Starting /dee2/code/volunteer_pipeline.sh SRR5030929
    current disk space = 160613924864
    free memory = 73922736 
SRR5030929 SRAfilesize
fb97fdd536a7573fcb8fe278bc7977f6  SRR5030929.sra
SRR5030929.sra file validated
SRR5030929 is single end
SRR5030929 is conventional basespace
SRR5030929 read1 length is 50 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR5030929_1.fastq
File type	Conventional base calls
Encoding	Sanger / Illumina 1.9
Total Sequences	4000
Sequences flagged as poor quality	0
Sequence length	50
%GC	51
>>END_MODULE
>>Per base sequence quality	fail
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	32.35225	33.0	31.0	34.0	31.0	34.0
2	32.66725	34.0	31.0	34.0	31.0	34.0
3	32.73925	34.0	31.0	34.0	31.0	34.0
4	36.19825	37.0	37.0	37.0	35.0	37.0
5	36.22475	37.0	37.0	37.0	35.0	37.0
6	35.905	37.0	35.0	37.0	35.0	37.0
7	36.03875	37.0	35.0	37.0	35.0	37.0
8	36.12275	37.0	35.0	37.0	35.0	37.0
9	37.8445	39.0	37.0	39.0	35.0	39.0
10	37.8145	39.0	38.0	39.0	35.0	39.0
11	37.82625	39.0	38.0	39.0	35.0	39.0
12	37.8625	39.0	38.0	39.0	35.0	39.0
13	37.86325	39.0	38.0	39.0	35.0	39.0
14	39.28575	41.0	39.0	41.0	36.0	41.0
15	39.2445	41.0	39.0	41.0	36.0	41.0
16	39.04175	40.0	38.0	41.0	36.0	41.0
17	39.19025	41.0	39.0	41.0	36.0	41.0
18	39.20325	41.0	39.0	41.0	36.0	41.0
19	38.8895	40.0	38.0	41.0	36.0	41.0
20	39.033	40.0	39.0	41.0	36.0	41.0
21	39.02475	40.0	39.0	41.0	36.0	41.0
22	39.13	41.0	39.0	41.0	36.0	41.0
23	39.0575	40.0	39.0	41.0	36.0	41.0
24	38.31775	40.0	38.0	41.0	34.0	41.0
25	38.5965	40.0	38.0	41.0	34.0	41.0
26	38.6565	40.0	38.0	41.0	34.0	41.0
27	38.70425	40.0	38.0	41.0	34.0	41.0
28	38.70625	40.0	38.0	41.0	34.0	41.0
29	38.7205	40.0	38.0	41.0	35.0	41.0
30	38.6045	40.0	38.0	41.0	34.0	41.0
31	38.826	40.0	38.0	41.0	35.0	41.0
32	38.927	41.0	39.0	41.0	35.0	41.0
33	37.451	40.0	38.0	41.0	31.0	41.0
34	37.057	40.0	38.0	41.0	30.0	41.0
35	32.86275	38.0	31.0	40.0	15.0	41.0
36	28.6115	37.0	15.0	40.0	8.0	41.0
37	28.93225	35.0	22.0	39.0	6.0	41.0
38	31.8605	37.0	30.0	39.0	12.0	41.0
39	31.6285	37.0	30.0	40.0	8.0	41.0
40	32.565	38.0	32.0	40.0	7.0	41.0
41	30.19825	36.0	26.0	40.0	2.0	41.0
42	31.91875	37.0	31.0	40.0	2.0	41.0
43	29.9385	37.0	26.0	40.0	2.0	41.0
44	31.1605	37.0	30.0	40.0	2.0	41.0
45	28.43375	36.0	22.0	40.0	2.0	41.0
46	26.6095	34.0	8.0	39.0	2.0	41.0
47	26.68775	34.0	7.0	39.0	2.0	41.0
48	27.60325	35.0	2.0	40.0	2.0	41.0
49	25.441	34.0	2.0	40.0	2.0	41.0
50	22.3365	29.0	2.0	38.0	2.0	40.0
>>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
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
12	1.0
13	0.0
14	0.0
15	2.0
16	0.0
17	1.0
18	3.0
19	5.0
20	13.0
21	19.0
22	32.0
23	28.0
24	43.0
25	70.0
26	86.0
27	151.0
28	69.0
29	123.0
30	150.0
31	186.0
32	195.0
33	179.0
34	227.0
35	256.0
36	327.0
37	390.0
38	575.0
39	869.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	9.717004758327072	25.093914350112694	51.94089656899574	13.248184322564487
2	25.074999999999996	28.725	21.325	24.875
3	17.224999999999998	19.25	20.375	43.15
4	25.95	38.9	11.700000000000001	23.45
5	21.575	37.4	30.45	10.575
6	32.775	15.65	39.550000000000004	12.025
7	14.249999999999998	22.95	24.825	37.974999999999994
8	26.075	41.6	13.8	18.525
9	15.85	41.349999999999994	30.75	12.049999999999999
10	19.175	20.674999999999997	25.95	34.2
11	36.5	11.625	13.4	38.475
12	15.950000000000001	18.175	21.925	43.95
13	19.0	21.725	40.525	18.75
