Starting /dee2/code/volunteer_pipeline.sh SRR32454943
    current disk space = 1020239772
    free memory = 199463596 
SRR32454943 SRAfilesize
b890b30cce1e3fdb33814ab755afde00  SRR32454943.sra
SRR32454943.sra file validated
SRR32454943 is single end
SRR32454943 is conventional basespace
SRR32454943 read1 length is 51 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR32454943_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	36.1875	37.0	37.0	37.0	37.0	37.0
2	36.1355	37.0	37.0	37.0	37.0	37.0
3	36.2535	37.0	37.0	37.0	37.0	37.0
4	36.3385	37.0	37.0	37.0	37.0	37.0
5	36.3045	37.0	37.0	37.0	37.0	37.0
6	36.286	37.0	37.0	37.0	37.0	37.0
7	36.313	37.0	37.0	37.0	37.0	37.0
8	36.519	37.0	37.0	37.0	37.0	37.0
9	35.7695	37.0	37.0	37.0	37.0	37.0
10	36.461	37.0	37.0	37.0	37.0	37.0
11	36.3525	37.0	37.0	37.0	37.0	37.0
12	36.443	37.0	37.0	37.0	37.0	37.0
13	36.367	37.0	37.0	37.0	37.0	37.0
14	36.6005	37.0	37.0	37.0	37.0	37.0
15	36.298	37.0	37.0	37.0	37.0	37.0
16	36.321	37.0	37.0	37.0	37.0	37.0
17	36.228	37.0	37.0	37.0	37.0	37.0
18	36.1145	37.0	37.0	37.0	37.0	37.0
19	36.284	37.0	37.0	37.0	37.0	37.0
20	36.1755	37.0	37.0	37.0	37.0	37.0
21	36.1765	37.0	37.0	37.0	37.0	37.0
22	36.3	37.0	37.0	37.0	37.0	37.0
23	36.1495	37.0	37.0	37.0	37.0	37.0
24	36.269	37.0	37.0	37.0	37.0	37.0
25	36.231	37.0	37.0	37.0	37.0	37.0
26	36.064	37.0	37.0	37.0	37.0	37.0
27	36.003	37.0	37.0	37.0	37.0	37.0
28	36.0585	37.0	37.0	37.0	37.0	37.0
29	36.053	37.0	37.0	37.0	37.0	37.0
30	36.131	37.0	37.0	37.0	37.0	37.0
31	36.0565	37.0	37.0	37.0	37.0	37.0
32	36.039	37.0	37.0	37.0	37.0	37.0
33	36.129	37.0	37.0	37.0	37.0	37.0
34	36.0885	37.0	37.0	37.0	37.0	37.0
35	36.0315	37.0	37.0	37.0	37.0	37.0
36	35.4075	37.0	37.0	37.0	25.0	37.0
37	36.1	37.0	37.0	37.0	37.0	37.0
38	35.9595	37.0	37.0	37.0	37.0	37.0
39	36.0035	37.0	37.0	37.0	37.0	37.0
40	36.0145	37.0	37.0	37.0	37.0	37.0
41	35.9855	37.0	37.0	37.0	37.0	37.0
42	36.0645	37.0	37.0	37.0	37.0	37.0
43	35.9875	37.0	37.0	37.0	37.0	37.0
44	36.074	37.0	37.0	37.0	37.0	37.0
45	36.1075	37.0	37.0	37.0	37.0	37.0
46	36.0055	37.0	37.0	37.0	37.0	37.0
47	36.0545	37.0	37.0	37.0	37.0	37.0
48	36.012	37.0	37.0	37.0	37.0	37.0
49	36.132	37.0	37.0	37.0	37.0	37.0
50	36.141	37.0	37.0	37.0	37.0	37.0
51	35.9525	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
22	1.0
23	4.0
24	2.0
25	8.0
26	9.0
27	12.0
28	29.0
29	38.0
30	40.0
31	60.0
32	58.0
33	82.0
34	111.0
35	234.0
36	1742.0
37	1570.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	49.62462462462462	17.417417417417415	18.343343343343342	14.614614614614615
2	19.85	7.7	17.65	54.800000000000004
3	21.975	46.725	8.674999999999999	22.625
4	22.475	11.15	46.475	19.900000000000002
5	39.175	9.65	31.1	20.075000000000003
6	59.22500000000001	9.625	14.774999999999999	16.375
7	61.1	11.95	13.15	13.8
8	20.65	10.625	56.05	12.675
9	56.85	13.850000000000001	14.000000000000002	15.299999999999999
10	63.1	11.1	10.8	15.0
11	24.075	6.875000000000001	47.875	21.175
12	20.65	11.700000000000001	51.65	16.0
13	15.975	11.325000000000001	19.625	53.075
