Starting /dee2/code/volunteer_pipeline.sh SRR5030946
    current disk space = 160616448000
    free memory = 1053840396 
SRR5030946 SRAfilesize
9ac1fadf6db3e03ac19dbca3422ce249  SRR5030946.sra
SRR5030946.sra file validated
SRR5030946 is single end
SRR5030946 is conventional basespace
SRR5030946 read1 length is 50 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR5030946_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	fail
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	32.4275	33.0	31.0	34.0	31.0	34.0
2	32.8015	34.0	31.0	34.0	31.0	34.0
3	32.82675	34.0	31.0	34.0	31.0	34.0
4	36.28175	37.0	37.0	37.0	35.0	37.0
5	36.19675	37.0	37.0	37.0	35.0	37.0
6	36.07775	37.0	35.0	37.0	35.0	37.0
7	36.208	37.0	36.0	37.0	35.0	37.0
8	36.239	37.0	37.0	37.0	35.0	37.0
9	38.0075	39.0	38.0	39.0	35.0	39.0
10	38.03625	39.0	39.0	39.0	35.0	39.0
11	37.93975	39.0	38.0	39.0	35.0	39.0
12	38.01475	39.0	38.0	39.0	35.0	39.0
13	37.945	39.0	38.0	39.0	35.0	39.0
14	39.334	41.0	39.0	41.0	36.0	41.0
15	39.38475	41.0	39.0	41.0	36.0	41.0
16	39.29975	41.0	39.0	41.0	36.0	41.0
17	39.359	41.0	39.0	41.0	36.0	41.0
18	39.39325	41.0	39.0	41.0	36.0	41.0
19	39.03575	40.0	39.0	41.0	36.0	41.0
20	39.179	40.0	39.0	41.0	36.0	41.0
21	39.1955	40.0	39.0	41.0	36.0	41.0
22	39.155	41.0	39.0	41.0	36.0	41.0
23	39.22925	41.0	39.0	41.0	36.0	41.0
24	38.56375	40.0	38.0	41.0	34.0	41.0
25	38.8455	40.0	39.0	41.0	35.0	41.0
26	38.84875	40.0	38.0	41.0	35.0	41.0
27	38.8725	40.0	38.0	41.0	35.0	41.0
28	38.84	40.0	38.0	41.0	35.0	41.0
29	38.70425	40.0	38.0	41.0	34.0	41.0
30	38.3535	40.0	38.0	41.0	34.0	41.0
31	38.73975	40.0	38.0	41.0	34.0	41.0
32	38.9615	40.0	39.0	41.0	35.0	41.0
33	37.56725	40.0	38.0	41.0	32.0	41.0
34	36.5895	40.0	37.0	41.0	30.0	41.0
35	32.464	38.0	30.0	40.0	14.0	41.0
36	29.5735	37.0	19.0	40.0	8.0	41.0
37	29.5215	36.0	23.0	40.0	6.0	41.0
38	32.04575	37.0	30.0	40.0	12.0	41.0
39	31.228	37.0	29.0	40.0	6.0	41.0
40	32.21625	37.0	31.0	40.0	2.0	41.0
41	30.234	36.0	27.0	40.0	2.0	41.0
42	31.72975	37.0	30.0	40.0	2.0	41.0
43	30.455	37.0	28.0	40.0	2.0	41.0
44	31.19825	37.0	30.0	40.0	2.0	41.0
45	29.2035	37.0	24.0	40.0	2.0	41.0
46	27.347	35.0	13.0	39.0	2.0	41.0
47	27.23625	35.0	15.0	39.0	2.0	41.0
48	27.752	35.0	15.0	39.0	2.0	41.0
49	26.30275	34.0	2.0	39.0	2.0	41.0
50	22.83525	30.0	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
14	1.0
15	0.0
16	1.0
17	1.0
18	0.0
19	2.0
20	7.0
21	12.0
22	19.0
23	36.0
24	34.0
25	70.0
26	106.0
27	143.0
28	92.0
29	99.0
30	142.0
31	150.0
32	161.0
33	192.0
34	220.0
35	285.0
36	328.0
37	464.0
38	657.0
39	778.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	13.470205307961944	25.463194792188283	44.2914371557336	16.775162744116173
2	24.0	27.125	19.975	28.9
3	24.224999999999998	18.425	23.825	33.525
4	31.974999999999998	29.625	14.174999999999999	24.224999999999998
5	20.325	38.525	25.5	15.65
6	25.174999999999997	19.1	41.125	14.6
7	20.95	18.224999999999998	23.75	37.075
8	23.625	31.2	16.55	28.625
9	23.075000000000003	33.6	28.999999999999996	14.325
10	25.324999999999996	18.325	31.75	24.6
11	35.099999999999994	16.425	15.075	33.4
12	16.325	23.0	30.95	29.725
13	26.174999999999997	20.175	31.3	22.35
14	27.200000000000003	29.825000000000003	22.75	20.225
15	34.375	23.674999999999997	24.775	17.175
16	18.75	21.725	21.875	37.65
17	25.275	23.200000000000003	34.0	17.525
18	24.05	16.575	35.425000000000004	23.95
19	33.2	16.400000000000002	32.975	17.424999999999997
20	42.375	17.65	23.575	16.400000000000002