14	38.95	22.375	25.074999999999996	13.600000000000001
15	36.175000000000004	21.075	30.775000000000002	11.975
16	13.55	24.575	22.0	39.875
17	27.975	24.325	35.699999999999996	12.0
18	31.5	17.849999999999998	27.3	23.35
19	36.199999999999996	14.000000000000002	32.975	16.825000000000003
20	47.599999999999994	17.150000000000002	24.575	10.674999999999999
21	22.0	28.15	24.175	25.674999999999997
22	34.075	11.225	46.325	8.375
23	22.925	13.4	49.55	14.124999999999998
24	50.675000000000004	13.05	28.9	7.375
25	55.2	20.575	15.049999999999999	9.175
26	30.975	46.075	12.174999999999999	10.775
27	14.575	53.025	20.525	11.875
28	10.125	28.65	48.775	12.45
29	10.325	12.8	60.099999999999994	16.775000000000002
30	9.125	6.575	38.4	45.9
31	11.700000000000001	5.5	48.0	34.8
32	23.25	5.8500000000000005	25.624999999999996	45.275
33	52.125	8.1	14.6	25.174999999999997
34	66.27499999999999	5.65	12.525	15.55
35	65.575	6.575	18.325	9.525
36	66.05	8.025	16.025	9.9
37	41.699999999999996	10.075000000000001	24.575	23.65
38	26.200000000000003	12.525	13.8	47.475
39	15.975	21.325	9.575	53.125
40	13.3	48.275	10.125	28.299999999999997
41	24.5	50.025	9.0	16.475
42	50.4	32.85	9.6	7.1499999999999995
43	53.125	29.825000000000003	7.875	9.175
44	33.275	48.525	6.375	11.825
45	17.4	51.475	9.425	21.7
46	10.9	31.775	22.650000000000002	34.675
47	9.375	14.575	35.699999999999996	40.35
48	9.875	9.85	24.125	56.15
49	11.075	23.65	13.575000000000001	51.7
50	26.924999999999997	28.95	9.075	35.05
>>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	0.5
10	1.0
11	1.0
12	1.0
13	0.5
14	0.0
15	0.0
16	0.0
17	0.0
18	0.0
19	0.0
20	0.0
21	0.0
22	0.0
23	0.0
24	0.0
25	0.5
26	1.0
27	1.0
28	1.0
29	1.5
30	2.0
31	4.5
32	7.0
33	15.0
34	23.0
35	33.5
36	44.0
37	46.0
38	48.0
39	52.0
40	56.0
41	52.5
42	49.0
43	75.0
44	101.0
45	182.0
46	263.0
47	318.0
48	373.0
49	493.0
50	613.0
51	806.5
52	1000.0
53	709.5
54	419.0
55	381.0
56	343.0
57	311.0
58	279.0
59	196.5
60	114.0
61	89.0
62	64.0
63	88.5
64	113.0
65	72.0
66	31.0
67	19.5
68	8.0
69	10.5
70	13.0
71	18.0
72	23.0
73	12.5
74	2.0
75	3.0
76	4.0
77	2.5
78	1.0
79	1.5
80	2.0
81	1.5
82	1.0
83	0.5
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	0.17500000000000002
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
>>END_MODULE
>>Sequence Length Distribution	pass
#Length	Count
50	4000.0
>>END_MODULE
>>Sequence Duplication Levels	fail
#Total Deduplicated Percentage	49.975
#Duplication Level	Percentage of deduplicated	Percentage of total
1	80.24012006003002	40.1
2	9.154577288644322	9.15
3	3.3516758379189597	5.025
4	1.6008004002001	3.2
5	1.0505252626313157	2.625
6	0.750375187593797	2.25
7	0.6003001500750376	2.1
8	0.5002501250625313	2.0
9	0.400200100050025	1.7999999999999998
>10	2.2011005502751377	21.975
>50	0.10005002501250625	3.55
>100	0.05002501250625312	6.225
>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
AACATTCAACGCTGTCGGTGAGTTGGAATTCTCGGGTGCCAAGGAACTCC	249	6.225	RNA PCR Primer, Index 1 (100% over 27bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGGGCCAAGGAACTCCA	82	2.0500000000000003	RNA PCR Primer, Index 1 (96% over 28bp)
CGCGACCTCAGATCAGACGTGGCGACCCGCTGATGGAATTCTCGGGTGCC	60	1.5	No Hit
TGTAAACATCCCCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	37	0.9249999999999999	RNA PCR Primer, Index 1 (100% over 26bp)
TCCCTGAGACCCTTTAACCTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	37	0.9249999999999999	RNA PCR Primer, Index 1 (100% over 28bp)
