Starting /dee2/code/volunteer_pipeline.sh SRR11699275
    current disk space = 2470974111744
    free memory = 1579519664 
SRR11699275 SRAfilesize
deca98dac13ab65da0f7a80cb485a5be  SRR11699275.sra
SRR11699275.sra file validated
SRR11699275 is single end
SRR11699275 is conventional basespace
SRR11699275 read1 length is 76 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR11699275_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	52
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	31.0805	32.0	32.0	32.0	32.0	32.0
2	31.32625	32.0	32.0	32.0	32.0	32.0
3	31.38475	32.0	32.0	32.0	32.0	32.0
4	31.45225	32.0	32.0	32.0	32.0	32.0
5	31.50475	32.0	32.0	32.0	32.0	32.0
6	35.08575	36.0	36.0	36.0	36.0	36.0
7	34.97075	36.0	36.0	36.0	36.0	36.0
8	35.0335	36.0	36.0	36.0	36.0	36.0
9	34.8785	36.0	36.0	36.0	32.0	36.0
10-11	34.992625000000004	36.0	36.0	36.0	36.0	36.0
12-13	34.959	36.0	36.0	36.0	36.0	36.0
14-15	35.021249999999995	36.0	36.0	36.0	36.0	36.0
16-17	34.987750000000005	36.0	36.0	36.0	36.0	36.0
18-19	35.046125	36.0	36.0	36.0	36.0	36.0
20-21	34.914375	36.0	36.0	36.0	36.0	36.0
22-23	34.908375	36.0	36.0	36.0	36.0	36.0
24-25	34.85875	36.0	36.0	36.0	34.0	36.0
26-27	34.87875	36.0	36.0	36.0	34.0	36.0
28-29	34.854625	36.0	36.0	36.0	34.0	36.0
30-31	34.815375	36.0	36.0	36.0	36.0	36.0
32-33	34.73425	36.0	36.0	36.0	34.0	36.0
34-35	34.816874999999996	36.0	36.0	36.0	34.0	36.0
36-37	34.732124999999996	36.0	36.0	36.0	32.0	36.0
38-39	34.819375	36.0	36.0	36.0	34.0	36.0
40-41	34.81225	36.0	36.0	36.0	34.0	36.0
42-43	34.75725	36.0	36.0	36.0	32.0	36.0
44-45	34.615875	36.0	36.0	36.0	32.0	36.0
46-47	34.737625	36.0	36.0	36.0	34.0	36.0
48-49	34.581625	36.0	36.0	36.0	32.0	36.0
50-51	34.309	36.0	36.0	36.0	32.0	36.0
52-53	34.217124999999996	36.0	36.0	36.0	32.0	36.0
54-55	33.903625000000005	36.0	36.0	36.0	29.5	36.0
56-57	33.274375	36.0	36.0	36.0	24.0	36.0
58-59	32.551875	36.0	32.0	36.0	14.0	36.0
60-61	31.835625	36.0	32.0	36.0	14.0	36.0
62-63	31.256625	36.0	32.0	36.0	14.0	36.0
64-65	29.963124999999998	36.0	27.0	36.0	14.0	36.0
66-67	28.8785	32.0	20.5	36.0	14.0	36.0
68-69	29.219125	34.0	24.0	36.0	14.0	36.0
70-71	29.281	34.0	27.0	36.0	14.0	36.0
72-73	29.299374999999998	34.0	24.0	36.0	14.0	36.0
74-75	29.33575	36.0	21.0	36.0	14.0	36.0
76	25.464	27.0	14.0	36.0	14.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
21	1.0
22	1.0
23	13.0
24	20.0
25	23.0
26	48.0
27	66.0
28	99.0
29	136.0
30	179.0
31	283.0
32	397.0
33	623.0
34	1186.0
35	925.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	24.5	31.4	21.9	22.2
2	22.175	27.500000000000004	27.725	22.6
3	24.425	31.75	19.0	24.825
4	28.050000000000004	32.074999999999996	17.875	22.0
5	22.8	27.150000000000002	24.125	25.924999999999997
6	27.125	27.775	24.775	20.325
7	30.075000000000003	34.35	20.1	15.475
8	23.0	26.424999999999997	28.475	22.1
9	26.1	29.349999999999998	20.474999999999998	24.075
10-11	31.125000000000004	28.525	22.55	17.8
12-13	24.45	22.912499999999998	24.05	28.5875
14-15	29.15	36.162499999999994	18.1125	16.575
16-17	24.05	23.9875	31.3125	20.65
18-19	35.55	25.1875	22.9625	16.3
20-21	23.0375	33.275	25.224999999999998	18.462500000000002
22-23	31.3	35.4875	16.0125	17.2
24-25	27.675	36.675000000000004	17.175	18.475
26-27	28.712500000000002	31.162499999999998	18.8125	21.3125
28-29	30.5	28.449999999999996	18.1375	22.912499999999998
30-31	33.9875	33.1875	12.3375	20.4875
32-33	27.3	37.7125	13.175	21.8125
34-35	29.599999999999998	31.837500000000002	14.9875	23.575
36-37	26.1125	33.7375	12.712499999999999	27.437499999999996
