Starting /dee2/code/volunteer_pipeline.sh SRR5030892
    current disk space = 160643481600
    free memory = 73946624 
SRR5030892 SRAfilesize
deee9618dcb5b81570183d0cb153a604  SRR5030892.sra
SRR5030892.sra file validated
SRR5030892 is single end
SRR5030892 is conventional basespace
SRR5030892 read1 length is 50 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR5030892_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	52
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	32.3595	33.0	31.0	34.0	31.0	34.0
2	32.6555	34.0	31.0	34.0	31.0	34.0
3	32.6775	34.0	31.0	34.0	31.0	34.0
4	36.217	37.0	35.0	37.0	35.0	37.0
5	36.26825	37.0	37.0	37.0	35.0	37.0
6	36.045	37.0	35.0	37.0	35.0	37.0
7	36.081	37.0	35.0	37.0	35.0	37.0
8	36.11325	37.0	35.0	37.0	35.0	37.0
9	37.902	39.0	38.0	39.0	35.0	39.0
10	37.9075	39.0	38.0	39.0	35.0	39.0
11	37.799	39.0	38.0	39.0	35.0	39.0
12	37.79525	39.0	38.0	39.0	35.0	39.0
13	37.71775	39.0	38.0	39.0	35.0	39.0
14	39.158	40.0	39.0	41.0	36.0	41.0
15	39.15175	41.0	39.0	41.0	36.0	41.0
16	39.09375	40.0	39.0	41.0	36.0	41.0
17	39.10675	40.0	38.0	41.0	36.0	41.0
18	39.29375	41.0	39.0	41.0	36.0	41.0
19	39.17975	41.0	39.0	41.0	36.0	41.0
20	38.98925	40.0	39.0	41.0	35.0	41.0
21	39.0675	40.0	39.0	41.0	36.0	41.0
22	39.24	40.0	39.0	41.0	36.0	41.0
23	39.24275	40.0	39.0	41.0	36.0	41.0
24	38.49575	40.0	38.0	41.0	34.0	41.0
25	38.679	40.0	38.0	41.0	35.0	41.0
26	38.90275	40.0	38.0	41.0	35.0	41.0
27	38.87225	40.0	38.0	41.0	35.0	41.0
28	38.523	40.0	38.0	41.0	34.0	41.0
29	37.86875	40.0	38.0	41.0	32.0	41.0
30	38.13825	40.0	38.0	41.0	33.0	41.0
31	38.589	40.0	38.0	41.0	34.0	41.0
32	38.521	40.0	38.0	41.0	34.0	41.0
33	37.05225	40.0	37.0	41.0	30.0	41.0
34	37.11175	39.0	36.0	41.0	30.0	41.0
35	37.006	39.0	37.0	40.0	31.0	41.0
36	33.165	38.0	30.0	40.0	16.0	41.0
37	35.57575	38.0	34.0	40.0	30.0	41.0
38	36.953	39.0	36.0	40.0	32.0	41.0
39	37.0315	39.0	37.0	40.0	32.0	41.0
40	37.0645	39.0	37.0	40.0	32.0	41.0
41	36.69325	39.0	36.0	40.0	31.0	41.0
42	36.69675	39.0	36.0	40.0	31.0	41.0
43	36.6405	39.0	36.0	40.0	30.0	41.0
44	36.89875	39.0	36.0	41.0	32.0	41.0
45	36.341	39.0	36.0	40.0	30.0	41.0
46	33.91525	37.0	33.0	40.0	24.0	41.0
47	34.8135	38.0	33.0	40.0	26.0	41.0
48	35.0595	38.0	34.0	40.0	28.0	41.0
49	34.39575	38.0	34.0	40.0	26.0	41.0
50	30.4955	34.0	28.0	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
14	2.0
15	3.0
16	2.0
17	0.0
18	1.0
19	3.0
20	8.0
21	10.0
22	5.0
23	14.0
24	10.0
25	20.0
26	16.0
27	35.0
28	38.0
29	45.0
30	37.0
31	69.0
32	82.0
33	107.0
34	182.0
35	236.0
36	354.0
37	577.0
38	1088.0
39	1056.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	13.605612628413933	23.60310699072914	44.82585818090704	17.965422199949888
2	24.375	23.7	21.175	30.75
3	23.29246935201401	21.215911933950462	21.79134350763072	33.700275206404804
4	30.8	27.700000000000003	16.3	25.2
5	22.225	40.45	23.75	13.575000000000001
6	31.8	16.625	35.225	16.35
7	20.625	21.8	24.25	33.324999999999996
8	25.95	29.225	17.549999999999997	27.275
9	20.925	31.3	30.65	17.125
10	24.425	21.2	28.299999999999997	26.075
11	32.25	14.85	16.325	36.575
12	17.375	22.75	27.875	32.0
13	27.500000000000004	20.95	30.55	21.0
14	26.0	30.025000000000002	23.625	20.349999999999998
15	33.324999999999996	24.25	25.424999999999997	17.0
16	20.599999999999998	22.725	23.799999999999997	32.875
17	24.65	23.3	35.575	16.475
18	22.6	20.775	29.299999999999997	27.325
