Starting /dee2/code/volunteer_pipeline.sh SRR5030851
    current disk space = 160661667840
    free memory = 73949912 
SRR5030851 SRAfilesize
8e68008e13eb16eaaa0b5768c5d0d86c  SRR5030851.sra
SRR5030851.sra file validated
SRR5030851 is single end
SRR5030851 is conventional basespace
SRR5030851 read1 length is 50 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR5030851_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	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	32.47225	34.0	31.0	34.0	31.0	34.0
2	32.73375	34.0	31.0	34.0	31.0	34.0
3	32.82575	34.0	31.0	34.0	31.0	34.0
4	36.24125	37.0	37.0	37.0	35.0	37.0
5	36.29825	37.0	37.0	37.0	35.0	37.0
6	36.125	37.0	37.0	37.0	35.0	37.0
7	36.025	37.0	35.0	37.0	35.0	37.0
8	36.18025	37.0	36.0	37.0	35.0	37.0
9	37.907	39.0	38.0	39.0	35.0	39.0
10	37.9965	39.0	38.0	39.0	35.0	39.0
11	37.837	39.0	38.0	39.0	35.0	39.0
12	37.8705	39.0	38.0	39.0	35.0	39.0
13	37.8815	39.0	38.0	39.0	35.0	39.0
14	39.2895	41.0	39.0	41.0	36.0	41.0
15	39.14425	40.0	39.0	41.0	36.0	41.0
16	39.208	40.0	39.0	41.0	36.0	41.0
17	39.424	41.0	39.0	41.0	36.0	41.0
18	39.321	41.0	39.0	41.0	36.0	41.0
19	39.10775	41.0	39.0	41.0	36.0	41.0
20	39.109	41.0	39.0	41.0	36.0	41.0
21	39.20925	41.0	39.0	41.0	36.0	41.0
22	39.15225	41.0	39.0	41.0	36.0	41.0
23	39.0545	41.0	39.0	41.0	35.0	41.0
24	38.92225	40.0	39.0	41.0	35.0	41.0
25	39.05625	41.0	39.0	41.0	35.0	41.0
26	39.17025	41.0	39.0	41.0	36.0	41.0
27	39.1845	41.0	39.0	41.0	36.0	41.0
28	38.95925	41.0	39.0	41.0	35.0	41.0
29	38.28275	40.0	38.0	41.0	33.0	41.0
30	38.50425	40.0	38.0	41.0	34.0	41.0
31	38.75075	40.0	38.0	41.0	35.0	41.0
32	39.01875	41.0	39.0	41.0	35.0	41.0
33	38.1635	40.0	38.0	41.0	33.0	41.0
34	38.244	40.0	38.0	41.0	33.0	41.0
35	37.9625	40.0	38.0	41.0	33.0	41.0
36	34.736	38.0	33.0	40.0	23.0	41.0
37	35.8635	38.0	35.0	40.0	30.0	41.0
38	37.07	39.0	37.0	40.0	31.0	41.0
39	36.8645	39.0	37.0	40.0	31.0	41.0
40	36.89525	39.0	37.0	40.0	31.0	41.0
41	36.98875	39.0	37.0	41.0	31.0	41.0
42	37.22975	40.0	37.0	41.0	31.0	41.0
43	37.0825	40.0	37.0	41.0	31.0	41.0
44	36.9695	40.0	37.0	41.0	31.0	41.0
45	36.71925	39.0	36.0	41.0	31.0	41.0
46	35.114	38.0	34.0	40.0	26.0	41.0
47	35.8625	39.0	35.0	40.0	28.0	41.0
48	36.247	39.0	36.0	41.0	30.0	41.0
49	35.2455	39.0	35.0	40.0	28.0	41.0
50	30.52125	34.0	27.0	39.0	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
10	1.0
11	0.0
12	0.0
13	0.0
14	0.0
15	1.0
16	1.0
17	2.0
18	4.0
19	2.0
20	3.0
21	8.0
22	4.0
23	11.0
24	12.0
25	14.0
26	17.0
27	31.0
28	30.0
29	34.0
30	55.0
31	57.0
32	83.0
33	107.0
34	153.0
35	198.0
36	288.0
37	510.0
38	942.0
39	1432.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	9.09318637274549	24.19839679358717	52.379759519038075	14.32865731462926
2	21.725	26.55	19.15	32.574999999999996
3	25.5	20.424999999999997	21.85	32.225
4	30.475	28.675	13.0	27.85
5	19.725	43.325	24.875	12.075
6	34.875	17.299999999999997	34.65	13.175
7	14.725	21.05	26.025	38.2
8	27.025	30.15	12.875	29.95
9	21.275	35.699999999999996	29.325000000000003	13.700000000000001
10	22.325	22.225	29.4	26.05
11	29.275000000000002	12.35	15.625	42.75
12	14.649999999999999	18.825	31.15	35.375
13	31.6	20.225	28.549999999999997	19.625
14	30.175	31.75	20.424999999999997	17.65
15	33.16658329164582	25.337668834417208	27.43871935967984	14.057028514257128
16	16.325	24.3	20.825	38.550000000000004
17	21.925	21.675	41.65	14.75