TCTTTGGTTATCTAGCTGTATGATGGAATTCTCGGGTGCCAAGGAACTCC	37	0.9249999999999999	RNA PCR Primer, Index 1 (100% over 27bp)
TGTAAACATCCTCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	36	0.8999999999999999	RNA PCR Primer, Index 1 (100% over 26bp)
AACATTCAACGCTGTCGGTGATGGAATTCTCGGGTGCCAAGGAACTCCAG	35	0.8750000000000001	RNA PCR Primer, Index 1 (100% over 29bp)
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGGGCCAAGGAACTCCA	35	0.8750000000000001	RNA PCR Primer, Index 1 (96% over 28bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA	34	0.8500000000000001	RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCTACACTCTCAGCTTGGAATTCTCGGGTGCCAAGGAACTC	32	0.8	RNA PCR Primer, Index 1 (100% over 26bp)
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGTGCCAAGGAACTCCA	31	0.775	RNA PCR Primer, Index 1 (100% over 28bp)
TCACAGTGAACCGGTCTCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	27	0.675	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTTTAACCTGTTGGAATTCTCGGGGGCCAAGGAACTCCA	24	0.6	RNA PCR Primer, Index 1 (96% over 28bp)
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGGGCCAAGGAACTCCA	24	0.6	RNA PCR Primer, Index 1 (96% over 28bp)
CAACGGAATCCCAAAAGCAGCTGTGGAATTCTCGGGTGCCAAGGAACTCC	23	0.575	RNA PCR Primer, Index 1 (100% over 27bp)
GTTAGTACTTGGATGGGAGACCGCCTGGGAATACCGGGTGCTGTAGGCTT	22	0.5499999999999999	No Hit
TTCAAGTAATCCAGGATAGGCTTTGGAATTCTCGGGTGCCAAGGAACTCC	22	0.5499999999999999	RNA PCR Primer, Index 1 (100% over 27bp)
TCGGATCCGTCTGAGCTTGGCTTTGGAATTCTCGGGTGCCAAGGAACTCC	21	0.525	RNA PCR Primer, Index 1 (100% over 27bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGGGCCAAGGAACTCCG	20	0.5	RNA PCR Primer, Index 1 (96% over 27bp)
TGAGGTAGTAGATTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	20	0.5	RNA PCR Primer, Index 1 (100% over 29bp)
TTCAAGTAATCCAGGATAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	19	0.475	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGATTGTATAGTTTGGAATTCTCGGGGGCCAAGGAACTCCA	18	0.44999999999999996	RNA PCR Primer, Index 1 (96% over 28bp)
AACATTCAACGCTGTCGGTGAGATGGAATTCTCGGGTGCCAAGGAACTCC	18	0.44999999999999996	RNA PCR Primer, Index 1 (100% over 27bp)
GCGGATGATGACACCTGGGTATGCTGCACACTCCCGACTGCGTCGTGGGG	17	0.42500000000000004	No Hit
TCGGATCCGTCTGAGCTTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGT	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 30bp)
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 28bp)
TCGGATCCGTCTGAGCTTGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	16	0.4	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCCCGACTGGAAGCTGGAATTCTCGGGTGCCAAGGAACTCC	16	0.4	RNA PCR Primer, Index 1 (100% over 27bp)
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCTATACATCTCGTATGC	16	0.4	RNA PCR Primer, Index 39 (100% over 50bp)
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGGGCCAAGGAACTCCA	15	0.375	RNA PCR Primer, Index 1 (96% over 28bp)
CACCCGTAGAACCGACCTTGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	15	0.375	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTTTAACCTGTGGAATTCTCGGGTGCCAAGGAACTCCAG	15	0.375	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCCCGACTGGAATGGAATTCTCGGGTGCCAAGGAACTCCAG	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCTTGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 26bp)
CCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC	13	0.325	RNA PCR Primer, Index 1 (100% over 33bp)
TAGCAGCACGTAAATATTGGCGTGGAATTCTCGGGGGCCAAGGAACTCCA	13	0.325	RNA PCR Primer, Index 1 (96% over 28bp)
TTCCCTTTGTCATCCTATGCCTGTGGAATTCTCGGGTGCCAAGGAACTCC	12	0.3	RNA PCR Primer, Index 1 (100% over 27bp)
TCCTGTACTGAGCTGCCCCGAGTTGGAATTCTCGGGTGCCAAGGAACTCC	12	0.3	RNA PCR Primer, Index 1 (100% over 27bp)
TTTGAACCATCACTCGACTCCTTGGAATTCTCGGGTGCCAAGGAACTCCA	12	0.3	RNA PCR Primer, Index 1 (100% over 28bp)
AGTCTATGATGATCCTATCCCGAACCTGAATTCCTGTTGAAAAACCATAA	11	0.27499999999999997	No Hit
GTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCTATACATCTC	11	0.27499999999999997	RNA PCR Primer, Index 39 (100% over 44bp)
TGAGGTAGTAGGTTGTATGGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 29bp)
TGCTGTGATGAGATGACTAAGTAGGAAGTGCCGTCAGAGTCGATAACTGA	10	0.25	No Hit
CTTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTG	10	0.25	No Hit
TCACAGTGAACCGGTCTCTTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	10	0.25	RNA PCR Primer, Index 1 (100% over 28bp)
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA	10	0.25	RNA PCR Primer, Index 1 (100% over 28bp)
TCTTTGGTTATCTAGCTGTATTGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
CGACTCTTAGCGGTGGATCACTCGGCTCGTGCGTCGATGAAGAACGCAGC	9	0.22499999999999998	No Hit
TGAGGTAGTAGATTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 28bp)
ACTTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTT	9	0.22499999999999998	No Hit
TCCTGTACTGAGCTGCCCCGATGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGGGCCAAGGAACTCCG	9	0.22499999999999998	RNA PCR Primer, Index 1 (96% over 27bp)
CACCCGTAGAACCGACCTTGCGTGGAATTCTCGGGTGCCAAGGAACTCCA	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCTCGACTGGAATGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTTTAACCTGTGTGGAATTCTCGGGTGCCAAGGAACTCC	8	0.2	RNA PCR Primer, Index 1 (100% over 27bp)
CACAAATGATGAACCTTTTGACGGGCGGACAGAAACTCTGTGCTGAATGT	8	0.2	No Hit
TGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCT	8	0.2	RNA PCR Primer, Index 1 (97% over 35bp)
TGAACTGATGATATCATTTCTTTCCCCGTCAGATCGACCCTGTTGATCTC	8	0.2	No Hit
GTTTCCGTAGTGTAGTGGTTATCACGTTCGCCTGGAATTCTCGGGTGCCA	8	0.2	No Hit
TCGGATCCGTCTGAGCTTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGC	8	0.2	RNA PCR Primer, Index 1 (96% over 29bp)
TTGCTGTGATGACTATCTTAGGACACCTTTGGATTAACCGTGAAATCAAA	8	0.2	No Hit
TCCCTGAGACCCTTTAACCTGTGATGGAATTCTCGGGTGCCAAGGAACTC	8	0.2	RNA PCR Primer, Index 1 (100% over 26bp)
GTTTCCGTAGTGTAGTGGTTATCACGTTCGCCTTGGAATTCTCGGGTGCC	8	0.2	No Hit
TGAGGTAGTAGTTTGTGCTGTTATGGAATTCTCGGGTGCCAAGGAACTCC	8	0.2	RNA PCR Primer, Index 1 (100% over 27bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGGGCCAAGGAATTCCG	7	0.17500000000000002	RNA PCR Primer, Index 1 (95% over 23bp)
TGAGGTAGTAGGTTGTATGGTTTTGGAATTCTCGGGTGCCAAGGAACTCC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 27bp)
AACATTCATTGCTGTCGGTGGGTTGGAATTCTCGGGTGCCAAGGAACTCC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 27bp)
TCTTAGATCGATGTGGTGCTCCGGAGTTCTCTTCGGGCCAGGGCCTAAGC	7	0.17500000000000002	No Hit
AGTCTATGATGATCCTATCCCGAACCTGAATTCCTGTTGAAAAACCATAC	7	0.17500000000000002	No Hit
TCGGATCCGTCTGAGCTTGGCTATGGAATTCTCGGGTGCCAAGGAACTCC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 27bp)
GACTCTTAGCGGTGGATCACTCGGCTCGTGCGTCGATGAAGAACGCAGCT	7	0.17500000000000002	No Hit
