Starting /dee2/code/volunteer_pipeline.sh SRR11699351
    current disk space = 2462876393472
    free memory = 1567440332 
SRR11699351 SRAfilesize
a5d55f0519e4002c36e55327e1c0da91  SRR11699351.sra
SRR11699351.sra file validated
SRR11699351 is single end
SRR11699351 is conventional basespace
SRR11699351 read1 length is 76 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR11699351_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	31.392	32.0	32.0	32.0	32.0	32.0
2	31.49575	32.0	32.0	32.0	32.0	32.0
3	31.5415	32.0	32.0	32.0	32.0	32.0
4	31.5435	32.0	32.0	32.0	32.0	32.0
5	31.5945	32.0	32.0	32.0	32.0	32.0
6	35.1295	36.0	36.0	36.0	36.0	36.0
7	35.273	36.0	36.0	36.0	36.0	36.0
8	35.20475	36.0	36.0	36.0	36.0	36.0
9	35.11	36.0	36.0	36.0	36.0	36.0
10-11	35.197500000000005	36.0	36.0	36.0	36.0	36.0
12-13	35.291375	36.0	36.0	36.0	36.0	36.0
14-15	35.20525	36.0	36.0	36.0	36.0	36.0
16-17	35.21325	36.0	36.0	36.0	36.0	36.0
18-19	35.2255	36.0	36.0	36.0	36.0	36.0
20-21	35.113875	36.0	36.0	36.0	36.0	36.0
22-23	35.109875	36.0	36.0	36.0	36.0	36.0
24-25	35.13225	36.0	36.0	36.0	36.0	36.0
26-27	34.995374999999996	36.0	36.0	36.0	36.0	36.0
28-29	35.094875	36.0	36.0	36.0	36.0	36.0
30-31	35.013000000000005	36.0	36.0	36.0	36.0	36.0
32-33	35.066	36.0	36.0	36.0	36.0	36.0
34-35	35.172	36.0	36.0	36.0	36.0	36.0
36-37	35.094125000000005	36.0	36.0	36.0	36.0	36.0
38-39	35.047875000000005	36.0	36.0	36.0	36.0	36.0
40-41	35.042	36.0	36.0	36.0	36.0	36.0
42-43	34.931375	36.0	36.0	36.0	36.0	36.0
44-45	34.934625	36.0	36.0	36.0	36.0	36.0
46-47	34.955	36.0	36.0	36.0	36.0	36.0
48-49	34.79275	36.0	36.0	36.0	34.0	36.0
50-51	34.517375	36.0	36.0	36.0	32.0	36.0
52-53	34.434749999999994	36.0	36.0	36.0	32.0	36.0
54-55	34.14575000000001	36.0	36.0	36.0	32.0	36.0
56-57	33.906875	36.0	36.0	36.0	32.0	36.0
58-59	33.724000000000004	36.0	36.0	36.0	27.0	36.0
60-61	33.78375	36.0	36.0	36.0	29.5	36.0
62-63	33.492374999999996	36.0	36.0	36.0	27.0	36.0
64-65	33.262875	36.0	32.0	36.0	27.0	36.0
66-67	32.763875	36.0	32.0	36.0	27.0	36.0
68-69	33.230125	36.0	32.0	36.0	27.0	36.0
70-71	33.338875	36.0	34.0	36.0	27.0	36.0
72-73	33.212125	36.0	34.0	36.0	27.0	36.0
74-75	33.5535	36.0	36.0	36.0	29.5	36.0
76	31.3355	36.0	32.0	36.0	14.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
21	1.0
22	1.0
23	4.0
24	7.0
25	14.0
26	28.0
27	38.0
28	44.0
29	68.0
30	79.0
31	131.0
32	192.0
33	311.0
34	962.0
35	2120.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	24.224999999999998	30.225	23.825	21.725
2	22.125	27.375	25.15	25.35
3	25.5	32.725	18.025	23.75
4	28.549999999999997	29.45	18.6	23.400000000000002
5	21.224999999999998	28.1	23.05	27.625
6	24.55	27.750000000000004	27.275	20.424999999999997
7	31.95	32.475	18.25	17.325
8	22.95	25.424999999999997	30.775000000000002	20.849999999999998
9	25.15	32.725	18.05	24.075
10-11	30.9875	27.35	23.4375	18.224999999999998
12-13	21.6125	22.3125	24.2	31.874999999999996
14-15	29.475	37.1375	17.5	15.8875
16-17	24.175	24.087500000000002	29.925	21.8125
18-19	35.5375	24.4	23.375	16.6875
20-21	24.3	34.075	24.4	17.224999999999998
22-23	31.937500000000004	36.987500000000004	14.5625	16.5125
24-25	27.950000000000003	39.15	16.2125	16.6875
26-27	28.262500000000003	33.7125	17.849999999999998	20.175
28-29	30.725	27.037499999999998	18.099999999999998	24.1375
30-31	34.975	34.4125	9.8375	20.775
32-33	28.175	40.775	11.3625	19.6875
34-35	32.175	30.5125	13.612499999999999	23.7
36-37	28.262500000000003	31.912499999999998	10.775	29.049999999999997
38-39	22.4625	35.612500000000004	12.4	29.525000000000002
40-41	23.962500000000002	30.9625	15.837499999999999	29.2375
42-43	26.187500000000004	24.474999999999998	21.725	27.6125
44-45	20.325	30.2125	18.2875	31.175000000000004
46-47	20.4125	32.275	16.3875	30.925000000000004
48-49	13.8875	27.800000000000004	20.075000000000003	38.237500000000004
50-51	12.5	25.387500000000003	24.349999999999998	37.762499999999996
52-53	15.2375	25.387500000000003	23.974999999999998	35.4
54-55	14.5875	25.887500000000003	27.3125	32.2125
56-57	8.0625	24.0	29.3375	38.6
58-59	8.0875	24.675	29.825000000000003	37.4125
60-61	8.825	22.5	35.3	33.375
62-63	9.275	21.675	36.9625	32.087500000000006
64-65	9.45	21.1125	32.324999999999996	37.1125
66-67	12.025	15.187500000000002	36.75	36.0375
68-69	14.0125	14.3125	39.2375	32.4375
70-71	16.5	15.687499999999998	39.5625	28.249999999999996
72-73	15.837499999999999	16.2	36.8625	31.1
74-75	20.9875	9.775	34.112500000000004	35.125
76	15.35	11.0	38.925	34.725
>>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	0.0
36	0.5
37	1.0
38	3.0
39	6.0
40	12.0
41	38.0
42	59.0
43	73.5
44	140.5
45	303.0
46	413.0
47	655.0
48	779.0
49	577.0
50	493.0
51	451.0
52	358.5
53	247.0
54	186.0
55	143.0
56	97.5
57	67.0
58	39.0
59	24.5
60	11.5
61	8.0
62	3.0
63	2.0
64	0.5
65	0.5
66	0.5
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	0.0
90	0.0
91	0.0
92	0.0
93	0.0
94	0.0
95	0.0
96	0.0
97	0.0
98	0.0
99	0.0
100	0.0
>>END_MODULE
>>Per base N content	pass
#Base	N-Count
1	0.0
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	65.825
#Duplication Level	Percentage of deduplicated	Percentage of total
1	88.79605013292822	58.45
2	5.013292821876187	6.6000000000000005
3	2.4306874287884543	4.8
4	0.759589821496392	2.0
5	0.759589821496392	2.5
6	0.41777440182301556	1.6500000000000001
7	0.2658564375237372	1.225