19	36.825	15.625	28.775000000000002	18.775
20	38.4	18.45	28.275	14.875
21	25.924999999999997	19.175	25.424999999999997	29.475
22	28.425	15.275	42.199999999999996	14.099999999999998
23	28.225	14.825	37.65	19.3
24	47.85	15.275	24.325	12.55
25	43.475	24.675	16.875	14.975
26	26.575	40.849999999999994	15.5	17.075000000000003
27	19.175	40.225	24.65	15.950000000000001
28	15.4	23.599999999999998	42.475	18.525
29	15.950000000000001	14.7	49.4	19.950000000000003
30	12.275	10.925	32.925	43.875
31	16.925	8.774999999999999	43.05	31.25
32	29.15	9.8	21.75	39.300000000000004
33	47.9	14.899999999999999	14.6	22.6
34	52.55	11.375	18.725	17.349999999999998
35	54.85	9.25	21.575	14.325
36	44.25	10.325	30.325000000000003	15.1
37	40.175	13.25	21.65	24.925
38	24.4	18.175	14.649999999999999	42.775
39	18.375	24.075	13.825000000000001	43.725
40	19.025	41.199999999999996	17.325	22.45
41	26.700000000000003	41.375	13.125	18.8
42	44.7	26.474999999999998	16.7	12.125
43	44.925	28.599999999999998	12.675	13.8
44	31.724999999999998	43.15	11.025	14.099999999999998
45	20.724999999999998	45.525	14.85	18.9
46	17.175	26.450000000000003	20.674999999999997	35.699999999999996
47	13.200000000000001	17.474999999999998	37.625	31.7
48	16.175	12.775	21.349999999999998	49.7
49	17.45	19.55	17.025000000000002	45.975
50	21.55	30.8	16.325	31.324999999999996
>>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	0.5
22	1.0
23	0.5
24	0.0
25	0.5
26	1.0
27	2.5
28	4.0
29	4.0
30	4.0
31	11.5
32	19.0
33	23.5
34	28.0
35	45.0
36	62.0
37	70.5
38	79.0
39	73.0
40	67.0
41	70.0
42	73.0
43	108.5
44	144.0
45	189.0
46	234.0
47	289.5
48	345.0
49	425.5
50	506.0
51	631.0
52	756.0
53	595.5
54	435.0
55	462.0
56	489.0
57	384.0
58	279.0
59	181.5
60	84.0
61	72.0
62	60.0
63	111.5
64	163.0
65	102.0
66	41.0
67	29.0
68	17.0
69	24.0
70	31.0
71	40.0
72	49.0
73	28.0
74	7.0
75	4.5
76	2.0
77	4.5
78	7.0
79	5.5
80	4.0
81	5.0
82	6.0
83	3.5
84	1.0
85	0.5
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	0.22499999999999998
2	0.0
3	0.075
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	43.1
#Duplication Level	Percentage of deduplicated	Percentage of total
1	75.69605568445475	32.625
2	10.266821345707656	8.85
3	3.654292343387471	4.725
4	2.784222737819025	4.8
5	1.3921113689095126	3.0
6	0.8700696055684455	2.25
7	0.9860788863109048	2.9749999999999996
8	0.580046403712297	2.0
9	0.2900232018561485	1.125
>10	3.0162412993039442	23.525
>50	0.46403712296983757	14.124999999999998
>100	0.0	0.0
>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
CGCGACCTCAGATCAGACGTGGCGACCCGCTGATGGAATTCTCGGGTGCC	96	2.4	No Hit
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA	92	2.3	RNA PCR Primer, Index 1 (100% over 28bp)
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	73	1.825	RNA PCR Primer, Index 1 (100% over 28bp)
AACATTCAACGCTGTCGGTGAGTTGGAATTCTCGGGTGCCAAGGAACTCC	71	1.775	RNA PCR Primer, Index 1 (100% over 27bp)
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA	66	1.6500000000000001	RNA PCR Primer, Index 1 (100% over 28bp)
TCACAGTGAACCGGTCTCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	58	1.4500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTTTAACCTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	55	1.375	RNA PCR Primer, Index 1 (100% over 28bp)
TCGGATCCGTCTGAGCTTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGT	54	1.35	RNA PCR Primer, Index 1 (100% over 30bp)
