Starting /dee2/code/volunteer_pipeline.sh SRR11699508
    current disk space = 2463994515456
    free memory = 1581331024 
SRR11699508 SRAfilesize
43fab82da9cef4b14e495ff876a17dc4  SRR11699508.sra
SRR11699508.sra file validated
SRR11699508 is single end
SRR11699508 is conventional basespace
SRR11699508 read1 length is 86 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR11699508_1.fastq
File type	Conventional base calls
Encoding	Sanger / Illumina 1.9
Total Sequences	4000
Sequences flagged as poor quality	0
Sequence length	86
%GC	48
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	31.45425	32.0	32.0	32.0	32.0	32.0
2	31.49325	32.0	32.0	32.0	32.0	32.0
3	31.585	32.0	32.0	32.0	32.0	32.0
4	31.57125	32.0	32.0	32.0	32.0	32.0
5	31.5625	32.0	32.0	32.0	32.0	32.0
6	35.00625	36.0	36.0	36.0	36.0	36.0
7	35.28525	36.0	36.0	36.0	36.0	36.0
8	35.1485	36.0	36.0	36.0	36.0	36.0
9	35.02525	36.0	36.0	36.0	36.0	36.0
10-11	35.104	36.0	36.0	36.0	36.0	36.0
12-13	34.994625	36.0	36.0	36.0	36.0	36.0
14-15	35.08	36.0	36.0	36.0	36.0	36.0
16-17	35.147125	36.0	36.0	36.0	36.0	36.0
18-19	35.192750000000004	36.0	36.0	36.0	36.0	36.0
20-21	35.1695	36.0	36.0	36.0	36.0	36.0
22-23	35.103750000000005	36.0	36.0	36.0	36.0	36.0
24-25	34.999125	36.0	36.0	36.0	36.0	36.0
26-27	34.86825	36.0	36.0	36.0	34.0	36.0
28-29	34.944874999999996	36.0	36.0	36.0	36.0	36.0
30-31	35.08225	36.0	36.0	36.0	36.0	36.0
32-33	34.914625	36.0	36.0	36.0	36.0	36.0
34-35	34.963	36.0	36.0	36.0	36.0	36.0
36-37	34.990624999999994	36.0	36.0	36.0	36.0	36.0
38-39	34.899375	36.0	36.0	36.0	34.0	36.0
40-41	34.948	36.0	36.0	36.0	36.0	36.0
42-43	34.8345	36.0	36.0	36.0	36.0	36.0
44-45	34.86175	36.0	36.0	36.0	36.0	36.0
46-47	34.96525	36.0	36.0	36.0	36.0	36.0
48-49	35.038375	36.0	36.0	36.0	36.0	36.0
50-51	34.900375	36.0	36.0	36.0	36.0	36.0
52-53	34.741625	36.0	36.0	36.0	34.0	36.0
54-55	34.083375000000004	36.0	36.0	36.0	32.0	36.0
56-57	33.747749999999996	36.0	36.0	36.0	27.0	36.0
58-59	33.595124999999996	36.0	36.0	36.0	29.5	36.0
60-61	33.82025	36.0	36.0	36.0	29.5	36.0
62-63	33.708124999999995	36.0	36.0	36.0	27.0	36.0
64-65	33.495374999999996	36.0	36.0	36.0	27.0	36.0
66-67	33.52175	36.0	34.0	36.0	27.0	36.0
68-69	33.58125	36.0	34.0	36.0	29.5	36.0
70-71	33.863249999999994	36.0	36.0	36.0	32.0	36.0
72-73	33.521249999999995	36.0	36.0	36.0	27.0	36.0
74-75	33.9705	36.0	36.0	36.0	32.0	36.0
76-77	34.078125	36.0	36.0	36.0	32.0	36.0
78-79	34.268125	36.0	36.0	36.0	32.0	36.0
80-81	34.212125	36.0	36.0	36.0	32.0	36.0
82-83	34.03125	36.0	36.0	36.0	32.0	36.0
84-85	33.905125	36.0	36.0	36.0	29.5	36.0
86	32.91575	36.0	36.0	36.0	14.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
20	1.0
21	2.0
22	1.0
23	4.0
24	10.0
25	9.0
26	23.0
27	27.0
28	52.0
29	65.0
30	119.0
31	140.0
32	191.0
33	316.0
34	794.0
35	2246.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	28.08202050512628	22.630657664416105	29.68242060515129	19.604901225306325
2	23.400000000000002	21.55	20.65	34.4
3	28.249999999999996	26.700000000000003	13.125	31.924999999999997
4	36.7	29.875	16.775000000000002	16.650000000000002
5	17.4	24.2	31.724999999999998	26.674999999999997
6	22.85571392848212	18.704676169042262	39.58489622405602	18.854713678419603
7	42.375	28.725	15.925	12.975
8	16.8	20.325	47.425	15.45
9	19.225	45.824999999999996	16.925	18.025
