Starting /dee2/code/volunteer_pipeline.sh SRR5030884
    current disk space = 160643203072
    free memory = 73927208 
SRR5030884 SRAfilesize
281b2ddfb551a907b4e43c30a534ada2  SRR5030884.sra
SRR5030884.sra file validated
SRR5030884 is single end
SRR5030884 is conventional basespace
SRR5030884 read1 length is 50 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR5030884_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	32.50975	34.0	31.0	34.0	31.0	34.0
2	32.7665	34.0	31.0	34.0	31.0	34.0
3	32.92875	34.0	31.0	34.0	31.0	34.0
4	36.289	37.0	37.0	37.0	35.0	37.0
5	36.3385	37.0	37.0	37.0	35.0	37.0
6	36.09125	37.0	36.0	37.0	35.0	37.0
7	36.0425	37.0	35.0	37.0	35.0	37.0
8	36.21525	37.0	36.0	37.0	35.0	37.0
9	37.99275	39.0	39.0	39.0	35.0	39.0
10	38.00325	39.0	39.0	39.0	35.0	39.0
11	37.949	39.0	38.0	39.0	35.0	39.0
12	37.97025	39.0	38.0	39.0	35.0	39.0
13	37.8855	39.0	38.0	39.0	35.0	39.0
14	39.371	41.0	39.0	41.0	36.0	41.0
15	39.30275	41.0	39.0	41.0	36.0	41.0
16	39.26475	41.0	39.0	41.0	36.0	41.0
17	39.4515	41.0	39.0	41.0	36.0	41.0
18	39.3625	41.0	39.0	41.0	36.0	41.0
19	39.087	41.0	39.0	41.0	36.0	41.0
20	39.057	40.0	39.0	41.0	36.0	41.0
21	39.284	41.0	39.0	41.0	36.0	41.0
22	39.26525	41.0	39.0	41.0	36.0	41.0
23	39.1295	41.0	39.0	41.0	36.0	41.0
24	38.97225	40.0	39.0	41.0	35.0	41.0
25	39.161	41.0	39.0	41.0	36.0	41.0
26	39.0705	40.0	39.0	41.0	36.0	41.0
27	39.15675	41.0	39.0	41.0	36.0	41.0
28	38.94875	40.0	39.0	41.0	35.0	41.0
29	38.262	40.0	38.0	41.0	33.0	41.0
30	38.30325	40.0	38.0	41.0	33.0	41.0
31	38.7505	40.0	38.0	41.0	34.0	41.0
32	39.01	41.0	39.0	41.0	35.0	41.0
33	38.1885	40.0	38.0	41.0	33.0	41.0
34	38.119	40.0	38.0	41.0	33.0	41.0
35	37.8295	39.0	37.0	40.0	33.0	41.0
36	34.2425	38.0	31.0	40.0	23.0	41.0
37	35.3425	38.0	34.0	40.0	27.0	41.0
38	36.98625	39.0	37.0	40.0	32.0	41.0
39	36.9065	39.0	36.0	40.0	31.0	41.0
40	36.916	39.0	37.0	40.0	31.0	41.0
41	36.95	39.0	36.0	40.0	31.0	41.0
42	37.31025	40.0	37.0	41.0	32.0	41.0
43	37.05425	40.0	37.0	41.0	32.0	41.0
44	36.95225	40.0	37.0	41.0	32.0	41.0
45	36.67875	39.0	36.0	41.0	31.0	41.0
46	34.91675	38.0	34.0	40.0	26.0	41.0
47	35.31025	39.0	34.0	40.0	27.0	41.0
48	35.58325	39.0	35.0	41.0	28.0	41.0
49	34.62225	38.0	34.0	40.0	26.0	41.0
50	29.98225	34.0	27.0	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
15	1.0
16	1.0
17	0.0
18	0.0
19	1.0
20	5.0
21	2.0
22	10.0
23	11.0
24	18.0
25	26.0
26	15.0
27	24.0
28	34.0
29	30.0
30	45.0
31	62.0
32	86.0
33	108.0
34	160.0
35	211.0
36	307.0
37	501.0
38	1021.0
39	1321.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	11.172344689378757	24.574148296593187	47.72044088176352	16.53306613226453
2	24.0	25.825	19.225	30.95
3	26.174999999999997	18.05	21.0	34.775
4	33.7	26.5	14.725	25.074999999999996
5	21.8	40.475	25.224999999999998	12.5
6	31.8	16.05	37.175000000000004	14.975
7	17.825	20.625	22.575	38.975
8	25.05	29.025000000000002	15.75	30.175
9	23.525	32.25	27.85	16.375
10	22.7	20.549999999999997	31.574999999999996	25.174999999999997
11	32.025	12.9	16.45	38.625
12	16.325	20.275000000000002	30.775000000000002	32.625
13	30.65	18.425	31.95	18.975
14	28.275	32.275	21.125	18.325
15	35.15878969742436	23.755938984746187	25.70642660665166	15.378844711177795
16	19.35	20.549999999999997	22.85	37.25
17	24.95	23.275000000000002	36.225	15.55
18	24.349999999999998	17.549999999999997	32.35	25.75
19	37.875	15.024999999999999	29.4	17.7
20	42.55	16.25	26.3	14.899999999999999
