Starting /dee2/code/volunteer_pipeline.sh SRR11699305
    current disk space = 2466491854848
    free memory = 1580220524 
SRR11699305 SRAfilesize
2960ffb9c8032ed5725f0b9e73917498  SRR11699305.sra
SRR11699305.sra file validated
SRR11699305 is single end
SRR11699305 is conventional basespace
SRR11699305 read1 length is 76 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR11699305_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	48
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	31.242	32.0	32.0	32.0	32.0	32.0
2	31.4095	32.0	32.0	32.0	32.0	32.0
3	31.524	32.0	32.0	32.0	32.0	32.0
4	31.5015	32.0	32.0	32.0	32.0	32.0
5	31.572	32.0	32.0	32.0	32.0	32.0
6	35.016	36.0	36.0	36.0	36.0	36.0
7	35.1085	36.0	36.0	36.0	36.0	36.0
8	35.14	36.0	36.0	36.0	36.0	36.0
9	34.92425	36.0	36.0	36.0	36.0	36.0
10-11	35.068124999999995	36.0	36.0	36.0	36.0	36.0
12-13	35.0585	36.0	36.0	36.0	36.0	36.0
14-15	35.079375	36.0	36.0	36.0	36.0	36.0
16-17	35.156375	36.0	36.0	36.0	36.0	36.0
18-19	35.196749999999994	36.0	36.0	36.0	36.0	36.0
20-21	34.958	36.0	36.0	36.0	36.0	36.0
22-23	35.024625	36.0	36.0	36.0	36.0	36.0
24-25	35.050250000000005	36.0	36.0	36.0	36.0	36.0
26-27	34.920375	36.0	36.0	36.0	36.0	36.0
28-29	34.961	36.0	36.0	36.0	36.0	36.0
30-31	34.893375	36.0	36.0	36.0	36.0	36.0
32-33	34.889624999999995	36.0	36.0	36.0	36.0	36.0
34-35	34.902125	36.0	36.0	36.0	36.0	36.0
36-37	34.94125	36.0	36.0	36.0	36.0	36.0
38-39	34.88525	36.0	36.0	36.0	36.0	36.0
40-41	34.885374999999996	36.0	36.0	36.0	36.0	36.0
42-43	34.864375	36.0	36.0	36.0	36.0	36.0
44-45	34.731750000000005	36.0	36.0	36.0	32.0	36.0
46-47	34.71425	36.0	36.0	36.0	32.0	36.0
48-49	34.524	36.0	36.0	36.0	32.0	36.0
50-51	34.104749999999996	36.0	36.0	36.0	32.0	36.0
52-53	33.90025	36.0	36.0	36.0	29.5	36.0
54-55	33.53975	36.0	36.0	36.0	24.0	36.0
56-57	32.819375	36.0	36.0	36.0	14.0	36.0
58-59	32.217124999999996	36.0	32.0	36.0	14.0	36.0
60-61	31.984375	36.0	32.0	36.0	14.0	36.0
62-63	31.375999999999998	36.0	32.0	36.0	14.0	36.0
64-65	30.46275	36.0	29.5	36.0	14.0	36.0
66-67	30.182625	36.0	27.0	36.0	14.0	36.0
68-69	30.331249999999997	36.0	27.0	36.0	14.0	36.0
70-71	30.516125000000002	36.0	27.0	36.0	14.0	36.0
72-73	30.554625	36.0	27.0	36.0	14.0	36.0
74-75	31.302500000000002	36.0	32.0	36.0	14.0	36.0
76	27.24825	32.0	14.0	36.0	14.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
19	1.0
20	1.0
21	3.0
22	1.0
23	8.0
24	14.0
25	30.0
26	38.0
27	76.0
28	80.0
29	118.0
30	163.0
31	224.0
32	371.0
33	463.0
34	1154.0
35	1255.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	20.575	31.2	22.3	25.924999999999997
2	20.974999999999998	29.025000000000002	27.575	22.425
3	23.974999999999998	35.55	18.025	22.45
4	26.55	35.099999999999994	18.0	20.349999999999998
5	22.1	27.474999999999998	21.525	28.9
6	30.875000000000004	29.075	22.225	17.825
7	28.725	35.675000000000004	18.5	17.1
8	23.5	29.95	25.5	21.05
9	24.474999999999998	30.225	19.825	25.474999999999998
10-11	31.574999999999996	30.062499999999996	21.175	17.1875
12-13	22.6375	26.224999999999998	22.55	28.5875
14-15	29.312500000000004	34.725	18.9	17.0625
16-17	23.3	25.337500000000002	31.587500000000002	19.775000000000002
18-19	34.3125	26.0125	22.7125	16.9625
20-21	25.3	36.175000000000004	21.637500000000003	16.8875
22-23	31.2125	37.7125	13.600000000000001	17.474999999999998
24-25	29.462500000000002	37.325	15.187500000000002	18.025
26-27	29.037499999999998	31.75	16.75	22.4625
28-29	32.7625	30.85	13.7625	22.625
30-31	31.387500000000003	37.1625	10.575	20.875
32-33	29.1625	36.325	12.7625	21.75
34-35	29.849999999999998	29.862499999999997	13.8125	26.474999999999998
