Starting /dee2/code/volunteer_pipeline.sh SRR11699576
    current disk space = 2458580762624
    free memory = 1581747012 
SRR11699576 SRAfilesize
e0746591a6a829e752314bf5e5e85da4  SRR11699576.sra
SRR11699576.sra file validated
SRR11699576 is single end
SRR11699576 is conventional basespace
SRR11699576 read1 length is 76 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR11699576_1.fastq
File type	Conventional base calls
Encoding	Sanger / Illumina 1.9
Total Sequences	4000
Sequences flagged as poor quality	0
Sequence length	76
%GC	49
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	31.40025	32.0	32.0	32.0	32.0	32.0
2	31.489	32.0	32.0	32.0	32.0	32.0
3	31.49275	32.0	32.0	32.0	32.0	32.0
4	31.57475	32.0	32.0	32.0	32.0	32.0
5	31.621	32.0	32.0	32.0	32.0	32.0
6	35.19075	36.0	36.0	36.0	36.0	36.0
7	35.20525	36.0	36.0	36.0	36.0	36.0
8	35.314	36.0	36.0	36.0	36.0	36.0
9	35.0355	36.0	36.0	36.0	36.0	36.0
10-11	35.248125	36.0	36.0	36.0	36.0	36.0
12-13	35.188625	36.0	36.0	36.0	36.0	36.0
14-15	35.165125	36.0	36.0	36.0	36.0	36.0
16-17	35.247125	36.0	36.0	36.0	36.0	36.0
18-19	35.29475	36.0	36.0	36.0	36.0	36.0
20-21	35.083875	36.0	36.0	36.0	36.0	36.0
22-23	35.121750000000006	36.0	36.0	36.0	36.0	36.0
24-25	35.12875	36.0	36.0	36.0	36.0	36.0
26-27	34.980999999999995	36.0	36.0	36.0	36.0	36.0
28-29	35.0745	36.0	36.0	36.0	36.0	36.0
30-31	35.02612499999999	36.0	36.0	36.0	36.0	36.0
32-33	35.064375	36.0	36.0	36.0	36.0	36.0
34-35	35.110749999999996	36.0	36.0	36.0	36.0	36.0
36-37	35.069500000000005	36.0	36.0	36.0	36.0	36.0
38-39	35.04600000000001	36.0	36.0	36.0	36.0	36.0
40-41	35.054874999999996	36.0	36.0	36.0	36.0	36.0
42-43	35.060375	36.0	36.0	36.0	36.0	36.0
44-45	34.98625	36.0	36.0	36.0	36.0	36.0
46-47	34.9375	36.0	36.0	36.0	36.0	36.0
48-49	34.900000000000006	36.0	36.0	36.0	36.0	36.0
50-51	34.684375	36.0	36.0	36.0	32.0	36.0
52-53	34.682874999999996	36.0	36.0	36.0	32.0	36.0
54-55	34.668499999999995	36.0	36.0	36.0	32.0	36.0
56-57	34.274125	36.0	36.0	36.0	32.0	36.0
58-59	34.266375	36.0	36.0	36.0	32.0	36.0
60-61	34.40625	36.0	36.0	36.0	32.0	36.0
62-63	34.111000000000004	36.0	36.0	36.0	32.0	36.0
64-65	34.010625000000005	36.0	36.0	36.0	32.0	36.0
66-67	33.493375	36.0	32.0	36.0	27.0	36.0
68-69	33.365	36.0	32.0	36.0	27.0	36.0
70-71	33.327	36.0	34.0	36.0	27.0	36.0
72-73	33.059124999999995	36.0	34.0	36.0	24.0	36.0
74-75	33.723749999999995	36.0	36.0	36.0	32.0	36.0
76	31.582	36.0	32.0	36.0	14.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
21	1.0
22	3.0
23	3.0
24	6.0
25	15.0
26	21.0
27	32.0
28	38.0
29	69.0
30	79.0
31	107.0
32	181.0
33	272.0
34	816.0
35	2357.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	26.75	26.5	26.200000000000003	20.549999999999997
2	23.3	26.025	24.725	25.95
3	25.45	30.349999999999998	18.975	25.224999999999998
4	30.425	30.625000000000004	18.5	20.45
5	22.25	24.325	26.900000000000002	26.525
6	26.674999999999997	24.8	28.625	19.900000000000002
7	35.85	30.575000000000003	17.675	15.9
8	22.775000000000002	24.6	32.574999999999996	20.05
9	24.725	32.975	19.05	23.25
10-11	32.0125	26.5125	24.2375	17.2375
12-13	22.125	22.725	24.4125	30.7375
14-15	29.3375	37.5875	17.6875	15.387500000000001
16-17	23.549999999999997	22.875	32.5625	21.0125
18-19	37.724999999999994	22.2625	23.125	16.8875
20-21	23.1	32.975	25.174999999999997	18.75
22-23	30.9625	36.85	15.475	16.7125
