Starting /dee2/code/volunteer_pipeline.sh SRR32454942
    current disk space = 1117872308
    free memory = 196485176 
SRR32454942 SRAfilesize
7fb0b1bbb320d4eecee74917251863ba  SRR32454942.sra
SRR32454942.sra file validated
SRR32454942 is single end
SRR32454942 is conventional basespace
SRR32454942 read1 length is 51 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR32454942_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	54
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	36.13125	37.0	37.0	37.0	37.0	37.0
2	36.334	37.0	37.0	37.0	37.0	37.0
3	36.2955	37.0	37.0	37.0	37.0	37.0
4	36.262	37.0	37.0	37.0	37.0	37.0
5	36.321	37.0	37.0	37.0	37.0	37.0
6	36.3975	37.0	37.0	37.0	37.0	37.0
7	36.441	37.0	37.0	37.0	37.0	37.0
8	36.499	37.0	37.0	37.0	37.0	37.0
9	36.4065	37.0	37.0	37.0	37.0	37.0
10	36.5545	37.0	37.0	37.0	37.0	37.0
11	36.6175	37.0	37.0	37.0	37.0	37.0
12	36.4405	37.0	37.0	37.0	37.0	37.0
13	36.4725	37.0	37.0	37.0	37.0	37.0
14	36.6495	37.0	37.0	37.0	37.0	37.0
15	36.349	37.0	37.0	37.0	37.0	37.0
16	36.3605	37.0	37.0	37.0	37.0	37.0
17	36.4225	37.0	37.0	37.0	37.0	37.0
18	36.423	37.0	37.0	37.0	37.0	37.0
19	36.434	37.0	37.0	37.0	37.0	37.0
20	36.272	37.0	37.0	37.0	37.0	37.0
21	36.1755	37.0	37.0	37.0	37.0	37.0
22	36.4365	37.0	37.0	37.0	37.0	37.0
23	36.568	37.0	37.0	37.0	37.0	37.0
24	36.3125	37.0	37.0	37.0	37.0	37.0
25	36.446	37.0	37.0	37.0	37.0	37.0
26	36.3945	37.0	37.0	37.0	37.0	37.0
27	36.3735	37.0	37.0	37.0	37.0	37.0
28	36.3105	37.0	37.0	37.0	37.0	37.0
29	36.332	37.0	37.0	37.0	37.0	37.0
30	36.37	37.0	37.0	37.0	37.0	37.0
31	36.4215	37.0	37.0	37.0	37.0	37.0
32	36.3645	37.0	37.0	37.0	37.0	37.0
33	36.3425	37.0	37.0	37.0	37.0	37.0
34	36.4235	37.0	37.0	37.0	37.0	37.0
35	36.3675	37.0	37.0	37.0	37.0	37.0
36	36.0635	37.0	37.0	37.0	37.0	37.0
37	36.3435	37.0	37.0	37.0	37.0	37.0
38	36.2775	37.0	37.0	37.0	37.0	37.0
39	36.358	37.0	37.0	37.0	37.0	37.0
40	36.1805	37.0	37.0	37.0	37.0	37.0
41	36.117	37.0	37.0	37.0	37.0	37.0
42	36.1285	37.0	37.0	37.0	37.0	37.0
43	36.1175	37.0	37.0	37.0	37.0	37.0
44	36.3695	37.0	37.0	37.0	37.0	37.0
45	36.214	37.0	37.0	37.0	37.0	37.0
46	36.1295	37.0	37.0	37.0	37.0	37.0
47	36.1675	37.0	37.0	37.0	37.0	37.0
48	36.2135	37.0	37.0	37.0	37.0	37.0
49	36.3755	37.0	37.0	37.0	37.0	37.0
50	36.1085	37.0	37.0	37.0	37.0	37.0
51	35.933	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	3.0
24	1.0
25	3.0
26	2.0
27	12.0
28	16.0
29	36.0
30	46.0
31	47.0
32	57.0
33	66.0
34	89.0
35	192.0
36	1274.0
37	2156.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	58.49009280160522	15.274642588412341	15.80135440180587	10.433910208176574
2	18.125	6.575	11.55	63.74999999999999
3	19.175	53.27499999999999	6.65	20.9
4	20.974999999999998	8.325000000000001	53.525	17.175
5	39.875	7.7	35.699999999999996	16.725
6	66.175	6.800000000000001	13.900000000000002	13.125
7	68.89999999999999	10.125	9.6	11.375
8	17.150000000000002	7.875	66.3	8.674999999999999
9	67.0	12.3	7.575	13.125
10	70.125	9.475	9.8	10.6
11	19.5	5.55	56.599999999999994	18.35
12	15.625	10.45	60.150000000000006	13.775
13	12.9	8.625	18.675	59.8
14	16.825000000000003	61.975	11.375	9.825000000000001
15	71.025	10.299999999999999	10.424999999999999	8.25