AACATTCAACGCTGTCGGTGAGTTTGGAATTCTCGGGTGCCAAGGAACTC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 26bp)
TTTGAACCATCACTCGACTCCTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGGTTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGATGAAGCACTGTAGCTCTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGGTTGTATGGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 28bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGGGCCAAGGAATTCCA	6	0.15	RNA PCR Primer, Index 1 (95% over 23bp)
TCGGATCCGTCTGAGCTTGGCTATTGGAATTCTCGGGTGCCAAGGAACTC	6	0.15	RNA PCR Primer, Index 1 (100% over 26bp)
TGAGGTAGTAGTTTGTACAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
GTTTCCGTAGTGTAGTGGTTATCACGTTCGCCTGACTGGAATTCTCGGGT	6	0.15	No Hit
TTCAAGTAATCCAGGATAGGCTATGGAATTCTCGGGTGCCAAGGAACTCC	6	0.15	RNA PCR Primer, Index 1 (100% over 27bp)
GGGGGGCCCAAGTCCTTCTGATCGAGGCCCTGGAATTCTCGGGTGCCAAG	6	0.15	No Hit
TGAGGTAGTAGGTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGGGCCAAGGAACTCCG	6	0.15	RNA PCR Primer, Index 1 (96% over 27bp)
TGTAAACATCCTCGACTGGATGGAATTCTCGGGTGCCAAGGAACTCCAGT	6	0.15	RNA PCR Primer, Index 1 (100% over 30bp)
AGCAGCATTGTACAGGGCTATGATGGAATTCTCGGGTGCCAAGGAACTCC	6	0.15	RNA PCR Primer, Index 1 (100% over 27bp)
ACTAATCCTAGCCCTAGCCCTACATGGAATTCTCGGGTGCCAAGGAACTC	6	0.15	RNA PCR Primer, Index 1 (100% over 26bp)
TTCCCTTTGTCATCCTATGCCTTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
TCGGATCCGTCTGAGCTTGGATGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
GCATTTGTGGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAA	6	0.15	No Hit
TTTGAACCATCACTCGACTCCTTGGAATTCTCGGGGGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (96% over 28bp)
TGAGGTAGTAGGTTGTATGGTTTGGAATTCTCGGGGGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (96% over 28bp)
TGTAAACATCCTACACTCTCAGCTGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGCTGGAATTCTCGGGTGCCA	5	0.125	No Hit
AACATTCATTGCTGTCGGTGGGTTTGGAATTCTCGGGTGCCAAGGAACTC	5	0.125	RNA PCR Primer, Index 1 (100% over 26bp)
AAGAAAGATTGCAAGAACTGCTAATTCATGCTTCCATGTTTACCATGGAA	5	0.125	No Hit
CGCGACCTCAGATCAGACGTGGCGACCCGCTGCTGGAATTCTCGGGTGCC	5	0.125	No Hit
TCGGATCCGTCTGAGCTTGGCTTTTGGAATTCTCGGGTGCCAAGGAACTC	5	0.125	RNA PCR Primer, Index 1 (100% over 26bp)
TGAGGTAGTAGTTTGTGCTGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
CACCCTGATGAACTGAATACCGCCCCAGTCTGATAGCTGTGGAGAAAGGT	5	0.125	No Hit
TGACTTGATGAAAGTACTTTTGAACCCTTTTCCATCTGATGTGGAATTCT	5	0.125	No Hit
TGAGGTAGTAGGTTGTATAGTTTGGAATTCTCGGGGGCCAAGGAACTCCG	5	0.125	RNA PCR Primer, Index 1 (96% over 27bp)
GTAAATGATGAGATTCCATTGGTCCGTGTTTCTGAACTACATGATTTTCC	5	0.125	No Hit
CATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTTGGAATTC	5	0.125	No Hit
TCTTTGGTTATCTAGCTGTATGTTGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
AATATAACACAGATGGCCTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
AGAGGTAGTAGGTTGCATAGTTTGGAATTCTCGGGGGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (96% over 28bp)
TCACAGTGAACCGGTCTCTTTAATGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
TCGGATCCGTCTGAGCTTGGTGGAATTCTCGGGGGCCAAGGAACTCCAGC	5	0.125	RNA PCR Primer, Index 1 (96% over 29bp)
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGTGCCAAGGAACTCCG	5	0.125	RNA PCR Primer, Index 1 (96% over 27bp)
TGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTGGA	5	0.125	No Hit