21	23.3	19.675	27.525	29.5
22	29.075	12.075	46.6	12.25
23	27.925	13.575000000000001	42.075	16.425
24	49.85	15.325	24.55	10.274999999999999
25	47.625	26.0	15.049999999999999	11.325000000000001
26	28.000000000000004	43.525000000000006	14.774999999999999	13.700000000000001
27	16.5	44.725	24.55	14.224999999999998
28	13.125	23.775	45.5	17.599999999999998
29	12.875	13.700000000000001	54.55	18.875
30	10.9	8.799999999999999	34.075	46.225
31	15.25	6.800000000000001	45.300000000000004	32.65
32	29.525000000000002	7.1	21.975	41.4
33	52.800000000000004	10.299999999999999	13.475000000000001	23.425
34	57.699999999999996	8.85	18.125	15.325
35	61.525	8.075000000000001	18.325	12.075
36	43.824999999999996	8.924999999999999	32.925	14.325
37	43.8	11.55	20.65	24.0
38	23.474999999999998	18.25	12.575	45.7
39	16.025	24.675	12.625	46.675
40	16.900000000000002	46.2	13.700000000000001	23.200000000000003
41	25.674999999999997	45.074999999999996	10.525	18.725
42	47.75	28.375	12.825000000000001	11.05
43	48.225	31.025000000000002	9.8	10.95
44	29.875	47.3	8.5	14.325
45	18.9	48.85	14.85	17.4
46	14.05	26.724999999999998	19.025	40.2
47	10.674999999999999	15.9	38.0	35.425000000000004
48	12.025	14.075	20.75	53.15
49	14.899999999999999	21.9	13.900000000000002	49.3
50	19.625	34.150000000000006	14.325	31.900000000000002
>>END_MODULE
>>Per sequence GC content	fail
#GC Content	Count
0	0.0
1	0.0
2	0.0
3	0.0
4	0.0
5	0.0
6	0.0
7	0.0
8	0.0
9	0.0
10	0.0
11	0.0
12	0.0
13	0.0
14	0.0
15	0.5
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	1.0
28	2.0
29	1.0
30	0.0
31	10.5
32	21.0
33	19.0
34	17.0
35	25.5
36	34.0
37	41.5
38	49.0
39	46.5
40	44.0
41	46.5
42	49.0
43	94.0
44	139.0
45	162.5
46	186.0
47	282.0
48	378.0
49	504.0
50	630.0
51	718.0
52	806.0
53	622.0
54	438.0
55	482.5
56	527.0
57	398.5
58	270.0
59	176.0
60	82.0
61	67.5
62	53.0
63	93.0
64	133.0
65	85.5
66	38.0
67	30.0
68	22.0
69	22.0
70	22.0
71	31.5
72	41.0
73	22.0
74	3.0
75	2.0
76	1.0
77	3.0
78	5.0
79	5.5
80	6.0
81	4.0
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	0.2
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	0.025
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	41.15
#Duplication Level	Percentage of deduplicated	Percentage of total
1	76.36695018226003	31.424999999999997
2	10.024301336573512	8.25
3	3.4629404617253954	4.275
4	2.3693803159173754	3.9
5	1.5795868772782502	3.25
6	1.1543134872417984	2.85
7	0.48602673147023084	1.4000000000000001
8	0.6682867557715675	2.1999999999999997
9	0.5467800729040098	2.025
>10	2.7946537059538272	20.674999999999997
>50	0.3645200486026731	11.200000000000001
>100	0.18226002430133656	8.55
>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
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA	130	3.25	RNA PCR Primer, Index 1 (100% over 28bp)
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	109	2.725	RNA PCR Primer, Index 1 (100% over 28bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA	103	2.5749999999999997	RNA PCR Primer, Index 1 (100% over 28bp)
AACATTCAACGCTGTCGGTGAGTTGGAATTCTCGGGTGCCAAGGAACTCC	96	2.4	RNA PCR Primer, Index 1 (100% over 27bp)
TCGGATCCGTCTGAGCTTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGT	86	2.15	RNA PCR Primer, Index 1 (100% over 30bp)
CGCGACCTCAGATCAGACGTGGCGACCCGCTGATGGAATTCTCGGGTGCC	84	2.1	No Hit
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGTGCCAAGGAACTCCA	77	1.925	RNA PCR Primer, Index 1 (100% over 28bp)
TCGGATCCGTCTGAGCTTGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	53	1.325	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTTTAACCTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	52	1.3	RNA PCR Primer, Index 1 (100% over 28bp)
TTTGAACCATCACTCGACTCCTTGGAATTCTCGGGTGCCAAGGAACTCCA	50	1.25	RNA PCR Primer, Index 1 (100% over 28bp)
TCACAGTGAACCGGTCTCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	47	1.175	RNA PCR Primer, Index 1 (100% over 29bp)
CAACGGAATCCCAAAAGCAGCTGTGGAATTCTCGGGTGCCAAGGAACTCC	43	1.075	RNA PCR Primer, Index 1 (100% over 27bp)
TGAGGTAGTAGATTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	36	0.8999999999999999	RNA PCR Primer, Index 1 (100% over 28bp)
TGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAC	29	0.7250000000000001	RNA PCR Primer, Index 5 (100% over 35bp)
TCTTTGGTTATCTAGCTGTATGATGGAATTCTCGGGTGCCAAGGAACTCC	24	0.6	RNA PCR Primer, Index 1 (100% over 27bp)
TGTAAACATCCTCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	23	0.575	RNA PCR Primer, Index 1 (100% over 26bp)
GTTAGTACTTGGATGGGAGACCGCCTGGGAATACCGGGTGCTGTAGGCTT	22	0.5499999999999999	No Hit
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGGGCCAAGGAACTCCA	22	0.5499999999999999	RNA PCR Primer, Index 1 (96% over 28bp)
TGAGGTAGTAGGTTGTATGGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	22	0.5499999999999999	RNA PCR Primer, Index 1 (100% over 28bp)
ACTAATCCTAGCCCTAGCCCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	21	0.525	RNA PCR Primer, Index 1 (100% over 29bp)
CTTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTG	20	0.5	No Hit
TGTAAACATCCCCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	20	0.5	RNA PCR Primer, Index 1 (100% over 26bp)
TGTAAACATCCTACACTCTCAGCTTGGAATTCTCGGGTGCCAAGGAACTC	20	0.5	RNA PCR Primer, Index 1 (100% over 26bp)
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTGATATCTCGTATGC	20	0.5	RNA PCR Primer, Index 25 (100% over 50bp)
CACCCGTAGAACCGACCTTGCGTGGAATTCTCGGGTGCCAAGGAACTCCA	20	0.5	RNA PCR Primer, Index 1 (100% over 28bp)
CCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC	19	0.475	RNA PCR Primer, Index 1 (100% over 33bp)
TATTGCACTCGTCCCGGCCTCCTGGAATTCTCGGGTGCCAAGGAACTCCA	18	0.44999999999999996	RNA PCR Primer, Index 1 (100% over 28bp)
TCGGATCCGTCTGAGCTTGGCTTTGGAATTCTCGGGTGCCAAGGAACTCC	18	0.44999999999999996	RNA PCR Primer, Index 1 (100% over 27bp)
AGCTGGTGTTGTGAATCAGGCCGTGGAATTCTCGGGTGCCAAGGAACTCC	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 27bp)
TCGGATCCGTCTGAGCTTGGCTATTGGAATTCTCGGGTGCCAAGGAACTC	16	0.4	RNA PCR Primer, Index 1 (100% over 26bp)
GTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTGATATCTC	16	0.4	RNA PCR Primer, Index 25 (100% over 44bp)
AAGGGATTCTGATGTTGGTCACACTTGGAATTCTCGGGTGCCAAGGAACT	15	0.375	RNA PCR Primer, Index 1 (100% over 25bp)
TGCTGTGATGAGATGACTAAGTAGGAAGTGCCGTCAGAGTCGATAACTGA	14	0.35000000000000003	No Hit
AACATTCAACGCTGTCGGTGATGGAATTCTCGGGTGCCAAGGAACTCCAG	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTAACTTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 30bp)
AGCCCATGATGGTATGAGAGTAGTGGACAGAAGGGATTTCTGAAAAACAC	14	0.35000000000000003	No Hit
TAGCAGCACGTAAATATTGGCGTGGAATTCTCGGGTGCCAAGGAACTCCA	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 28bp)
GCGGATGATGACACCTGGGTATGCTGCACACTCCCGACTGCGTCGTGGGG	13	0.325	No Hit