14	20.95	52.425	14.674999999999999	11.95
15	63.2	11.025	12.85	12.925
16	21.6	14.124999999999998	53.37499999999999	10.9
17	59.050000000000004	11.625	18.375	10.95
18	60.575	13.325000000000001	16.5	9.6
19	22.175	13.55	54.925000000000004	9.35
20	19.0	48.875	22.55	9.575
21	53.55	18.2	17.4	10.85
22	19.975	50.849999999999994	20.075000000000003	9.1
23	19.7	48.9	21.05	10.35
24	21.075	12.8	53.800000000000004	12.325
25	20.075000000000003	10.299999999999999	56.05	13.575000000000001
26	20.275000000000002	12.275	19.1	48.35
27	19.0	10.85	53.625	16.525000000000002
28	21.975	8.95	20.349999999999998	48.725
29	57.025000000000006	8.1	17.175	17.7
30	19.625	8.375	17.05	54.949999999999996
31	21.4	10.475	25.6	42.525
32	31.6	11.175	40.150000000000006	17.075000000000003
33	59.5	10.85	15.174999999999999	14.475
34	54.725	22.35	10.05	12.875
35	26.075	51.025	10.95	11.95
36	20.674999999999997	44.525	21.725	13.075000000000001
37	20.45	17.775	45.975	15.8
38	16.8	15.875	39.15	28.175
39	14.374999999999998	17.875	21.825	45.925
40	14.325	18.65	34.849999999999994	32.175
41	25.25	19.775000000000002	11.600000000000001	43.375
42	54.449999999999996	18.075	8.450000000000001	19.025
43	56.3	16.5	9.525	17.675
44	43.2	19.05	20.05	17.7
45	25.15	20.175	34.75	19.925
46	37.85	16.825000000000003	13.425	31.900000000000002
47	12.1	16.725	12.3	58.875
48	8.7	27.650000000000002	12.575	51.075
49	9.25	52.5	12.475	25.775
50	20.0	45.550000000000004	11.85	22.6
51	47.775	19.775000000000002	13.975000000000001	18.475
>>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	0.0
20	0.0
21	0.5
22	1.0
23	1.0
24	1.0
25	1.0
26	0.5
27	0.0
28	0.5
29	1.0
30	0.5
31	0.0
32	0.0
33	0.0
34	0.0
35	0.0
36	0.0
37	0.0
38	1.5
39	3.0
40	3.0
41	3.0
42	3.5
43	4.0
44	12.5
45	21.0
46	52.0
47	83.0
48	102.5
49	122.0
50	236.5
51	351.0
52	713.0
53	1075.0
54	1035.5
55	996.0
56	748.0
57	500.0
58	446.5
59	393.0
60	317.5
61	242.0
62	169.5
63	97.0
64	83.0
65	69.0
66	43.5
67	18.0
68	17.5
69	17.0
70	8.5
71	0.0
72	1.0
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	0.1
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	41.475
#Duplication Level	Percentage of deduplicated	Percentage of total
1	79.08378541289933	32.800000000000004
2	11.633514165159735	9.65
3	3.134418324291742	3.9
4	1.9891500904159132	3.3000000000000003
5	0.5424954792043399	1.125
6	0.3616636528028933	0.8999999999999999
7	0.6027727546714888	1.7500000000000002
8	0.48221820373719104	1.6
9	0.24110910186859552	0.8999999999999999
>10	1.6877637130801686	13.850000000000001
>50	0.0	0.0
>100	0.24110910186859552	30.225
>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	445	11.125	No Hit
GCATGGGTGGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAAG	428	10.7	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCTGGAATTCTCGGGTGCCAAGG	181	4.5249999999999995	Illumina Small RNA Adapter 2 (100% over 21bp)
GCATGGGTGGTTCAGTGGTAGAATTCTCGCTGGAATTCTCGGGTGCCAAGG	155	3.875	Illumina Small RNA Adapter 2 (100% over 21bp)
AGGGCAAAAGCTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAT	43	1.075	RNA PCR Primer, Index 1 (100% over 35bp)
GCATGGGTTGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAAG	36	0.8999999999999999	No Hit
GCATTGGTTGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAAG	35	0.8750000000000001	No Hit
CGCGACCTCAGATTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACATCTG	35	0.8750000000000001	RNA PCR Primer, Index 15 (97% over 37bp)
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGCTGGAATTCTCGGGTGCCAA	34	0.8500000000000001	No Hit
GCATTGTGGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAAGG	32	0.8	Illumina Small RNA Adapter 2 (100% over 21bp)
CGCGACCTCAGATCAGACGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA	27	0.675	RNA PCR Primer, Index 1 (100% over 32bp)
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGTGGAATTCTCGGGTGCCAAG	24	0.6	No Hit
TAGCTTATCAGACTGATGTTGACTGGAATTCTCGGGTGCCAAGGAACTCCA	22	0.5499999999999999	RNA PCR Primer, Index 1 (100% over 28bp)
CTATGGTTACGGCTGGCGGTATGGAATTCTCGGGTGCCAAGGAACTCCAGT	19	0.475	RNA PCR Primer, Index 1 (100% over 30bp)
GCATTGTGGTTCAGTGGTAGAATTCTCGCTGGAATTCTCGGGTGCCAAGGA	19	0.475	RNA PCR Primer, Index 1 (100% over 22bp)
CGCGACCTCAGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACATCT	19	0.475	RNA PCR Primer, Index 15 (97% over 37bp)
TGGACGGCGGGGTTCTTGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA	18	0.44999999999999996	RNA PCR Primer, Index 1 (100% over 32bp)
TCCCTGTGGTCTAGTGGTTAGGATTCGGCGCTGGAATTCTCGGGTGCCAAG	18	0.44999999999999996	No Hit
ATGGGTGGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAAGGA	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 22bp)
CGCGACCTCAGATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACATCTGC	14	0.35000000000000003	RNA PCR Primer, Index 15 (97% over 37bp)
TCCCTGTGGTCTAGTGGTTAGGATTCGGCGTGGAATTCTCGGGTGCCAAGG	13	0.325	Illumina Small RNA Adapter 2 (100% over 21bp)
TCATGAGAACGATCAAGTGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	13	0.325	RNA PCR Primer, Index 1 (100% over 30bp)
TGGACGGCGGGGTTCTTGCGGATGGAATTCTCGGGTGCCAAGGAACTCCAG	13	0.325	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCGGATAGCTCAGCGGTAGAGCAATCGACTTGGAATTCTCGGGTGCCAA	13	0.325	No Hit
TAGCTTATCAGACTGATGTTGATGGAATTCTCGGGTGCCAAGGAACTCCAG	13	0.325	RNA PCR Primer, Index 1 (100% over 29bp)
GCATTGGTTGTTCAGTGGTAGAATTCTCGCTGGAATTCTCGGGTGCCAAGG	12	0.3	Illumina Small RNA Adapter 2 (100% over 21bp)
GTGCTGTAGGCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACATCT	12	0.3	RNA PCR Primer, Index 15 (97% over 37bp)
GGGGCTGTAGCTCAGATGGGAGAGCGCTGCAATGGAATTCTCGGGTGCCAA	12	0.3	No Hit
GGGGCTGTAGCTCAGATGGGAGAGCGCTGCAATTGGAATTCTCGGGTGCCA	12	0.3	No Hit
TCATGAGAACGATCAAGTGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 31bp)
TGGACGGCGGGGTTCTTGCGTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 31bp)
GCATGGGTGGTTCAGTGGTAGAATTCTCGCCTTGGAATTCTCGGGTGCCAA	10	0.25	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTTGGAATTCTCGGGTGCCAA	9	0.22499999999999998	No Hit
GCATTTGTGGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAAG	9	0.22499999999999998	No Hit
GACTCTTAGCGGTGGATCACTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 30bp)
GCATGGGTTGTTCAGTGGTAGAATTCTCGCTGGAATTCTCGGGTGCCAAGG	9	0.22499999999999998	Illumina Small RNA Adapter 2 (100% over 21bp)
TGCTGTAGGCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACATCTG	8	0.2	RNA PCR Primer, Index 15 (97% over 37bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGTGGAATTCTCGGGTGCCAAGGA	8	0.2	RNA PCR Primer, Index 1 (100% over 22bp)
AGGGCTGGGTCGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACATCTGC	8	0.2	RNA PCR Primer, Index 15 (97% over 37bp)
GACTCTTAGCGGTGGATTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACA	8	0.2	RNA PCR Primer, Index 1 (100% over 34bp)
AGCGCCCGTCCGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACATCTG	8	0.2	RNA PCR Primer, Index 15 (97% over 37bp)
GCCCGGATAGCTCAGTCGGTAGAGCATCAGATGGAATTCTCGGGTGCCAAG	8	0.2	No Hit
TGGACGGCGGGGTTCTTGCGGTGGAATTCTCGGGTGCCAAGGAACTCCAGT	8	0.2	RNA PCR Primer, Index 1 (100% over 30bp)
GGGCTGGAGAGATGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACA	8	0.2	RNA PCR Primer, Index 1 (100% over 34bp)
GCATTTGTGGTTCAGTGGTAGAATTCTCGCTGGAATTCTCGGGTGCCAAGG	7	0.17500000000000002	Illumina Small RNA Adapter 2 (100% over 21bp)
AGGGCTGGGTCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACATCTGCA	7	0.17500000000000002	RNA PCR Primer, Index 15 (97% over 37bp)
GGCTGGTCCGAAGGTAGTGAGTTATCTCAATTTGGAATTCTCGGGTGCCAA	7	0.17500000000000002	No Hit
AGCCCGGCTCGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACATCTGCA	7	0.17500000000000002	RNA PCR Primer, Index 15 (97% over 37bp)
TGAGGTAGTAGGTTGTATGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
GCGGGTGTAGCTCAGGGGTAGAGCACAACTGGAATTCTCGGGTGCCAAGGA	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 22bp)
TTCACAGTGGCTAAGTTCTGCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 30bp)
GTTTCCGTAGTGTAGTGGTTATCACGTTCGCCTGGAATTCTCGGGTGCCAA	7	0.17500000000000002	No Hit
CGCGACCTCAGATCAGATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACA	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 34bp)
AGGGCAAAAGCTCGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACATC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 36bp)
GACTCTTAGCGGTGGATCACTCGGCTGGAATTCTCGGGTGCCAAGGAACTC	6	0.15	RNA PCR Primer, Index 1 (100% over 26bp)
GGCTGGTCCGAAGGTAGTGAGTTATCTCAATTGGAATTCTCGGGTGCCAAG	6	0.15	No Hit
TCATGAGAACGATCAAGTGCCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
ACAGTAGTCTGCACATTGGTTATGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
GGTGCTGTAGGCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACATC	6	0.15	RNA PCR Primer, Index 1 (100% over 36bp)
GCATGGGTGGTTCAGTGGTAGAATTCTCGTGGAATTCTCGGGTGCCAAGGA	6	0.15	RNA PCR Primer, Index 1 (100% over 22bp)
AGCGCCCGTCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACATCTGCA	5	0.125	RNA PCR Primer, Index 15 (97% over 37bp)
GCCCGGCTAGCTCAGTCGGTAGAGCATGAGACTGGAATTCTCGGGTGCCAA	5	0.125	No Hit
GGGGCCATAGCTCAGTTGGGAGAGCGCTTGAATTGGAATTCTCGGGTGCCA	5	0.125	No Hit
CCCAGTGTTCAGACTACCTGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
GGGGCTGTAGCTCAGATGGGAGAGCGCTGCATGGAATTCTCGGGTGCCAAG	5	0.125	No Hit
GGGGCTGTAGCTCAGATGGGAGAGCGCTGCAATCGCTGGAATTCTCGGGTG	5	0.125	No Hit
TTCTCACTACTGCACTTGACTAGTCTTTGGAATTCTCGGGTGCCAAGGAAC	5	0.125	RNA PCR Primer, Index 1 (100% over 24bp)
CGGAGTGTGGCTCAGCCTGGTAGAGCACCTCGTTCTGGAATTCTCGGGTGC	5	0.125	No Hit
GACTCTTAGCGGTGGATCACTCGGCTTGGAATTCTCGGGTGCCAAGGAACT	5	0.125	RNA PCR Primer, Index 1 (100% over 25bp)
>>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	0.075	0.0	0.0	0.0
2	0.0	0.075	0.0	0.0	0.0
3	0.0	0.075	0.0	0.0	0.0
4	0.0	0.075	0.0	0.0	0.0
5	0.0	0.075	0.0	0.0	0.0
6	0.0	0.075	0.0	0.0	0.0
7	0.0	0.075	0.0	0.0	0.0
8	0.0	0.125	0.0	0.0	0.0
9	0.0	0.2	0.0	0.0	0.0
10	0.0	0.65	0.0	0.0	0.0
11	0.0	1.25	0.0	0.0	0.0
12	0.0	2.525	0.0	0.0	0.0
13	0.0	4.1	0.0	0.0	0.0
14	0.0	7.125	0.0	0.0	0.0
15	0.0	10.55	0.0	0.0	0.0
16	0.0	12.85	0.0	0.0	0.0
17	0.0	16.325	0.0	0.0	0.0
18	0.0	19.725	0.0	0.0	0.0
19	0.0	22.525	0.0	0.0	0.0
20	0.0	26.125	0.0	0.0	0.0
21	0.0	29.4	0.0	0.0	0.0
22	0.0	33.375	0.0	0.0	0.0
23	0.0	38.425	0.0	0.0	0.0
24	0.0	42.075	0.0	0.0	0.0
25	0.0	44.725	0.0	0.0	0.0
26	0.0	46.45	0.0	0.0	0.0
27	0.0	48.275	0.0	0.0	0.0
28	0.0	49.325	0.0	0.0	0.0
29	0.0	50.25	0.0	0.0	0.0
30	0.0	52.1	0.0	0.0	0.0
31	0.0	63.25	0.0	0.0	0.0
32	0.0	90.675	0.0	0.0	0.0
33	0.0	94.15	0.0	0.0	0.0
34	0.0	95.175	0.0	0.0	0.0
35	0.0	96.125	0.0	0.0	0.0
36	0.0	96.925	0.0	0.0	0.0
37	0.0	97.3	0.0	0.0	0.0
38	0.0	97.475	0.0	0.0	0.0
39	0.0	97.575	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	fail
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
GCATGGG	45	2.2009772E-10	45.000004	1
GGTGGTT	95	0.0	45.000004	6
CATGGGT	45	2.2009772E-10	45.000004	2
ATGGGTG	35	8.569259E-8	45.0	3
CGCGACC	20	6.222983E-4	45.0	1
GGTTGTT	20	6.222983E-4	45.0	6
TTGTTCA	20	6.222983E-4	45.0	8
CATTGGT	70	0.0	45.0	2
AGCTCAG	35	8.569259E-8	45.0	9
GCGACCT	20	6.222983E-4	45.0	2
TAGCTCA	35	8.569259E-8	45.0	8
TGTTCAG	20	6.222983E-4	45.0	9
CTCAGAT	20	6.222983E-4	45.0	7
CCTCAGA	20	6.222983E-4	45.0	6
ACCTCAG	20	6.222983E-4	45.0	5
TGGGTGG	35	8.569259E-8	45.0	4
GACCTCA	20	6.222983E-4	45.0	4
TGGTGGT	70	0.0	45.0	5
GCATTGG	70	0.0	45.0	1
GGGTGGT	35	8.569259E-8	45.0	5
>>END_MODULE
Read 5003032 spots for SRR32454943.sra
Written 5003032 spots for SRR32454943.sra
Read 5003032 spots for SRR32454943.sra
Written 5003032 spots for SRR32454943.sra
Read 5003032 spots for SRR32454943.sra
Written 5003032 spots for SRR32454943.sra
Read 5003032 spots for SRR32454943.sra
Written 5003032 spots for SRR32454943.sra
Read 5003032 spots for SRR32454943.sra
Written 5003032 spots for SRR32454943.sra
Read 5003032 spots for SRR32454943.sra
Written 5003032 spots for SRR32454943.sra
Read 5003032 spots for SRR32454943.sra
Written 5003032 spots for SRR32454943.sra
Read 5003039 spots for SRR32454943.sra
Written 5003039 spots for SRR32454943.sra
SRR ids: ['SRR32454943.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_47pwemw7
SRR32454943.sra spots: 40024263