36-37	23.925	34.599999999999994	11.5875	29.8875
38-39	22.875	32.4125	14.649999999999999	30.062499999999996
40-41	23.400000000000002	27.6875	19.3375	29.575000000000003
42-43	24.087500000000002	25.85	21.1625	28.9
44-45	21.1875	32.35	17.837500000000002	28.625
46-47	19.4875	29.375	17.712500000000002	33.425
48-49	14.499999999999998	26.325	21.2375	37.9375
50-51	16.037499999999998	26.474999999999998	22.5875	34.9
52-53	18.0125	23.5625	27.6375	30.7875
54-55	16.325	25.374999999999996	25.4375	32.8625
56-57	13.225000000000001	22.1	28.575	36.1
58-59	15.812499999999998	19.787499999999998	35.75	28.65
60-61	16.537499999999998	21.65	37.15	24.6625
62-63	15.287500000000001	26.387500000000003	32.550000000000004	25.775
64-65	13.425	20.925	34.2625	31.387500000000003
66-67	15.950000000000001	14.825	36.775000000000006	32.45
68-69	18.1125	15.687499999999998	38.1	28.1
70-71	17.25	16.412499999999998	39.787499999999994	26.55
72-73	20.474999999999998	12.950000000000001	35.3875	31.1875
74-75	21.5375	12.7625	34.975	30.725
76	12.55	13.05	45.925	28.475
>>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	0.0
32	0.0
33	0.0
34	0.5
35	0.5
36	2.0
37	4.0
38	5.0
39	10.0
40	22.5
41	45.0
42	59.0
43	86.0
44	169.5
45	331.0
46	436.0
47	730.0
48	800.5
49	543.0
50	509.0
51	430.5
52	304.0
53	202.0
54	148.0
55	122.0
56	89.0
57	51.5
58	21.0
59	18.0
60	10.5
61	4.0
62	2.0
63	3.0
64	5.0
65	5.0
66	2.5
67	1.0
68	0.5
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	0.5
86	0.5
87	0.0
88	0.0
89	0.0
90	0.5
91	0.5
92	0.0
93	1.0
94	1.5
95	0.5
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	62.275000000000006
#Duplication Level	Percentage of deduplicated	Percentage of total
1	87.87635487755921	54.725
2	5.780810919309514	7.199999999999999
3	2.2882376555600157	4.275
4	0.9634684865515858	2.4
5	0.6423123243677238	2.0
6	0.4415897230028101	1.6500000000000001
7	0.2810116419108792	1.225
8	0.2810116419108792	1.4000000000000001
9	0.20072260136491368	1.125
>10	1.1641910879164994	15.525
>50	0.04014452027298274	1.825
>100	0.04014452027298274	6.65
>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	266	6.65	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
CTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCA	73	1.825	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
ATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAAC	50	1.25	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
GGGGATGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTT	37	0.9249999999999999	TruSeq Adapter, Index 12 (100% over 36bp)
AACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAG	35	0.8750000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	33	0.8250000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
TCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACT	32	0.8	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
AACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTTG	31	0.775	TruSeq Adapter, Index 12 (100% over 37bp)
ATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTTGTAAT	30	0.75	TruSeq Adapter, Index 12 (100% over 41bp)
AGGGCTATAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTT	28	0.7000000000000001	TruSeq Adapter, Index 12 (100% over 36bp)
ACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	27	0.675	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
AACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	26	0.65	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
CCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGT	24	0.6	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
TAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCA	24	0.6	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGAGATCGGAAGAGCAC	23	0.575	No Hit
CGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCT	22	0.5499999999999999	TruSeq Adapter, Index 1 (97% over 35bp)
CTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAG	21	0.525	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
ATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACT	18	0.44999999999999996	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
ACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC	16	0.4	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTC	14	0.35000000000000003	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAA	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
AAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAACTCCAG	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
AAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAACTCCA	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TAATTCATGATCTGGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTC	12	0.3	No Hit
GATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTTGTAA	11	0.27499999999999997	TruSeq Adapter, Index 12 (100% over 40bp)
CAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTC	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
TGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGC	11	0.27499999999999997	No Hit
CCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCT	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
TGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGA	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAGATCGGAAGAGCACA	9	0.22499999999999998	No Hit
CTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTG	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
CGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTTGTA	9	0.22499999999999998	TruSeq Adapter, Index 12 (100% over 39bp)
CTAACGAACGAACGATTTGAATAGATCGGAAGAGCACACGTCTGAACTCC	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
ACGTCTGCCTGGGCGTCACGCAGATCGGAAGAGCACACGTCTGAACTCCA	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTAGATCGGAAGAGCA	8	0.2	No Hit
TCTCATGGAGAGTTCGATCCTGGCAGATCGGAAGAGCACACGTCTGAACT	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
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)
TCCGTTGTAGTCTAGCTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
TACCTGGTTGATCCTGCCAGTAGTCATATGCTTGTCTAGATCGGAAGAGC	8	0.2	No Hit
CAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCAC	8	0.2	No Hit
CAGCCCCGCGTCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAACT	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GCAGTGATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAG	7	0.17500000000000002	No Hit
TAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAG	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TTTGGATTGAAGGGAGCTCTGAGATCGGAAGAGCACACGTCTGAACTCCA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
ATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAACTCCAGTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
GGAGGTCCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCAC	7	0.17500000000000002	No Hit
GCTCGATGCCAGAATAAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
CTAACGAACGAACGATTTGAACAAATCGGAAGAGCACACGTCTGAACTCC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (96% over 28bp)
GCCCCGCGTCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAACTCC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