24-25	29.9625	36.1125	15.775	18.15
26-27	26.0125	31.474999999999998	20.4375	22.075
28-29	29.8875	27.025	18.625	24.462500000000002
30-31	31.9625	35.05	11.774999999999999	21.212500000000002
32-33	29.1125	36.85	13.4125	20.625
34-35	29.1875	29.95	15.9125	24.95
36-37	28.6375	34.675	11.1125	25.575
38-39	23.9125	35.575	13.975000000000001	26.5375
40-41	28.262500000000003	29.6625	16.162499999999998	25.912499999999998
42-43	28.475	28.7375	17.75	25.0375
44-45	23.65	34.449999999999996	14.9625	26.937499999999996
46-47	21.7375	34.5875	13.337499999999999	30.337500000000002
48-49	18.087500000000002	29.312500000000004	17.599999999999998	35.0
50-51	16.162499999999998	28.825	19.1375	35.875
52-53	21.0	27.625	19.925	31.45
54-55	16.3375	29.299999999999997	21.2625	33.1
56-57	14.124999999999998	29.037499999999998	22.9375	33.900000000000006
58-59	14.099999999999998	30.2375	22.675	32.9875
60-61	16.525000000000002	26.4125	27.675	29.3875
62-63	14.2125	27.962500000000002	27.3125	30.5125
64-65	13.3125	25.8125	29.0875	31.7875
66-67	14.5625	18.6625	33.425	33.35
68-69	17.7375	22.275	30.825000000000003	29.1625
70-71	16.575	22.9625	33.975	26.487500000000004
72-73	19.5875	17.4625	33.3625	29.5875
74-75	19.3125	16.7	32.6875	31.3
76	17.150000000000002	16.525000000000002	39.5	26.825
>>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	0.0
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	0.5
32	1.0
33	1.0
34	0.5
35	0.5
36	1.0
37	1.0
38	2.5
39	6.5
40	14.5
41	37.0
42	54.0
43	70.0
44	133.0
45	279.0
46	378.0
47	631.5
48	761.0
49	591.0
50	545.0
51	485.0
52	364.0
53	237.0
54	171.0
55	151.0
56	111.0
57	60.0
58	29.0
59	23.0
60	14.5
61	8.0
62	4.0
63	4.5
64	3.0
65	3.0
66	2.5
67	0.0
68	0.0
69	0.0
70	0.0
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	0.5
90	0.5
91	0.0
92	0.0
93	0.5
94	0.5
95	0.5
96	1.0
97	0.5
98	0.5
99	0.5
100	0.0
>>END_MODULE
>>Per base N content	pass
#Base	N-Count
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
10-11	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	0.0
>>END_MODULE
>>Sequence Length Distribution	pass
#Length	Count
76	4000.0
>>END_MODULE
>>Sequence Duplication Levels	warn
#Total Deduplicated Percentage	64.625
#Duplication Level	Percentage of deduplicated	Percentage of total
1	88.51063829787233	57.199999999999996
2	5.145067698259187	6.65
3	1.8181818181818181	3.5249999999999995
4	1.3152804642166345	3.4000000000000004
5	0.5802707930367506	1.875
6	0.6963249516441006	2.7
7	0.15473887814313345	0.7000000000000001
8	0.3868471953578337	2.0
9	0.03868471953578336	0.22499999999999998
>10	1.2379110251450676	14.099999999999998
>50	0.07736943907156672	2.9499999999999997
>100	0.03868471953578336	4.675
>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
CTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCC	187	4.675	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TCCGTTGTAGTCTAGCTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	64	1.6	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGAGATCGGAAGAGCAC	54	1.35	No Hit
ATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAAC	44	1.0999999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
CTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCA	35	0.8750000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	32	0.8	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
TCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACT	25	0.625	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TCCGTTGTAGTCTAGCTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	23	0.575	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
AACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACTG	22	0.5499999999999999	TruSeq Adapter, Index 5 (97% over 37bp)
ACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	22	0.5499999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
TGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGT	21	0.525	No Hit
AACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAG	21	0.525	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTAGATCGGAAGAGCA	20	0.5	No Hit
TAATTCATGATCTGGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	20	0.5	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCA	17	0.42500000000000004	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
CCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGT	16	0.4	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GCGAGCGTAGTTCAGTGGTAAAACATCTCCTTGCCAAGGAGAGATCGGAA	16	0.4	No Hit
CTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAG	16	0.4	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
AACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	16	0.4	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
AGGGATGTAGCGCAGCTTGGTAGCGCTTTTGTTTTAGATCGGAAGAGCAC	16	0.4	No Hit
GGGGATGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACT	15	0.375	TruSeq Adapter, Index 8 (100% over 36bp)
TGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGC	14	0.35000000000000003	No Hit
TCCGTTGTAGTCTAGCTGGTCAGGATATTCAGATCGGAAGAGCACACGTC	13	0.325	No Hit
GATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACTGATA	13	0.325	TruSeq Adapter, Index 25 (100% over 40bp)
ATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACT	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
AGGGCTATAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACT	13	0.325	TruSeq Adapter, Index 8 (100% over 36bp)
GGGGATGTAGCTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAC	12	0.3	TruSeq Adapter, Index 5 (100% over 35bp)
ATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACTGATAT	12	0.3	TruSeq Adapter, Index 25 (100% over 41bp)
CCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCT	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCACAAGATCGGAAGAGCACACG	12	0.3	No Hit
GCGTCTGTAGTCCAACGGTTAGGATAATTGCCAGATCGGAAGAGCACACG	11	0.27499999999999997	No Hit
TCCAGCCCCGCGTCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAA	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
AGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACA	11	0.27499999999999997	No Hit
TATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGA	10	0.25	No Hit
GCGACCCCAGGTCAGTCGGGACTAGATCGGAAGAGCACACGTCTGAACTC	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGG	9	0.22499999999999998	No Hit
GCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACAC	8	0.2	No Hit
TTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACTGATATC	8	0.2	TruSeq Adapter, Index 25 (100% over 42bp)
CTAACGAACGAACGATTTGAATAGATCGGAAGAGCACACGTCTGAACTCC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GCCGCCATGGTGAAATTGGTAGACACGCTGCTCTTAGATCGGAAGAGCAC	8	0.2	No Hit
TCCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTC	8	0.2	No Hit
GAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTC	8	0.2	No Hit
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTGTAGATCGGAAGAGCA	8	0.2	No Hit
CAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCAC	8	0.2	No Hit
CACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCAGATCGGAAGAGC	8	0.2	No Hit
TCCGTTGTAGTCTAGTTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	8	0.2	No Hit
TCCGTTGTAGTCTAGGTGGTTAGGATACTCAGATCGGAAGAGCACACGTC	7	0.17500000000000002	No Hit
TATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAGATCGGAAGAGCACA	7	0.17500000000000002	No Hit
CACCCCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
CGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACTGAT	7	0.17500000000000002	TruSeq Adapter, Index 25 (100% over 39bp)
GGGTCGATGCCCGAGCGGTTAATGGGGACGGACTGTAGATCGGAAGAGCA	6	0.15	No Hit
CGACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GCACCAGTAGTCTAGTGGTAGAATAGTACCAGATCGGAAGAGCACACGTC	6	0.15	No Hit
CGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAC	6	0.15	TruSeq Adapter, Index 5 (100% over 35bp)
GCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
ATACTGTAGGGGAGGTCCTGCGGCAAAATAGCTCGATGCCAGAATAGATC	6	0.15	No Hit
GACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
AGGGATGTAGCGCAGCTTGGTAGCGCTTTTGTTTTGAGATCGGAAGAGCA	6	0.15	No Hit
CGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
GCCCCCATCGTCTAGTGGTTCAGGACATCTCTCTTTAGATCGGAAGAGCA	6	0.15	No Hit
AAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
GGGTCGATGCCCGAGCGGTTAATGGGGACGGACTGAGATCGGAAGAGCAC	6	0.15	No Hit
GCGTTTGTAGTCCAACGGTTAGGATAATTGCCAGATCGGAAGAGCACACG	6	0.15	No Hit
ATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAG	6	0.15	No Hit
TGCAGTGATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACA	6	0.15	No Hit
CCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
CGACACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCAGATCGGAAG	6	0.15	No Hit
GACACGACTCTCGGCAACGGATATCTCGGCTAGATCGGAAGAGCACACGT	6	0.15	No Hit
TCCGTTGTAGTCTAGTTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
CGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACT	5	0.125	TruSeq Adapter, Index 8 (100% over 36bp)
TAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TAAGTAGTAAGCCCACCCCAAGATGAGTGCTCTCTCAGATCGGAAGAGCA	5	0.125	No Hit
CATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
ATATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAGATCGGAAGAGCAC	5	0.125	No Hit
GGAGGTCCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCAC	5	0.125	No Hit
ACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTCC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TCCGTTGTAGTCTAGTTGGTCAGGATATTCGGCTCTAGATCGGAAGAGCA	5	0.125	No Hit
TCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAGT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GACACGACTCTCGGCAACGGATATCTCGAGATCGGAAGAGCACACGTCTG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
CATATCGGGTAGGTTGTGGTATTTCATTGCTAGATCGGAAGAGCACACGT	5	0.125	No Hit
GCGACCCCAGGTCAGTCGGGACTACCCGCTAGATCGGAAGAGCACACGTC	5	0.125	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTAGATCGGAAGAGCA	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	0.05	0.0	0.0	0.0	0.0
3	0.1	0.0	0.0	0.0	0.0
4	0.15	0.0	0.0	0.0	0.0
5	0.225	0.0	0.0	0.0	0.0
6	0.3	0.0	0.0	0.0	0.0
7	0.475	0.0	0.0	0.0	0.0
8	0.8	0.0	0.0	0.0	0.0