blocks: [[1, 5003032], [5003033, 10006064], [10006065, 15009096], [15009097, 20012128], [20012129, 25015160], [25015161, 30018192], [30018193, 35021224], [35021225, 40024263]]
SRR32454943 file size 6886596
SRR32454943 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 SRR32454943 SRR32454943_1.fastq
Input file:	SRR32454943_1.fastq
trimmed:	SRR32454943-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 18:59:25 2025 >> started

Sat Nov  1 19:00:16 2025 >> done (50.508s)
40024263 reads processed; of these:
     471 ( 0.00%) short reads filtered out after trimming by size control
      11 ( 0.00%) empty reads filtered out after trimming by size control
40023781 (100.00%) reads available; of these:
     342 ( 0.00%) trimmed reads available after processing
40023439 (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	     339	  0.00%
 51	40023439	100.00%
40023781 reads passed initial QC


criterion=sequence-density
sequence-density=97.62
sequence-density-rank=1
fanout-score=9.69
fanout-score-rank=2
prefix-density=98.50
prefix-fanout=9.6
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACATCTGCATCTCGTATGCC


criterion=fanout-score
sequence-density=1.96
sequence-density-rank=3
fanout-score=16.88
fanout-score-rank=1
prefix-density=1.95
prefix-fanout=16.9
sequence=GGCTGGAATTCT
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 TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACATCTGCATCTCGTATGCC -o SRR32454943 -
Input file:	STDIN
trimmed:	SRR32454943-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACATCTGCATCTCGTATGCC
-- 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 19:03:01 2025 >> started

Sat Nov  1 19:03:46 2025 >> done (44.683s)
39206969 reads processed; of these:
 8227830 (20.99%) short reads filtered out after trimming by size control
    8982 ( 0.02%) empty reads filtered out after trimming by size control
30970157 (78.99%) reads available; of these:
30864630 (99.66%) trimmed reads available after processing
  105527 ( 0.34%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	 1117927	  3.61%
 19	 1591125	  5.14%
 20	 1378044	  4.45%
 21	 1788895	  5.78%
 22	 1841871	  5.95%
 23	 1460230	  4.71%
 24	  961471	  3.10%
 25	  751094	  2.43%
 26	  564840	  1.82%
 27	  377921	  1.22%
 28	  420122	  1.36%
 29	  783595	  2.53%
 30	 4402218	 14.21%
 31	10397015	 33.57%
 32	 1257511	  4.06%
 33	  509467	  1.65%
 34	  485253	  1.57%
 35	  284163	  0.92%
 36	  128878	  0.42%
 37	   71711	  0.23%
 38	   54321	  0.18%
 39	   55109	  0.18%
 40	   44935	  0.15%
 41	   74714	  0.24%
 42	   32256	  0.10%
 43	    8175	  0.03%
 44	    5846	  0.02%
 45	    4214	  0.01%
 46	    3030	  0.01%
 47	    6127	  0.02%
 48	    2555	  0.01%
 49	       0	  0.00%
 50	       3	  0.00%
 51	  105521	  0.34%


criterion=sequence-density
sequence-density=43.29
sequence-density-rank=1
fanout-score=2.01
fanout-score-rank=9
prefix-density=43.19
prefix-fanout=2.0
sequence=GGTGGTTCAGTGGTAGAATTCTCGCCTG


criterion=fanout-score
sequence-density=0.01
sequence-density-rank=40