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGTGCCAAGGAACTCCA	50	1.25	RNA PCR Primer, Index 1 (100% over 28bp)
GTTAGTACTTGGATGGGAGACCGCCTGGGAATACCGGGTGCTGTAGGCTT	46	1.15	No Hit
ACAAATGATGAACCTTTTGACGGGCGGACAGAAACTCTGTGCTGAATGTC	39	0.975	No Hit
TCGGATCCGTCTGAGCTTGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	32	0.8	RNA PCR Primer, Index 1 (100% over 29bp)
TTTGAACCATCACTCGACTCCTTGGAATTCTCGGGTGCCAAGGAACTCCA	31	0.775	RNA PCR Primer, Index 1 (100% over 28bp)
CAACGGAATCCCAAAAGCAGCTGTGGAATTCTCGGGTGCCAAGGAACTCC	29	0.7250000000000001	RNA PCR Primer, Index 1 (100% over 27bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGGGCCAAGGAACTCCA	25	0.625	RNA PCR Primer, Index 1 (96% over 28bp)
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGTCCGCATCTCGTATGC	25	0.625	RNA PCR Primer, Index 18 (100% over 50bp)
TCGGATCCGTCTGAGCTTGGCTTTGGAATTCTCGGGTGCCAAGGAACTCC	25	0.625	RNA PCR Primer, Index 1 (100% over 27bp)
TCTTTGGTTATCTAGCTGTATGATGGAATTCTCGGGTGCCAAGGAACTCC	25	0.625	RNA PCR Primer, Index 1 (100% over 27bp)
TGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGT	24	0.6	RNA PCR Primer, Index 1 (97% over 35bp)
TGAGGTAGTAGGTTGTATGGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	22	0.5499999999999999	RNA PCR Primer, Index 1 (100% over 28bp)
CTTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTG	21	0.525	No Hit
GTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGTCCGCATCTC	21	0.525	RNA PCR Primer, Index 18 (100% over 44bp)
TGAGGTAGTAGATTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	20	0.5	RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCCCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	20	0.5	RNA PCR Primer, Index 1 (100% over 26bp)
GGTCCATGATGAAACCCATTATCAGTGGACATCTATGGATGAGAAATGCG	19	0.475	No Hit
TGTAAACATCCTCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	19	0.475	RNA PCR Primer, Index 1 (100% over 26bp)
TATTGCACTCGTCCCGGCCTCCTGGAATTCTCGGGTGCCAAGGAACTCCA	18	0.44999999999999996	RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCTACACTCTCAGCTTGGAATTCTCGGGTGCCAAGGAACTC	18	0.44999999999999996	RNA PCR Primer, Index 1 (100% over 26bp)
AGCTGGTGTTGTGAATCAGGCCGTGGAATTCTCGGGTGCCAAGGAACTCC	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 27bp)
GTAAATGATGAGATTCCATTGGTCCGTGTTTCTGAACTACATGATTTTCC	17	0.42500000000000004	No Hit
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGGGCCAAGGAACTCCA	17	0.42500000000000004	RNA PCR Primer, Index 1 (96% over 28bp)
CCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC	16	0.4	RNA PCR Primer, Index 1 (100% over 33bp)
CACAAATGATGAACCTTTTGACGGGCGGACAGAAACTCTGTGCTGAATGT	16	0.4	No Hit
CACCCTGATGAACTGAATACCGCCCCAGTCTGATAGCTGTGGAGAAAGGT	16	0.4	No Hit
TTCAAGTAATCCAGGATAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	16	0.4	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTAACTTGTGATGGAATTCTCGGGTGCCAAGGAACTCCA	15	0.375	RNA PCR Primer, Index 1 (100% over 28bp)
ACTTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTT	14	0.35000000000000003	No Hit
TCCCTGAGACCCTAACTTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 30bp)
AGCCCATGATGGTATGAGAGTAGTGGACAGAAGGGATTTCTGAAAAACAC	14	0.35000000000000003	No Hit
CATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTTGGAATTC	14	0.35000000000000003	No Hit
TAGCAGCACGTAAATATTGGCGTGGAATTCTCGGGTGCCAAGGAACTCCA	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 28bp)
TGAGGTAGTAGTTTGTACAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	13	0.325	RNA PCR Primer, Index 1 (100% over 28bp)
TCACAGTGAACCGGTCTCTTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	13	0.325	RNA PCR Primer, Index 1 (100% over 28bp)
TCCCTGAGACCCTTTAACCTGTGATGGAATTCTCGGGTGCCAAGGAACTC	13	0.325	RNA PCR Primer, Index 1 (100% over 26bp)
TCGAGGAGCTCACAGTCTAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	12	0.3	RNA PCR Primer, Index 1 (100% over 29bp)
TAGCACCATCTGAAATCGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	12	0.3	RNA PCR Primer, Index 1 (100% over 29bp)
CTCGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTTGGAA	12	0.3	No Hit
TTCACAGTGGCTAAGTTCTGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	12	0.3	RNA PCR Primer, Index 1 (100% over 29bp)
AATATAACACAGATGGCCTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	12	0.3	RNA PCR Primer, Index 1 (100% over 29bp)
TCGGATCCGTCTGAGCTTGGCTATTGGAATTCTCGGGTGCCAAGGAACTC	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 26bp)
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGGGCCAAGGAACTCCA	11	0.27499999999999997	RNA PCR Primer, Index 1 (96% over 28bp)
TCCCTGAGACCCTTTAACCTGTGGAATTCTCGGGTGCCAAGGAACTCCAG	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 29bp)
TCTTAGATCGATGTGGTGCTCCGGAGTTCTCTTCGGGCCAGGGCCTAAGC	10	0.25	No Hit
TTCAAGTAATCCAGGATAGGCTTTGGAATTCTCGGGTGCCAAGGAACTCC	10	0.25	RNA PCR Primer, Index 1 (100% over 27bp)
ACATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTTGGAATT	10	0.25	No Hit
GCGGATGATGACACCTGGGTATGCTGCACACTCCCGACTGCGTCGTGGGG	10	0.25	No Hit
CGCGACCTCAGATCAGACGTGGCGACCCGCTGAATTTAAGCATATTATGG	10	0.25	No Hit
TTGCTGTGATGACTATCTTAGGACACCTTTGGATTAACCGTGAAATCAAA	10	0.25	No Hit
ATACATGATGATCTCACACAACTTGAACTCTCTCACTGATTACTTGATGA	10	0.25	No Hit
TGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTGGA	10	0.25	No Hit
AACATTCAACGCTGTCGGTGATGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCCCGACTGGAAGCTGGAATTCTCGGGTGCCAAGGAACTCC	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 27bp)
TAACAGTCTACAGCCATGGTCGTGGAATTCTCGGGTGCCAAGGAACTCCA	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 28bp)
AGCTGGTGTTGTGAATCAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
GTCCATGATGAAACCCATTATCAGTGGACATCTATGGATGAGAAATGCGG	9	0.22499999999999998	No Hit
TCACAGTGAACCGGTCTCTTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	8	0.2	RNA PCR Primer, Index 1 (100% over 30bp)
TCTTTGGTTATCTAGCTGTATTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
TCGGATCCGTCTGAGCTTGGCTTTTTGGAATTCTCGGGTGCCAAGGAACT	8	0.2	RNA PCR Primer, Index 1 (100% over 25bp)
TCGGATCCGTCTGAGCTTGGCTTTTGGAATTCTCGGGTGCCAAGGAACTC	8	0.2	RNA PCR Primer, Index 1 (100% over 26bp)
TGAACTGATGATATCATTTCTTTCCCCGTCAGATCGACCCTGTTGATCTC	8	0.2	No Hit
TGAGGTAGTAGTTTGTGCTGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	8	0.2	RNA PCR Primer, Index 1 (100% over 28bp)
ATAGTAGACCGTATAGCGTACGTGGAATTCTCGGGTGCCAAGGAACTCCA	8	0.2	RNA PCR Primer, Index 1 (100% over 28bp)
TGAGGTAGTAGGTTGTATGGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
TCGGATCCGTCTGAGCTTGGATGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTAACTTGTGAATGGAATTCTCGGGTGCCAAGGAACTCC	8	0.2	RNA PCR Primer, Index 1 (100% over 27bp)
TATTGCACTCGTCCCGGCCTCTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
TGCTGTGATGAGATGACTAAGTAGGAAGTGCCGTCAGAGTCGATAACTGA	7	0.17500000000000002	No Hit