ATACTGTAGGGGAGGTCCTGCGGCAAAATAGCTCGATGCCAGAATAGATC	6	0.15	No Hit
ACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTTGT	6	0.15	TruSeq Adapter, Index 12 (100% over 38bp)
ACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTCC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TCCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTC	6	0.15	No Hit
CCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TAATTCATGATCTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GCGACCCCAGGTCAGTCGGGACTAGATCGGAAGAGCACACGTCTGAACTC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTAGATCGGAAGAGCACA	6	0.15	No Hit
GCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACAC	5	0.125	No Hit
TATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAAAGATCGGAAGAGCA	5	0.125	No Hit
CGTCTGCCTGGGCGTCACGCAGATCGGAAGAGCACACGTCTGAACTCCAG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TCAAAAGAGGAAAGGCTTGCGGTGGATAAGATCGGAAGAGCACACGTCTG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
TCAAAAGAGGAAAGGCTTGCGGTGGATACCAGATCGGAAGAGCACACGTC	5	0.125	No Hit
TGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGT	5	0.125	No Hit
TCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCT	5	0.125	TruSeq Adapter, Index 1 (97% over 35bp)
AACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GCACGGATTCGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTTG	5	0.125	TruSeq Adapter, Index 12 (100% over 37bp)
ATATAAGTAGTAAGCCCACCCCAAGATGAGTGCTCTCTCAGATCGGAAGA	5	0.125	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCAGATCGGAAGAGCACAC	5	0.125	No Hit
TACCTGGTTGATCCTGCCAGTAGTCATATGCTTGTCTCAAAGAAGATCGG	5	0.125	No Hit
CGACACGACTCTCGGCAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
CACGACTCTCGGCAACGGATATCTAGATCGGAAGAGCACACGTCTGAACT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
AAATAGCTCGATGCCAGAATAAGATCGGAAGAGCACACGTCTGAACTCCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
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	0.075	0.0	0.0	0.0	0.0
3	0.175	0.0	0.0	0.0	0.0
4	0.275	0.0	0.0	0.0	0.0
5	0.325	0.0	0.0	0.0	0.0
6	0.625	0.0	0.0	0.0	0.0
7	0.75	0.0	0.0	0.0	0.0
8	0.95	0.0	0.0	0.0	0.0
9	2.05	0.0	0.0	0.0	0.0
10	2.875	0.0	0.0	0.0	0.0
11	3.4	0.0	0.0	0.0	0.0
12	4.625	0.0	0.0	0.0	0.0
13	6.525	0.0	0.0	0.0	0.0
14	9.325	0.0	0.0	0.0	0.0
15	11.825	0.0	0.0	0.0	0.0
16	14.025	0.0	0.0	0.0	0.0
17	17.575	0.0	0.0	0.0	0.0
18	20.625	0.0	0.0	0.0	0.0
19	22.65	0.0	0.0	0.0	0.0
20	26.4	0.0	0.0	0.0	0.0
21	30.55	0.0	0.0	0.0	0.0
22	36.525	0.0	0.0	0.0	0.0
23	47.1	0.0	0.0	0.0	0.0
24	50.15	0.0	0.0	0.0	0.0
25	56.625	0.0	0.0	0.0	0.0
26	60.225	0.0	0.0	0.0	0.0
27	63.175	0.0	0.0	0.0	0.0
28	66.0	0.0	0.0	0.0	0.0
29	68.25	0.0	0.0	0.0	0.0
30	70.7	0.0	0.0	0.0	0.0
31	73.15	0.0	0.0	0.0	0.0
32	75.375	0.0	0.0	0.0	0.0
33	76.925	0.0	0.0	0.0	0.0
34	78.8	0.0	0.0	0.0	0.0
35	80.9	0.0	0.0	0.0	0.0
36	83.95	0.0	0.0	0.0	0.0
37	85.75	0.0	0.0	0.0	0.0
38	87.55	0.0	0.0	0.0	0.0
39	88.525	0.0	0.0	0.0	0.0
40	89.525	0.0	0.0	0.0	0.0
41	90.25	0.0	0.0	0.0	0.0
42	91.05	0.0	0.0	0.0	0.0
43	91.55	0.0	0.0	0.0	0.0
44	92.075	0.0	0.0	0.0	0.0
45	92.35	0.0	0.0	0.0	0.0
46	92.925	0.0	0.0	0.0	0.0
47	93.225	0.0	0.0	0.0	0.0
48	93.525	0.0	0.0	0.0	0.0
49	93.925	0.0	0.0	0.0	0.0
50	94.075	0.0	0.0	0.0	0.0
51	94.175	0.0	0.0	0.0	0.0
52	94.25	0.0	0.0	0.0	0.0
53	94.3	0.0	0.0	0.0	0.0
54	94.35	0.0	0.0	0.0	0.0
55	94.35	0.0	0.0	0.0	0.0
56	94.375	0.0	0.0	0.0	0.0
57	94.4	0.0	0.0	0.0	0.0
58	94.4	0.0	0.0	0.0	0.0
59	94.425	0.0	0.0	0.0	0.0
60	94.425	0.0	0.0	0.0	0.0
61	94.425	0.0	0.0	0.0	0.0
62	94.45	0.0	0.0	0.0	0.0
63	94.45	0.0	0.0	0.0	0.0
64	94.45	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	fail