18	22.650000000000002	18.2	31.75	27.400000000000002
19	36.35	14.875	28.799999999999997	19.975
20	41.15	16.150000000000002	28.025	14.674999999999999
21	22.825	19.3	28.199999999999996	29.675
22	28.1	13.25	48.275	10.375
23	27.450000000000003	12.725	43.65	16.175
24	51.6	15.55	24.375	8.475000000000001
25	48.35	25.6	14.975	11.075
26	26.481620405101275	47.586896724181045	15.103775943985998	10.827706926731683
27	16.625	47.65	24.725	11.0
28	12.725	24.45	48.949999999999996	13.875000000000002
29	9.65	14.625	56.75	18.975
30	10.2	7.775	36.475	45.550000000000004
31	14.825	6.275	47.675	31.225
32	28.825	6.800000000000001	20.1	44.275
33	54.825	8.35	14.424999999999999	22.400000000000002
34	60.5	7.675	16.05	15.775
35	62.925	7.2749999999999995	19.7	10.100000000000001
36	41.75	8.275	35.85	14.124999999999998
37	46.325	9.55	18.65	25.474999999999998
38	21.9	15.1	13.8	49.2
39	16.75	26.125	8.75	48.375
40	15.525	49.275000000000006	10.475	24.725
41	25.8	47.949999999999996	9.425	16.825000000000003
42	50.9	29.825000000000003	9.725	9.55
43	49.6	33.050000000000004	8.200000000000001	9.15
44	28.249999999999996	50.675000000000004	7.375	13.700000000000001
45	17.575	50.925	13.375	18.125
46	10.424999999999999	27.250000000000004	20.3	42.025
47	8.200000000000001	17.025000000000002	39.75	35.025
48	9.275	13.875000000000002	19.35	57.49999999999999
49	13.475000000000001	21.025	14.2	51.300000000000004
50	19.35	36.7	14.875	29.075
>>END_MODULE
>>Per sequence GC content	fail
#GC Content	Count
0	0.0
1	0.5
2	1.0
3	0.5
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	0.5
14	1.0
15	1.0
16	1.0
17	0.5
18	0.0
19	0.0
20	0.0
21	0.5
22	1.0
23	0.5
24	0.0
25	0.0
26	0.0
27	1.5
28	3.0
29	5.5
30	8.0
31	11.5
32	15.0
33	16.5
34	18.0
35	31.5
36	45.0
37	53.0
38	61.0
39	60.5
40	60.0
41	52.5
42	45.0
43	75.0
44	105.0
45	159.0
46	213.0
47	325.0
48	437.0
49	564.0
50	691.0
51	789.0
52	887.0
53	654.0
54	421.0
55	430.0
56	439.0
57	354.5
58	270.0
59	174.0
60	78.0
61	59.5
62	41.0
63	57.0
64	73.0
65	50.0
66	27.0
67	18.5
68	10.0
69	9.5
70	9.0
71	16.5
72	24.0
73	14.5
74	5.0
75	3.5
76	2.0
77	1.5
78	1.0
79	3.5
80	6.0
81	3.5
82	1.0
83	0.5
84	0.0
85	0.5
86	1.0
87	0.5
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	0.2
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	0.05
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	0.025
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	40.075
#Duplication Level	Percentage of deduplicated	Percentage of total
1	76.29444791016844	30.575000000000003
2	9.91890205864005	7.95
3	3.680598877105427	4.425
4	2.4953212726138494	4.0
5	1.372426699937617	2.75
6	0.8733624454148471	2.1
7	0.4990642545227698	1.4000000000000001
8	0.9357454772301934	3.0
9	0.6862133499688085	2.475
>10	2.682470368059888	21.075
>50	0.37429819089207733	10.85
>100	0.18714909544603867	9.4
>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
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	142	3.55	RNA PCR Primer, Index 1 (100% over 28bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA	130	3.25	RNA PCR Primer, Index 1 (100% over 28bp)
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA	104	2.6	RNA PCR Primer, Index 1 (100% over 28bp)
AACATTCAACGCTGTCGGTGAGTTGGAATTCTCGGGTGCCAAGGAACTCC	95	2.375	RNA PCR Primer, Index 1 (100% over 27bp)
TCACAGTGAACCGGTCTCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	85	2.125	RNA PCR Primer, Index 1 (100% over 29bp)
TCGGATCCGTCTGAGCTTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGT	77	1.925	RNA PCR Primer, Index 1 (100% over 30bp)
TCCCTGAGACCCTTTAACCTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	66	1.6500000000000001	RNA PCR Primer, Index 1 (100% over 28bp)
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGTGCCAAGGAACTCCA	60	1.5	RNA PCR Primer, Index 1 (100% over 28bp)
TTTGAACCATCACTCGACTCCTTGGAATTCTCGGGTGCCAAGGAACTCCA	51	1.275	RNA PCR Primer, Index 1 (100% over 28bp)
TCGGATCCGTCTGAGCTTGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	43	1.075	RNA PCR Primer, Index 1 (100% over 29bp)
CCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC	36	0.8999999999999999	RNA PCR Primer, Index 1 (100% over 33bp)
TCACAGTGAACCGGTCTCTTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	36	0.8999999999999999	RNA PCR Primer, Index 1 (100% over 28bp)
CGCGACCTCAGATCAGACGTGGCGACCCGCTGATGGAATTCTCGGGTGCC	36	0.8999999999999999	No Hit
ACTAATCCTAGCCCTAGCCCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	33	0.8250000000000001	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCCCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	32	0.8	RNA PCR Primer, Index 1 (100% over 26bp)
TGTAAACATCCTCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	32	0.8	RNA PCR Primer, Index 1 (100% over 26bp)
CAACGGAATCCCAAAAGCAGCTGTGGAATTCTCGGGTGCCAAGGAACTCC	30	0.75	RNA PCR Primer, Index 1 (100% over 27bp)
TGAGGTAGTAGATTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	25	0.625	RNA PCR Primer, Index 1 (100% over 28bp)
TCTTTGGTTATCTAGCTGTATGATGGAATTCTCGGGTGCCAAGGAACTCC	25	0.625	RNA PCR Primer, Index 1 (100% over 27bp)
TCGGATCCGTCTGAGCTTGGCTATTGGAATTCTCGGGTGCCAAGGAACTC	24	0.6	RNA PCR Primer, Index 1 (100% over 26bp)
AGCTGGTGTTGTGAATCAGGCCGTGGAATTCTCGGGTGCCAAGGAACTCC	24	0.6	RNA PCR Primer, Index 1 (100% over 27bp)
TGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCT	24	0.6	RNA PCR Primer, Index 1 (97% over 35bp)
GTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCTTGTAATCTC	23	0.575	RNA PCR Primer, Index 12 (100% over 44bp)
TAGCAGCACGTAAATATTGGCGTGGAATTCTCGGGTGCCAAGGAACTCCA	22	0.5499999999999999	RNA PCR Primer, Index 1 (100% over 28bp)
TCGGATCCGTCTGAGCTTGGCTTTGGAATTCTCGGGTGCCAAGGAACTCC	21	0.525	RNA PCR Primer, Index 1 (100% over 27bp)
TGTAAACATCCTACACTCTCAGCTTGGAATTCTCGGGTGCCAAGGAACTC	20	0.5	RNA PCR Primer, Index 1 (100% over 26bp)
TAACAGTCTACAGCCATGGTCGTGGAATTCTCGGGTGCCAAGGAACTCCA	19	0.475	RNA PCR Primer, Index 1 (100% over 28bp)
CACCCGTAGAACCGACCTTGCGTGGAATTCTCGGGTGCCAAGGAACTCCA	18	0.44999999999999996	RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCTTGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	18	0.44999999999999996	RNA PCR Primer, Index 1 (100% over 26bp)
TCCCTGAGACCCTAACTTGTGATGGAATTCTCGGGTGCCAAGGAACTCCA	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 28bp)
TTCACAGTGGCTAAGTTCTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 30bp)
CACCCTGATGAACTGAATACCGCCCCAGTCTGATAGCTGTGGAGAAAGGT	17	0.42500000000000004	No Hit
TGAGGTAGTAGGTTGTATGGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	16	0.4	RNA PCR Primer, Index 1 (100% over 28bp)
AATATAACACAGATGGCCTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	15	0.375	RNA PCR Primer, Index 1 (100% over 29bp)
TCACAGTGAACCGGTCTCTTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 30bp)