16	16.950000000000003	11.1	62.74999999999999	9.2
17	65.575	8.799999999999999	17.525	8.1
18	69.5	9.8	13.0	7.7
19	19.900000000000002	10.475	62.949999999999996	6.675000000000001
20	14.799999999999999	58.275	19.35	7.575
21	59.475	18.95	13.100000000000001	8.475000000000001
22	19.1	57.3	16.900000000000002	6.7
23	16.975	57.49999999999999	17.150000000000002	8.375
24	17.325	12.049999999999999	59.9	10.725
25	14.975	7.775	64.17500000000001	13.075000000000001
26	15.925	10.05	16.225	57.8
27	15.9	8.35	58.5	17.25
28	20.3	6.9	16.375	56.425000000000004
29	64.47500000000001	7.124999999999999	12.875	15.525
30	17.825	7.35	13.575000000000001	61.25000000000001
31	19.8	9.025	25.8	45.375
32	32.175	9.475	43.275000000000006	15.075
33	63.5	10.525	14.000000000000002	11.975
34	54.87499999999999	25.8	9.5	9.825000000000001
35	20.4	58.75	10.9	9.950000000000001
36	17.474999999999998	47.25	24.625	10.65
37	16.55	15.35	54.6	13.5
38	12.375	14.7	44.55	28.375
39	10.925	15.125	25.324999999999996	48.625
40	13.175	14.05	41.275	31.5
41	27.3	14.124999999999998	11.825	46.75
42	61.85000000000001	12.75	8.475000000000001	16.925
43	63.324999999999996	12.675	8.55	15.45
44	49.2	14.924999999999999	21.775	14.099999999999998
45	29.349999999999998	15.2	39.15	16.3
46	44.9	12.625	11.425	31.05
47	11.95	15.15	10.375	62.525
48	10.625	29.425	8.375	51.575
49	11.325000000000001	61.25000000000001	8.95	18.475
50	25.575	51.425	8.3	14.7
51	57.475	21.525	9.975000000000001	11.025
>>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	0.0
18	0.0
19	0.5
20	1.0
21	0.5
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	0.5
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	1.0
43	2.0
44	6.5
45	11.0
46	43.0
47	75.0
48	83.5
49	92.0
50	177.5
51	263.0
52	762.0
53	1261.0
54	1223.5
55	1186.0
56	833.5
57	481.0
58	382.5
59	284.0
60	229.5
61	175.0
62	126.5
63	78.0
64	61.0
65	44.0
66	30.5
67	17.0
68	18.0
69	19.0
70	11.5
71	4.0
72	4.5
73	5.0
74	2.5
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	30.975
#Duplication Level	Percentage of deduplicated	Percentage of total
1	75.62550443906376	23.425
2	12.267958030669895	7.6
3	4.196933010492333	3.9
4	1.6142050040355123	2.0
5	1.0492332526230832	1.625
6	1.1299435028248588	2.1
7	0.48426150121065376	1.05
8	0.5649717514124294	1.4000000000000001
9	0.08071025020177562	0.22499999999999998
>10	2.663438256658596	14.274999999999999
>50	0.0	0.0
>100	0.16142050040355124	12.5
>500	0.16142050040355124	29.9
>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	613	15.325	No Hit
GCATGGGTGGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAAG	583	14.575	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCTGGAATTCTCGGGTGCCAAGG	251	6.275	Illumina Small RNA Adapter 2 (100% over 21bp)
GCATGGGTGGTTCAGTGGTAGAATTCTCGCTGGAATTCTCGGGTGCCAAGG	249	6.225	Illumina Small RNA Adapter 2 (100% over 21bp)
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGCTGGAATTCTCGGGTGCCAA	49	1.225	No Hit
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGTGGAATTCTCGGGTGCCAAG	40	1.0	No Hit
CGCGACCTCAGATCAGACGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA	38	0.95	RNA PCR Primer, Index 1 (100% over 32bp)
CGCGACCTCAGATTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGTAT	30	0.75	RNA PCR Primer, Index 22 (97% over 37bp)
AGGGCAAAAGCTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAG	27	0.675	RNA PCR Primer, Index 2 (97% over 35bp)
ATGGGTGGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAAGGA	26	0.65	RNA PCR Primer, Index 1 (100% over 22bp)
GCATTGTGGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAAGG	23	0.575	Illumina Small RNA Adapter 2 (100% over 21bp)
TCCCTGTGGTCTAGTGGTTAGGATTCGGCGCTGGAATTCTCGGGTGCCAAG	19	0.475	No Hit
CGCGACCTCAGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGTA	18	0.44999999999999996	RNA PCR Primer, Index 22 (97% over 37bp)
TAGCTTATCAGACTGATGTTGATGGAATTCTCGGGTGCCAAGGAACTCCAG	18	0.44999999999999996	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGTGGTCTAGTGGTTAGGATTCGGCGTGGAATTCTCGGGTGCCAAGG	16	0.4	Illumina Small RNA Adapter 2 (100% over 21bp)
AGGGCTGGGTCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGTATGA	16	0.4	RNA PCR Primer, Index 22 (97% over 37bp)
GCGGGTGTAGCTCAGGGGTAGAGCACAACTGGAATTCTCGGGTGCCAAGGA	15	0.375	RNA PCR Primer, Index 1 (100% over 22bp)
GGGGCTGTAGCTCAGATGGGAGAGCGCTGCAATGGAATTCTCGGGTGCCAA	15	0.375	No Hit
GCATTGTGGTTCAGTGGTAGAATTCTCGCTGGAATTCTCGGGTGCCAAGGA	15	0.375	RNA PCR Primer, Index 1 (100% over 22bp)
GACTCTTAGCGGTGGATTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACA	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 34bp)
GTGCTGTAGGCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGTA	14	0.35000000000000003	RNA PCR Primer, Index 22 (97% over 37bp)
TAGCTTATCAGACTGATGTTGACTGGAATTCTCGGGTGCCAAGGAACTCCA	13	0.325	RNA PCR Primer, Index 1 (100% over 28bp)
AGGGCAAAAGCTCGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGT	13	0.325	RNA PCR Primer, Index 8 (97% over 36bp)
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGCTTGGAATTCTCGGGTGCCA	12	0.3	No Hit
GCATGGGTGGTTCAGTGGTAGAATTCTCGCCTTGGAATTCTCGGGTGCCAA	12	0.3	No Hit
ATGGGTGGTTCAGTGGTAGAATTCTCGCTGGAATTCTCGGGTGCCAAGGAA	12	0.3	RNA PCR Primer, Index 1 (100% over 23bp)
GGGGCTGTAGCTCAGATGGGAGAGCGCTGCAATTGGAATTCTCGGGTGCCA	12	0.3	No Hit
GGTGCTGTAGGCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGT	11	0.27499999999999997	RNA PCR Primer, Index 8 (97% over 36bp)
CGCGACCTCAGATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGTATG	11	0.27499999999999997	RNA PCR Primer, Index 22 (97% over 37bp)
TGGACGGCGGGGTTCTTGCGGATGGAATTCTCGGGTGCCAAGGAACTCCAG	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 29bp)
AGGGCTGGGTCGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGTATG	11	0.27499999999999997	RNA PCR Primer, Index 22 (97% over 37bp)
TCATGAGAACGATCAAGTGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	10	0.25	RNA PCR Primer, Index 1 (100% over 31bp)
TGGGGGATCGTCTAACGGTAGGACCCCAGACTCTTGGAATTCTCGGGTGCC	10	0.25	No Hit
GCCCGGCTAGCTCAGTCGGTAGAGCATGAGACTGGAATTCTCGGGTGCCAA	10	0.25	No Hit
GCATGGGTGGTTCAGTGGTAGAATTCTCGTGGAATTCTCGGGTGCCAAGGA	10	0.25	RNA PCR Primer, Index 1 (100% over 22bp)
GACTCTTAGCGGTGGATCACTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	10	0.25	RNA PCR Primer, Index 1 (100% over 30bp)