38-39	24.5	32.9125	14.9375	27.650000000000002
40-41	26.125	29.5375	16.7875	27.55
42-43	28.749999999999996	28.1625	19.2375	23.849999999999998
44-45	23.5625	34.275	15.4875	26.674999999999997
46-47	24.025	32.5375	14.325	29.1125
48-49	19.1375	30.025000000000002	14.799999999999999	36.0375
50-51	20.200000000000003	28.9875	16.225	34.5875
52-53	24.1875	26.0	17.3375	32.475
54-55	25.8	25.7625	18.387500000000003	30.049999999999997
56-57	25.775	28.537499999999998	15.787499999999998	29.9
58-59	31.525	26.724999999999998	14.000000000000002	27.750000000000004
60-61	31.424999999999997	20.7375	17.1875	30.65
62-63	28.5875	21.462500000000002	19.725	30.225
64-65	24.625	21.925	23.4875	29.9625
66-67	23.575	17.474999999999998	28.037499999999998	30.912499999999998
68-69	24.0	19.1875	27.0625	29.75
70-71	28.625	18.224999999999998	26.825	26.325
72-73	28.6125	15.6125	25.55	30.225
74-75	27.712500000000002	12.025	27.8625	32.4
76	18.575	12.950000000000001	35.55	32.925
>>END_MODULE
>>Per sequence GC content	warn
#GC Content	Count
0	0.0
1	0.0
2	0.0
3	0.0
4	0.0
5	0.0
6	0.0
7	0.0
8	0.0
9	0.0
10	0.0
11	0.0
12	0.0
13	0.0
14	0.0
15	0.0
16	0.0
17	0.0
18	0.0
19	0.0
20	0.0
21	0.0
22	0.0
23	0.0
24	0.0
25	0.0
26	0.0
27	0.0
28	0.0
29	0.0
30	0.0
31	0.0
32	0.5
33	1.0
34	0.5
35	0.5
36	0.5
37	0.0
38	0.5
39	2.0
40	3.5
41	6.5
42	9.0
43	14.5
44	31.5
45	71.5
46	100.0
47	130.0
48	230.5
49	415.0
50	529.0
51	677.0
52	695.0
53	523.5
54	482.0
55	431.0
56	308.5
57	196.0
58	155.0
59	114.5
60	71.0
61	42.5
62	17.0
63	12.0
64	8.0
65	7.0
66	3.5
67	2.0
68	1.0
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	0.0
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	0.5
99	1.0
100	1.0
>>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	66.25
#Duplication Level	Percentage of deduplicated	Percentage of total
1	89.35849056603774	59.199999999999996
2	5.056603773584905	6.7
3	1.849056603773585	3.675
4	0.9056603773584906	2.4
5	0.6415094339622641	2.125
6	0.37735849056603776	1.5
7	0.18867924528301888	0.8750000000000001
8	0.18867924528301888	1.0
9	0.1509433962264151	0.8999999999999999
>10	1.169811320754717	13.975000000000001
>50	0.07547169811320754	3.45
>100	0.03773584905660377	4.2
>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	168	4.2	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
ATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAAC	79	1.975	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
CTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCA	59	1.4749999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGAGATCGGAAGAGCAC	47	1.175	No Hit
GAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	41	1.0250000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTAGATCGGAAGAGCA	33	0.8250000000000001	No Hit
CTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAG	31	0.775	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
ATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACT	30	0.75	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
CCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGT	28	0.7000000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GGGGATGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGG	24	0.6	TruSeq Adapter, Index 15 (97% over 36bp)
TCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACT	24	0.6	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
ACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	23	0.575	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
TAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCA	21	0.525	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
AACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAG	18	0.44999999999999996	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
AACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGGG	15	0.375	TruSeq Adapter, Index 15 (97% over 36bp)
AACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGT	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTGAGATCGGAAGAGCAC	14	0.35000000000000003	No Hit
AACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	14	0.35000000000000003	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
ATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGGGCGAT	12	0.3	TruSeq Adapter, Index 15 (97% over 36bp)
TGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGC	12	0.3	No Hit
ATCCTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTC	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TCCGTTGTAGTCTAGCTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCAGATCGGAAGAGCACAC	12	0.3	No Hit
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTAGATCGGAAGAGCACA	12	0.3	No Hit
TAATTCATGATCTGGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
CAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTC	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
TGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGT	11	0.27499999999999997	No Hit
TTTGGATTGAAGGGAGCTCTGAGATCGGAAGAGCACACGTCTGAACTCCA	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GCGACCCCAGGTCAGTCGGGACTAGATCGGAAGAGCACACGTCTGAACTC	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
AGGGATGTAGCGCAGCTTGGTAGCGCTTTTGTTTTAGATCGGAAGAGCAC	11	0.27499999999999997	No Hit
GTGATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATC	10	0.25	No Hit
GATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGGGCGA	10	0.25	TruSeq Adapter, Index 15 (97% over 36bp)
CAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCAC	10	0.25	No Hit
ACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTC	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
GGAGGTCCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCAC	9	0.22499999999999998	No Hit
AGGGCTATAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGG	9	0.22499999999999998	TruSeq Adapter, Index 15 (97% over 36bp)
ACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACA	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
AAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
CATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
GGAGAGATGGCTGAGTGGACTAAAGCGGCGGATTAGATCGGAAGAGCACA	8	0.2	No Hit
TCCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTC	8	0.2	No Hit
GAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTC	8	0.2	No Hit
AACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGA	7	0.17500000000000002	No Hit
GACACGACTCTCGGCAACGGATATCTCGGCTCTCAGATCGGAAGAGCACA	7	0.17500000000000002	No Hit
GCTGAGGCATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACG	7	0.17500000000000002	No Hit
GATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGG	7	0.17500000000000002	No Hit
GCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACAC	6	0.15	No Hit
CACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTCCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TCCAGCCCCGCGTCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAG	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GGGATTGTAGTTCAATCGGAAGAGCACACGTCTGAACTCCAGTCACAGGG	6	0.15	TruSeq Adapter, Index 13 (97% over 35bp)
ATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGA	6	0.15	No Hit
TCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
CGACACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCAGATCGGAAG	6	0.15	No Hit
CCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTAGATCGGAAGAGCA	6	0.15	No Hit
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGAGATCGGAAGAGCACACG	5	0.125	No Hit
CAGCCCCGCGTCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAACT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GCCCCGCGTCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAACTCC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TCAAAAGAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGATCGGAA	5	0.125	No Hit
CGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAG	5	0.125	TruSeq Adapter, Index 2 (97% over 35bp)
TGAAGCTGCCAGCATGATCTGAGATCGGAAGAGCACACGTCTGAACTCCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GCAGTGATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAG	5	0.125	No Hit
GACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
AGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACA	5	0.125	No Hit
ACGTCTGCCTGGGCGTCACGCAGATCGGAAGAGCACACGTCTGAACTCCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GAGAATTTCTGGAAGGGCTCCCTCTCTTCGGAGAGGGTAAAGCCCTACAG	5	0.125	No Hit
ACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTCC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GCCGCCATGGTGAAATTGGTAGACACGCTGCTCTTAGATCGGAAGAGCAC	5	0.125	No Hit
GACGATACTGTAGGGGAGGTCCTGCGGCAAAATAGCTCGATGCCAGAATA	5	0.125	No Hit
TAATTCATGATCTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GCGAGCGTAGTTCAGTGGTAAAACATCTCCTTGAGATCGGAAGAGCACAC	5	0.125	No Hit
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	0.05	0.0	0.0	0.0	0.0
2	0.125	0.0	0.0	0.0	0.0
3	0.25	0.0	0.0	0.0	0.0
4	0.325	0.0	0.0	0.0	0.0
5	0.45	0.0	0.0	0.0	0.0
6	0.55	0.0	0.0	0.0	0.0
7	0.675	0.0	0.0	0.0	0.0
8	0.825	0.0	0.0	0.0	0.0
9	1.275	0.0	0.0	0.0	0.0
10	1.8	0.0	0.0	0.0	0.0
11	2.125	0.0	0.0	0.0	0.0
12	2.425	0.0	0.0	0.0	0.0
13	3.325	0.0	0.0	0.0	0.0
14	5.075	0.0	0.0	0.0	0.0
15	5.65	0.0	0.0	0.0	0.0
16	7.075	0.0	0.0	0.0	0.0
17	9.45	0.0	0.0	0.0	0.0
18	12.15	0.0	0.0	0.0	0.0
19	14.2	0.0	0.0	0.0	0.0
20	17.8	0.0	0.0	0.0	0.0
21	20.925	0.0	0.0	0.0	0.0
22	26.75	0.0	0.0	0.0	0.0
23	34.1	0.0	0.0	0.0	0.0
24	37.3	0.0	0.0	0.0	0.0
25	44.625	0.0	0.0	0.0	0.0
26	48.75	0.0	0.0	0.0	0.0
27	51.1	0.0	0.0	0.0	0.0
28	53.575	0.0	0.0	0.0	0.0
29	55.575	0.0	0.0	0.0	0.0
30	58.15	0.0	0.0	0.0	0.0
31	60.7	0.0	0.0	0.0	0.0
32	63.15	0.0	0.0	0.0	0.0
33	65.7	0.0	0.0	0.0	0.0
34	68.725	0.0	0.0	0.0	0.0
35	72.175	0.0	0.0	0.0	0.0
36	77.125	0.0	0.0	0.0	0.0
37	80.95	0.0	0.0	0.0	0.0
38	82.9	0.0	0.0	0.0	0.0
39	84.8	0.0	0.0	0.0	0.0
40	86.225	0.0	0.0	0.0	0.0
41	87.275	0.0	0.0	0.0	0.0
42	88.5	0.0	0.0	0.0	0.0
43	89.475	0.0	0.0	0.0	0.0
44	90.425	0.0	0.0	0.0	0.0
45	91.15	0.0	0.0	0.0	0.0
46	92.2	0.0	0.0	0.0	0.0
47	92.675	0.0	0.0	0.0	0.0
48	93.1	0.0	0.0	0.0	0.0
49	93.9	0.0	0.0	0.0	0.0
50	94.4	0.0	0.0	0.0	0.0
51	94.65	0.0	0.0	0.0	0.0
52	94.85	0.0	0.0	0.0	0.0
53	94.925	0.0	0.0	0.0	0.0
54	95.05	0.0	0.0	0.0	0.0
55	95.15	0.0	0.0	0.0	0.0
56	95.225	0.0	0.0	0.0	0.0
57	95.25	0.0	0.0	0.0	0.0
58	95.325	0.0	0.0	0.0	0.0
59	95.4	0.0	0.0	0.0	0.0
60	95.4	0.0	0.0	0.0	0.0
61	95.4	0.0	0.0	0.0	0.0
62	95.4	0.0	0.0	0.0	0.0
63	95.4	0.0	0.0	0.0	0.0
64	95.425	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
TTGTAGT	15	0.0020658788	70.00001	5
TGCCGTC	50	0.0063971295	27.999998	70
CTAACGA	65	6.650945E-4	26.923077	1
ATGCCGT	65	6.650945E-4	26.923077	69
TAACGAA	70	0.0010258359	25.000002	2
GAACGAA	75	0.0015344203	23.333334	6