TATTGCACTCGTCCCGGCCTCCTGGAATTCTCGGGTGCCAAGGAACTCCA	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 28bp)
TCCCTGAGACCCTAACTTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 30bp)
TCGAGGAGCTCACAGTCTAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	13	0.325	RNA PCR Primer, Index 1 (100% over 29bp)
GACTCTTAGCGGTGGATCACTCGGCTCGTGCGTCGATGAAGAACGCAGCT	13	0.325	No Hit
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCTTGTAATCTCGTATGC	13	0.325	RNA PCR Primer, Index 12 (100% over 50bp)
TCCCTGAGACCCTTTAACCTGTGATGGAATTCTCGGGTGCCAAGGAACTC	13	0.325	RNA PCR Primer, Index 1 (100% over 26bp)
TCCCTGAGACCCTTTAACCTGTGGAATTCTCGGGTGCCAAGGAACTCCAG	13	0.325	RNA PCR Primer, Index 1 (100% over 29bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGGGCCAAGGAACTCCA	12	0.3	RNA PCR Primer, Index 1 (96% over 28bp)
CACAAATGATGAACCTTTTGACGGGCGGACAGAAACTCTGTGCTGAATGT	12	0.3	No Hit
TGAGGTAGTAGGTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	12	0.3	RNA PCR Primer, Index 1 (100% over 28bp)
ACAAATGATGAACCTTTTGACGGGCGGACAGAAACTCTGTGCTGAATGTC	12	0.3	No Hit
TCACAGTGAACCGGTCTCTTTATGGAATTCTCGGGTGCCAAGGAACTCCA	12	0.3	RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCCCGACTGGAAGCTGGAATTCTCGGGTGCCAAGGAACTCC	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 27bp)
TAGCACCATCTGAAATCGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 29bp)
TTTGAACCATCACTCGACTCCTGGAATTCTCGGGTGCCAAGGAACTCCAG	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 29bp)
CACCCGTAGAACCGACCTTGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	10	0.25	RNA PCR Primer, Index 1 (100% over 29bp)
TCGGATCCGTCTGAGCTTGGCATGGAATTCTCGGGTGCCAAGGAACTCCA	10	0.25	RNA PCR Primer, Index 1 (100% over 28bp)
TCACAGTGAACCGGTCTCTTTCTGGAATTCTCGGGTGCCAAGGAACTCCA	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 28bp)
TTCAAGTAATCCAGGATAGGCTTTGGAATTCTCGGGTGCCAAGGAACTCC	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 27bp)
CTTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTG	9	0.22499999999999998	No Hit
TATACAAGGGCAAGCTCTCTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 28bp)
ACTAATCCTAGCCCTAGCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 30bp)
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGGGCCAAGGAACTCCA	9	0.22499999999999998	RNA PCR Primer, Index 1 (96% over 28bp)
GGGGGGCCCAAGTCCTTCTGATCGAGGCCCTGGAATTCTCGGGTGCCAAG	9	0.22499999999999998	No Hit
TGTAAACATCCCCGACTGGAATGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
CCCTGAGACCCTAACTTGTGATGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
TCGGATCCGTCTGAGCTTGGATGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTAACTTGTGAATGGAATTCTCGGGTGCCAAGGAACTCC	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 27bp)
TGAGGTAGTAGTTTGTACAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	8	0.2	RNA PCR Primer, Index 1 (100% over 28bp)
TGCTGTGATGAGATGACTAAGTAGGAAGTGCCGTCAGAGTCGATAACTGA	8	0.2	No Hit
AACATTCAACGCTGTCGGTGATGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
TCGGATCCGTCTGAGCTTGGCTTTTTGGAATTCTCGGGTGCCAAGGAACT	8	0.2	RNA PCR Primer, Index 1 (100% over 25bp)
TGAACTGATGATATCATTTCTTTCCCCGTCAGATCGACCCTGTTGATCTC	8	0.2	No Hit
TGAGGTAGTAGTTTGTGCTGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	8	0.2	RNA PCR Primer, Index 1 (100% over 28bp)
GCGGATGATGACACCTGGGTATGCTGCACACTCCCGACTGCGTCGTGGGG	8	0.2	No Hit
CTCGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTTGGAA	8	0.2	No Hit