TGGACGGCGGGGTTCTTGCGGTGGAATTCTCGGGTGCCAAGGAACTCCAGT	10	0.25	RNA PCR Primer, Index 1 (100% over 30bp)
TTCACAGTGGCTAAGTTCTGCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 30bp)
GCCCGGATAGCTCAGTCGGTAGAGCATCAGACTTTGGAATTCTCGGGTGCC	8	0.2	No Hit
GGTGCTGTAGGCTTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGTA	8	0.2	RNA PCR Primer, Index 22 (97% over 37bp)
GGGGCTGTAGCTCAGATGGGAGAGCGCTGCTGGAATTCTCGGGTGCCAAGG	8	0.2	Illumina Small RNA Adapter 2 (100% over 21bp)
GCATTTGTGGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAAG	8	0.2	No Hit
CTATGGTTACGGCTGGCGGTATGGAATTCTCGGGTGCCAAGGAACTCCAGT	8	0.2	RNA PCR Primer, Index 1 (100% over 30bp)
ACTCTTAGCGGTGGATCACTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	8	0.2	RNA PCR Primer, Index 1 (100% over 31bp)
GGGGCTGTAGCTCAGATGGGAGAGCGCTGCATGGAATTCTCGGGTGCCAAG	8	0.2	No Hit
TCATGAGAACGATCAAGTGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 30bp)
GTTTCCGTAGTGTAGTGGTTATCACGTTCGCCTGGAATTCTCGGGTGCCAA	7	0.17500000000000002	No Hit
GGCTGGTCCGAAGGTAGTGAGTTATCTCAATTGGAATTCTCGGGTGCCAAG	7	0.17500000000000002	No Hit
AGGGGTGTAGCTCAGTTGGTAGAGTACCGGTCTCCTGGAATTCTCGGGTGC	7	0.17500000000000002	No Hit
AGCAGGACGGTGGCCATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAG	7	0.17500000000000002	RNA PCR Primer, Index 2 (97% over 35bp)
GGGGCTGTAGCTCAGATGGGAGAGCGCTGCAATCTGGAATTCTCGGGTGCC	7	0.17500000000000002	No Hit
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCTGGAATTCTCGGGTGCCAAGG	6	0.15	Illumina Small RNA Adapter 2 (100% over 21bp)
AGCGCCCGTCCGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGTAT	6	0.15	RNA PCR Primer, Index 22 (97% over 37bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTTGGAATTCTCGGGTGCCAA	6	0.15	No Hit
TCCCTGGTCTAGTGGTTAGGATTCGGCTGGAATTCTCGGGTGCCAAGGAAC	6	0.15	RNA PCR Primer, Index 1 (100% over 24bp)
CGCGACCTCAGATCAGATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACA	6	0.15	RNA PCR Primer, Index 1 (100% over 34bp)
TGGACGGCGGGGTTCTTGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA	6	0.15	RNA PCR Primer, Index 1 (100% over 32bp)
GGGCTGGAGAGATGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAG	6	0.15	RNA PCR Primer, Index 2 (97% over 35bp)
TCCCGGATAGCTCAGCGGTAGAGCAATCGACTTGGAATTCTCGGGTGCCAA	6	0.15	No Hit
ACTCTTAGCGGTGGATTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAG	6	0.15	RNA PCR Primer, Index 2 (97% over 35bp)
GCCCGGATAGCTCAGTCGGTAGAGCATCAGATGGAATTCTCGGGTGCCAAG	6	0.15	No Hit
GCCCGGATAGCTCAGTCGGTAGAGCATCAGACTGGAATTCTCGGGTGCCAA	6	0.15	No Hit
GACTCTTAGCGGTGGATCACTCGTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
TGGGGGATCGTCTAACGGTAGGACCCCAGACTTGGAATTCTCGGGTGCCAA	6	0.15	No Hit
GACTCTTAGCGGTGGATCACTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	6	0.15	RNA PCR Primer, Index 1 (100% over 31bp)
AGCTTTGCGCAGTGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAG	5	0.125	RNA PCR Primer, Index 2 (97% over 35bp)
ACTCTTAGCGGTGGATCACTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA	5	0.125	RNA PCR Primer, Index 1 (100% over 32bp)
CGCGGGGTGGAGCAGCCCGGTAGCTCGTCAGGCTTGGAATTCTCGGGTGCC	5	0.125	No Hit
GGCTGGTCCGAAGGTAGTGAGTTATCTCAATTTGGAATTCTCGGGTGCCAA	5	0.125	No Hit