21	23.5	23.150000000000002	26.474999999999998	26.875
22	29.9	15.975	41.925000000000004	12.2
23	25.85	15.675	40.6	17.875
24	46.475	16.55	25.174999999999997	11.799999999999999
25	45.35	23.325000000000003	16.875	14.45
26	26.5	40.725	17.299999999999997	15.475
27	16.875	42.65	23.200000000000003	17.275
28	15.25	25.2	43.0	16.55
29	13.575000000000001	15.325	53.175	17.925
30	13.350000000000001	8.875	34.525	43.25
31	16.375	8.75	42.9	31.974999999999998
32	28.225	8.425	23.35	40.0
33	48.475	10.875	16.275000000000002	24.375
34	53.75	9.25	18.575	18.425
35	53.725	9.1	22.075	15.1
36	56.474999999999994	11.5	17.45	14.575
37	35.475	14.374999999999998	21.3	28.849999999999998
38	26.25	16.5	15.225	42.025
39	19.775000000000002	27.125	12.15	40.949999999999996
40	19.25	42.9	13.875000000000002	23.974999999999998
41	27.425	41.175	14.2	17.2
42	46.475	28.625	13.175	11.725
43	41.425	33.975	12.7	11.899999999999999
44	29.525000000000002	44.675	9.675	16.125
45	20.7	42.85	12.725	23.724999999999998
46	15.174999999999999	29.049999999999997	25.45	30.325000000000003
47	12.55	18.0	30.75	38.7
48	13.65	14.05	22.650000000000002	49.65
49	16.6	25.8	14.799999999999999	42.8
50	31.85	23.375	11.825	32.95
>>END_MODULE
>>Per sequence GC content	warn
#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	0.5
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	0.5
24	1.0
25	0.5
26	0.0
27	1.0
28	2.0
29	2.5
30	3.0
31	13.0
32	23.0
33	27.5
34	32.0
35	55.5
36	79.0
37	85.5
38	92.0
39	91.5
40	91.0
41	95.5
42	100.0
43	119.0
44	138.0
45	175.5
46	213.0
47	281.5
48	350.0
49	375.0
50	400.0
51	548.5
52	697.0
53	598.0
54	499.0
55	453.5
56	408.0
57	375.0
58	342.0
59	254.5
60	167.0
61	132.5
62	98.0
63	111.5
64	125.0
65	80.5
66	36.0
67	23.5
68	11.0
69	14.5
70	18.0
71	37.0
72	56.0
73	31.0
74	6.0
75	5.0
76	4.0
77	3.5
78	3.0
79	3.0
80	3.0
81	2.5
82	2.0
83	1.0
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	0.15
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	warn
#Total Deduplicated Percentage	54.449999999999996
#Duplication Level	Percentage of deduplicated	Percentage of total
1	81.08356290174473	44.15
2	8.631772268135904	9.4
3	3.0303030303030303	4.95
4	1.3314967860422406	2.9000000000000004
5	1.285583103764922	3.5000000000000004
6	0.8264462809917356	2.7
7	0.5968778696051423	2.275
8	0.3673094582185491	1.6
9	0.3213957759412305	1.575
>10	2.4334251606978876	22.45
>50	0.04591368227731864	1.55
>100	0.04591368227731864	2.9499999999999997
>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	118	2.9499999999999997	RNA PCR Primer, Index 1 (100% over 27bp)
CGCGACCTCAGATCAGACGTGGCGACCCGCTGATGGAATTCTCGGGTGCC	62	1.55	No Hit
TCGGATCCGTCTGAGCTTGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	36	0.8999999999999999	RNA PCR Primer, Index 1 (100% over 29bp)
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGGGCCAAGGAACTCCA	34	0.8500000000000001	RNA PCR Primer, Index 1 (96% over 28bp)
TCGGATCCGTCTGAGCTTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGT	33	0.8250000000000001	RNA PCR Primer, Index 1 (100% over 30bp)
TGTAAACATCCTACACTCTCAGCTTGGAATTCTCGGGTGCCAAGGAACTC	30	0.75	RNA PCR Primer, Index 1 (100% over 26bp)
CCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC	27	0.675	RNA PCR Primer, Index 1 (100% over 33bp)
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA	25	0.625	RNA PCR Primer, Index 1 (100% over 28bp)
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGTGCCAAGGAACTCCA	25	0.625	RNA PCR Primer, Index 1 (100% over 28bp)