ATCGATGTGGTGCTCCGGAGTTCTCTTCGGGCCAGGGCCTAAGCCGCGCC	7	0.17500000000000002	No Hit
ACTAATCCTAGCCCTAGCCCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
TTCACAGTGGCTAAGTTCTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 30bp)
TCGGATCCGTCTGAGCTTGGCTATGGAATTCTCGGGTGCCAAGGAACTCC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 27bp)
GCCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 32bp)
TGACTTGATGAAAGTACTTTTGAACCCTTTTCCATCTGATGTGGAATTCT	7	0.17500000000000002	No Hit
ATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTTGGAATTCT	7	0.17500000000000002	No Hit
CATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGTCCGCATCTCGTAT	7	0.17500000000000002	RNA PCR Primer, Index 18 (100% over 48bp)
ACTAATCCTAGCCCTAGCCCTACACAAATATAATTATACTATTATATGGA	7	0.17500000000000002	No Hit
CACCCGTAGAACCGACCTTGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
CCCTGAGACCCTAACTTGTGATGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
CACCCGTAGAACCGACCTTGCGTGGAATTCTCGGGTGCCAAGGAACTCCA	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 28bp)
TCGGATCCGTCTGAGCTTGGCATGGAATTCTCGGGTGCCAAGGAACTCCA	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 28bp)
AACATTCAACCTGTCGGTGAGTTGGAATTCTCGGGTGCCAAGGAACTCCA	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 28bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGCTGGAATTCTCGGGTGC	7	0.17500000000000002	No Hit
GGTTAATTCCGATAACGAACGAGACTCTGGCATGCTAACTAGTTACGCGA	6	0.15	No Hit
TCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCC	6	0.15	No Hit
GGCTGGTCCGAAGGTAGTGAGTTATCTCAATTGTGGAATTCTCGGGTGCC	6	0.15	No Hit
TAGCACCATCTGAAATCGGTTATGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
CTGCAGTGATGACTATCTTAGGACACCTTTGGATTTACCGTGAAAAGAAG	6	0.15	No Hit
CAACGGAATCCCAAAAGCAGCTGTTGGAATTCTCGGGTGCCAAGGAACTC	6	0.15	RNA PCR Primer, Index 1 (100% over 26bp)
TTTGAACCATCACTCGACTCCTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
TTGCAATGATGACTTATATATCTGTCAATCCCCTGAGAGATCACTGACGA	6	0.15	No Hit
TGTAAACATCCTCGACTGGATGGAATTCTCGGGTGCCAAGGAACTCCAGT	6	0.15	RNA PCR Primer, Index 1 (100% over 30bp)
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGGGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (96% over 28bp)
TCGGATCCGTCTGAGCTTGGCATTGGAATTCTCGGGTGCCAAGGAACTCC	6	0.15	RNA PCR Primer, Index 1 (100% over 27bp)
GTCTATGATGATCCTATCCCGAACCTGAATTCCTGTTGAAAAACCATAAT	6	0.15	No Hit
CATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTGGAATTCT	6	0.15	No Hit
ATTGGTGGTTCAGTGGTAGAATTCTCGCCTGCCTGGAATTCTCGGGTGCC	6	0.15	No Hit
CTAGACTGAGGCTCCTTGAGGTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
ATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTGGAATTCTC	5	0.125	No Hit
TCGGATCCGTCTGAGCTTGGCTAATGGAATTCTCGGGTGCCAAGGAACTC	5	0.125	RNA PCR Primer, Index 1 (100% over 26bp)
GCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTTGGAATTC	5	0.125	No Hit
GTCTGATGATGAGCCCATTGCCCTGAGCTCTTGTGATGCTGGCTTCAAAG	5	0.125	No Hit
AAGGGATTCTGATGTTGGTCACACTTGGAATTCTCGGGTGCCAAGGAACT	5	0.125	RNA PCR Primer, Index 1 (100% over 25bp)
ATCACATTGCCAGGGATTACCACTTGGAATTCTCGGGTGCCAAGGAACTC	5	0.125	RNA PCR Primer, Index 1 (100% over 26bp)
AGTCTATGATGATCCTATCCCGAACCTGAATTCCTGTTGAAAAACCATAC	5	0.125	No Hit
AAGGGATTCTGATGTTGGTCACATGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
TGGGGGGCCCAAGTCCTTCTGATCGAGGCCCTGGAATTCTCGGGTGCCAA	5	0.125	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGCCATGGAATTCTCGGGT	5	0.125	No Hit