TTCAAAGCTAACCCAGGGAACTGAAATGGAATTCTCGGGTGCCAAGGAACT	5	0.125	RNA PCR Primer, Index 1 (100% over 25bp)
TCCCTGGTCTAGTGGTTAGGATTCGGCGTGGAATTCTCGGGTGCCAAGGAA	5	0.125	RNA PCR Primer, Index 1 (100% over 23bp)
ACGGAACGGCTCAGCGATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACA	5	0.125	RNA PCR Primer, Index 1 (100% over 34bp)
AAGGGCAAAAGCTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACA	5	0.125	RNA PCR Primer, Index 1 (100% over 34bp)
NCATGGGTGGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAAG	5	0.125	No Hit
GGGGCCATAGCTCAGTTGGGAGAGCGCTTGAATTGGAATTCTCGGGTGCCA	5	0.125	No Hit
ATCTCGCGGACATCGATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAG	5	0.125	RNA PCR Primer, Index 2 (97% over 35bp)
TTCAAAGCTAACCCAGGGAACTGAAACATGGAATTCTCGGGTGCCAAGGAA	5	0.125	RNA PCR Primer, Index 1 (100% over 23bp)
ACTCTTAGCGGTGGATCATGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC	5	0.125	RNA PCR Primer, Index 1 (100% over 33bp)
>>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	0.025	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	0.1	0.0	0.0	0.0
5	0.0	0.1	0.0	0.0	0.0
6	0.0	0.1	0.0	0.0	0.0
7	0.0	0.125	0.0	0.0	0.0
8	0.0	0.225	0.0	0.0	0.0
9	0.0	0.4	0.0	0.0	0.0
10	0.0	0.825	0.0	0.0	0.0
11	0.0	1.475	0.0	0.0	0.0
12	0.0	2.675	0.0	0.0	0.0
13	0.0	4.0	0.0	0.0	0.0
14	0.0	6.1	0.0	0.0	0.0
15	0.0	8.325	0.0	0.0	0.0
16	0.0	10.5	0.0	0.0	0.0
17	0.0	13.5	0.0	0.0	0.0
18	0.0	16.275	0.0	0.0	0.0
19	0.0	17.85	0.0	0.0	0.0
20	0.0	20.725	0.0	0.0	0.0
21	0.0	22.75	0.0	0.0	0.0
22	0.0	25.775	0.0	0.0	0.0
23	0.0	29.275	0.0	0.0	0.0
24	0.0	31.8	0.0	0.0	0.0
25	0.0	33.325	0.0	0.0	0.0
26	0.0	34.875	0.0	0.0	0.0
27	0.0	36.125	0.0	0.0	0.0
28	0.0	37.125	0.0	0.0	0.0
29	0.0	38.375	0.0	0.0	0.0
30	0.0	40.95	0.0	0.0	0.0
31	0.0	55.875	0.0	0.0	0.0
32	0.0	89.45	0.0	0.0	0.0
33	0.0	93.375	0.0	0.0	0.0
34	0.0	94.95	0.0	0.0	0.0
35	0.0	96.5	0.0	0.0	0.0
36	0.0	97.25	0.0	0.0	0.0
37	0.0	97.475	0.0	0.0	0.0
38	0.0	97.675	0.0	0.0	0.0
39	0.0	97.825	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	fail
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
ATTGGTG	65	0.0	45.000004	3
TTGGTGG	65	0.0	45.000004	4
GCATTGG	65	0.0	45.000004	1
TAGTGGT	25	3.236105E-5	45.0	13
AGTGGTT	25	3.236105E-5	45.0	14
GCATGGG	80	0.0	45.0	1
GTGGTTA	25	3.236105E-5	45.0	15
CATGGGT	80	0.0	45.0	2
TGGTGGT	75	0.0	45.0	5
TCTCGCC	100	0.0	42.75	25
GTAGAAT	155	0.0	42.09677	18
TGGTTCA	155	0.0	42.09677	8
TGGTAGA	155	0.0	42.09677	16
AGTGGTA	155	0.0	42.09677	14
GGTTCAG	155	0.0	42.09677	9
GTTCAGT	155	0.0	42.09677	10
AGAATTC	155	0.0	42.09677	20
TCAGTGG	155	0.0	42.09677	12
TTCTCGC	155	0.0	42.09677	24
GGTAGAA	155	0.0	42.09677	17
>>END_MODULE
Read 5570022 spots for SRR32454942.sra
Written 5570022 spots for SRR32454942.sra
Read 5570022 spots for SRR32454942.sra
Written 5570022 spots for SRR32454942.sra
Read 5570022 spots for SRR32454942.sra
Written 5570022 spots for SRR32454942.sra
Read 5570022 spots for SRR32454942.sra
Written 5570022 spots for SRR32454942.sra
Read 5570022 spots for SRR32454942.sra
Written 5570022 spots for SRR32454942.sra
Read 5570022 spots for SRR32454942.sra
Written 5570022 spots for SRR32454942.sra
Read 5570029 spots for SRR32454942.sra