AACATTCAACCTGTCGGTGAGTTTGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
>>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	0.425	0.0	0.0	0.0
2	0.0	0.45	0.0	0.0	0.0
3	0.0	0.55	0.0	0.0	0.0
4	0.0	0.575	0.0	0.0	0.0
5	0.0	0.625	0.0	0.0	0.0
6	0.0	0.675	0.0	0.0	0.0
7	0.0	1.05	0.0	0.0	0.0
8	0.0	1.075	0.0	0.0	0.0
9	0.0	1.125	0.0	0.0	0.0
10	0.0	1.225	0.0	0.0	0.0
11	0.0	1.325	0.0	0.0	0.0
12	0.0	1.45	0.0	0.0	0.0
13	0.0	1.575	0.0	0.0	0.0
14	0.0	1.725	0.0	0.0	0.0
15	0.0	2.0	0.0	0.0	0.0
16	0.0	2.6	0.0	0.0	0.0
17	0.0	2.925	0.0	0.0	0.0
18	0.0	3.75	0.0	0.0	0.0
19	0.0	4.05	0.0	0.0	0.0
20	0.0	4.975	0.0	0.0	0.0
21	0.0	9.025	0.0	0.0	0.0
22	0.0	18.575	0.0	0.0	0.0
23	0.0	49.875	0.0	0.0	0.0
24	0.0	66.475	0.0	0.0	0.0
25	0.0	72.95	0.0	0.0	0.0
26	0.0	73.8	0.0	0.0	0.0
27	0.0	74.2	0.0	0.0	0.0
28	0.0	74.9	0.0	0.0	0.0
29	0.0	75.075	0.0	0.0	0.0
30	0.0	75.325	0.0	0.0	0.0
31	0.0	75.9	0.0	0.0	0.0
32	0.0	77.025	0.0	0.0	0.0
33	0.0	78.15	0.0	0.0	0.0
34	0.0	80.575	0.0	0.0	0.0
35	0.0	81.3	0.0	0.0	0.0
36	0.0	81.8	0.0	0.0	0.0
37	0.0	82.45	0.0	0.0	0.0
38	0.0	82.625	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
ACAGTGA	20	6.952051E-4	44.000004	3
ACCGGTC	20	6.952051E-4	44.000004	10
TGTTGGA	20	6.952051E-4	44.000004	20
AACCGGT	20	6.952051E-4	44.000004	9
TTGTATA	20	6.952051E-4	44.000004	13
CGGGGCC	20	6.952051E-4	44.000004	32
ACATCCT	20	6.952051E-4	44.000004	6
GTATAGT	20	6.952051E-4	44.000004	15
ATAGTTT	20	6.952051E-4	44.000004	17
GAACCGG	20	6.952051E-4	44.000004	8
GAACTCA	20	6.952051E-4	44.000004	43
GACTGGA	20	6.952051E-4	44.000004	14
AGTGAAC	20	6.952051E-4	44.000004	5
GTGAACC	20	6.952051E-4	44.000004	6
CGGTCTC	20	6.952051E-4	44.000004	12
CTGTTGG	20	6.952051E-4	44.000004	19
TGAACCG	20	6.952051E-4	44.000004	7
TGTATAG	20	6.952051E-4	44.000004	14
TATAGTT	20	6.952051E-4	44.000004	16
CAGTGAA	20	6.952051E-4	44.000004	4
>>END_MODULE
Read 309822 spots for SRR5030929.sra
Written 309822 spots for SRR5030929.sra
Read 309822 spots for SRR5030929.sra
Written 309822 spots for SRR5030929.sra
Read 309822 spots for SRR5030929.sra
Written 309822 spots for SRR5030929.sra
Read 309822 spots for SRR5030929.sra
Written 309822 spots for SRR5030929.sra
Read 309822 spots for SRR5030929.sra
Written 309822 spots for SRR5030929.sra
Read 309822 spots for SRR5030929.sra
Written 309822 spots for SRR5030929.sra
Read 309822 spots for SRR5030929.sra
Written 309822 spots for SRR5030929.sra
Read 309822 spots for SRR5030929.sra
Written 309822 spots for SRR5030929.sra
Read 309822 spots for SRR5030929.sra
Written 309822 spots for SRR5030929.sra
Read 309822 spots for SRR5030929.sra
Written 309822 spots for SRR5030929.sra
Read 309832 spots for SRR5030929.sra
Written 309832 spots for SRR5030929.sra
Read 309822 spots for SRR5030929.sra
Written 309822 spots for SRR5030929.sra
SRR ids: ['SRR5030929.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_wnuixol2
SRR5030929.sra spots: 3717874
blocks: [[1, 309822], [309823, 619644], [619645, 929466], [929467, 1239288], [1239289, 1549110], [1549111, 1858932], [1858933, 2168754], [2168755, 2478576], [2478577, 2788398], [2788399, 3098220], [3098221, 3408042], [3408043, 3717874]]
SRR5030929 file size 643318
SRR5030929 completed basic pipeline successfully
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	skewer -l 18 -q 10 -k inf -t 12 -o SRR5030929 SRR5030929_1.fastq
Input file:	SRR5030929_1.fastq