GTAAATGATGAGATTCCATTGGTCCGTGTTTCTGAACTACATGATTTTCC	8	0.2	No Hit
CATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTTGGAATTC	8	0.2	No Hit
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGGGCCAAGGAACTCCA	8	0.2	RNA PCR Primer, Index 1 (96% over 28bp)
AGCAGCATTGTACAGGGCTATGATGGAATTCTCGGGTGCCAAGGAACTCC	8	0.2	RNA PCR Primer, Index 1 (100% over 27bp)
TGAGGTAGTAGATTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
ACTAATCCTAGCCCTAGCCCTACACTGGAATTCTCGGGTGCCAAGGAACT	8	0.2	RNA PCR Primer, Index 1 (100% over 25bp)
TGTAAACATCCTCGACTGGAAGCTGGAATTCTCGGGTGCCAAGGAACTCC	8	0.2	RNA PCR Primer, Index 1 (100% over 27bp)
TCGGATCCGTCTGAGCTTGGCTATGGAATTCTCGGGTGCCAAGGAACTCC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 27bp)
TTTGGCAATGGTAGAACTCACACCTGGAATTCTCGGGTGCCAAGGAACTC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 26bp)
ACCATTCGTAGACGACCTGCTTCTGGAATTCTCGGGTGCCAAGGAACTCC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 27bp)
TTCAAGTAATCCAGGATAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
AGCTGGTGTTGTGAATCAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
TTGCTGTGATGACTATCTTAGGACACCTTTGGATTAACCGTGAAATCAAA	7	0.17500000000000002	No Hit
AACATTCAACCTGTCGGTGAGTTGGAATTCTCGGGTGCCAAGGAACTCCA	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 28bp)
GTGAAATGATGGCAAATCATCTTTCGGGACTGACCTGAAATGAAGAGAAT	7	0.17500000000000002	No Hit
ACCACGTTCCCGTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCT	6	0.15	RNA PCR Primer, Index 1 (97% over 35bp)
GGCTGGTCCGAAGGTAGTGAGTTATCTCAATTGTGGAATTCTCGGGTGCC	6	0.15	No Hit
TCGGATCCGTCTGAGCTTGGCTTTTGGAATTCTCGGGTGCCAAGGAACTC	6	0.15	RNA PCR Primer, Index 1 (100% over 26bp)
AGCTACATCTGGCTACTGGGTCTCTGGAATTCTCGGGTGCCAAGGAACTC	6	0.15	RNA PCR Primer, Index 1 (100% over 26bp)
ACTAATCCTAGCCCTAGCCCTACACAAATATAATTATACTATTATATGGA	6	0.15	No Hit
TTCACAGTGGCTAAGTTCTGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGGAGGTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
ACTAATCCTAGCCCTAGCCCTACATGGAATTCTCGGGTGCCAAGGAACTC	6	0.15	RNA PCR Primer, Index 1 (100% over 26bp)
TGCGGGGCTAGGGCTAACAGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
TTTGGCAATGGTAGAACTCACACTGGAATTCTCGGGTGCCAAGGAACTCC	6	0.15	RNA PCR Primer, Index 1 (100% over 27bp)
TGAGATGAAGCACTGTAGCTCTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
TAAGGCACGCGGTGAATGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	6	0.15	RNA PCR Primer, Index 1 (100% over 30bp)
GTCTATGATGATCCTATCCCGAACCTGAATTCCTGTTGAAAAACCATACT	6	0.15	No Hit
TGAGATGAAGCACTGTAGCTCTTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
TAGTAGACCGTATAGCGTACGTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
CTGGCCCTCTCTGCCCTTCCGTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
CATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCTTGTAATCTCGTAT	5	0.125	RNA PCR Primer, Index 12 (100% over 48bp)
TCGGATCCGTCTGAGCTTGGCTAATGGAATTCTCGGGTGCCAAGGAACTC	5	0.125	RNA PCR Primer, Index 1 (100% over 26bp)
TTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTGG	5	0.125	No Hit
CATTATTACTTTTGGTACGCGTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
AAGGGATTCTGATGTTGGTCACACTTGGAATTCTCGGGTGCCAAGGAACT	5	0.125	RNA PCR Primer, Index 1 (100% over 25bp)
AGTCTATGATGATCCTATCCCGAACCTGAATTCCTGTTGAAAAACCATAA	5	0.125	No Hit
GCCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA	5	0.125	RNA PCR Primer, Index 1 (100% over 32bp)
TAGCACCATCTGAAATCGGTTATGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TGAGGTAGTAGATTGTATAGTTTGGAATTCTCGGGGGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (96% over 28bp)
ATAGTAGACCGTATAGCGTACGTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
ACGCCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	5	0.125	RNA PCR Primer, Index 1 (100% over 30bp)
ACTAATCCTAGCCCTAGCCCTATGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TTGCAATGATGACTTATATATCTGTCAATCCCCTGAGAGATCACTGACGA	5	0.125	No Hit
TGTAAACATCCCCGACTGGATGGAATTCTCGGGTGCCAAGGAACTCCAGT	5	0.125	RNA PCR Primer, Index 1 (100% over 30bp)
TGTAAACATCCTCGACTGGATGGAATTCTCGGGTGCCAAGGAACTCCAGT	5	0.125	RNA PCR Primer, Index 1 (100% over 30bp)
TGAGGTAGTAGGTTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCTACACTCAGCTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TTCCCTTTGTCATCCTATGCCTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
CATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTGGAATTCT	5	0.125	No Hit
GAGCAATGATGACCCCAACATGCCATCTGAGTGGCTTTGCTGAAATCCAG	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	0.375	0.0	0.0	0.0
2	0.0	0.375	0.0	0.0	0.0
3	0.0	0.5	0.0	0.0	0.0
4	0.0	0.5	0.0	0.0	0.0
5	0.0	0.6	0.0	0.0	0.0
6	0.0	0.675	0.0	0.0	0.0
7	0.0	1.4	0.0	0.0	0.0
8	0.0	1.55	0.0	0.0	0.0
9	0.0	1.625	0.0	0.0	0.0
10	0.0	1.95	0.0	0.0	0.0
11	0.0	2.275	0.0	0.0	0.0
12	0.0	2.55	0.0	0.0	0.0
13	0.0	2.775	0.0	0.0	0.0
14	0.0	2.975	0.0	0.0	0.0
15	0.0	3.2	0.0	0.0	0.0
16	0.0	4.35	0.0	0.0	0.0
17	0.0	4.9	0.0	0.0	0.0
18	0.0	6.075	0.0	0.0	0.0
19	0.0	6.7	0.0	0.0	0.0
20	0.0	7.575	0.0	0.0	0.0
21	0.0	13.45	0.0	0.0	0.0
22	0.0	25.65	0.0	0.0	0.0
23	0.0	55.85	0.0	0.0	0.0
24	0.0	67.25	0.0	0.0	0.0
25	0.0	73.875	0.0	0.0	0.0
26	0.0	75.575	0.0	0.0	0.0
27	0.0	76.4	0.0	0.0	0.0
28	0.0	76.925	0.0	0.0	0.0
29	0.0	77.325	0.0	0.0	0.0
30	0.0	77.7	0.0	0.0	0.0
31	0.0	78.35	0.0	0.0	0.0
32	0.0	79.05	0.0	0.0	0.0
33	0.0	79.875	0.0	0.0	0.0
34	0.0	81.475	0.0	0.0	0.0
35	0.0	82.0	0.0	0.0	0.0
36	0.0	82.3	0.0	0.0	0.0
37	0.0	82.875	0.0	0.0	0.0
38	0.0	83.3	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
CTTTTGG	20	6.952051E-4	44.000004	18
ACAGTGA	20	6.952051E-4	44.000004	3
ACCGGTC	20	6.952051E-4	44.000004	10
AACGCTG	20	6.952051E-4	44.000004	8
ACGCTGT	20	6.952051E-4	44.000004	9
AACCGGT	20	6.952051E-4	44.000004	9
TTCAACG	20	6.952051E-4	44.000004	5
TCGGTGA	20	6.952051E-4	44.000004	15
CTCTTTT	20	6.952051E-4	44.000004	16
CATTCAA	20	6.952051E-4	44.000004	3
TCAACGC	20	6.952051E-4	44.000004	6
ACATTCA	20	6.952051E-4	44.000004	2
CTTGGCT	20	6.952051E-4	44.000004	16
GCTGTCG	20	6.952051E-4	44.000004	11
GAACCGG	20	6.952051E-4	44.000004	8
GTCTCTT	20	6.952051E-4	44.000004	14
CGGTGAG	20	6.952051E-4	44.000004	16
AGTGAAC	20	6.952051E-4	44.000004	5
TCTCTTT	20	6.952051E-4	44.000004	15
GTGAACC	20	6.952051E-4	44.000004	6
>>END_MODULE
Read 238083 spots for SRR5030851.sra
Written 238083 spots for SRR5030851.sra
Read 238083 spots for SRR5030851.sra
Written 238083 spots for SRR5030851.sra
Read 238083 spots for SRR5030851.sra
Written 238083 spots for SRR5030851.sra
Read 238083 spots for SRR5030851.sra
Written 238083 spots for SRR5030851.sra
Read 238083 spots for SRR5030851.sra
Written 238083 spots for SRR5030851.sra
Read 238083 spots for SRR5030851.sra
Written 238083 spots for SRR5030851.sra
Read 238083 spots for SRR5030851.sra
Written 238083 spots for SRR5030851.sra