CAACGGAATCCCAAAAGCAGCTGTGGAATTCTCGGGTGCCAAGGAACTCC	23	0.575	RNA PCR Primer, Index 1 (100% over 27bp)
TCTTTGGTTATCTAGCTGTATGATGGAATTCTCGGGTGCCAAGGAACTCC	22	0.5499999999999999	RNA PCR Primer, Index 1 (100% over 27bp)
ACTAATCCTAGCCCTAGCCCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	20	0.5	RNA PCR Primer, Index 1 (100% over 29bp)
GCGGATGATGACACCTGGGTATGCTGCACACTCCCGACTGCGTCGTGGGG	20	0.5	No Hit
AATATAACACAGATGGCCTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	20	0.5	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCTCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	20	0.5	RNA PCR Primer, Index 1 (100% over 26bp)
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGTTCCATCTCGTATGC	19	0.475	RNA PCR Primer, Index 14 (100% over 50bp)
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGGGCCAAGGAACTCCA	19	0.475	RNA PCR Primer, Index 1 (96% over 28bp)
CGACTCTTAGCGGTGGATCACTCGGCTCGTGCGTCGATGAAGAACGCAGC	18	0.44999999999999996	No Hit
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGGGCCAAGGAACTCCA	18	0.44999999999999996	RNA PCR Primer, Index 1 (96% over 28bp)
AACATTCAACGCTGTCGGTGATGGAATTCTCGGGTGCCAAGGAACTCCAG	18	0.44999999999999996	RNA PCR Primer, Index 1 (100% over 29bp)
CTTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTG	18	0.44999999999999996	No Hit
TGTAAACATCCCCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	18	0.44999999999999996	RNA PCR Primer, Index 1 (100% over 26bp)
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGGGCCAAGGAACTCCG	18	0.44999999999999996	RNA PCR Primer, Index 1 (96% over 27bp)
TCACAGTGAACCGGTCTCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 29bp)
TTGCTGTGATGACTATCTTAGGACACCTTTGGATTAACCGTGAAATCAAA	17	0.42500000000000004	No Hit
AGCTGGTGTTGTGAATCAGGCCGTGGAATTCTCGGGTGCCAAGGAACTCC	16	0.4	RNA PCR Primer, Index 1 (100% over 27bp)
TGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAG	16	0.4	RNA PCR Primer, Index 2 (97% over 35bp)
TGAACTGATGATATCATTTCTTTCCCCGTCAGATCGACCCTGTTGATCTC	16	0.4	No Hit
TCGGATCCGTCTGAGCTTGGCTTTGGAATTCTCGGGTGCCAAGGAACTCC	16	0.4	RNA PCR Primer, Index 1 (100% over 27bp)
TCGGATCCGTCTGAGCTTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGC	16	0.4	RNA PCR Primer, Index 1 (96% over 29bp)
TTTGAACCATCACTCGACTCCTTGGAATTCTCGGGTGCCAAGGAACTCCA	16	0.4	RNA PCR Primer, Index 1 (100% over 28bp)
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGGGCCAAGGAACTCCA	15	0.375	RNA PCR Primer, Index 1 (96% over 28bp)
CATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTTGGAATTC	15	0.375	No Hit
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	15	0.375	RNA PCR Primer, Index 1 (100% over 28bp)
TGCTGTGATGAGATGACTAAGTAGGAAGTGCCGTCAGAGTCGATAACTGA	14	0.35000000000000003	No Hit
GTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGTTCCATCTC	14	0.35000000000000003	RNA PCR Primer, Index 14 (100% over 44bp)
GTTAGTACTTGGATGGGAGACCGCCTGGGAATACCGGGTGCTGTAGGCTT	13	0.325	No Hit
GACTCTTAGCGGTGGATCACTCGGCTCGTGCGTCGATGAAGAACGCAGCT	13	0.325	No Hit
CACCCGTAGAACCGACCTTGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	13	0.325	RNA PCR Primer, Index 1 (100% over 29bp)
CATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTCCTCCCGG	13	0.325	No Hit
TGAGGTAGTAGATTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	13	0.325	RNA PCR Primer, Index 1 (100% over 29bp)
TGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTGGA	13	0.325	No Hit