10-11	35.212500000000006	19.9125	27.437499999999996	17.4375
12-13	16.1875	17.2875	30.062499999999996	36.4625
14-15	32.95	41.55	13.725000000000001	11.774999999999999
16-17	20.25	20.674999999999997	38.3125	20.7625
18-19	47.362500000000004	18.425	20.125	14.0875
20-21	21.3875	32.4625	27.925	18.224999999999998
22-23	37.1375	39.550000000000004	11.4375	11.875
24-25	32.7125	41.349999999999994	13.425	12.5125
26-27	24.9	37.375	19.425	18.3
28-29	29.525000000000002	27.1	18.275	25.1
30-31	31.225	35.9125	8.7875	24.075
32-33	31.7625	39.3375	8.95	19.950000000000003
34-35	30.3	30.112499999999997	15.037500000000001	24.55
36-37	32.925	32.074999999999996	9.225	25.775
38-39	22.1	38.837500000000006	11.0	28.0625
40-41	23.5625	32.5625	13.9375	29.9375
42-43	26.5	24.15	18.9625	30.3875
44-45	19.075	29.812499999999996	17.575	33.537499999999994
46-47	16.950000000000003	32.324999999999996	15.962499999999999	34.7625
48-49	18.8	26.974999999999998	20.7875	33.4375
50-51	13.025	26.487500000000004	23.425	37.0625
52-53	19.6	30.725	20.0875	29.5875
54-55	13.2625	34.5875	18.087500000000002	34.0625
56-57	12.325	31.8625	21.725	34.0875
58-59	13.175	30.4	21.25	35.175
60-61	17.2375	30.775000000000002	26.2875	25.7
62-63	14.149999999999999	36.0625	22.0875	27.700000000000003
64-65	10.1125	33.7875	23.25	32.85
66-67	19.1375	21.462500000000002	31.45	27.950000000000003
68-69	14.774999999999999	21.6875	32.05	31.4875
70-71	16.925	25.7	33.4875	23.8875
72-73	18.0	15.725	34.9375	31.337500000000002
74-75	20.0375	11.1125	34.387499999999996	34.4625
76-77	24.8125	7.675	37.7875	29.725
78-79	14.353588397099276	16.441610402600652	43.060765191297826	26.144036009002253
80-81	20.64266066516629	16.39159789947487	37.07176794198549	25.893973493373345
82-83	19.142285571392847	21.417854463615903	30.17004251062766	29.26981745436359
84-85	17.291822955738933	25.393848462115532	34.03350837709427	23.280820205051263
86	16.62915728932233	31.957989497374346	36.959239809952486	14.453613403350838
>>END_MODULE
>>Per sequence GC content	pass
#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	0.0
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	1.0
31	1.0
32	0.0
33	0.5
34	1.0
35	1.5
36	2.0
37	1.5
38	1.0
39	3.0
40	6.5
41	28.0
42	80.0
43	112.0
44	176.0
45	265.0
46	400.5
47	529.0
48	618.0
49	667.0
50	645.0
51	506.0
52	308.5
53	185.5
54	95.5
55	64.0
56	34.0
57	10.0
58	8.0
59	4.0
60	2.5
61	4.0
62	3.5
63	1.5
64	1.0
65	0.5
66	0.0
67	0.0
68	0.0
69	0.5
70	0.5
71	0.0
72	0.0
73	0.0
74	0.0
75	0.0
76	0.0
77	0.0
78	0.0
79	0.0
80	0.0
81	0.0
82	0.0
83	0.0
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	0.5
95	0.5
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	0.025
2	0.0
3	0.0
4	0.0
5	0.0
6	0.025
7	0.0
8	0.0
9	0.0
10-11	0.0
12-13	0.0
14-15	0.0
16-17	0.0
18-19	0.0
20-21	0.0
22-23	0.0
24-25	0.0
26-27	0.0
28-29	0.0
30-31	0.0
32-33	0.0
34-35	0.0
36-37	0.0
38-39	0.0
40-41	0.0
42-43	0.0
44-45	0.0
46-47	0.0
48-49	0.0
50-51	0.0
52-53	0.0
54-55	0.0
56-57	0.0
58-59	0.0
60-61	0.0
62-63	0.0
64-65	0.0
66-67	0.0
68-69	0.0
70-71	0.0
72-73	0.0
74-75	0.0
76-77	0.0
78-79	0.025
80-81	0.025
82-83	0.025
84-85	0.025
86	0.025
>>END_MODULE
>>Sequence Length Distribution	pass
#Length	Count
86	4000.0
>>END_MODULE
>>Sequence Duplication Levels	warn
#Total Deduplicated Percentage	56.75
#Duplication Level	Percentage of deduplicated	Percentage of total