AACGATT	80	0.0022346217	21.875	11
GAACGAT	80	0.0022346217	21.875	10
GATTTGA	80	0.0022346217	21.875	14
ATTTGAA	80	0.0022346217	21.875	15
CGATTTG	80	0.0022346217	21.875	13
TATGCCG	85	0.0031788175	20.588234	68
ACGATTT	85	0.0031788175	20.588234	12
GTATGCC	115	7.8936253E-4	18.260868	70
CTCGTAT	140	1.3470645E-4	17.500002	67
TCGTATG	130	0.0017994691	16.153847	68
TCTCGTA	155	2.9384758E-4	15.806452	66
CGTATGC	135	0.002317007	15.555555	69
ATCTCGT	160	3.7450963E-4	15.3125	65
GATCTCG	170	5.945165E-4	14.411764	64
>>END_MODULE
Rejected 263342 READS because READLEN < 1
Read 263342 spots for SRR11699275.sra
Written 263342 spots for SRR11699275.sra
Rejected 263342 READS because READLEN < 1
Read 263342 spots for SRR11699275.sra
Written 263342 spots for SRR11699275.sra
Rejected 263342 READS because READLEN < 1
Read 263342 spots for SRR11699275.sra
Written 263342 spots for SRR11699275.sra
Rejected 263342 READS because READLEN < 1
Read 263342 spots for SRR11699275.sra
Written 263342 spots for SRR11699275.sra
Rejected 263342 READS because READLEN < 1
Read 263342 spots for SRR11699275.sra
Written 263342 spots for SRR11699275.sra
Rejected 263342 READS because READLEN < 1
Read 263342 spots for SRR11699275.sra
Written 263342 spots for SRR11699275.sra
Rejected 263342 READS because READLEN < 1
Read 263342 spots for SRR11699275.sra
Written 263342 spots for SRR11699275.sra
Rejected 263342 READS because READLEN < 1
Read 263342 spots for SRR11699275.sra
Written 263342 spots for SRR11699275.sra
Rejected 263342 READS because READLEN < 1
Read 263342 spots for SRR11699275.sra
Written 263342 spots for SRR11699275.sra
Rejected 263342 READS because READLEN < 1
Read 263342 spots for SRR11699275.sra
Written 263342 spots for SRR11699275.sra
Rejected 263342 READS because READLEN < 1
Read 263342 spots for SRR11699275.sra
Written 263342 spots for SRR11699275.sra
Rejected 263342 READS because READLEN < 1
Read 263342 spots for SRR11699275.sra
Written 263342 spots for SRR11699275.sra
Rejected 263342 READS because READLEN < 1
Read 263342 spots for SRR11699275.sra
Written 263342 spots for SRR11699275.sra
Rejected 263342 READS because READLEN < 1
Read 263342 spots for SRR11699275.sra
Written 263342 spots for SRR11699275.sra
Rejected 263342 READS because READLEN < 1
Read 263342 spots for SRR11699275.sra
Written 263342 spots for SRR11699275.sra
Rejected 263342 READS because READLEN < 1
Read 263342 spots for SRR11699275.sra
Written 263342 spots for SRR11699275.sra
Rejected 263342 READS because READLEN < 1
Read 263342 spots for SRR11699275.sra
Written 263342 spots for SRR11699275.sra
Rejected 263342 READS because READLEN < 1
Read 263342 spots for SRR11699275.sra
Written 263342 spots for SRR11699275.sra
Rejected 263342 READS because READLEN < 1
Read 263342 spots for SRR11699275.sra
Written 263342 spots for SRR11699275.sra
Rejected 263345 READS because READLEN < 1
Read 263345 spots for SRR11699275.sra
Written 263345 spots for SRR11699275.sra
SRR ids: ['SRR11699275.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_sbza4xfi
SRR11699275.sra spots: 5266843
blocks: [[1, 263342], [263343, 526684], [526685, 790026], [790027, 1053368], [1053369, 1316710], [1316711, 1580052], [1580053, 1843394], [1843395, 2106736], [2106737, 2370078], [2370079, 2633420], [2633421, 2896762], [2896763, 3160104], [3160105, 3423446], [3423447, 3686788], [3686789, 3950130], [3950131, 4213472], [4213473, 4476814], [4476815, 4740156], [4740157, 5003498], [5003499, 5266843]]
SRR11699275 file size 1000794