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGGGCCAAGGAACTCCA	13	0.325	RNA PCR Primer, Index 1 (96% over 28bp)
ACTTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTT	12	0.3	No Hit
TCACAGTGAACCGGTCTCTTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	12	0.3	RNA PCR Primer, Index 1 (100% over 28bp)
TCGGATCCGTCTGAGCTTGGCTATGGAATTCTCGGGTGCCAAGGAACTCC	12	0.3	RNA PCR Primer, Index 1 (100% over 27bp)
TGAACTGATGATATCATTTCTTTCCCCGTCAGATCGACCCTGTTGATCTC	12	0.3	No Hit
TCCCTGAGACCCTAACTTGTGATGGAATTCTCGGGTGCCAAGGAACTCCA	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 28bp)
CACCCTGATGAACTGAATACCGCCCCAGTCTGATAGCTGTGGAGAAAGGT	11	0.27499999999999997	No Hit
CACCCGTAGAACCGACCTTGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGGTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 28bp)
AATATAACACAGATGGCCTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTTTAACCTGTGTGGAATTCTCGGGTGCCAAGGAACTCC	10	0.25	RNA PCR Primer, Index 1 (100% over 27bp)
TCGGATCCGTCTGAGCTTGGCTTTTGGAATTCTCGGGTGCCAAGGAACTC	10	0.25	RNA PCR Primer, Index 1 (100% over 26bp)
TCGGATCCGTCTGAGCTTGGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	10	0.25	RNA PCR Primer, Index 1 (100% over 29bp)
CATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTTGGAATTC	10	0.25	No Hit
TTCAAGTAATCCAGGATAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	10	0.25	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTTTAACCTGTGATGGAATTCTCGGGTGCCAAGGAACTC	10	0.25	RNA PCR Primer, Index 1 (100% over 26bp)
TCCCTGAGACCCTAACTTGTGAATGGAATTCTCGGGTGCCAAGGAACTCC	10	0.25	RNA PCR Primer, Index 1 (100% over 27bp)
TCACAGTGAACCGGTCTCTTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 30bp)
TGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCCAGGAACTCCAGTCACAC	9	0.22499999999999998	RNA PCR Primer, Index 5 (97% over 35bp)
ACCATTCGTAGACGACCTGCTTCTGGAATTCTCGGGTGCCAAGGAACTCC	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 27bp)
ACAAATGATGAACCTTTTGACGGGCGGACAGAAACTCTGTGCTGAATGTC	9	0.22499999999999998	No Hit
CCCTGAGACCCTAACTTGTGATGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
TAGCACCATCTGAAATCGGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 30bp)
TGAGGTAGTAGATTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
AAGGGATTCTGATGTTGGTCACACTGGAATTCTCGGGTGCCAAGGAACTC	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 26bp)
TGAGATGAAGCACTGTAGCTCTTGGAATTCTCGGGTGCCAAGGAACTCCA	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 28bp)
TTCAAGTAATCCAGGATAGGCTTTGGAATTCTCGGGTGCCAAGGAACTCC	8	0.2	RNA PCR Primer, Index 1 (100% over 27bp)
TGTAAACATCCCCGACTGGAAGCTGGAATTCTCGGGTGCCAAGGAACTCC	8	0.2	RNA PCR Primer, Index 1 (100% over 27bp)
TTCACAGTGGCTAAGTTCTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT	8	0.2	RNA PCR Primer, Index 1 (100% over 30bp)
ATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTTGGAATTCT	8	0.2	No Hit
GGGGGGCCCAAGTCCTTCTGATCGAGGCCCTGGAATTCTCGGGTGCCAAG	8	0.2	No Hit
AACATTCAACGCTGTCGGTGAGTTTGGAATTCTCGGGTGCCAAGGAACTC	8	0.2	RNA PCR Primer, Index 1 (100% over 26bp)
GTAAATGATGAGATTCCATTGGTCCGTGTTTCTGAACTACATGATTTTCC	8	0.2	No Hit
TTCACAGTGGCTAAGTTCTGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
TTGCTGTGATGACTATCTTAGGACACCTTTGGATTAACCGTGAAATCAAA	8	0.2	No Hit
TCGGATCCGTCTGAGCTTGGCATTGGAATTCTCGGGTGCCAAGGAACTCC	8	0.2	RNA PCR Primer, Index 1 (100% over 27bp)
TCCCTGAGACCCTTTAACCTGTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
