCCAGACTTGGAATTCTCGGGTGCCAA	6	0.15	No Hit
AGCGCCCGTCCGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCATCA	6	0.15	RNA PCR Primer, Index 45 (97% over 37bp)
GGGGCCATAGCTCAGTTGGGAGAGCGCTTGAATGGAATTCTCGGGTGCCAA	6	0.15	No Hit
CGCGCGTCTCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCATCAAT	6	0.15	RNA PCR Primer, Index 45 (97% over 37bp)
GACTCTTAGCGGTGGATTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACG	6	0.15	RNA PCR Primer, Index 6 (100% over 34bp)
ATTCCGGAGAGGGAGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGC	6	0.15	RNA PCR Primer, Index 5 (97% over 35bp)
GACTCTTAGCGGTGGATCATGGAATTCTCGGGTGCCAAGGAACTCCAGTCA	6	0.15	RNA PCR Primer, Index 1 (100% over 32bp)
TGGGGGATCGTCTAACGGTAGGACCCCAGACTCTTGGAATTCTCGGGTGCC	6	0.15	No Hit
TAGCTTATCAGACTGATGTTGATGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
AGCGCCCGTCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCATCAA	6	0.15	RNA PCR Primer, Index 45 (97% over 37bp)
TAGCTTATCAGACTGATGTTGACTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TGGGGGATCGTCTAACGGTAGGACCCCAGACTGGAATTCTCGGGTGCCAAG	5	0.125	No Hit
TCCCTGGTCTAGTGGTTAGGATTCGGCGTGGAATTCTCGGGTGCCAAGGAA	5	0.125	RNA PCR Primer, Index 1 (100% over 23bp)
AAGGGCAAAAGCTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACG	5	0.125	RNA PCR Primer, Index 6 (100% over 34bp)
GGCTGGTCCGAAGGTAGTGAGTTATCTCAATTGGAATTCTCGGGTGCCAAG	5	0.125	No Hit
GGGAGCCGGATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCATCAAT	5	0.125	RNA PCR Primer, Index 45 (97% over 37bp)
AGCGGGGCCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCATCAAT	5	0.125	RNA PCR Primer, Index 45 (97% over 37bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGTGGAATTCTCGGGTGCCAAGGA	5	0.125	RNA PCR Primer, Index 1 (100% over 22bp)
ATGGGTGGTTCAGTGGTAGAATTCTCGCTGGAATTCTCGGGTGCCAAGGAA	5	0.125	RNA PCR Primer, Index 1 (100% over 23bp)
AAGCCGGCGGGAGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCAT	5	0.125	RNA PCR Primer, Index 45 (97% over 37bp)
TCCCTGTGGTCTAGTGGTTAGGATTCGGCGCTTGGAATTCTCGGGTGCCAA	5	0.125	No Hit
TTCAAAGCTAACCCAGGGAACTGAATGGAATTCTCGGGTGCCAAGGAACTC	5	0.125	RNA PCR Primer, Index 1 (100% over 26bp)
TCATGAGAACGATCAAGTGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	5	0.125	RNA PCR Primer, Index 1 (100% over 30bp)
ACTCTTAGCGGTGGATCACTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA	5	0.125	RNA PCR Primer, Index 1 (100% over 32bp)
AAGGGCCCCGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCATCAAT	5	0.125	RNA PCR Primer, Index 45 (97% over 37bp)
AGCGCCCGTCCGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCATC	5	0.125	RNA PCR Primer, Index 45 (97% over 37bp)
ACGGAATCGTTTGGCATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGC	5	0.125	RNA PCR Primer, Index 5 (97% over 35bp)
TCCCGGATAGCTCAGCGGTAGAGCAATCGACTGGAATTCTCGGGTGCCAAG	5	0.125	No Hit
TCCCGGATAGCTCAGCGGTAGAGCAATCGACTTGGAATTCTCGGGTGCCAA	5	0.125	No Hit
TTACGGCTGGCGGTATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCA	5	0.125	RNA PCR Primer, Index 5 (97% over 36bp)
GACTCTTAGCGGTGGATCACTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	5	0.125	RNA PCR Primer, Index 1 (100% over 30bp)
ACTCTTAGCGGTGGATCACTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	5	0.125	RNA PCR Primer, Index 1 (100% over 31bp)
>>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	0.05	0.0	0.0	0.0
5	0.0	0.075	0.0	0.0	0.0
6	0.0	0.15	0.0	0.0	0.0
7	0.0	0.2	0.0	0.0	0.0
8	0.0	0.325	0.0	0.0	0.0
9	0.0	0.875	0.0	0.0	0.0
10	0.0	2.8	0.0	0.0	0.0
11	0.0	5.95	0.0	0.0	0.0
12	0.0	10.325	0.0	0.0	0.0
13	0.0	14.625	0.0	0.0	0.0
14	0.0	20.75	0.0	0.0	0.0
15	0.0	24.825	0.0	0.0	0.0
16	0.0	28.55	0.0	0.0	0.0
17	0.0	34.45	0.0	0.0	0.0
18	0.0	38.525	0.0	0.0	0.0
19	0.0	41.975	0.0	0.0	0.0
20	0.0	47.075	0.0	0.0	0.0
21	0.0	50.575	0.0	0.0	0.0
22	0.0	53.975	0.0	0.0	0.0
23	0.0	57.35	0.0	0.0	0.0
24	0.0	59.6	0.0	0.0	0.0
25	0.0	61.2	0.0	0.0	0.0
26	0.0	63.275	0.0	0.0	0.0
27	0.0	64.45	0.0	0.0	0.0
28	0.0	65.075	0.0	0.0	0.0
29	0.0	66.075	0.0	0.0	0.0
30	0.0	67.825	0.0	0.0	0.0
31	0.0	76.2	0.0	0.0	0.0
32	0.0	91.05	0.0	0.0	0.0
33	0.0	93.9	0.0	0.0	0.0
34	0.0	95.25	0.0	0.0	0.0
35	0.0	96.625	0.0	0.0	0.0
36	0.0	97.225	0.0	0.0	0.0
37	0.0	97.4	0.0	0.0	0.0
38	0.0	97.5	0.0	0.0	0.0
39	0.0	97.65	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	fail
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
TGGTGGT	45	2.2009772E-10	45.000004	5
ATGGGTG	40	4.3564796E-9	45.0	3
TGGTCTA	20	6.222983E-4	45.0	8
GTAGAAT	70	0.0	45.0	18
TGGTTCA	75	0.0	45.0	8
CATTGGT	35	8.569259E-8	45.0	2
TAGGATT	20	6.222983E-4	45.0	20
AGGATTC	20	6.222983E-4	45.0	21
GGTCTAG	20	6.222983E-4	45.0	9
ATTGGTG	35	8.569259E-8	45.0	3
AGTGGTA	70	0.0	45.0	14
GGTTCAG	75	0.0	45.0	9
GTTCAGT	75	0.0	45.0	10
AGAATTC	70	0.0	45.0	20
GGTTAGG	20	6.222983E-4	45.0	17
CGGCGGG	20	6.222983E-4	45.0	5
TTCTCGC	70	0.0	45.0	24
GTTAGGA	20	6.222983E-4	45.0	18
GGTAGAA	70	0.0	45.0	17
TTAGGAT	20	6.222983E-4	45.0	19
>>END_MODULE
Read 4469843 spots for SRR32454946.sra
Written 4469843 spots for SRR32454946.sra
Read 4469843 spots for SRR32454946.sra
Written 4469843 spots for SRR32454946.sra
Read 4469843 spots for SRR32454946.sra
Written 4469843 spots for SRR32454946.sra
Read 4469843 spots for SRR32454946.sra
Written 4469843 spots for SRR32454946.sra
Read 4469845 spots for SRR32454946.sra
Written 4469845 spots for SRR32454946.sra
Read 4469843 spots for SRR32454946.sra
Written 4469843 spots for SRR32454946.sra
Read 4469843 spots for SRR32454946.sra
Written 4469843 spots for SRR32454946.sra
Read 4469843 spots for SRR32454946.sra
Written 4469843 spots for SRR32454946.sra
SRR ids: ['SRR32454946.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_y5chhhmh
SRR32454946.sra spots: 35758746
blocks: [[1, 4469843], [4469844, 8939686], [8939687, 13409529], [13409530, 17879372], [17879373, 22349215], [22349216, 26819058], [26819059, 31288901], [31288902, 35758746]]
SRR32454946 file size 6151532
SRR32454946 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 SRR32454946 SRR32454946_1.fastq
Input file:	SRR32454946_1.fastq
trimmed:	SRR32454946-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 19:11:00 2025 >> started