1	87.40088105726872	49.6
2	5.3744493392070485	6.1
3	2.026431718061674	3.45
4	1.3656387665198237	3.1
5	0.7488986784140969	2.125
6	0.5286343612334802	1.7999999999999998
7	0.39647577092511016	1.575
8	0.3524229074889868	1.6
9	0.1762114537444934	0.8999999999999999
>10	1.3656387665198237	14.899999999999999
>50	0.13215859030837004	5.050000000000001
>100	0.13215859030837004	9.8
>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
TCCGTTGTAGTCTAGCTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	154	3.85	No Hit
CTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCC	137	3.4250000000000003	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TCCGTTGTAGTCTAGCTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	101	2.5250000000000004	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
CTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCA	71	1.775	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GGGGATGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGT	66	1.6500000000000001	TruSeq Adapter, Index 8 (97% over 36bp)
TCCGTTGTAGTCTAGTTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	65	1.625	No Hit
AGGGCTATAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGT	49	1.225	TruSeq Adapter, Index 8 (97% over 36bp)
TCCGTTGTAGTCTAGGTGGTTAGGATACTCAGATCGGAAGAGCACACGTC	48	1.2	No Hit
GCGTCTGTAGTCCAACGGTTAGGATAATTGCCAGATCGGAAGAGCACACG	47	1.175	No Hit
TAATTCATGATCTGGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	36	0.8999999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCAGATCGGAAGAGCACACGTC	28	0.7000000000000001	No Hit
ATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAAC	25	0.625	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACT	22	0.5499999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GCGTCTGTAGTCCAACGGTTAGGATAAGATCGGAAGAGCACACGTCTGAA	20	0.5	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
CTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAG	19	0.475	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	19	0.475	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
CCGACCTTAGCTCAGTTGGTAGAGCAGATCGGAAGAGCACACGTCTGAAC	19	0.475	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCAGATCGGAAGAGCACAC	16	0.4	No Hit
TAATTCATGATCTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACA	16	0.4	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
AACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	16	0.4	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
AACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAG	16	0.4	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGAGATCGGAAGAGCAC	15	0.375	No Hit
TCCGTTGTAGTCTAGCTGGTCAGGATAGATCGGAAGAGCACACGTCTGAA	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
AACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACA	14	0.35000000000000003	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GGGGACGTAGCTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAG	14	0.35000000000000003	TruSeq Adapter, Index 2 (97% over 35bp)
ACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	14	0.35000000000000003	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTC	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GGGGATGTAGCTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAG	13	0.325	TruSeq Adapter, Index 2 (97% over 35bp)