SRR11699275 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 SRR11699275 SRR11699275_1.fastq
Input file:	SRR11699275_1.fastq
trimmed:	SRR11699275-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
Wed Jun 18 06:51:17 2025 >> started

Wed Jun 18 06:51:19 2025 >> done (2.280s)
5266843 reads processed; of these:
 841194 (15.97%) short reads filtered out after trimming by size control
   6397 ( 0.12%) empty reads filtered out after trimming by size control
4419252 (83.91%) reads available; of these:
4197922 (94.99%) trimmed reads available after processing
 221330 ( 5.01%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	 111134	  2.51%
 19	 172844	  3.91%
 20	 190286	  4.31%
 21	 277166	  6.27%
 22	 385956	  8.73%
 23	 182380	  4.13%
 24	 400564	  9.06%
 25	 215736	  4.88%
 26	 132449	  3.00%
 27	 143839	  3.25%
 28	 122249	  2.77%
 29	 131707	  2.98%
 30	 148678	  3.36%
 31	 136956	  3.10%
 32	 127471	  2.88%
 33	 149055	  3.37%
 34	 172631	  3.91%
 35	 238702	  5.40%
 36	 200845	  4.54%
 37	 111424	  2.52%
 38	  84840	  1.92%
 39	  80303	  1.82%
 40	  62932	  1.42%
 41	  75778	  1.71%
 42	  56810	  1.29%
 43	  50159	  1.14%
 44	  35022	  0.79%
 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	      0	  0.00%
 71	      0	  0.00%
 72	      0	  0.00%
 73	      0	  0.00%
 74	      0	  0.00%
 75	      6	  0.00%
 76	 221330	  5.01%
4419252 reads passed initial QC


criterion=sequence-density
sequence-density=4.38
sequence-density-rank=1
fanout-score=18.54
fanout-score-rank=1
prefix-density=4.45
prefix-fanout=18.2
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGGGCGAT


criterion=fanout-score
sequence-density=4.38
sequence-density-rank=1
fanout-score=18.54
fanout-score-rank=1
prefix-density=4.45
prefix-fanout=18.2
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGGGCGAT
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 -f sanger -l 18 -t 20 -x AGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGGGCGAT -o SRR11699275 -
Input file:	STDIN
trimmed:	SRR11699275-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	AGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGGGCGAT
-- 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):		Sanger/Illumina 1.8+ FASTQ 
-- minimum overlap length for adapter detection (-k):	3
-- number of concurrent threads (-t):	20
Wed Jun 18 06:51:26 2025 >> started

Wed Jun 18 06:51:28 2025 >> done (1.864s)
2651551 reads processed; of these:
   3736 ( 0.14%) short reads filtered out after trimming by size control
      9 ( 0.00%) empty reads filtered out after trimming by size control
2647806 (99.86%) reads available; of these:
 152937 ( 5.78%) trimmed reads available after processing
2494869 (94.22%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  67325	  2.54%
 19	 105420	  3.98%
 20	 117221	  4.43%
 21	 169171	  6.39%
 22	 230333	  8.70%
 23	 107261	  4.05%
 24	 236871	  8.95%
 25	 129413	  4.89%
 26	  79447	  3.00%
 27	  86211	  3.26%
 28	  73320	  2.77%
 29	  79096	  2.99%
 30	  89726	  3.39%
 31	  82146	  3.10%
 32	  76589	  2.89%
 33	  88917	  3.36%
 34	 103272	  3.90%
 35	 143448	  5.42%
 36	 120172	  4.54%
 37	  66880	  2.53%
 38	  50765	  1.92%
 39	  48088	  1.82%
 40	  39787	  1.50%
 41	  45967	  1.74%
 42	  33456	  1.26%
 43	  27918	  1.05%
 44	  20580	  0.78%
 45	  26852	  1.01%
 46	  18502	  0.70%
 47	  15342	  0.58%
 48	  21816	  0.82%
 49	  10357	  0.39%
 50	   7447	  0.28%
 51	   5424	  0.20%
 52	   3504	  0.13%
 53	   2448	  0.09%
 54	   1749	  0.07%
 55	   1270	  0.05%