Written 5570029 spots for SRR32454942.sra
Read 5570022 spots for SRR32454942.sra
Written 5570022 spots for SRR32454942.sra
SRR ids: ['SRR32454942.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_6une2mfp
SRR32454942.sra spots: 44560183
blocks: [[1, 5570022], [5570023, 11140044], [11140045, 16710066], [16710067, 22280088], [22280089, 27850110], [27850111, 33420132], [33420133, 38990154], [38990155, 44560183]]
SRR32454942 file size 7668292
SRR32454942 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 SRR32454942 SRR32454942_1.fastq
Input file:	SRR32454942_1.fastq
trimmed:	SRR32454942-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 19:33:31 2025 >> started

Sat Nov  1 19:33:48 2025 >> done (17.966s)
44560183 reads processed; of these:
     265 ( 0.00%) short reads filtered out after trimming by size control
      11 ( 0.00%) empty reads filtered out after trimming by size control
44559907 (100.00%) reads available; of these:
     156 ( 0.00%) trimmed reads available after processing
44559751 (100.00%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 50	     156	  0.00%
 51	44559751	100.00%
44559907 reads passed initial QC


criterion=sequence-density
sequence-density=62.76
sequence-density-rank=1
fanout-score=3.17
fanout-score-rank=7
prefix-density=63.11
prefix-fanout=3.2
sequence=CTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGTATGATCTCGTATGCC


criterion=fanout-score
sequence-density=9.57
sequence-density-rank=4
fanout-score=32.31
fanout-score-rank=1
prefix-density=9.85
prefix-fanout=31.4
sequence=ATGGAATTCTCG
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 CTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGTATGATCTCGTATGCC -o SRR32454942 -
Input file:	STDIN
trimmed:	SRR32454942-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	CTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGTATGATCTCGTATGCC
-- 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 19:34:34 2025 >> started

Sat Nov  1 19:35:12 2025 >> done (38.145s)
43145307 reads processed; of these:
 8250366 (19.12%) short reads filtered out after trimming by size control
   10435 ( 0.02%) empty reads filtered out after trimming by size control
34884506 (80.85%) reads available; of these:
34195221 (98.02%) trimmed reads available after processing
  689285 ( 1.98%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	 1345373	  3.86%
 19	  992186	  2.84%
 20	 1282864	  3.68%
 21	 1398335	  4.01%
 22	 1087521	  3.12%
 23	  665845	  1.91%
 24	  552967	  1.59%
 25	  465041	  1.33%
 26	  370098	  1.06%
 27	  562300	  1.61%
 28	 1175627	  3.37%
 29	 6762780	 19.39%
 30	14270101	 40.91%
 31	 1506264	  4.32%
 32	  602241	  1.73%
 33	  594174	  1.70%
 34	  360032	  1.03%
 35	   73967	  0.21%
 36	   36667	  0.11%
 37	   14593	  0.04%
 38	   13175	  0.04%
 39	   20029	  0.06%
 40	   20653	  0.06%
 41	    3592	  0.01%
 42	    2797	  0.01%
 43	    2356	  0.01%
 44	    1568	  0.00%
 45	    1559	  0.00%
 46	    5362	  0.02%
 47	    1656	  0.00%
 48	    3498	  0.01%
 49	       0	  0.00%
 50	      13	  0.00%
 51	  689272	  1.98%


criterion=sequence-density
sequence-density=55.22