TCGGATCCGTCTGAGCTTGGCTATGGAATTCTCGGGTGCCAAGGAACTCC	12	0.3	RNA PCR Primer, Index 1 (100% over 27bp)
CTGCAGTGATGACTATCTTAGGACACCTTTGGATTTACCGTGAAAAGAAG	12	0.3	No Hit
TTCAAGTAATCCAGGATAGGCTTTGGAATTCTCGGGTGCCAAGGAACTCC	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 27bp)
AGCAGCATTGTACAGGGCTATGATGGAATTCTCGGGTGCCAAGGAACTCC	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 27bp)
TCGGATCCGTCTGAGCTTGGCTATTGGAATTCTCGGGTGCCAAGGAACTC	10	0.25	RNA PCR Primer, Index 1 (100% over 26bp)
GCATGTGATGACATTATTTAGCGACCAAAGTCTGATAAAGATGATTGTGA	10	0.25	No Hit
GCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTGGAA	10	0.25	No Hit
TGTAAACATCCCCGACTGGAAGCTGGAATTCTCGGGTGCCAAGGAACTCC	10	0.25	RNA PCR Primer, Index 1 (100% over 27bp)
GTAAATGATGAGATTCCATTGGTCCGTGTTTCTGAACTACATGATTTTCC	10	0.25	No Hit
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA	10	0.25	RNA PCR Primer, Index 1 (100% over 28bp)
TTGCAATGATGACTTATATATCTGTCAATCCCCTGAGAGATCACTGACGA	10	0.25	No Hit
TCCCTGAGACCCTTTAACCTGTGATGGAATTCTCGGGTGCCAAGGAACTC	10	0.25	RNA PCR Primer, Index 1 (100% over 26bp)
TGTAAACATCCTTGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	10	0.25	RNA PCR Primer, Index 1 (100% over 26bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGGGCCAAGGAACTCCG	9	0.22499999999999998	RNA PCR Primer, Index 1 (96% over 27bp)
TCGAGGAGCTCACAGTCTAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
CACCCTGATGAACTGAATACCGCCCCAGTCTGATAGCTGTGGAGAAAGGT	9	0.22499999999999998	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGCCATGGAATTCTCGGGT	9	0.22499999999999998	No Hit
TGAGGTAGTAGGTTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGATGAAGCACTGTAGCTCTGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
TTTGAACCATCACTCGACTCCTTGGAATTCTCGGGGGCCAAGGAACTCCA	9	0.22499999999999998	RNA PCR Primer, Index 1 (96% over 28bp)
AGCCCATGATGGTATGAGAGTAGTGGACAGAAGGGATTTCTGAAAAACAC	8	0.2	No Hit
TTTGAACCATCACTCGACTCCTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGGGCCAAGGAATTCCA	8	0.2	RNA PCR Primer, Index 1 (95% over 23bp)
ACTAATCCTAGCCCTAGCCCTACATGGAATTCTCGGGTGCCAAGGAACTC	8	0.2	RNA PCR Primer, Index 1 (100% over 26bp)
TTGCTGTGATGACTATCTTAGGACACCTTTGGATTAACCGTGGAATTCTC	8	0.2	No Hit
ACTAATCCTAGCCCTAGCCCTACACTGGAATTCTCGGGTGCCAAGGAACT	8	0.2	RNA PCR Primer, Index 1 (100% over 25bp)
TCGGATCCGTCTGAGCTTGGATGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTAACTTGTGAATGGAATTCTCGGGTGCCAAGGAACTCC	8	0.2	RNA PCR Primer, Index 1 (100% over 27bp)
TGAGGTAGTAGGTTGTATGGTTTGGAATTCTCGGGGGCCAAGGAACTCCA	7	0.17500000000000002	RNA PCR Primer, Index 1 (96% over 28bp)
GGTCCATGATGAAACCCATTATCAGTGGACATCTATGGATGAGAAATGCG	7	0.17500000000000002	No Hit
TCCCTGAGACCCTTTAACCTGTGTGGAATTCTCGGGTGCCAAGGAACTCC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 27bp)
TTCCCTTTGTCATCCTATGCCTGTGGAATTCTCGGGTGCCAAGGAACTCC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 27bp)
AGTCTATGATGATCCTATCCCGAACCTGAATTCCTGTTGAAAAACCATAA	7	0.17500000000000002	No Hit
AGTCTATGATGATCCTATCCCGAACCTGAATTCCTGTTGAAAAACCATAC	7	0.17500000000000002	No Hit
TGAGGTAGTAGATTGTATAGTTTGGAATTCTCGGGGGCCAAGGAACTCCA	7	0.17500000000000002	RNA PCR Primer, Index 1 (96% over 28bp)
AGCCCATGATGGTATGAGAGTAGTGGACAGAAGGGATTTCTGAAAAACAT	7	0.17500000000000002	No Hit
TTTGGCAATGGTAGAACTCACACCGTGGAATTCTCGGGTGCCAAGGAACT	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 25bp)
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGTGCCAAGGAACTCCG	7	0.17500000000000002	RNA PCR Primer, Index 1 (96% over 27bp)