TATTGCACTCGTCCCGGCCTCCTGGAATTCTCGGGGGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (96% over 28bp)
TCCCTGAGACCCTTTAACCTGTTGGAATTCTCGGGGGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (96% over 28bp)
TCGGATCCGTCTGAGCTTGGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
GGCTGGTCCGAAGGTAGTGAGTTATCTCAATTGGAATTCTCGGGTGCCAA	5	0.125	No Hit
TCGGATCCGTCTGAGCTTGGCAATGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
GCTGTACTGACTTGATGAAAGTACTTTTGAACCCTTTTCCATCTGATGTG	5	0.125	No Hit
TGAAATGATGGCAAATCATCTTTCGGGACTGACCTGAAATGAAGAGAATA	5	0.125	No Hit
TGTAAACATCCTACACTCAGCTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
CCTGCATGATGACGAACAAATACTGACTACCTGAAGATCTTATTAGCTCT	5	0.125	No Hit
TTCCCTTTGTCATCCTATGCCTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TTAGCTGTTAACTAAATTTTCGTAGGTTTAATTCCTGCCAATCTAGCCAT	5	0.125	No Hit
ACATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTGGAATTC	5	0.125	No Hit
GTCTTAACCCAATTTTTTGAGGTCCTGCTCGTGCAGGGCTTGGAATTCTC	5	0.125	No Hit
AACATTCATTGCTGTCGGTGGGTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
>>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	0.65	0.0	0.0	0.0
2	0.0	0.675	0.0	0.0	0.0
3	0.0	0.9	0.0	0.0	0.0
4	0.0	0.9	0.0	0.0	0.0
5	0.0	0.925	0.0	0.0	0.0
6	0.0	0.975	0.0	0.0	0.0
7	0.0	1.6	0.0	0.0	0.0
8	0.0	1.75	0.0	0.0	0.0
9	0.0	1.775	0.0	0.0	0.0
10	0.0	1.8	0.0	0.0	0.0
11	0.0	2.0	0.0	0.0	0.0
12	0.0	2.225	0.0	0.0	0.0
13	0.0	2.4	0.0	0.0	0.0
14	0.0	2.775	0.0	0.0	0.0
15	0.0	3.0	0.0	0.0	0.0
16	0.0	4.125	0.0	0.0	0.0
17	0.0	4.55	0.0	0.0	0.0
18	0.0	5.425	0.0	0.0	0.0
19	0.0	6.0	0.0	0.0	0.0
20	0.0	6.75	0.0	0.0	0.0
21	0.0	10.825	0.0	0.0	0.0
22	0.0	20.75	0.0	0.0	0.0
23	0.0	43.65	0.0	0.0	0.0
24	0.0	53.4	0.0	0.0	0.0
25	0.0	58.075	0.0	0.0	0.0
26	0.0	59.3	0.0	0.0	0.0
27	0.0	59.95	0.0	0.0	0.0
28	0.0	60.625	0.0	0.0	0.0
29	0.0	61.425	0.0	0.0	0.0
30	0.0	61.975	0.0	0.0	0.0
31	0.0	62.8	0.0	0.0	0.0
32	0.0	63.725	0.0	0.0	0.0
33	0.0	64.675	0.0	0.0	0.0
34	0.0	68.675	0.0	0.0	0.0
35	0.0	69.8	0.0	0.0	0.0
36	0.0	70.675	0.0	0.0	0.0
37	0.0	71.75	0.0	0.0	0.0
38	0.0	72.325	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
CGCGACC	20	6.952051E-4	44.000004	1
AATCCAG	20	6.952051E-4	44.000004	8
TAAACAT	20	6.952051E-4	44.000004	3
ATCCAGG	20	6.952051E-4	44.000004	9
AAACATC	20	6.952051E-4	44.000004	4
GCGACCT	20	6.952051E-4	44.000004	2
ATAGGCT	20	6.952051E-4	44.000004	16
TCCAGGA	20	6.952051E-4	44.000004	10
AGTAATC	20	6.952051E-4	44.000004	5
TAATCCA	20	6.952051E-4	44.000004	7
CTCAGAT	20	6.952051E-4	44.000004	7
CCTCAGA	20	6.952051E-4	44.000004	6
GATCAGA	20	6.952051E-4	44.000004	11
CAGATCA	20	6.952051E-4	44.000004	9
ACCTCAG	20	6.952051E-4	44.000004	5
GACCTCA	20	6.952051E-4	44.000004	4
GTAATCC	20	6.952051E-4	44.000004	6
AGATCAG	20	6.952051E-4	44.000004	10
CGACCTC	20	6.952051E-4	44.000004	3
CGACTGG	20	6.952051E-4	44.000004	13
>>END_MODULE
Read 253751 spots for SRR5030892.sra
Written 253751 spots for SRR5030892.sra
Read 253751 spots for SRR5030892.sra
Written 253751 spots for SRR5030892.sra
Read 253751 spots for SRR5030892.sra
Written 253751 spots for SRR5030892.sra
Read 253751 spots for SRR5030892.sra
Written 253751 spots for SRR5030892.sra
Read 253751 spots for SRR5030892.sra
Written 253751 spots for SRR5030892.sra
Read 253751 spots for SRR5030892.sra
Written 253751 spots for SRR5030892.sra
Read 253751 spots for SRR5030892.sra
Written 253751 spots for SRR5030892.sra