GGTCCATGATGAAACCCATTATCAGTGGACATCTATGGATGAGAAATGCG	7	0.17500000000000002	No Hit
ACTAATCCTAGCCCTAGCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 30bp)
GTTTCCGTAGTGTAGTGGTTATCACGTTCGCCTGACTGGAATTCTCGGGT	7	0.17500000000000002	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGCCATGGAATTCTCGGGT	7	0.17500000000000002	No Hit
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGGGCCAAGGAACTCCA	7	0.17500000000000002	RNA PCR Primer, Index 1 (96% over 28bp)
CGCACGGGGTCGGCGGCGATGTCGGCTGGAATTCTCGGGTGCCAAGGAAC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 24bp)
AGCTGGTGTTGTGAATCAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
TCGGATCCGTCTGAGCTTGGATGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGGTTGTATGGTTTTGGAATTCTCGGGTGCCAAGGAACTCC	6	0.15	RNA PCR Primer, Index 1 (100% over 27bp)
TCTTTGGTTATCTAGCTGTATTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
CACAAATGATGAACCTTTTGACGGGCGGACAGAAACTCTGTGCTGAATGT	6	0.15	No Hit
TCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCC	6	0.15	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGCCTGGAATTCTCGGGTG	6	0.15	No Hit
GTCGATGATGAGAGCTTTGTTCTGAGCTGGAATTCTCGGGTGCCAAGGAA	6	0.15	RNA PCR Primer, Index 1 (100% over 23bp)
TATACAAGGGCAAGCTCTCTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
AAGGGATTCTGATGTTGGTCACATGGAATTCTCGGGTGCCAAGGAACTCC	6	0.15	RNA PCR Primer, Index 1 (100% over 27bp)
ATAGTAGACCGTATAGCGTACGTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
TGAGGTAGTAGGTTGTATGGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCTCGACTGGATGGAATTCTCGGGTGCCAAGGAACTCCAGT	6	0.15	RNA PCR Primer, Index 1 (100% over 30bp)
TGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTGGA	6	0.15	No Hit
CCGCGACCTCAGATCAGACGTGGCGACCCGCTGATGGAATTCTCGGGTGC	6	0.15	No Hit
GTCCATGATGAAACCCATTATCAGTGGACATCTATGGATGAGAAATGCGG	6	0.15	No Hit
TGTAAACATCCTTGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC	6	0.15	RNA PCR Primer, Index 1 (100% over 26bp)
CATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTGGAATTCT	6	0.15	No Hit
AACATTCAACCTGTCGGTGAGTTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCTCGACTGGAAGCTGGAATTCTCGGGTGCCAAGGAACTCC	6	0.15	RNA PCR Primer, Index 1 (100% over 27bp)
AACATTCAACCTGTCGGTGAGTTTGGAATTCTCGGGTGCCAAGGAACTCC	6	0.15	RNA PCR Primer, Index 1 (100% over 27bp)
TATTGCACTCGTCCCGGCCTCTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TCGGATCCGTCTGAGCTTGGCTAATGGAATTCTCGGGTGCCAAGGAACTC	5	0.125	RNA PCR Primer, Index 1 (100% over 26bp)
TCGAGGAGCTCACAGTCTAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTGG	5	0.125	No Hit
CATTATTACTTTTGGTACGCGTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGATGAAGCACTGTAGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	5	0.125	RNA PCR Primer, Index 1 (100% over 30bp)
TAGCACCATCTGAAATCGGTTATGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TAGCACCATCTGAAATCGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
GGCTGGTCCGAAGGTAGTGAGTTATCTCAATGGAATTCTCGGGTGCCAAG	5	0.125	No Hit
ACTAATCCTAGCCCTAGCCCTACACAAATATAATTATACTATTATATGGA	5	0.125	No Hit
CTCGCTGCGATCTATTGAAAGTCAGCCCTCGACACAAGGGTTTGTTGGAA	5	0.125	No Hit
CAACGGAATCCCAAAAGCAGCTGTTGGAATTCTCGGGTGCCAAGGAACTC	5	0.125	RNA PCR Primer, Index 1 (100% over 26bp)
AACATTCAACGCTGTCGGTGAGATGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
TTGCAATGATGACTTATATATCTGTCAATCCCCTGAGAGATCACTGACGA	5	0.125	No Hit
TGAGGTAGTAGGTTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
CGCCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	5	0.125	RNA PCR Primer, Index 1 (100% over 31bp)
AGCAGCATTGTACAGGGCTATGATGGAATTCTCGGGTGCCAAGGAACTCC	5	0.125	RNA PCR Primer, Index 1 (100% over 27bp)
CGCGACCTCAGATCAGACGTGGCGACCCGCTGAATTTAAGCATATTATGG	5	0.125	No Hit
CTGGGCTACACATTTTTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC	5	0.125	RNA PCR Primer, Index 1 (100% over 33bp)
CACATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTTGGAAT	5	0.125	No Hit
CGCGACCTCAGATCAGATGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC	5	0.125	RNA PCR Primer, Index 1 (100% over 33bp)
ACTAATCCTAGCCCTAGCCCTACACTGGAATTCTCGGGTGCCAAGGAACT	5	0.125	RNA PCR Primer, Index 1 (100% over 25bp)
AACCCGTAGATCCGAACTTGTGTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
ACATTGATCATCGACACTTCGAACGCACTTGCGGCCCCGGGTTGGAATTC	5	0.125	No Hit
TAAGGCACGCGGTGAATGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	5	0.125	RNA PCR Primer, Index 1 (100% over 30bp)
GTCTATGATGATCCTATCCCGAACCTGAATTCCTGTTGAAAAACCATACT	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	0.55	0.0	0.0	0.0
2	0.0	0.55	0.0	0.0	0.0
3	0.0	0.625	0.0	0.0	0.0
4	0.0	0.675	0.0	0.0	0.0
5	0.0	0.775	0.0	0.0	0.0
6	0.0	0.85	0.0	0.0	0.0
7	0.0	1.45	0.0	0.0	0.0
8	0.0	1.775	0.0	0.0	0.0
9	0.0	1.9	0.0	0.0	0.0
10	0.0	2.0	0.0	0.0	0.0
11	0.0	2.15	0.0	0.0	0.0
12	0.0	2.475	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	3.325	0.0	0.0	0.0
16	0.0	4.8	0.0	0.0	0.0
17	0.0	5.225	0.0	0.0	0.0
18	0.0	6.25	0.0	0.0	0.0
19	0.0	6.75	0.0	0.0	0.0
20	0.0	7.575	0.0	0.0	0.0
21	0.0	13.275	0.0	0.0	0.0
22	0.0	24.0	0.0	0.0	0.0
23	0.0	50.95	0.0	0.0	0.0
24	0.0	62.7	0.0	0.0	0.0
25	0.0	67.975	0.0	0.0	0.0
26	0.0	69.6	0.0	0.0	0.0
27	0.0	70.5	0.0	0.0	0.0
28	0.0	70.975	0.0	0.0	0.0
29	0.0	71.45	0.0	0.0	0.0
30	0.0	71.75	0.0	0.0	0.0
31	0.0	72.75	0.0	0.0	0.0
32	0.0	73.675	0.0	0.0	0.0
33	0.0	74.55	0.0	0.0	0.0
34	0.0	77.9	0.0	0.0	0.0
35	0.0	79.0	0.0	0.0	0.0
36	0.0	79.85	0.0	0.0	0.0
37	0.0	80.85	0.0	0.0	0.0
38	0.0	81.15	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	fail
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
AACGCTG	40	5.315087E-9	44.000004	8
ACGCTGT	40	5.315087E-9	44.000004	9
AAATCGG	20	6.952051E-4	44.000004	13
GAAATCG	20	6.952051E-4	44.000004	12
GAGTGGA	20	6.952051E-4	44.000004	20
TTCAACG	40	5.315087E-9	44.000004	5
ACCATCT	20	6.952051E-4	44.000004	5
TCGGTGA	40	5.315087E-9	44.000004	15
CATCTGA	20	6.952051E-4	44.000004	7
AGTGGAA	20	6.952051E-4	44.000004	21
CATTCAA	40	5.315087E-9	44.000004	3
TCAACGC	40	5.315087E-9	44.000004	6
GTGAGTG	20	6.952051E-4	44.000004	18
ACATTCA	40	5.315087E-9	44.000004	2
TAGCACC	20	6.952051E-4	44.000004	1
CTGAAAT	20	6.952051E-4	44.000004	10
ATCGGTT	20	6.952051E-4	44.000004	15
GCTGTCG	40	5.315087E-9	44.000004	11
CCATCTG	20	6.952051E-4	44.000004	6
CACCATC	20	6.952051E-4	44.000004	4
>>END_MODULE
Read 206826 spots for SRR5030884.sra
Written 206826 spots for SRR5030884.sra
Read 206826 spots for SRR5030884.sra
Written 206826 spots for SRR5030884.sra
Read 206826 spots for SRR5030884.sra
Written 206826 spots for SRR5030884.sra
Read 206826 spots for SRR5030884.sra
Written 206826 spots for SRR5030884.sra
Read 206826 spots for SRR5030884.sra
Written 206826 spots for SRR5030884.sra
Read 206826 spots for SRR5030884.sra
Written 206826 spots for SRR5030884.sra
Read 206826 spots for SRR5030884.sra
Written 206826 spots for SRR5030884.sra
Read 206826 spots for SRR5030884.sra