GCGACCCCAGGTCAGTCGGGACTAGATCGGAAGAGCACACGTCTGAACTC	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GGGTGTTTGGTCTAGTGGTATGATTCTCAGATCGGAAGAGCACACGTCTG	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGAGATCGGAAGAGCACACGT	12	0.3	No Hit
GTCAGGATAGCTCAGTTGGTAGAGCAAGATCGGAAGAGCACACGTCTGAA	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
AACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGTC	11	0.27499999999999997	TruSeq Adapter, Index 13 (100% over 37bp)
CCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGT	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
AAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
TAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCA	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACAGATCGGAAGAGCACACGT	10	0.25	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCAGATCGGAAGAGCACACG	9	0.22499999999999998	No Hit
TCAAAAGAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGATCGGAA	9	0.22499999999999998	No Hit
GACACGACTCTCGGCAACGGATATCTCGGCAGATCGGAAGAGCACACGTC	9	0.22499999999999998	No Hit
ATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACT	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
AGGGCTATAGCTCAGTTCGGTAGAGCAAGATCGGAAGAGCACACGTCTGA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
CGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAG	8	0.2	TruSeq Adapter, Index 2 (97% over 35bp)
GGGATTGTAGTTCAATTAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
GCGTCTGTAGTCCAACGGTTAGGATAGATCGGAAGAGCACACGTCTGAAC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
AGGGATATAACTCAGCGGTAGAGTAGATCGGAAGAGCACACGTCTGAACT	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GCGTCTGTAGTCCAACGGTTAGGATAATTGCAGATCGGAAGAGCACACGT	8	0.2	No Hit
GCACCAGTGGTCTAGTGGTAGAATAAGATCGGAAGAGCACACGTCTGAAC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TCCGTTGTAGTCTAGTTGGTCAGGATAGATCGGAAGAGCACACGTCTGAA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
CACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTCCA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAG	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCAGATCGGAAGAGCACAC	7	0.17500000000000002	No Hit
GAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GCGGGGATAGCTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAG	7	0.17500000000000002	TruSeq Adapter, Index 2 (97% over 35bp)
GGGATTGTAGTTCAATTGGTCAGAGCAGATCGGAAGAGCACACGTCTGAA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTAGATCGGAAGAGCACA	7	0.17500000000000002	No Hit
GGGTCCATAGCTCAGTGGTAGAGCAAGATCGGAAGAGCACACGTCTGAAC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
GCACCAGTGGTCTAGTGGTAGAATAGTACCCAGATCGGAAGAGCACACGT	7	0.17500000000000002	No Hit
GGTAGTTCGACCGTGGATTAGATCGGAAGAGCACACGTCTGAACTCCAGT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAGATCGGAAGAGCACA	6	0.15	No Hit
CAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCCAGATCGGAAGAGCACA	6	0.15	No Hit
TGAAGCTGCCAGCATGATCTGAGATCGGAAGAGCACACGTCTGAACTCCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GGGCCTGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGT	6	0.15	TruSeq Adapter, Index 8 (97% over 36bp)
GACACGACTCTCGGCAACGAGATCGGAAGAGCACACGTCTGAACTCCAGT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
ATCCTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TTTGGATTGAAGGGAGCTCTGAGATCGGAAGAGCACACGTCTGAACTCCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GCACCAGTAGTCTAGTGGTAGAATAAGATCGGAAGAGCACACGTCTGAAC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
CGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGTCAA	6	0.15	TruSeq Adapter, Index 13 (100% over 39bp)
ACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TCCGTTGTAGTCTAGTTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
TGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGT	5	0.125	No Hit
TCCAGCCCCGCGTCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
ATATCGGGTAGGTTGTGGTATTTCATTGCAGATCGGAAGAGCACACGTCT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
CGACACGACTCTCGGCAACGGATATCTCGAGATCGGAAGAGCACACGTCT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
GATCCAGCCCCGCGTCGCACGGATTCGTAGATCGGAAGAGCACACGTCTG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
TGCAAATCTAACGAAGTGCTCCTGGACGAGATCGGAAGAGCACACGTCTG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
AACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GGGGATGTAGCTTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGT	5	0.125	TruSeq Adapter, Index 8 (97% over 36bp)
CTAACGAACGAACGATTTGAATAGATCGGAAGAGCACACGTCTGAACTCC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
CATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
CACCCCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GGAGGTCCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCAC	5	0.125	No Hit
TCAAAAGAGGAAAGGCTTGCGGTGGATAGATCGGAAGAGCACACGTCTGA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
GCGTTTGTAGTCCAACGGTTAGGATAATTGCCAGATCGGAAGAGCACACG	5	0.125	No Hit
GCACCAGTGGTCTAGTGGTAGAATAGATCGGAAGAGCACACGTCTGAACT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCACAAGATCGGAAGAGCACACG	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	0.0	0.0	0.0	0.0
2	0.0	0.0	0.0	0.0	0.0
3	0.05	0.0	0.0	0.0	0.0
4	0.05	0.0	0.0	0.0	0.0
5	0.05	0.0	0.0	0.0	0.0
6	0.075	0.0	0.0	0.0	0.0
7	0.1	0.0	0.0	0.0	0.0
8	0.225	0.0	0.0	0.0	0.0
9	0.225	0.0	0.0	0.0	0.0
10	0.325	0.0	0.0	0.0	0.0
11	0.7	0.0	0.0	0.0	0.0
12	1.05	0.0	0.0	0.0	0.0
13	1.95	0.0	0.0	0.0	0.0
14	6.15	0.0	0.0	0.0	0.0
15	8.35	0.0	0.0	0.0	0.0
16	10.125	0.0	0.0	0.0	0.0
17	13.45	0.0	0.0	0.0	0.0
18	16.6	0.0	0.0	0.0	0.0
19	18.425	0.0	0.0	0.0	0.0
20	21.35	0.0	0.0	0.0	0.0
21	24.225	0.0	0.0	0.0	0.0
22	29.675	0.0	0.0	0.0	0.0
23	37.925	0.0	0.0	0.0	0.0
24	41.775	0.0	0.0	0.0	0.0
25	50.625	0.0	0.0	0.0	0.0
26	55.15	0.0	0.0	0.0	0.0
27	59.05	0.0	0.0	0.0	0.0
28	64.2	0.0	0.0	0.0	0.0
29	66.375	0.0	0.0	0.0	0.0
30	69.0	0.0	0.0	0.0	0.0
31	79.525	0.0	0.0	0.0	0.0
32	82.325	0.0	0.0	0.0	0.0
33	85.275	0.0	0.0	0.0	0.0
34	86.85	0.0	0.0	0.0	0.0
35	88.55	0.0	0.0	0.0	0.0
36	90.25	0.0	0.0	0.0	0.0
37	90.95	0.0	0.0	0.0	0.0
38	91.675	0.0	0.0	0.0	0.0
39	92.175	0.0	0.0	0.0	0.0
40	92.575	0.0	0.0	0.0	0.0
41	92.825	0.0	0.0	0.0	0.0
42	93.4	0.0	0.0	0.0	0.0
43	93.5	0.0	0.0	0.0	0.0
44	93.725	0.0	0.0	0.0	0.0
45	93.9	0.0	0.0	0.0	0.0
46	94.0	0.0	0.0	0.0	0.0
47	94.05	0.0	0.0	0.0	0.0
48	94.1	0.0	0.0	0.0	0.0
49	94.175	0.0	0.0	0.0	0.0
50	94.175	0.0	0.0	0.0	0.0
51	94.225	0.0	0.0	0.0	0.0
52	94.225	0.0	0.0	0.0	0.0
53	94.225	0.0	0.0	0.0	0.0
54	94.225	0.0	0.0	0.0	0.0
55	94.225	0.0	0.0	0.0	0.0
56	94.225	0.0	0.0	0.0	0.0
57	94.225	0.0	0.0	0.0	0.0
58	94.225	0.0	0.0	0.0	0.0
59	94.225	0.0	0.0	0.0	0.0
60	94.225	0.0	0.0	0.0	0.0
61	94.225	0.0	0.0	0.0	0.0