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGGGCCAAGGAATTCCG	7	0.17500000000000002	RNA PCR Primer, Index 1 (95% over 23bp)
ATACATGATGATCTCACACAACTTGAACTCTCTCACTGATTACTTGATGA	7	0.17500000000000002	No Hit
GTGAAATGATGGCAAATCATCTTTCGGGACTGACCTGAAATGAAGAGAAT	7	0.17500000000000002	No Hit
TAGTAGACCGTATAGCGTACGTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
TACCATGATGATAACATAGTTCAGCAGACTTAACTCTGATGAACAATCAT	6	0.15	No Hit
TCGGATCCGTCTGAGCTTGGCTAATGGAATTCTCGGGTGCCAAGGAACTC	6	0.15	RNA PCR Primer, Index 1 (100% over 26bp)
TGAGGTAGTAGATTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
GCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTTGGAATTC	6	0.15	No Hit
AAGGGATTCTGATGTTGGTCACACTTGGAATTCTCGGGTGCCAAGGAACT	6	0.15	RNA PCR Primer, Index 1 (100% over 25bp)
TCCCTGAGACCCTAACTTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	6	0.15	RNA PCR Primer, Index 1 (100% over 30bp)
ACATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTTGGAATT	6	0.15	No Hit
ACCATTCGTAGACGACCTGCTTCTGGAATTCTCGGGTGCCAAGGAACTCC	6	0.15	RNA PCR Primer, Index 1 (100% over 27bp)
CACATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTCCTCCC	6	0.15	No Hit
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGTGCCAAGGAACTCCG	6	0.15	RNA PCR Primer, Index 1 (96% over 27bp)
TGAGGTAGTAGGTTGTATGGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
TTCAAGTAATCCAGGATAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
ACAAATGATGAACCTTTTGACGGGCGGACAGAAACTCTGTGCTGAATGTC	6	0.15	No Hit
TCGGATCCGTCTGAGCTTGGTGGAATTCTCGGGGGCCAAGGAACTCCAGC	6	0.15	RNA PCR Primer, Index 1 (96% over 29bp)
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGGGCCAAGGAACTCCG	6	0.15	RNA PCR Primer, Index 1 (96% over 27bp)
GTCCATGATGAAACCCATTATCAGTGGACATCTATGGATGAGAAATGCGG	6	0.15	No Hit
GGTCCATGATGAAGCCCATTATCAGTGGACATCTATGGATGAGAAATGCG	6	0.15	No Hit
GGTTAATTCCGATAACGAACGAGACTCTGGCATGCTAACTAGTTACGCGA	5	0.125	No Hit
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGGGCCAAGGAACTCCG	5	0.125	RNA PCR Primer, Index 1 (96% over 27bp)
CACAAATGATGAACCTTTTGACGGGCGGACAGAAACTCTGTGCTGAATGT	5	0.125	No Hit
TATTGCACTTGTCCCGGCCTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTGG	5	0.125	No Hit
CATTATTACTTTTGGTACGCGTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TTCACAGTGGCTAAGTTCTGTGGAATTCTCGGGTGCCAAGGAACTCCAGC	5	0.125	RNA PCR Primer, Index 1 (96% over 29bp)
CTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACA	5	0.125	RNA PCR Primer, Index 1 (100% over 34bp)
GCCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA	5	0.125	RNA PCR Primer, Index 1 (100% over 32bp)
TGAGGTAGTAGTTTGTGCTGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TGGGGGGCCCAAGTCCTTCTGATCGAGGCCCTGGAATTCTCGGGTGCCAA	5	0.125	No Hit
TGACTTGATGAAAGTACTTTTGAACCCTTTTCCATCTGATGTGGAATTCT	5	0.125	No Hit
GGCTGGTCCGAAGGTAGTGAGTTATCTCAATTGGAATTCTCGGGTGCCAA	5	0.125	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGCCACGCGGGAGGCCCGG	5	0.125	No Hit
CTCGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTTGGAA	5	0.125	No Hit
TCTGGCTCCGTGTCTTCACTCCCTGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
CCTACTTGGATAACTGTGGTAATTCTAGAGCTAATACATGCCTGGAATTC	5	0.125	No Hit
TCCCTGAGACCCTTTAACCTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TACCCTGTAGAACCGAATTTGTGTGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
GTTCTGTGATGAGGCTCTGGAATGTGCGCTGGGCACAGCGCCCGAGAGAG	5	0.125	No Hit
CCTGCATGATGACGAACAAATACTGACTACCTGAAGATCTTATTAGCTCT	5	0.125	No Hit
TTCCCTTTGTCATCCTATGCCTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TCCCTGAGACCCTTTAACCTGTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
ACTAATCCTAGCCCTAGCCCTACACAAATATAATTATACTATTATTGGAA	5	0.125	No Hit
AACCCGTAGATCCGAACTTGTGATGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
GTCTATGATGATCCTATCCCGAACCTGAATTCCTGTTGAAAAACCATAAT	5	0.125	No Hit
TCGGATCCGTCTGAGCTTGGCATGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
CTTAATGATGATTGTCTGTTTGATTGCTTGATGCAATGTGAAAACCACAT	5	0.125	No Hit
>>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	0.475	0.0	0.0	0.0
2	0.0	0.475	0.0	0.0	0.0
3	0.0	0.6	0.0	0.0	0.0
4	0.0	0.6	0.0	0.0	0.0
5	0.0	0.65	0.0	0.0	0.0
6	0.0	0.825	0.0	0.0	0.0
7	0.0	1.2	0.0	0.0	0.0
8	0.0	1.375	0.0	0.0	0.0
9	0.0	1.475	0.0	0.0	0.0
10	0.0	1.6	0.0	0.0	0.0
11	0.0	1.7	0.0	0.0	0.0
12	0.0	1.875	0.0	0.0	0.0
13	0.0	2.125	0.0	0.0	0.0
14	0.0	2.35	0.0	0.0	0.0
15	0.0	2.575	0.0	0.0	0.0
16	0.0	3.4	0.0	0.0	0.0
17	0.0	3.925	0.0	0.0	0.0
18	0.0	5.05	0.0	0.0	0.0
19	0.0	5.675	0.0	0.0	0.0
20	0.0	6.475	0.0	0.0	0.0
21	0.0	11.175	0.0	0.0	0.0
22	0.0	20.125	0.0	0.0	0.0
23	0.0	43.975	0.0	0.0	0.0
24	0.0	54.925	0.0	0.0	0.0
25	0.0	60.125	0.0	0.0	0.0
26	0.0	61.75	0.0	0.0	0.0
27	0.0	62.4	0.0	0.0	0.0
28	0.0	63.225	0.0	0.0	0.0
29	0.0	63.5	0.0	0.0	0.0
30	0.0	64.175	0.0	0.0	0.0
31	0.0	64.825	0.0	0.0	0.0
32	0.0	65.8	0.0	0.0	0.0
33	0.0	66.75	0.0	0.0	0.0
34	0.0	69.525	0.0	0.0	0.0
35	0.0	70.65	0.0	0.0	0.0
36	0.0	71.325	0.0	0.0	0.0
37	0.0	72.15	0.0	0.0	0.0
38	0.0	72.8	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
GGTGAGT	20	6.952051E-4	44.000004	17
GTTGAAG	20	6.952051E-4	44.000004	10
CAGTTGA	20	6.952051E-4	44.000004	8
CCAGTTG	20	6.952051E-4	44.000004	7
CCAAAGG	20	6.952051E-4	44.000004	37
GAAGAAC	20	6.952051E-4	44.000004	13
GCTGCCA	20	6.952051E-4	44.000004	3
GAACTGT	20	6.952051E-4	44.000004	16
CGGTGAG	20	6.952051E-4	44.000004	16
TGAAGAA	20	6.952051E-4	44.000004	12
CAAAGGA	20	6.952051E-4	44.000004	38
AGTTGAA	20	6.952051E-4	44.000004	9
TTGGCTT	40	5.315087E-9	44.000004	17
CTGCCAG	20	6.952051E-4	44.000004	4
TTGAAGA	20	6.952051E-4	44.000004	11
AAGCTGC	20	6.952051E-4	44.000004	1
AGCTGCC	20	6.952051E-4	44.000004	2
AACGCTG	30	1.9515464E-6	44.0	8
ACGCTGT	30	1.9515464E-6	44.0	9
TTCAACG	30	1.9515464E-6	44.0	5
>>END_MODULE
Read 68641 spots for SRR5030946.sra
Written 68641 spots for SRR5030946.sra
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Read 68641 spots for SRR5030946.sra
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Read 68641 spots for SRR5030946.sra
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Read 68641 spots for SRR5030946.sra
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Read 68641 spots for SRR5030946.sra
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Read 68641 spots for SRR5030946.sra
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Read 68641 spots for SRR5030946.sra
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Read 68641 spots for SRR5030946.sra
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Read 68641 spots for SRR5030946.sra
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Read 68641 spots for SRR5030946.sra
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SRR ids: ['SRR5030946.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_13cxos3m
SRR5030946.sra spots: 3294769