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
TAACGAA	45	1.9072104E-8	54.444447	2
CTAACGA	45	1.9072104E-8	54.444447	1
TTTGAAA	35	0.00111172	40.000004	16
TTGAAAG	35	0.00111172	40.000004	17
TGAAAGA	40	0.0021434545	35.0	18
GAAAGAT	40	0.0021434545	35.0	19
GAACGAA	75	1.0602234E-6	32.666668	6
AAAGATC	45	0.003819767	31.111113	20
CCGTCTT	125	1.8171704E-9	28.0	70
GCCGTCT	120	4.2920874E-8	26.250002	69
GAACGAT	100	1.0001939E-5	24.499998	10
GATTTGA	105	1.4609444E-5	23.333334	14
ACGATTT	105	1.4609444E-5	23.333334	12
CGATTTG	105	1.4609444E-5	23.333334	13
AACGATT	110	2.0955404E-5	22.272726	11
ATTTGAA	110	2.0955404E-5	22.272726	15
TGCCGTC	155	5.123511E-7	20.32258	68
AACGAAC	130	7.618007E-5	18.846153	3
ATGCCGT	175	1.6475824E-6	18.0	67
TATGCCG	185	2.8073082E-6	17.027027	66
>>END_MODULE
Rejected 288038 READS because READLEN < 1
Read 288038 spots for SRR11699305.sra
Written 288038 spots for SRR11699305.sra
Rejected 288038 READS because READLEN < 1
Read 288038 spots for SRR11699305.sra
Written 288038 spots for SRR11699305.sra
Rejected 288038 READS because READLEN < 1
Read 288038 spots for SRR11699305.sra
Written 288038 spots for SRR11699305.sra
Rejected 288038 READS because READLEN < 1
Read 288038 spots for SRR11699305.sra
Written 288038 spots for SRR11699305.sra
Rejected 288038 READS because READLEN < 1
Read 288038 spots for SRR11699305.sra
Written 288038 spots for SRR11699305.sra
Rejected 288038 READS because READLEN < 1
Read 288038 spots for SRR11699305.sra
Written 288038 spots for SRR11699305.sra
Rejected 288038 READS because READLEN < 1
Read 288038 spots for SRR11699305.sra
Written 288038 spots for SRR11699305.sra
Rejected 288038 READS because READLEN < 1
Read 288038 spots for SRR11699305.sra
Written 288038 spots for SRR11699305.sra
Rejected 288038 READS because READLEN < 1
Read 288038 spots for SRR11699305.sra
Written 288038 spots for SRR11699305.sra
Rejected 288038 READS because READLEN < 1
Read 288038 spots for SRR11699305.sra
Written 288038 spots for SRR11699305.sra
Rejected 288038 READS because READLEN < 1
Read 288038 spots for SRR11699305.sra
Written 288038 spots for SRR11699305.sra
Rejected 288038 READS because READLEN < 1
Read 288038 spots for SRR11699305.sra
Written 288038 spots for SRR11699305.sra
Rejected 288038 READS because READLEN < 1
Read 288038 spots for SRR11699305.sra
Written 288038 spots for SRR11699305.sra
Rejected 288038 READS because READLEN < 1
Read 288038 spots for SRR11699305.sra
Written 288038 spots for SRR11699305.sra
Rejected 288038 READS because READLEN < 1
Read 288038 spots for SRR11699305.sra
Written 288038 spots for SRR11699305.sra
Rejected 288038 READS because READLEN < 1
Read 288038 spots for SRR11699305.sra
Written 288038 spots for SRR11699305.sra
Rejected 288038 READS because READLEN < 1
Read 288038 spots for SRR11699305.sra
Written 288038 spots for SRR11699305.sra
Rejected 288038 READS because READLEN < 1
Read 288038 spots for SRR11699305.sra
Written 288038 spots for SRR11699305.sra
Rejected 288038 READS because READLEN < 1
Read 288038 spots for SRR11699305.sra
Written 288038 spots for SRR11699305.sra
Rejected 288049 READS because READLEN < 1
Read 288049 spots for SRR11699305.sra
Written 288049 spots for SRR11699305.sra
SRR ids: ['SRR11699305.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_m1o28djs
SRR11699305.sra spots: 5760771
blocks: [[1, 288038], [288039, 576076], [576077, 864114], [864115, 1152152], [1152153, 1440190], [1440191, 1728228], [1728229, 2016266], [2016267, 2304304], [2304305, 2592342], [2592343, 2880380], [2880381, 3168418], [3168419, 3456456], [3456457, 3744494], [3744495, 4032532], [4032533, 4320570], [4320571, 4608608], [4608609, 4896646], [4896647, 5184684], [5184685, 5472722], [5472723, 5760771]]