Sat Nov  1 19:11:49 2025 >> done (49.475s)
35758746 reads processed; of these:
     596 ( 0.00%) short reads filtered out after trimming by size control
       3 ( 0.00%) empty reads filtered out after trimming by size control
35758147 (100.00%) reads available; of these:
     701 ( 0.00%) trimmed reads available after processing
35757446 (100.00%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	       3	  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	     698	  0.00%
 51	35757446	100.00%
35758147 reads passed initial QC


criterion=sequence-density
sequence-density=97.70
sequence-density-rank=1
fanout-score=20.41
fanout-score-rank=1
prefix-density=98.31
prefix-fanout=20.3
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCATCAATCTCGTATGCC


criterion=fanout-score
sequence-density=97.70
sequence-density-rank=1
fanout-score=20.41
fanout-score-rank=1
prefix-density=98.31
prefix-fanout=20.3
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCATCAATCTCGTATGCC
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 TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCATCAATCTCGTATGCC -o SRR32454946 -
Input file:	STDIN
trimmed:	SRR32454946-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGCATCAATCTCGTATGCC
-- 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 19:14:06 2025 >> started

Sat Nov  1 19:14:35 2025 >> done (28.961s)
35028389 reads processed; of these:
13192110 (37.66%) short reads filtered out after trimming by size control
   19924 ( 0.06%) empty reads filtered out after trimming by size control
21816355 (62.28%) reads available; of these:
21682337 (99.39%) trimmed reads available after processing
  134018 ( 0.61%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	 1314809	  6.03%
 19	 1885196	  8.64%
 20	 1393438	  6.39%
 21	 1428501	  6.55%
 22	 1300702	  5.96%
 23	  975305	  4.47%
 24	  703976	  3.23%
 25	  520790	  2.39%
 26	  357593	  1.64%
 27	  247773	  1.14%
 28	  329572	  1.51%
 29	  616088	  2.82%
 30	 2938037	 13.47%
 31	 5115964	 23.45%
 32	 1115099	  5.11%
 33	  464301	  2.13%
 34	  463286	  2.12%
 35	  219227	  1.00%
 36	   99036	  0.45%
 37	   40719	  0.19%
 38	   29679	  0.14%
 39	   29571	  0.14%
 40	   27243	  0.12%
 41	   39739	  0.18%
 42	   11836	  0.05%
 43	    3578	  0.02%
 44	    2606	  0.01%
 45	    1907	  0.01%
 46	    1818	  0.01%
 47	    2862	  0.01%
 48	    2089	  0.01%
 49	       0	  0.00%
 50	       4	  0.00%
 51	  134011	  0.61%


criterion=sequence-density
sequence-density=30.30
sequence-density-rank=1
fanout-score=2.00
fanout-score-rank=12
prefix-density=30.21
prefix-fanout=2.0
sequence=GGTGGTTCAGTGGTAGAATTCTCGCCT


criterion=fanout-score
sequence-density=1.00
sequence-density-rank=10
fanout-score=12.01
fanout-score-rank=1
prefix-density=2.19
prefix-fanout=5.5
sequence=TAGCTCAGTTGG
                                 Started job on |	Nov 01 19:15:34
                             Started mapping on |	Nov 01 19:15:34
                                    Finished on |	Nov 01 19:16:59
       Mapping speed, Million of reads per hour |	954.89

                          Number of input reads |	22546113
                      Average input read length |	23
                                    UNIQUE READS:
                   Uniquely mapped reads number |	2358790
                        Uniquely mapped reads % |	10.46%
                          Average mapped length |	17.67
                       Number of splices: Total |	49732
            Number of splices: Annotated (sjdb) |	9858
                       Number of splices: GT/AG |	44160
                       Number of splices: GC/AG |	715
                       Number of splices: AT/AC |	0
               Number of splices: Non-canonical |	4857
                      Mismatch rate per base, % |	1.14%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.49
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.09
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	7023095
             % of reads mapped to multiple loci |	31.15%
        Number of reads mapped to too many loci |	10867430
             % of reads mapped to too many loci |	48.20%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	9.25%
                     % of reads unmapped: other |	0.93%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	13164228	13164228	13164228
N_multimapping	7023095	7023095	7023095
N_noFeature	1591508	1849259	2093984
N_ambiguous	45607	37056	1577
UnstrandedReadsAssigned:721675 PositiveStrandReadsAssigned:472475 NegativeStrandReadsAssigned:263229
Dataset is classified unstranded
MeadianReadLen=25 20thPercentileLength=16 echo kmer=19
SRR32454946 Starting Kallisto single end mapping to ensembl reference transcriptome. kmer=19

[quant] fragment length distribution is truncated gaussian with mean = 100, sd = 20
[index] k-mer length: 19
[index] number of targets: 31,715
[index] number of k-mers: 49,362,984
[index] number of equivalence classes: 166,181
[quant] running in single-end mode
[quant] will process file 1: SRR32454946-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 22,546,113 reads, 193,317 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 702 rounds

  31716 SRR32454946.ke.tsv
  32883 SRR32454946.se.tsv
  64599 total
==> SRR32454946.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
ENSRNOT00000047550.4	955	856	1	6.64582
ENSRNOT00000040993.4	1039	940	0	0
ENSRNOT00000050156.3	1545	1446	16	62.9469
ENSRNOT00000043693.3	684	585	0	0
ENSRNOT00000046201.3	204	105	0	0
ENSRNOT00000046108.3	681	582	0	0
ENSRNOT00000049683.3	784	685	4	33.2194
ENSRNOT00000041241.3	348	249	0	0
ENSRNOT00000044582.3	297	198	0	0

==> SRR32454946.se.tsv <==
ENSRNOG00000046319	0
ENSRNOG00000047964	0
ENSRNOG00000050370	0
ENSRNOG00000032365	0
ENSRNOG00000040300	0
ENSRNOG00000058808	0
ENSRNOG00000061316	0
ENSRNOG00000050129	0
ENSRNOG00000040316	0
ENSRNOG00000023659	0
SRR32454946 completed mapping pipeline successfully