 56	   1012	  0.04%
 57	    949	  0.04%
 58	   1117	  0.04%
 59	    251	  0.01%
 60	    199	  0.01%
 61	    223	  0.01%
 62	    166	  0.01%
 63	     62	  0.00%
 64	     38	  0.00%
 65	     38	  0.00%
 66	     18	  0.00%
 67	     26	  0.00%
 68	     24	  0.00%
 69	     20	  0.00%
 70	     31	  0.00%
 71	     11	  0.00%
 72	     12	  0.00%
 73	     48	  0.00%
 74	      0	  0.00%
 75	      0	  0.00%
 76	  10050	  0.38%


criterion=sequence-density
sequence-density=2.40
sequence-density-rank=1
fanout-score=1.00
fanout-score-rank=15
prefix-density=0.02
prefix-fanout=1.0
sequence=TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTCACCCGAAAGACCCGGGTT


criterion=fanout-score
sequence-density=0.22
sequence-density-rank=19
fanout-score=20.18
fanout-score-rank=1
prefix-density=1.10
prefix-fanout=4.0
sequence=GTCTAGTGGTATGATTCTCGCTT
                                 Started job on |	Jun 18 06:51:40
                             Started mapping on |	Jun 18 06:51:40
                                    Finished on |	Jun 18 06:52:04
       Mapping speed, Million of reads per hour |	662.33

                          Number of input reads |	4415507
                      Average input read length |	29
                                    UNIQUE READS:
                   Uniquely mapped reads number |	408508
                        Uniquely mapped reads % |	9.25%
                          Average mapped length |	26.30
                       Number of splices: Total |	10228
            Number of splices: Annotated (sjdb) |	5379
                       Number of splices: GT/AG |	9299
                       Number of splices: GC/AG |	546
                       Number of splices: AT/AC |	6
               Number of splices: Non-canonical |	377
                      Mismatch rate per base, % |	1.09%
                         Deletion rate per base |	0.01%
                        Deletion average length |	1.41
                        Insertion rate per base |	0.01%
                       Insertion average length |	1.43
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	405113
             % of reads mapped to multiple loci |	9.17%
        Number of reads mapped to too many loci |	1000110
             % of reads mapped to too many loci |	22.65%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	7.25%
                     % of reads unmapped: other |	51.68%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	3601886	3601886	3601886
N_multimapping	405113	405113	405113
N_noFeature	315234	326109	394426
N_ambiguous	3262	44	17
UnstrandedReadsAssigned:90012 PositiveStrandReadsAssigned:82355 NegativeStrandReadsAssigned:14065
Dataset is classified positive stranded
MeadianReadLen=27 20thPercentileLength=22 echo kmer=19
SRR11699275 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: SRR11699275-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 4,415,507 reads, 622,283 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 939 rounds

  72540 SRR11699275.ke.tsv
  44303 SRR11699275.se.tsv
 116843 total
==> SRR11699275.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Zm00001eb096110_T001	2067	1968	0	0
Zm00001eb321680_T001	3417	3318	8	3.91362
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	1	0.701761

==> SRR11699275.se.tsv <==
Zm00001eb015280	0
Zm00001eb000610	0
Zm00001eb033210	0
Zm00001eb044610	0
Zm00001eb014360	0
Zm00001eb051320	0
Zm00001eb021860	0
Zm00001eb011690	0
Zm00001eb016840	0
Zm00001eb052060	0
SRR11699275 completed mapping pipeline successfully