9	1.175	0.0	0.0	0.0	0.0
10	1.725	0.0	0.0	0.0	0.0
11	2.225	0.0	0.0	0.0	0.0
12	2.65	0.0	0.0	0.0	0.0
13	3.575	0.0	0.0	0.0	0.0
14	5.025	0.0	0.0	0.0	0.0
15	6.575	0.0	0.0	0.0	0.0
16	7.4	0.0	0.0	0.0	0.0
17	9.175	0.0	0.0	0.0	0.0
18	11.25	0.0	0.0	0.0	0.0
19	12.9	0.0	0.0	0.0	0.0
20	15.775	0.0	0.0	0.0	0.0
21	19.05	0.0	0.0	0.0	0.0
22	23.175	0.0	0.0	0.0	0.0
23	31.6	0.0	0.0	0.0	0.0
24	34.95	0.0	0.0	0.0	0.0
25	41.4	0.0	0.0	0.0	0.0
26	44.4	0.0	0.0	0.0	0.0
27	47.1	0.0	0.0	0.0	0.0
28	49.55	0.0	0.0	0.0	0.0
29	52.175	0.0	0.0	0.0	0.0
30	54.675	0.0	0.0	0.0	0.0
31	60.7	0.0	0.0	0.0	0.0
32	63.75	0.0	0.0	0.0	0.0
33	66.55	0.0	0.0	0.0	0.0
34	69.525	0.0	0.0	0.0	0.0
35	72.8	0.0	0.0	0.0	0.0
36	78.15	0.0	0.0	0.0	0.0
37	81.7	0.0	0.0	0.0	0.0
38	83.725	0.0	0.0	0.0	0.0
39	85.375	0.0	0.0	0.0	0.0
40	87.05	0.0	0.0	0.0	0.0
41	88.225	0.0	0.0	0.0	0.0
42	89.9	0.0	0.0	0.0	0.0
43	90.625	0.0	0.0	0.0	0.0
44	91.625	0.0	0.0	0.0	0.0
45	92.0	0.0	0.0	0.0	0.0
46	92.85	0.0	0.0	0.0	0.0
47	93.45	0.0	0.0	0.0	0.0
48	93.925	0.0	0.0	0.0	0.0
49	94.425	0.0	0.0	0.0	0.0
50	94.825	0.0	0.0	0.0	0.0
51	95.05	0.0	0.0	0.0	0.0
52	95.25	0.0	0.0	0.0	0.0
53	95.3	0.0	0.0	0.0	0.0
54	95.325	0.0	0.0	0.0	0.0
55	95.4	0.0	0.0	0.0	0.0
56	95.425	0.0	0.0	0.0	0.0
57	95.425	0.0	0.0	0.0	0.0
58	95.45	0.0	0.0	0.0	0.0
59	95.525	0.0	0.0	0.0	0.0
60	95.525	0.0	0.0	0.0	0.0
61	95.525	0.0	0.0	0.0	0.0
62	95.525	0.0	0.0	0.0	0.0
63	95.525	0.0	0.0	0.0	0.0
64	95.525	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
AGGATAT	15	0.0020658788	70.00001	22
AGGATAC	15	0.0020658788	70.00001	22
TCAGGAT	30	7.878043E-8	70.00001	20
CCGTTGT	30	7.878043E-8	70.00001	2
TAGTCTA	30	7.878043E-8	70.00001	8
GGTCAGG	30	7.878043E-8	70.00001	18
GGATATT	15	0.0020658788	70.00001	23
TGTAGTC	35	2.6138878E-9	70.00001	6
TTGGTCA	15	0.0020658788	70.00001	16
CGTTGTA	30	7.878043E-8	70.00001	3
AGTCTAG	30	7.878043E-8	70.00001	9
CAGGATA	30	7.878043E-8	70.00001	21
GTCAGGA	30	7.878043E-8	70.00001	19
GTAGTCT	30	7.878043E-8	70.00001	7
AATTGGT	15	0.0020658788	70.00001	14
GTTGTAG	30	7.878043E-8	70.00001	4
TGGTCAG	40	8.54925E-11	70.0	17
TCTAGCT	25	2.3570374E-6	70.0	11
TTGTAGT	40	8.54925E-11	70.0	5
GCTGGTC	25	2.3570374E-6	70.0	15
>>END_MODULE
Rejected 272879 READS because READLEN < 1
Read 272879 spots for SRR11699576.sra
Written 272879 spots for SRR11699576.sra
Rejected 272879 READS because READLEN < 1
Read 272879 spots for SRR11699576.sra
Written 272879 spots for SRR11699576.sra
Rejected 272879 READS because READLEN < 1
Read 272879 spots for SRR11699576.sra
Written 272879 spots for SRR11699576.sra
Rejected 272879 READS because READLEN < 1
Read 272879 spots for SRR11699576.sra
Written 272879 spots for SRR11699576.sra
Rejected 272879 READS because READLEN < 1
Read 272879 spots for SRR11699576.sra
Written 272879 spots for SRR11699576.sra
Rejected 272879 READS because READLEN < 1
Read 272879 spots for SRR11699576.sra
Written 272879 spots for SRR11699576.sra
Rejected 272879 READS because READLEN < 1
Read 272879 spots for SRR11699576.sra
Written 272879 spots for SRR11699576.sra
Rejected 272879 READS because READLEN < 1
Read 272879 spots for SRR11699576.sra
Written 272879 spots for SRR11699576.sra
Rejected 272879 READS because READLEN < 1
Read 272879 spots for SRR11699576.sra
Written 272879 spots for SRR11699576.sra
Rejected 272892 READS because READLEN < 1
Read 272892 spots for SRR11699576.sra