blocks: [[1, 68641], [68642, 137282], [137283, 205923], [205924, 274564], [274565, 343205], [343206, 411846], [411847, 480487], [480488, 549128], [549129, 617769], [617770, 686410], [686411, 755051], [755052, 823692], [823693, 892333], [892334, 960974], [960975, 1029615], [1029616, 1098256], [1098257, 1166897], [1166898, 1235538], [1235539, 1304179], [1304180, 1372820], [1372821, 1441461], [1441462, 1510102], [1510103, 1578743], [1578744, 1647384], [1647385, 1716025], [1716026, 1784666], [1784667, 1853307], [1853308, 1921948], [1921949, 1990589], [1990590, 2059230], [2059231, 2127871], [2127872, 2196512], [2196513, 2265153], [2265154, 2333794], [2333795, 2402435], [2402436, 2471076], [2471077, 2539717], [2539718, 2608358], [2608359, 2676999], [2677000, 2745640], [2745641, 2814281], [2814282, 2882922], [2882923, 2951563], [2951564, 3020204], [3020205, 3088845], [3088846, 3157486], [3157487, 3226127], [3226128, 3294769]]
SRR5030946 file size 569982
SRR5030946 completed basic pipeline successfully
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	skewer -l 18 -q 10 -k inf -t 48 -o SRR5030946 SRR5030946_1.fastq
Input file:	SRR5030946_1.fastq
trimmed:	SRR5030946-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):	32
Wed Mar  4 06:51:00 2020 >> started

Wed Mar  4 06:51:02 2020 >> done (2.113s)
3294769 reads processed; of these:
    184 ( 0.01%) short reads filtered out after trimming by size control
      6 ( 0.00%) empty reads filtered out after trimming by size control
3294579 (99.99%) reads available; of these:
 386820 (11.74%) trimmed reads available after processing
2907759 (88.26%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	     43	  0.00%
 19	     66	  0.00%
 20	    143	  0.00%
 21	    153	  0.00%
 22	    287	  0.01%
 23	    396	  0.01%
 24	    458	  0.01%
 25	    550	  0.02%
 26	    506	  0.02%
 27	    673	  0.02%
 28	    918	  0.03%
 29	   1273	  0.04%
 30	   1078	  0.03%
 31	   1459	  0.04%
 32	   3940	  0.12%
 33	  11427	  0.35%
 34	  30217	  0.92%
 35	   7695	  0.23%
 36	   5868	  0.18%
 37	   4047	  0.12%
 38	   8281	  0.25%
 39	   7393	  0.22%
 40	  12221	  0.37%
 41	   7701	  0.23%
 42	  17254	  0.52%
 43	   8573	  0.26%
 44	  37192	  1.13%
 45	  23312	  0.71%
 46	  21209	  0.64%
 47	  24469	  0.74%
 48	  66416	  2.02%
 49	  81602	  2.48%
 50	2907759	 88.26%
3294579 reads passed initial QC


criterion=sequence-density
sequence-density=72.15
sequence-density-rank=1
fanout-score=22.00
fanout-score-rank=2
prefix-density=75.40
prefix-fanout=21.1
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGTTCCATCTCGTATGCC


criterion=fanout-score
sequence-density=2.89
sequence-density-rank=3
fanout-score=81.78
fanout-score-rank=1
prefix-density=74.89
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 48 -x TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGTTCCATCTCGTATGCC -o SRR5030946 -
Input file:	STDIN
trimmed:	SRR5030946-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGTTCCATCTCGTATGCC
-- 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):	32
Wed Mar  4 06:51:20 2020 >> started

Wed Mar  4 06:51:25 2020 >> done (4.906s)
3204317 reads processed; of these:
 140537 ( 4.39%) short reads filtered out after trimming by size control
  14351 ( 0.45%) empty reads filtered out after trimming by size control
3049429 (95.17%) reads available; of these:
2486650 (81.54%) trimmed reads available after processing
 562779 (18.46%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  18340	  0.60%
 19	  24021	  0.79%