sequence-density-rank=1
fanout-score=2.01
fanout-score-rank=10
prefix-density=55.12
prefix-fanout=2.0
sequence=GGTGGTTCAGTGGTAGAATTCTCGCCT


criterion=fanout-score
sequence-density=0.93
sequence-density-rank=8
fanout-score=12.10
fanout-score-rank=1
prefix-density=2.24
prefix-fanout=5.0
sequence=TAGCTCAGTTGG
                                 Started job on |	Nov 01 19:35:40
                             Started mapping on |	Nov 01 19:35:40
                                    Finished on |	Nov 01 19:37:44
       Mapping speed, Million of reads per hour |	1053.85

                          Number of input reads |	36299106
                      Average input read length |	29
                                    UNIQUE READS:
                   Uniquely mapped reads number |	2661358
                        Uniquely mapped reads % |	7.33%
                          Average mapped length |	20.91
                       Number of splices: Total |	88454
            Number of splices: Annotated (sjdb) |	5839
                       Number of splices: GT/AG |	85252
                       Number of splices: GC/AG |	1531
                       Number of splices: AT/AC |	0
               Number of splices: Non-canonical |	1671
                      Mismatch rate per base, % |	2.24%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.57
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.07
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	16308649
             % of reads mapped to multiple loci |	44.93%
        Number of reads mapped to too many loci |	13217934
             % of reads mapped to too many loci |	36.41%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	11.30%
                     % of reads unmapped: other |	0.03%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	17329099	17329099	17329099
N_multimapping	16308649	16308649	16308649
N_noFeature	1296487	1536031	2417311
N_ambiguous	81373	75992	904
UnstrandedReadsAssigned:1283498 PositiveStrandReadsAssigned:1049335 NegativeStrandReadsAssigned:243143
Dataset is classified unstranded
MeadianReadLen=30 20thPercentileLength=24 echo kmer=19
SRR32454942 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: SRR32454942-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 36,299,106 reads, 436,222 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 681 rounds

  31716 SRR32454942.ke.tsv
  32883 SRR32454942.se.tsv
  64599 total
==> SRR32454942.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
ENSRNOT00000047550.4	955	856	4	7.14921
ENSRNOT00000040993.4	1039	940	15	24.4138
ENSRNOT00000050156.3	1545	1446	86	90.9917
ENSRNOT00000043693.3	684	585	3	7.8458
ENSRNOT00000046201.3	204	105	4	58.2831
ENSRNOT00000046108.3	681	582	9	23.6587
ENSRNOT00000049683.3	784	685	11	24.5682
ENSRNOT00000041241.3	348	249	0	0
ENSRNOT00000044582.3	297	198	8	61.8154

==> SRR32454942.se.tsv <==
ENSRNOG00000046319	0
ENSRNOG00000047964	0
ENSRNOG00000050370	0
ENSRNOG00000032365	0
ENSRNOG00000040300	0
ENSRNOG00000058808	0
ENSRNOG00000061316	0
ENSRNOG00000050129	0
ENSRNOG00000040316	0
ENSRNOG00000023659	0
SRR32454942 completed mapping pipeline successfully