Written 272892 spots for SRR11699576.sra
Rejected 272879 READS because READLEN < 1
Read 272879 spots for SRR11699576.sra
Written 272879 spots for SRR11699576.sra
Rejected 272879 READS because READLEN < 1
Read 272879 spots for SRR11699576.sra
Written 272879 spots for SRR11699576.sra
Rejected 272879 READS because READLEN < 1
Read 272879 spots for SRR11699576.sra
Written 272879 spots for SRR11699576.sra
Rejected 272879 READS because READLEN < 1
Read 272879 spots for SRR11699576.sra
Written 272879 spots for SRR11699576.sra
Rejected 272879 READS because READLEN < 1
Read 272879 spots for SRR11699576.sra
Written 272879 spots for SRR11699576.sra
Rejected 272879 READS because READLEN < 1
Read 272879 spots for SRR11699576.sra
Written 272879 spots for SRR11699576.sra
Rejected 272879 READS because READLEN < 1
Read 272879 spots for SRR11699576.sra
Written 272879 spots for SRR11699576.sra
Rejected 272879 READS because READLEN < 1
Read 272879 spots for SRR11699576.sra
Written 272879 spots for SRR11699576.sra
Rejected 272879 READS because READLEN < 1
Read 272879 spots for SRR11699576.sra
Written 272879 spots for SRR11699576.sra
Rejected 272879 READS because READLEN < 1
Read 272879 spots for SRR11699576.sra
Written 272879 spots for SRR11699576.sra
SRR ids: ['SRR11699576.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_l41x8svw
SRR11699576.sra spots: 5457593
blocks: [[1, 272879], [272880, 545758], [545759, 818637], [818638, 1091516], [1091517, 1364395], [1364396, 1637274], [1637275, 1910153], [1910154, 2183032], [2183033, 2455911], [2455912, 2728790], [2728791, 3001669], [3001670, 3274548], [3274549, 3547427], [3547428, 3820306], [3820307, 4093185], [4093186, 4366064], [4366065, 4638943], [4638944, 4911822], [4911823, 5184701], [5184702, 5457593]]
SRR11699576 file size 1037118
SRR11699576 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 SRR11699576 SRR11699576_1.fastq
Input file:	SRR11699576_1.fastq
trimmed:	SRR11699576-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
Sat Jun 21 04:04:36 2025 >> started

Sat Jun 21 04:04:40 2025 >> done (3.346s)
5457593 reads processed; of these:
 657578 (12.05%) short reads filtered out after trimming by size control
   3825 ( 0.07%) empty reads filtered out after trimming by size control
4796190 (87.88%) reads available; of these:
4576588 (95.42%) trimmed reads available after processing
 219602 ( 4.58%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  88719	  1.85%
 19	 149515	  3.12%
 20	 172783	  3.60%
 21	 240577	  5.02%
 22	 481697	 10.04%
 23	 164882	  3.44%
 24	 387442	  8.08%
 25	 198154	  4.13%
 26	 146940	  3.06%
 27	 169527	  3.53%
 28	 133911	  2.79%
 29	 151056	  3.15%
 30	 322328	  6.72%
 31	 162905	  3.40%
 32	 159916	  3.33%
 33	 165529	  3.45%
 34	 176458	  3.68%
 35	 284573	  5.93%
 36	 187034	  3.90%
 37	 123245	  2.57%
 38	  93030	  1.94%
 39	  94858	  1.98%
 40	  70588	  1.47%
 41	  97925	  2.04%
 42	  60452	  1.26%
 43	  52998	  1.11%
 44	  39538	  0.82%
 45	      0	  0.00%
 46	      0	  0.00%
 47	      0	  0.00%
 48	      0	  0.00%
 49	      0	  0.00%
 50	      0	  0.00%
 51	      0	  0.00%
 52	      0	  0.00%
 53	      0	  0.00%
 54	      0	  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	      1	  0.00%
 71	      0	  0.00%
 72	      4	  0.00%
 73	      0	  0.00%