62	94.225	0.0	0.0	0.0	0.0
63	94.225	0.0	0.0	0.0	0.0
64	94.225	0.0	0.0	0.0	0.0
65	94.225	0.0	0.0	0.0	0.0
66	94.225	0.0	0.0	0.0	0.0
67	94.225	0.0	0.0	0.0	0.0
68	94.225	0.0	0.0	0.0	0.0
69	94.225	0.0	0.0	0.0	0.0
70	94.225	0.0	0.0	0.0	0.0
71	94.225	0.0	0.0	0.0	0.0
72	94.225	0.0	0.0	0.0	0.0
73	94.225	0.0	0.0	0.0	0.0
74	94.225	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
TCTGGTG	15	0.0012159165	80.00001	4
TTCTGGT	15	0.0012159165	80.00001	3
GGATTGT	15	0.0012159165	80.00001	2
GTCTGTA	15	0.0012159165	80.00001	3
GATTGTA	15	0.0012159165	80.00001	3
TAGTTCA	15	0.0012159165	80.00001	8
CTGGTGT	15	0.0012159165	80.00001	5
TCTGTAG	15	0.0012159165	80.00001	4
ATTGTAG	15	0.0012159165	80.00001	4
TATTCTG	15	0.0012159165	80.00001	1
GCGTCTG	15	0.0012159165	80.00001	1
GGGATTG	15	0.0012159165	80.00001	1
ATTCTGG	15	0.0012159165	80.00001	2
TGGTGTC	15	0.0012159165	80.00001	6
AGTTCAA	15	0.0012159165	80.00001	9
GTAGTTC	15	0.0012159165	80.00001	7
CGTCTGT	15	0.0012159165	80.00001	2
AGCTCAG	25	1.0653384E-6	80.0	9
TAGCTCA	25	1.0653384E-6	80.0	8
CCGTTGT	35	9.076757E-10	80.0	2
>>END_MODULE
Rejected 255126 READS because READLEN < 1
Read 255126 spots for SRR11699508.sra
Written 255126 spots for SRR11699508.sra
Rejected 255126 READS because READLEN < 1
Read 255126 spots for SRR11699508.sra
Written 255126 spots for SRR11699508.sra
Rejected 255126 READS because READLEN < 1
Read 255126 spots for SRR11699508.sra
Written 255126 spots for SRR11699508.sra
Rejected 255126 READS because READLEN < 1
Read 255126 spots for SRR11699508.sra
Written 255126 spots for SRR11699508.sra
Rejected 255126 READS because READLEN < 1
Read 255126 spots for SRR11699508.sra
Written 255126 spots for SRR11699508.sra
Rejected 255126 READS because READLEN < 1
Read 255126 spots for SRR11699508.sra
Written 255126 spots for SRR11699508.sra
Rejected 255126 READS because READLEN < 1
Read 255126 spots for SRR11699508.sra
Written 255126 spots for SRR11699508.sra
Rejected 255126 READS because READLEN < 1
Read 255126 spots for SRR11699508.sra
Written 255126 spots for SRR11699508.sra
Rejected 255126 READS because READLEN < 1
Read 255126 spots for SRR11699508.sra
Written 255126 spots for SRR11699508.sra
Rejected 255126 READS because READLEN < 1
Read 255126 spots for SRR11699508.sra
Written 255126 spots for SRR11699508.sra
Rejected 255126 READS because READLEN < 1
Read 255126 spots for SRR11699508.sra
Written 255126 spots for SRR11699508.sra
Rejected 255126 READS because READLEN < 1
Read 255126 spots for SRR11699508.sra
Written 255126 spots for SRR11699508.sra
Rejected 255126 READS because READLEN < 1
Read 255126 spots for SRR11699508.sra
Written 255126 spots for SRR11699508.sra
Rejected 255126 READS because READLEN < 1
Read 255126 spots for SRR11699508.sra
Written 255126 spots for SRR11699508.sra
Rejected 255126 READS because READLEN < 1
Read 255126 spots for SRR11699508.sra
Written 255126 spots for SRR11699508.sra
Rejected 255133 READS because READLEN < 1
Read 255133 spots for SRR11699508.sra
Written 255133 spots for SRR11699508.sra
Rejected 255126 READS because READLEN < 1
Read 255126 spots for SRR11699508.sra
Written 255126 spots for SRR11699508.sra
Rejected 255126 READS because READLEN < 1
Read 255126 spots for SRR11699508.sra
Written 255126 spots for SRR11699508.sra
Rejected 255126 READS because READLEN < 1