Read 253751 spots for SRR5030892.sra
Written 253751 spots for SRR5030892.sra
Read 253760 spots for SRR5030892.sra
Written 253760 spots for SRR5030892.sra
Read 253751 spots for SRR5030892.sra
Written 253751 spots for SRR5030892.sra
Read 253751 spots for SRR5030892.sra
Written 253751 spots for SRR5030892.sra
Read 253751 spots for SRR5030892.sra
Written 253751 spots for SRR5030892.sra
SRR ids: ['SRR5030892.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_hvj5mxfx
SRR5030892.sra spots: 3045021
blocks: [[1, 253751], [253752, 507502], [507503, 761253], [761254, 1015004], [1015005, 1268755], [1268756, 1522506], [1522507, 1776257], [1776258, 2030008], [2030009, 2283759], [2283760, 2537510], [2537511, 2791261], [2791262, 3045021]]
SRR5030892 file size 526689
SRR5030892 completed basic pipeline successfully
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	skewer -l 18 -q 10 -k inf -t 12 -o SRR5030892 SRR5030892_1.fastq
Input file:	SRR5030892_1.fastq
trimmed:	SRR5030892-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 06:38:37 2020 >> started

Wed Mar  4 06:38:39 2020 >> done (1.763s)
3045021 reads processed; of these:
    173 ( 0.01%) short reads filtered out after trimming by size control
     12 ( 0.00%) empty reads filtered out after trimming by size control
3044836 (99.99%) reads available; of these:
 258077 ( 8.48%) trimmed reads available after processing
2786759 (91.52%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	     59	  0.00%
 19	     75	  0.00%
 20	    190	  0.01%
 21	    181	  0.01%
 22	    291	  0.01%
 23	    374	  0.01%
 24	    418	  0.01%
 25	    519	  0.02%
 26	    565	  0.02%
 27	    745	  0.02%
 28	    759	  0.02%
 29	   1086	  0.04%
 30	    986	  0.03%
 31	   1312	  0.04%
 32	   1808	  0.06%
 33	   2709	  0.09%
 34	   6802	  0.22%
 35	   3469	  0.11%
 36	   2862	  0.09%
 37	   3155	  0.10%
 38	   4269	  0.14%
 39	   4448	  0.15%
 40	   6637	  0.22%
 41	   5294	  0.17%
 42	   9564	  0.31%
 43	   7262	  0.24%
 44	  17867	  0.59%
 45	  19261	  0.63%
 46	  19553	  0.64%
 47	  21685	  0.71%
 48	  45540	  1.50%
 49	  68332	  2.24%
 50	2786759	 91.52%
3044836 reads passed initial QC


criterion=sequence-density
sequence-density=71.37
sequence-density-rank=1
fanout-score=21.13
fanout-score-rank=2
prefix-density=74.07
prefix-fanout=20.4
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGTCCGCATCTCGTATGCC


criterion=fanout-score
sequence-density=1.79
sequence-density-rank=5
fanout-score=131.12
fanout-score-rank=1
prefix-density=73.48
prefix-fanout=3.2
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 TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGTCCGCATCTCGTATGCC -o SRR5030892 -
Input file:	STDIN
trimmed:	SRR5030892-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGTCCGCATCTCGTATGCC
-- 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 06:38:55 2020 >> started

Wed Mar  4 06:38:59 2020 >> done (4.250s)
2960257 reads processed; of these:
 155047 ( 5.24%) short reads filtered out after trimming by size control
  17307 ( 0.58%) empty reads filtered out after trimming by size control
2787903 (94.18%) reads available; of these:
2300208 (82.51%) trimmed reads available after processing
 487695 (17.49%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  15810	  0.57%
 19	  23576	  0.85%
 20	 124481	  4.47%
 21	 263753	  9.46%
 22	 700238	 25.12%