SRR11699305 file size 1094852
SRR11699305 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 SRR11699305 SRR11699305_1.fastq
Input file:	SRR11699305_1.fastq
trimmed:	SRR11699305-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 11:57:30 2025 >> started

Wed Jun 18 11:57:32 2025 >> done (2.268s)
5760771 reads processed; of these:
1387506 (24.09%) short reads filtered out after trimming by size control
   2954 ( 0.05%) empty reads filtered out after trimming by size control
4370311 (75.86%) reads available; of these:
4229784 (96.78%) trimmed reads available after processing
 140527 ( 3.22%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	 152991	  3.50%
 19	 219758	  5.03%
 20	 254784	  5.83%
 21	 365375	  8.36%
 22	 604093	 13.82%
 23	 187892	  4.30%
 24	 362082	  8.29%
 25	 191274	  4.38%
 26	 155637	  3.56%
 27	 145658	  3.33%
 28	 132061	  3.02%
 29	 142355	  3.26%
 30	 158026	  3.62%
 31	 125874	  2.88%
 32	 116603	  2.67%
 33	 116096	  2.66%
 34	 128227	  2.93%
 35	 154135	  3.53%
 36	 113427	  2.60%
 37	  86494	  1.98%
 38	  62177	  1.42%
 39	  62285	  1.43%
 40	  49061	  1.12%
 41	  51716	  1.18%
 42	  36405	  0.83%
 43	  30336	  0.69%
 44	  24954	  0.57%
 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	      1	  0.00%
 69	      0	  0.00%
 70	      0	  0.00%
 71	      0	  0.00%
 72	      1	  0.00%
 73	      0	  0.00%
 74	      3	  0.00%
 75	      3	  0.00%
 76	 140527	  3.22%
4370311 reads passed initial QC


criterion=sequence-density
sequence-density=2.61
sequence-density-rank=1
fanout-score=15.90
fanout-score-rank=2
prefix-density=2.66
prefix-fanout=15.6
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTTGTAATCTCGTATGCCGTCTTCTGCTTG


criterion=fanout-score
sequence-density=0.01
sequence-density-rank=37
fanout-score=97.09
fanout-score-rank=1
prefix-density=0.57
prefix-fanout=1.0
sequence=CCTCGTGTTTAGTTGCCACTATGAGTTTGGAACCCTGAACAGACCGCCGGTGTTAAGCCGGAGGAAGGAGA
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 AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTTGTAATCTCGTATGCCGTCTTCTGCTTG -o SRR11699305 -
Input file:	STDIN
trimmed:	SRR11699305-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTTGTAATCTCGTATGCCGTCTTCTGCTTG
-- 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 11:57:38 2025 >> started

Wed Jun 18 11:57:39 2025 >> done (1.008s)
1456770 reads processed; of these:
   2561 ( 0.18%) short reads filtered out after trimming by size control
      7 ( 0.00%) empty reads filtered out after trimming by size control
1454202 (99.82%) reads available; of these:
  58772 ( 4.04%) trimmed reads available after processing
1395430 (95.96%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  51096	  3.51%
 19	  74078	  5.09%
 20	  87143	  5.99%
 21	 124107	  8.53%
 22	 200762	 13.81%
 23	  60558	  4.16%
 24	 118442	  8.14%
 25	  63849	  4.39%
 26	  51833	  3.56%
 27	  47917	  3.30%
 28	  43593	  3.00%
 29	  47435	  3.26%
 30	  52916	  3.64%
 31	  41660	  2.86%
 32	  38736	  2.66%
 33	  38516	  2.65%
 34	  42568	  2.93%
 35	  51318	  3.53%
 36	  37761	  2.60%
 37	  28678	  1.97%
 38	  20594	  1.42%
 39	  21270	  1.46%
 40	  17292	  1.19%
 41	  18137	  1.25%
 42	  11807	  0.81%
 43	   9082	  0.62%
 44	   7363	  0.51%
 45	  10504	  0.72%
 46	   6355	  0.44%
 47	   5132	  0.35%
 48	   7415	  0.51%
 49	   3411	  0.23%
 50	   1896	  0.13%
 51	   1184	  0.08%