fanout-score=290.34
fanout-score-rank=1
prefix-density=1.45
prefix-fanout=1.0
sequence=GATGGGAGACCGCCTGGGAATACCGGGTGCTGTAGGCTTT
                                 Started job on |	Nov 01 19:07:14
                             Started mapping on |	Nov 01 19:07:14
                                    Finished on |	Nov 01 19:08:38
       Mapping speed, Million of reads per hour |	1362.30

                          Number of input reads |	31786969
                      Average input read length |	24
                                    UNIQUE READS:
                   Uniquely mapped reads number |	3359523
                        Uniquely mapped reads % |	10.57%
                          Average mapped length |	18.01
                       Number of splices: Total |	70398
            Number of splices: Annotated (sjdb) |	13904
                       Number of splices: GT/AG |	61310
                       Number of splices: GC/AG |	930
                       Number of splices: AT/AC |	4
               Number of splices: Non-canonical |	8154
                      Mismatch rate per base, % |	1.03%
                         Deletion rate per base |	0.01%
                        Deletion average length |	1.20
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.00
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	8056675
             % of reads mapped to multiple loci |	25.35%
        Number of reads mapped to too many loci |	17636211
             % of reads mapped to too many loci |	55.48%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	8.08%
                     % of reads unmapped: other |	0.52%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	20370771	20370771	20370771
N_multimapping	8056675	8056675	8056675
N_noFeature	1888624	2172462	3065317
N_ambiguous	100698	87731	2663
UnstrandedReadsAssigned:1370201 PositiveStrandReadsAssigned:1099330 NegativeStrandReadsAssigned:291543
Dataset is classified unstranded
MeadianReadLen=26 20thPercentileLength=18 echo kmer=19
SRR32454943 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: SRR32454943-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 31,786,969 reads, 299,792 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 648 rounds

  31716 SRR32454943.ke.tsv
  32883 SRR32454943.se.tsv
  64599 total
==> SRR32454943.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
ENSRNOT00000047550.4	955	856	3	10.8036
ENSRNOT00000040993.4	1039	940	6	19.6763
ENSRNOT00000050156.3	1545	1446	31	66.0866
ENSRNOT00000043693.3	684	585	1	5.26943
ENSRNOT00000046201.3	204	105	0	0
ENSRNOT00000046108.3	681	582	7	37.0762
ENSRNOT00000049683.3	784	685	10	45.0017
ENSRNOT00000041241.3	348	249	0	0
ENSRNOT00000044582.3	297	198	0	0

==> SRR32454943.se.tsv <==
ENSRNOG00000046319	0
ENSRNOG00000047964	0
ENSRNOG00000050370	0
ENSRNOG00000032365	0
ENSRNOG00000040300	0
ENSRNOG00000058808	0
ENSRNOG00000061316	0
ENSRNOG00000050129	0
ENSRNOG00000040316	0
ENSRNOG00000023659	0
SRR32454943 completed mapping pipeline successfully