Read 255126 spots for SRR11699508.sra
Written 255126 spots for SRR11699508.sra
Rejected 255126 READS because READLEN < 1
Read 255126 spots for SRR11699508.sra
Written 255126 spots for SRR11699508.sra
SRR ids: ['SRR11699508.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_ulx8ubbc
SRR11699508.sra spots: 5102527
blocks: [[1, 255126], [255127, 510252], [510253, 765378], [765379, 1020504], [1020505, 1275630], [1275631, 1530756], [1530757, 1785882], [1785883, 2041008], [2041009, 2296134], [2296135, 2551260], [2551261, 2806386], [2806387, 3061512], [3061513, 3316638], [3316639, 3571764], [3571765, 3826890], [3826891, 4082016], [4082017, 4337142], [4337143, 4592268], [4592269, 4847394], [4847395, 5102527]]
SRR11699508 file size 1069162
SRR11699508 completed basic pipeline successfully
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	skewer -f sanger -l 18 -q 10 -k inf -t 20 -o SRR11699508 SRR11699508_1.fastq
Input file:	SRR11699508_1.fastq
trimmed:	SRR11699508-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 
-- minimum overlap length for adapter detection (-k):	inf
-- number of concurrent threads (-t):	20
Fri Jun 20 12:58:38 2025 >> started

Fri Jun 20 12:58:41 2025 >> done (3.191s)
5102527 reads processed; of these:
 890604 (17.45%) short reads filtered out after trimming by size control
   2095 ( 0.04%) empty reads filtered out after trimming by size control
4209828 (82.50%) reads available; of these:
4189154 (99.51%) trimmed reads available after processing
  20674 ( 0.49%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	 110628	  2.63%
 19	 154713	  3.68%
 20	 174306	  4.14%
 21	 304945	  7.24%
 22	 444976	 10.57%
 23	 179502	  4.26%
 24	 503793	 11.97%
 25	 212167	  5.04%
 26	 204566	  4.86%
 27	 269920	  6.41%
 28	 119548	  2.84%
 29	 140499	  3.34%
 30	 563229	 13.38%
 31	 149581	  3.55%
 32	 173230	  4.11%
 33	 104641	  2.49%
 34	  82878	  1.97%
 35	  96726	  2.30%
 36	  44812	  1.06%
 37	  33286	  0.79%
 38	  23503	  0.56%
 39	  21530	  0.51%
 40	  16289	  0.39%
 41	  26258	  0.62%
 42	   8585	  0.20%
 43	   7574	  0.18%
 44	   4971	  0.12%
 45	   3662	  0.09%
 46	   2331	  0.06%
 47	   1797	  0.04%
 48	   2102	  0.05%
 49	    995	  0.02%
 50	    592	  0.01%
 51	    388	  0.01%
 52	    276	  0.01%
 53	    208	  0.00%
 54	    144	  0.00%
 55	      0	  0.00%
 56	      0	  0.00%
 57	      0	  0.00%
 58	      0	  0.00%
 59	      0	  0.00%
 60	      0	  0.00%
 61	      0	  0.00%
 62	      0	  0.00%
 63	      0	  0.00%
 64	      0	  0.00%
 65	      0	  0.00%
 66	      0	  0.00%
 67	      0	  0.00%
 68	      0	  0.00%
 69	      0	  0.00%
 70	      0	  0.00%
 71	      1	  0.00%
 72	      0	  0.00%
 73	      0	  0.00%
 74	      0	  0.00%
 75	      0	  0.00%
 76	      0	  0.00%
 77	      0	  0.00%
 78	      0	  0.00%
 79	      0	  0.00%
 80	      0	  0.00%
 81	      0	  0.00%
 82	      0	  0.00%
 83	      0	  0.00%
 84	      0	  0.00%
 85	      2	  0.00%
 86	  20674	  0.49%
4209828 reads passed initial QC


criterion=sequence-density
sequence-density=15.99
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=17
prefix-density=0.00
prefix-fanout=1.0
sequence=TCCGTTGTAGTCTAGCTGGTCAGGATACTCGGCTCTCAC


criterion=fanout-score
sequence-density=0.67
sequence-density-rank=13
fanout-score=30.11
fanout-score-rank=1