trimmed:	SRR5030929-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 (auto detected)
-- minimum overlap length for adapter detection (-k):	inf
-- number of concurrent threads (-t):	12
Wed Mar  4 06:47:23 2020 >> started

Wed Mar  4 06:47:25 2020 >> done (2.196s)
3717874 reads processed; of these:
    125 ( 0.00%) short reads filtered out after trimming by size control
      5 ( 0.00%) empty reads filtered out after trimming by size control
3717744 (100.00%) reads available; of these:
 426938 (11.48%) trimmed reads available after processing
3290806 (88.52%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	     41	  0.00%
 19	     65	  0.00%
 20	    127	  0.00%
 21	    191	  0.01%
 22	    375	  0.01%
 23	    409	  0.01%
 24	    408	  0.01%
 25	    561	  0.02%
 26	    478	  0.01%
 27	    589	  0.02%
 28	    877	  0.02%
 29	   1818	  0.05%
 30	   1001	  0.03%
 31	   1332	  0.04%
 32	   3451	  0.09%
 33	  10684	  0.29%
 34	  32424	  0.87%
 35	   7339	  0.20%
 36	   8367	  0.23%
 37	   4130	  0.11%
 38	   8013	  0.22%
 39	   6949	  0.19%
 40	  15827	  0.43%
 41	   8772	  0.24%
 42	  24538	  0.66%
 43	   9339	  0.25%
 44	  47604	  1.28%
 45	  25404	  0.68%
 46	  21301	  0.57%
 47	  23409	  0.63%
 48	  85084	  2.29%
 49	  76031	  2.05%
 50	3290806	 88.52%
3717744 reads passed initial QC


criterion=sequence-density
sequence-density=82.42
sequence-density-rank=1
fanout-score=18.92
fanout-score-rank=2
prefix-density=84.90
prefix-fanout=18.4
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCTATACATCTCGTATGCC


criterion=fanout-score
sequence-density=4.43
sequence-density-rank=2
fanout-score=55.93
fanout-score-rank=1
prefix-density=84.92
prefix-fanout=2.9
sequence=GAATTCTCGGGGGCCAAGGAACT
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:	skewer -l 18 -t 12 -x TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCTATACATCTCGTATGCC -o SRR5030929 -
Input file:	STDIN
trimmed:	SRR5030929-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCTATACATCTCGTATGCC
-- 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):		Unknown format (auto detected)
-- minimum overlap length for adapter detection (-k):	3
-- number of concurrent threads (-t):	12
Wed Mar  4 06:47:41 2020 >> started

Wed Mar  4 06:47:46 2020 >> done (4.637s)
3628160 reads processed; of these:
 129808 ( 3.58%) short reads filtered out after trimming by size control
  15454 ( 0.43%) empty reads filtered out after trimming by size control
3482898 (96.00%) reads available; of these:
3100977 (89.03%) trimmed reads available after processing
 381921 (10.97%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  18441	  0.53%
 19	  36156	  1.04%
 20	 143716	  4.13%
 21	 379912	 10.91%
 22	1107980	 31.81%
 23	 624550	 17.93%
 24	 217761	  6.25%
 25	  36545	  1.05%
 26	  18504	  0.53%
 27	  18473	  0.53%
 28	  20198	  0.58%
 29	  16718	  0.48%
 30	  27023	  0.78%
 31	  36289	  1.04%
 32	  39399	  1.13%
 33	  98873	  2.84%
 34	  33981	  0.98%
 35	  21144	  0.61%
 36	  28196	  0.81%
 37	  13946	  0.40%
 38	  16711	  0.48%
 39	  15753	  0.45%
 40	  23468	  0.67%
 41	  27060	  0.78%
 42	  34364	  0.99%
 43	  22277	  0.64%
 44	  24350	  0.70%
 45	  21562	  0.62%
 46	  17050	  0.49%
 47	  14800	  0.42%
 48	   6412	  0.18%
 49	  11334	  0.33%
 50	 309952	  8.90%


criterion=sequence-density
sequence-density=3.73
sequence-density-rank=1
fanout-score=1.00