 52	    704	  0.05%
 53	    533	  0.04%
 54	    368	  0.03%
 55	    296	  0.02%
 56	    177	  0.01%
 57	    165	  0.01%
 58	    260	  0.02%
 59	     73	  0.01%
 60	     92	  0.01%
 61	    110	  0.01%
 62	     73	  0.01%
 63	     41	  0.00%
 64	     25	  0.00%
 65	     21	  0.00%
 66	     36	  0.00%
 67	     50	  0.00%
 68	     55	  0.00%
 69	     77	  0.01%
 70	    155	  0.01%
 71	     36	  0.00%
 72	     24	  0.00%
 73	     40	  0.00%
 74	      1	  0.00%
 75	      1	  0.00%
 76	   6381	  0.44%


criterion=sequence-density
sequence-density=2.06
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=20
prefix-density=0.00
prefix-fanout=1.0
sequence=GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTCAAGGCG


criterion=fanout-score
sequence-density=0.01
sequence-density-rank=41
fanout-score=97.45
fanout-score-rank=1
prefix-density=0.57
prefix-fanout=1.0
sequence=CCTCGTGTTTAGTTGCCACTATGAGTTTGGAACCCTGAACAGACCGCCGGTGTTAAGCCGGAGGAAGGAGAGGAT
                                 Started job on |	Jun 18 11:58:03
                             Started mapping on |	Jun 18 11:58:04
                                    Finished on |	Jun 18 11:58:16
       Mapping speed, Million of reads per hour |	1310.32

                          Number of input reads |	4367743
                      Average input read length |	27
                                    UNIQUE READS:
                   Uniquely mapped reads number |	367076
                        Uniquely mapped reads % |	8.40%
                          Average mapped length |	24.76
                       Number of splices: Total |	8613
            Number of splices: Annotated (sjdb) |	3683
                       Number of splices: GT/AG |	7990
                       Number of splices: GC/AG |	392
                       Number of splices: AT/AC |	4
               Number of splices: Non-canonical |	227
                      Mismatch rate per base, % |	1.28%
                         Deletion rate per base |	0.01%
                        Deletion average length |	1.43
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.21
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	395042
             % of reads mapped to multiple loci |	9.04%
        Number of reads mapped to too many loci |	763964
             % of reads mapped to too many loci |	17.49%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	7.79%
                     % of reads unmapped: other |	57.27%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	3605625	3605625	3605625
N_multimapping	395042	395042	395042
N_noFeature	299915	310840	353890
N_ambiguous	2308	26	32
UnstrandedReadsAssigned:64853 PositiveStrandReadsAssigned:56210 NegativeStrandReadsAssigned:13154
Dataset is classified unstranded
MeadianReadLen=25 20thPercentileLength=21 echo kmer=19
SRR11699305 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: SRR11699305-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 4,367,743 reads, 746,844 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 830 rounds

  72540 SRR11699305.ke.tsv
  44303 SRR11699305.se.tsv
 116843 total
==> SRR11699305.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Zm00001eb096110_T001	2067	1968	0	0
Zm00001eb321680_T001	3417	3318	3	1.21205
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

==> SRR11699305.se.tsv <==
Zm00001eb015280	3
Zm00001eb000610	0
Zm00001eb033210	0
Zm00001eb044610	0
Zm00001eb014360	0
Zm00001eb051320	1
Zm00001eb021860	0
Zm00001eb011690	0
Zm00001eb016840	0
Zm00001eb052060	0
SRR11699305 completed mapping pipeline successfully