Written 206826 spots for SRR5030884.sra
Read 206826 spots for SRR5030884.sra
Written 206826 spots for SRR5030884.sra
Read 206826 spots for SRR5030884.sra
Written 206826 spots for SRR5030884.sra
Read 206826 spots for SRR5030884.sra
Written 206826 spots for SRR5030884.sra
Read 206829 spots for SRR5030884.sra
Written 206829 spots for SRR5030884.sra
SRR ids: ['SRR5030884.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_gbvdx57h
SRR5030884.sra spots: 2481915
blocks: [[1, 206826], [206827, 413652], [413653, 620478], [620479, 827304], [827305, 1034130], [1034131, 1240956], [1240957, 1447782], [1447783, 1654608], [1654609, 1861434], [1861435, 2068260], [2068261, 2275086], [2275087, 2481915]]
SRR5030884 file size 429094
SRR5030884 completed basic pipeline successfully
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	skewer -l 18 -q 10 -k inf -t 12 -o SRR5030884 SRR5030884_1.fastq
Input file:	SRR5030884_1.fastq
trimmed:	SRR5030884-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 06:36:28 2020 >> started

Wed Mar  4 06:36:29 2020 >> done (1.469s)
2481915 reads processed; of these:
    103 ( 0.00%) short reads filtered out after trimming by size control
      3 ( 0.00%) empty reads filtered out after trimming by size control
2481809 (100.00%) reads available; of these:
 149315 ( 6.02%) trimmed reads available after processing
2332494 (93.98%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	     28	  0.00%
 19	     54	  0.00%
 20	    119	  0.00%
 21	    140	  0.01%
 22	    222	  0.01%
 23	    277	  0.01%
 24	    276	  0.01%
 25	    375	  0.02%
 26	    329	  0.01%
 27	    417	  0.02%
 28	    495	  0.02%
 29	    723	  0.03%
 30	    532	  0.02%
 31	    709	  0.03%
 32	    712	  0.03%
 33	   1073	  0.04%
 34	   2333	  0.09%
 35	   2366	  0.10%
 36	   1784	  0.07%
 37	   1910	  0.08%
 38	   2094	  0.08%
 39	   2223	  0.09%
 40	   2221	  0.09%
 41	   2519	  0.10%
 42	   3246	  0.13%
 43	   4468	  0.18%
 44	   8095	  0.33%
 45	  10480	  0.42%
 46	  10231	  0.41%
 47	  14465	  0.58%
 48	  31289	  1.26%
 49	  43110	  1.74%
 50	2332494	 93.98%
2481809 reads passed initial QC


criterion=sequence-density
sequence-density=80.82
sequence-density-rank=1
fanout-score=19.54
fanout-score-rank=1
prefix-density=82.36
prefix-fanout=19.2
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTGATATCTCGTATGCC


criterion=fanout-score
sequence-density=80.82
sequence-density-rank=1
fanout-score=19.54
fanout-score-rank=1
prefix-density=82.36
prefix-fanout=19.2
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTGATATCTCGTATGCC
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 TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTGATATCTCGTATGCC -o SRR5030884 -
Input file:	STDIN
trimmed:	SRR5030884-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACTGATATCTCGTATGCC
-- 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 06:36:43 2020 >> started

Wed Mar  4 06:36:47 2020 >> done (3.755s)
2420530 reads processed; of these:
 143954 ( 5.95%) short reads filtered out after trimming by size control
  16058 ( 0.66%) empty reads filtered out after trimming by size control
2260518 (93.39%) reads available; of these:
1998458 (88.41%) trimmed reads available after processing
 262060 (11.59%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  13298	  0.59%
 19	  23221	  1.03%
 20	 132690	  5.87%
 21	 262090	 11.59%