Read 238083 spots for SRR5030851.sra
Written 238083 spots for SRR5030851.sra
Read 238083 spots for SRR5030851.sra
Written 238083 spots for SRR5030851.sra
Read 238083 spots for SRR5030851.sra
Written 238083 spots for SRR5030851.sra
Read 238083 spots for SRR5030851.sra
Written 238083 spots for SRR5030851.sra
Read 238094 spots for SRR5030851.sra
Written 238094 spots for SRR5030851.sra
SRR ids: ['SRR5030851.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_fyd1n2t2
SRR5030851.sra spots: 2857007
blocks: [[1, 238083], [238084, 476166], [476167, 714249], [714250, 952332], [952333, 1190415], [1190416, 1428498], [1428499, 1666581], [1666582, 1904664], [1904665, 2142747], [2142748, 2380830], [2380831, 2618913], [2618914, 2857007]]
SRR5030851 file size 494107
SRR5030851 completed basic pipeline successfully
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	skewer -l 18 -q 10 -k inf -t 12 -o SRR5030851 SRR5030851_1.fastq
Input file:	SRR5030851_1.fastq
trimmed:	SRR5030851-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 06:28:32 2020 >> started

Wed Mar  4 06:28:34 2020 >> done (1.809s)
2857007 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
2856877 (100.00%) reads available; of these:
 153731 ( 5.38%) trimmed reads available after processing
2703146 (94.62%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	     44	  0.00%
 19	     45	  0.00%
 20	    105	  0.00%
 21	    122	  0.00%
 22	    208	  0.01%
 23	    254	  0.01%
 24	    300	  0.01%
 25	    394	  0.01%
 26	    342	  0.01%
 27	    469	  0.02%
 28	    597	  0.02%
 29	    911	  0.03%
 30	    713	  0.02%
 31	    879	  0.03%
 32	    869	  0.03%
 33	   1093	  0.04%
 34	   2653	  0.09%
 35	   2522	  0.09%
 36	   1992	  0.07%
 37	   2052	  0.07%
 38	   2316	  0.08%
 39	   2442	  0.09%
 40	   2386	  0.08%
 41	   2973	  0.10%
 42	   3541	  0.12%
 43	   5038	  0.18%
 44	   8688	  0.30%
 45	  10472	  0.37%
 46	   9924	  0.35%
 47	  14774	  0.52%
 48	  31161	  1.09%
 49	  43452	  1.52%
 50	2703146	 94.62%
2856877 reads passed initial QC


criterion=sequence-density
sequence-density=82.52
sequence-density-rank=1
fanout-score=19.18
fanout-score-rank=1
prefix-density=84.13
prefix-fanout=18.8
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCTTGTAATCTCGTATGCC


criterion=fanout-score
sequence-density=82.52
sequence-density-rank=1
fanout-score=19.18
fanout-score-rank=1
prefix-density=84.13
prefix-fanout=18.8
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCTTGTAATCTCGTATGCC
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 TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCTTGTAATCTCGTATGCC -o SRR5030851 -
Input file:	STDIN
trimmed:	SRR5030851-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCTTGTAATCTCGTATGCC
-- 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 06:28:52 2020 >> started

Wed Mar  4 06:28:56 2020 >> done (3.719s)
2788037 reads processed; of these:
 166201 ( 5.96%) short reads filtered out after trimming by size control
  11395 ( 0.41%) empty reads filtered out after trimming by size control
2610441 (93.63%) reads available; of these:
2350924 (90.06%) trimmed reads available after processing
 259517 ( 9.94%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  16926	  0.65%
 19	  28409	  1.09%
 20	 159747	  6.12%
 21	 343954	 13.18%
 22	 818592	 31.36%
 23	 340966	 13.06%