 23	 289179	 10.37%
 24	 137020	  4.91%
 25	  38690	  1.39%
 26	  21320	  0.76%
 27	  18186	  0.65%
 28	  20025	  0.72%
 29	  16467	  0.59%
 30	  22421	  0.80%
 31	  28538	  1.02%
 32	  32361	  1.16%
 33	 123922	  4.44%
 34	  39050	  1.40%
 35	  32506	  1.17%
 36	  37323	  1.34%
 37	  20416	  0.73%
 38	  21369	  0.77%
 39	  22537	  0.81%
 40	  31991	  1.15%
 41	  41564	  1.49%
 42	  48559	  1.74%
 43	  35286	  1.27%
 44	  31008	  1.11%
 45	  38158	  1.37%
 46	  32025	  1.15%
 47	  27725	  0.99%
 48	   6087	  0.22%
 49	  17422	  0.62%
 50	 428890	 15.38%


criterion=sequence-density
sequence-density=4.12
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=13
prefix-density=0.00
prefix-fanout=1.0
sequence=AACATTCAACGCTGTCGGTGAGTTTT


criterion=fanout-score
sequence-density=0.51
sequence-density-rank=21
fanout-score=12.43
fanout-score-rank=1
prefix-density=6.36
prefix-fanout=1.0
sequence=TGAGCTTGGCTTTTT
                                 Started job on |	Mar 04 06:39:22
                             Started mapping on |	Mar 04 06:39:22
                                    Finished on |	Mar 04 06:39:45
       Mapping speed, Million of reads per hour |	449.61

                          Number of input reads |	2872482
                      Average input read length |	31
                                    UNIQUE READS:
                   Uniquely mapped reads number |	1576015
                        Uniquely mapped reads % |	54.87%
                          Average mapped length |	30.14
                       Number of splices: Total |	1554
            Number of splices: Annotated (sjdb) |	377
                       Number of splices: GT/AG |	1405
                       Number of splices: GC/AG |	21
                       Number of splices: AT/AC |	4
               Number of splices: Non-canonical |	124
                      Mismatch rate per base, % |	0.25%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.50
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.09
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	826057
             % of reads mapped to multiple loci |	28.76%
        Number of reads mapped to too many loci |	93240
             % of reads mapped to too many loci |	3.25%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	12.49%
                     % of reads unmapped: other |	0.64%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	470410	470410	470410
N_multimapping	826057	826057	826057
N_noFeature	91700	115468	1165123
N_ambiguous	851785	508736	26950
UnstrandedReadsAssigned:632530 PositiveStrandReadsAssigned:951811 NegativeStrandReadsAssigned:383942
Dataset is classified unstranded
MeadianReadLen=23 20thPercentileLength=22 echo kmer=19
SRR5030892 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: SRR5030892-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 2,872,482 reads, 691,683 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 1,142 rounds

 109283 SRR5030892.ke.tsv
  52636 SRR5030892.se.tsv
 161919 total
==> SRR5030892.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

==> SRR5030892.se.tsv <==
ENSMUSG00000102693	0
ENSMUSG00000064842	0
ENSMUSG00000051951	0
ENSMUSG00000102851	0
ENSMUSG00000103377	0
ENSMUSG00000104017	0
ENSMUSG00000103025	0
ENSMUSG00000089699	0
ENSMUSG00000103201	0
ENSMUSG00000103147	0
SRR5030892 completed mapping pipeline successfully