 22	 677082	 29.95%
 23	 280097	 12.39%
 24	 128469	  5.68%
 25	  34859	  1.54%
 26	  17942	  0.79%
 27	  14549	  0.64%
 28	  15190	  0.67%
 29	  11688	  0.52%
 30	  17548	  0.78%
 31	  22487	  0.99%
 32	  21740	  0.96%
 33	  85707	  3.79%
 34	  24882	  1.10%
 35	  20205	  0.89%
 36	  23157	  1.02%
 37	  11619	  0.51%
 38	  12401	  0.55%
 39	  12596	  0.56%
 40	  17654	  0.78%
 41	  23112	  1.02%
 42	  26548	  1.17%
 43	  19216	  0.85%
 44	  15493	  0.69%
 45	  19804	  0.88%
 46	  15495	  0.69%
 47	  13487	  0.60%
 48	   2640	  0.12%
 49	   8300	  0.37%
 50	 235252	 10.41%


criterion=sequence-density
sequence-density=5.35
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=14
prefix-density=0.00
prefix-fanout=1.0
sequence=AACATTCAACGCTGTCGGTGAGTTTT


criterion=fanout-score
sequence-density=0.62
sequence-density-rank=18
fanout-score=13.76
fanout-score-rank=1
prefix-density=8.58
prefix-fanout=1.0
sequence=TGAGCTTGGCTTTT
                                 Started job on |	Mar 04 06:37:09
                             Started mapping on |	Mar 04 06:37:09
                                    Finished on |	Mar 04 06:37:34
       Mapping speed, Million of reads per hour |	334.34

                          Number of input reads |	2321797
                      Average input read length |	28
                                    UNIQUE READS:
                   Uniquely mapped reads number |	1303097
                        Uniquely mapped reads % |	56.12%
                          Average mapped length |	27.06
                       Number of splices: Total |	1264
            Number of splices: Annotated (sjdb) |	190
                       Number of splices: GT/AG |	1185
                       Number of splices: GC/AG |	14
                       Number of splices: AT/AC |	1
               Number of splices: Non-canonical |	64
                      Mismatch rate per base, % |	0.21%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.62
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.08
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	704857
             % of reads mapped to multiple loci |	30.36%
        Number of reads mapped to too many loci |	51084
             % of reads mapped to too many loci |	2.20%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	10.83%
                     % of reads unmapped: other |	0.48%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	313843	313843	313843
N_multimapping	704857	704857	704857
N_noFeature	60520	75120	899897
N_ambiguous	749409	399238	14500
UnstrandedReadsAssigned:493168 PositiveStrandReadsAssigned:828739 NegativeStrandReadsAssigned:388700
Dataset is classified unstranded
MeadianReadLen=23 20thPercentileLength=22 echo kmer=19
SRR5030884 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: SRR5030884-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 2,321,797 reads, 631,196 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 1,106 rounds

 109283 SRR5030884.ke.tsv
  52636 SRR5030884.se.tsv
 161919 total
==> SRR5030884.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

==> SRR5030884.se.tsv <==
ENSMUSG00000102693	0
ENSMUSG00000064842	0
ENSMUSG00000051951	0
ENSMUSG00000102851	0
ENSMUSG00000103377	0
ENSMUSG00000104017	0
ENSMUSG00000103025	0
ENSMUSG00000089699	0
ENSMUSG00000103201	0
ENSMUSG00000103147	0
SRR5030884 completed mapping pipeline successfully