fanout-score-rank=18
prefix-density=0.01
prefix-fanout=1.0
sequence=TGTAAACATCCT


criterion=fanout-score
sequence-density=0.48
sequence-density-rank=28
fanout-score=3.80
fanout-score-rank=1
prefix-density=0.46
prefix-fanout=3.8
sequence=TTGGAATTCTCGG
                                 Started job on |	Mar 04 06:48:08
                             Started mapping on |	Mar 04 06:48:08
                                    Finished on |	Mar 04 06:48:33
       Mapping speed, Million of reads per hour |	514.44

                          Number of input reads |	3572482
                      Average input read length |	27
                                    UNIQUE READS:
                   Uniquely mapped reads number |	1708887
                        Uniquely mapped reads % |	47.83%
                          Average mapped length |	26.96
                       Number of splices: Total |	1599
            Number of splices: Annotated (sjdb) |	271
                       Number of splices: GT/AG |	1456
                       Number of splices: GC/AG |	22
                       Number of splices: AT/AC |	0
               Number of splices: Non-canonical |	121
                      Mismatch rate per base, % |	0.17%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.28
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.11
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	1442568
             % of reads mapped to multiple loci |	40.38%
        Number of reads mapped to too many loci |	84301
             % of reads mapped to too many loci |	2.36%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	8.85%
                     % of reads unmapped: other |	0.58%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	421027	421027	421027
N_multimapping	1442568	1442568	1442568
N_noFeature	75440	91084	1353196
N_ambiguous	910930	607647	13520
UnstrandedReadsAssigned:722517 PositiveStrandReadsAssigned:1010156 NegativeStrandReadsAssigned:342171
Dataset is classified unstranded
MeadianReadLen=23 20thPercentileLength=22 echo kmer=19
SRR5030929 Starting Kallisto single end mapping to ensembl reference transcriptome. kmer=19

[quant] fragment length distribution is truncated gaussian with mean = 100, sd = 20
[index] k-mer length: 19
[index] number of targets: 109,282
[index] number of k-mers: 92,755,666
[index] number of equivalence classes: 769,752
[quant] running in single-end mode
[quant] will process file 1: SRR5030929-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 3,572,482 reads, 690,507 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 1,118 rounds

 109283 SRR5030929.ke.tsv
  52636 SRR5030929.se.tsv
 161919 total
==> SRR5030929.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
ENSMUST00000177564.1	16	4.59059	0	0
ENSMUST00000196221.1	9	3.70903	0	0
ENSMUST00000179664.1	11	4.02702	0	0
ENSMUST00000178537.1	12	4.16231	0	0
ENSMUST00000178862.1	14	4.39563	0	0
ENSMUST00000179520.1	11	4.02702	0	0
ENSMUST00000179883.1	16	4.59059	0	0
ENSMUST00000195858.1	10	3.87667	0	0
ENSMUST00000179932.1	12	4.16231	0	0

==> SRR5030929.se.tsv <==
ENSMUSG00000102693	0
ENSMUSG00000064842	0
ENSMUSG00000051951	0
ENSMUSG00000102851	0
ENSMUSG00000103377	0
ENSMUSG00000104017	0
ENSMUSG00000103025	0
ENSMUSG00000089699	0
ENSMUSG00000103201	0
ENSMUSG00000103147	0
SRR5030929 completed mapping pipeline successfully