 24	 172017	  6.59%
 25	  45196	  1.73%
 26	  22366	  0.86%
 27	  15812	  0.61%
 28	  16463	  0.63%
 29	  12487	  0.48%
 30	  18336	  0.70%
 31	  21168	  0.81%
 32	  22852	  0.88%
 33	  55213	  2.12%
 34	  17701	  0.68%
 35	  13389	  0.51%
 36	  13561	  0.52%
 37	  12020	  0.46%
 38	  12092	  0.46%
 39	  13324	  0.51%
 40	  20609	  0.79%
 41	  27345	  1.05%
 42	  32329	  1.24%
 43	  22687	  0.87%
 44	  18937	  0.73%
 45	  23441	  0.90%
 46	  17661	  0.68%
 47	  13408	  0.51%
 48	   2696	  0.10%
 49	   8781	  0.34%
 50	 229956	  8.81%


criterion=sequence-density
sequence-density=5.16
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=12
prefix-density=0.00
prefix-fanout=1.0
sequence=AACATTCAACGCTGTCGGTGAGTTTT


criterion=fanout-score
sequence-density=0.02
sequence-density-rank=37
fanout-score=71.42
fanout-score-rank=1
prefix-density=1.20
prefix-fanout=1.0
sequence=ATTGTATAGTTTAACAGTCTACAGCCATGGTCGT
                                 Started job on |	Mar 04 06:30:05
                             Started mapping on |	Mar 04 06:30:06
                                    Finished on |	Mar 04 06:30:34
       Mapping speed, Million of reads per hour |	344.48

                          Number of input reads |	2679281
                      Average input read length |	27
                                    UNIQUE READS:
                   Uniquely mapped reads number |	1581300
                        Uniquely mapped reads % |	59.02%
                          Average mapped length |	26.56
                       Number of splices: Total |	1101
            Number of splices: Annotated (sjdb) |	200
                       Number of splices: GT/AG |	1009
                       Number of splices: GC/AG |	18
                       Number of splices: AT/AC |	2
               Number of splices: Non-canonical |	72
                      Mismatch rate per base, % |	0.18%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.61
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.10
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	818808
             % of reads mapped to multiple loci |	30.56%
        Number of reads mapped to too many loci |	42707
             % of reads mapped to too many loci |	1.59%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	8.32%
                     % of reads unmapped: other |	0.51%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	279173	279173	279173
N_multimapping	818808	818808	818808
N_noFeature	60370	76728	1122541
N_ambiguous	867483	470341	15825
UnstrandedReadsAssigned:653447 PositiveStrandReadsAssigned:1034231 NegativeStrandReadsAssigned:442934
Dataset is classified unstranded
MeadianReadLen=22 20thPercentileLength=21 echo kmer=19
SRR5030851 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: SRR5030851-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 2,679,281 reads, 714,837 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 1,067 rounds

 109283 SRR5030851.ke.tsv
  52636 SRR5030851.se.tsv
 161919 total
==> SRR5030851.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

==> SRR5030851.se.tsv <==
ENSMUSG00000102693	0
ENSMUSG00000064842	0
ENSMUSG00000051951	0
ENSMUSG00000102851	0
ENSMUSG00000103377	0
ENSMUSG00000104017	0
ENSMUSG00000103025	0
ENSMUSG00000089699	0
ENSMUSG00000103201	0
ENSMUSG00000103147	0
SRR5030851 completed mapping pipeline successfully