 74	      0	  0.00%
 75	      3	  0.00%
 76	 219602	  4.58%
4796190 reads passed initial QC


criterion=sequence-density
sequence-density=5.32
sequence-density-rank=1
fanout-score=1.00
fanout-score-rank=19
prefix-density=0.01
prefix-fanout=1.0
sequence=TCCGTTGTAGTCTAGCTGGTCAGGATA


criterion=fanout-score
sequence-density=0.26
sequence-density-rank=24
fanout-score=21.24
fanout-score-rank=1
prefix-density=5.38
prefix-fanout=1.0
sequence=TTGTAGTCTAGGTGGTTAGGATACTCG
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 21 04:05:03
                             Started mapping on |	Jun 21 04:05:03
                                    Finished on |	Jun 21 04:05:19
       Mapping speed, Million of reads per hour |	1079.14

                          Number of input reads |	4796190
                      Average input read length |	30
                                    UNIQUE READS:
                   Uniquely mapped reads number |	382117
                        Uniquely mapped reads % |	7.97%
                          Average mapped length |	26.19
                       Number of splices: Total |	9710
            Number of splices: Annotated (sjdb) |	5200
                       Number of splices: GT/AG |	8924
                       Number of splices: GC/AG |	369
                       Number of splices: AT/AC |	8
               Number of splices: Non-canonical |	409
                      Mismatch rate per base, % |	1.17%
                         Deletion rate per base |	0.01%
                        Deletion average length |	1.53
                        Insertion rate per base |	0.01%
                       Insertion average length |	1.30
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	533709
             % of reads mapped to multiple loci |	11.13%
        Number of reads mapped to too many loci |	1196306
             % of reads mapped to too many loci |	24.94%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	8.82%
                     % of reads unmapped: other |	47.14%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	3880364	3880364	3880364
N_multimapping	533709	533709	533709
N_noFeature	303455	312370	370704
N_ambiguous	2542	33	16
UnstrandedReadsAssigned:76120 PositiveStrandReadsAssigned:69714 NegativeStrandReadsAssigned:11397
Dataset is classified positive stranded
MeadianReadLen=29 20thPercentileLength=22 echo kmer=19
SRR11699576 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: SRR11699576-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 4,796,190 reads, 620,388 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 836 rounds

  72540 SRR11699576.ke.tsv
  44303 SRR11699576.se.tsv
 116843 total
==> SRR11699576.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Zm00001eb096110_T001	2067	1968	0	0
Zm00001eb321680_T001	3417	3318	4	1.87934
Zm00001eb323640_T001	3273	3174	0	0
Zm00001eb314140_T001	893	794	0	0
Zm00001eb080260_T001	3529	3430	1	0.454493
Zm00001eb026490_T001	2433	2334	0	0
Zm00001eb026490_T002	2229	2130	0	0
Zm00001eb026490_T003	2220	2121	0	0
Zm00001eb281360_T001	2412	2313	0	0

==> SRR11699576.se.tsv <==
Zm00001eb015280	2
Zm00001eb000610	0
Zm00001eb033210	0
Zm00001eb044610	0
Zm00001eb014360	0
Zm00001eb051320	0
Zm00001eb021860	0
Zm00001eb011690	0
Zm00001eb016840	0
Zm00001eb052060	0
SRR11699576 completed mapping pipeline successfully