 20	 136051	  4.46%
 21	 290177	  9.52%
 22	 778125	 25.52%
 23	 369876	 12.13%
 24	 182544	  5.99%
 25	  53635	  1.76%
 26	  26225	  0.86%
 27	  21300	  0.70%
 28	  23169	  0.76%
 29	  19353	  0.63%
 30	  25639	  0.84%
 31	  32335	  1.06%
 32	  32612	  1.07%
 33	  90160	  2.96%
 34	  37086	  1.22%
 35	  28943	  0.95%
 36	  35751	  1.17%
 37	  19331	  0.63%
 38	  23020	  0.75%
 39	  21622	  0.71%
 40	  33754	  1.11%
 41	  36949	  1.21%
 42	  44953	  1.47%
 43	  30626	  1.00%
 44	  28997	  0.95%
 45	  35320	  1.16%
 46	  28330	  0.93%
 47	  21820	  0.72%
 48	   8678	  0.28%
 49	  17251	  0.57%
 50	 473436	 15.53%


criterion=sequence-density
sequence-density=6.51
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=16
prefix-density=0.00
prefix-fanout=1.0
sequence=AACATTCAACGCTGTCGGTGAGTTTT


criterion=fanout-score
sequence-density=0.67
sequence-density-rank=20
fanout-score=11.01
fanout-score-rank=1
prefix-density=7.32
prefix-fanout=1.0
sequence=TGAGCTTGGCTAT
                                 Started job on |	Mar 04 06:52:06
                             Started mapping on |	Mar 04 06:52:06
                                    Finished on |	Mar 04 06:52:36
       Mapping speed, Million of reads per hour |	376.76

                          Number of input reads |	3139691
                      Average input read length |	30
                                    UNIQUE READS:
                   Uniquely mapped reads number |	1776352
                        Uniquely mapped reads % |	56.58%
                          Average mapped length |	29.28
                       Number of splices: Total |	1949
            Number of splices: Annotated (sjdb) |	263
                       Number of splices: GT/AG |	1828
                       Number of splices: GC/AG |	37
                       Number of splices: AT/AC |	1
               Number of splices: Non-canonical |	83
                      Mismatch rate per base, % |	0.23%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.29
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.04
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	887264
             % of reads mapped to multiple loci |	28.26%
        Number of reads mapped to too many loci |	75233
             % of reads mapped to too many loci |	2.40%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	11.96%
                     % of reads unmapped: other |	0.80%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	476075	476075	476075
N_multimapping	887264	887264	887264
N_noFeature	77722	102547	1286040
N_ambiguous	943563	516073	16692
UnstrandedReadsAssigned:755067 PositiveStrandReadsAssigned:1157732 NegativeStrandReadsAssigned:473620
Dataset is classified unstranded
MeadianReadLen=23 20thPercentileLength=22 echo kmer=19
SRR5030946 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: SRR5030946-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 3,139,691 reads, 743,220 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 1,138 rounds

 109283 SRR5030946.ke.tsv
  52636 SRR5030946.se.tsv
 161919 total
==> SRR5030946.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

==> SRR5030946.se.tsv <==
ENSMUSG00000102693	0
ENSMUSG00000064842	0
ENSMUSG00000051951	1
ENSMUSG00000102851	0
ENSMUSG00000103377	0
ENSMUSG00000104017	0
ENSMUSG00000103025	0
ENSMUSG00000089699	0
ENSMUSG00000103201	0
ENSMUSG00000103147	0
SRR5030946 completed mapping pipeline successfully