prefix-density=2.81
prefix-fanout=7.2
sequence=TAGCTCAGTGGTAGAGCAATTGA
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:
    0 (0.00%) aligned 0 times
    0 (0.00%) aligned exactly 1 time
    1 (100.00%) aligned >1 times
100.00% overall alignment rate
Potential adapter found in reference sequence. Continuing without clipping.
                                 Started job on |	Jun 20 12:59:36
                             Started mapping on |	Jun 20 12:59:36
                                    Finished on |	Jun 20 13:00:08
       Mapping speed, Million of reads per hour |	473.61

                          Number of input reads |	4209828
                      Average input read length |	26
                                    UNIQUE READS:
                   Uniquely mapped reads number |	390437
                        Uniquely mapped reads % |	9.27%
                          Average mapped length |	23.22
                       Number of splices: Total |	7695
            Number of splices: Annotated (sjdb) |	2634
                       Number of splices: GT/AG |	7221
                       Number of splices: GC/AG |	388
                       Number of splices: AT/AC |	3
               Number of splices: Non-canonical |	83
                      Mismatch rate per base, % |	1.05%
                         Deletion rate per base |	0.01%
                        Deletion average length |	1.47
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.13
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	1041429
             % of reads mapped to multiple loci |	24.74%
        Number of reads mapped to too many loci |	1037564
             % of reads mapped to too many loci |	24.65%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	3.57%
                     % of reads unmapped: other |	37.77%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	2777962	2777962	2777962
N_multimapping	1041429	1041429	1041429
N_noFeature	335882	349396	375293
N_ambiguous	1677	33	20
UnstrandedReadsAssigned:52878 PositiveStrandReadsAssigned:41008 NegativeStrandReadsAssigned:15124
Dataset is classified unstranded
MeadianReadLen=26 20thPercentileLength=22 echo kmer=19
SRR11699508 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: 72,539
[index] number of k-mers: 56,563,136
[index] number of equivalence classes: 414,827
[quant] running in single-end mode
[quant] will process file 1: SRR11699508-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 4,209,828 reads, 1,102,364 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 954 rounds

  72540 SRR11699508.ke.tsv
  44303 SRR11699508.se.tsv
 116843 total
==> SRR11699508.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Zm00001eb096110_T001	2067	1968	0	0
Zm00001eb321680_T001	3417	3318	1.30659	0.472239
Zm00001eb323640_T001	3273	3174	0	0
Zm00001eb314140_T001	893	794	0	0
Zm00001eb080260_T001	3529	3430	0	0
Zm00001eb026490_T001	2433	2334	0	0
Zm00001eb026490_T002	2229	2130	0	0
Zm00001eb026490_T003	2220	2121	0	0
Zm00001eb281360_T001	2412	2313	0	0

==> SRR11699508.se.tsv <==
Zm00001eb015280	1
Zm00001eb000610	0
Zm00001eb033210	0
Zm00001eb044610	0
Zm00001eb014360	0
Zm00001eb051320	0
Zm00001eb021860	0
Zm00001eb011690	0
Zm00001eb016840	0
Zm00001eb052060	0
SRR11699508 completed mapping pipeline successfully