8	0.11393847322445878	0.6
9	0.1519179642992784	0.8999999999999999
>10	1.2153437143942272	14.475
>50	0.0379794910748196	2.125
>100	0.0379794910748196	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)
ATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAAC	85	2.125	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
CTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCA	46	1.15	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	44	1.0999999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
GCGTCTGTAGTCCAACGGTTAGGATAATTGCCAGATCGGAAGAGCACACG	36	0.8999999999999999	No Hit
TCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACT	31	0.775	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
AACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAG	24	0.6	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
AACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTCAT	23	0.575	TruSeq Adapter, Index 3 (97% over 36bp)
CCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGT	23	0.575	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GGGGATGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTCA	22	0.5499999999999999	TruSeq Adapter, Index 3 (97% over 36bp)
TAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCA	20	0.5	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
AGGGCTATAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTCA	19	0.475	TruSeq Adapter, Index 3 (97% over 36bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGAGATCGGAAGAGCAC	19	0.475	No Hit
ATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACT	18	0.44999999999999996	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GGGGATGTAGCTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTC	17	0.42500000000000004	TruSeq Adapter, Index 5 (97% over 35bp)
TAATTCATGATCTGGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	17	0.42500000000000004	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TCCGTTGTAGTCTAGCTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	16	0.4	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
GAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTC	16	0.4	No Hit
TCCGTTGTAGTCTAGCTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	16	0.4	No Hit
ATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTCATTCAT	15	0.375	TruSeq Adapter, Index 3 (97% over 36bp)
ACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
AACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
CGACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACT	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCAGATCGGAAGAGCACACGTC	12	0.3	No Hit
TGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGT	11	0.27499999999999997	No Hit
GATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTCATTCA	11	0.27499999999999997	TruSeq Adapter, Index 3 (97% over 36bp)
AAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
GAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TCCGTTGTAGTCTAGTTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	11	0.27499999999999997	No Hit
TCCGTTGTAGTCTAGGTGGTTAGGATACTCAGATCGGAAGAGCACACGTC	10	0.25	No Hit
TTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTCATTCATC	10	0.25	TruSeq Adapter, Index 3 (97% over 36bp)
TCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTC	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GGGGACGTAGCTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTC	10	0.25	TruSeq Adapter, Index 5 (97% over 35bp)
CAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCAC	10	0.25	No Hit
CTAACGAACGAACGATTTGAACAGATCGGAAGGGCACACGTCTGAACTCC	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (96% over 28bp)
GCCGCCATGGTGAAATTGGTAGACACGCTGCTCTTAGATCGGAAGAGCAC	9	0.22499999999999998	No Hit
GCGACCCCAGGTCAGTCGGGACTAGATCGGAAGAGCACACGTCTGAACTC	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
ACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACT	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GCCCCGCGTCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAACTCC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGC	8	0.2	No Hit
GCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACAC	7	0.17500000000000002	No Hit
CGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTC	7	0.17500000000000002	TruSeq Adapter, Index 5 (97% over 35bp)
CAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
CGACACGACTCTCGGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
ACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTCC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GGCGGATGTAGCCAAGTGGATCAAGGCAGTGGATTGAGATCGGAAGAGCA	7	0.17500000000000002	No Hit
TATTCTGGTGTCCTAGGCGTAGAGGAACCACAAGATCGGAAGAGCACACG	7	0.17500000000000002	No Hit
AACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAGATCGGAAGAGCACA	6	0.15	No Hit
CGACACGACTCTCGGCAACGGATATCTCGAGATCGGAAGAGCACACGTCT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
TAAGTAGTAAGCCCACCCCAAGATGAGTGCTCTCTCAGATCGGAAGAGCA	6	0.15	No Hit
AACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
CATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
CTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAG	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
CGACACGACTCTCGGCAACGGATATCTCGGCAGATCGGAAGAGCACACGT	6	0.15	No Hit
GCGTCTGTAGTCCAACGGTTAGGATAATTGCAGATCGGAAGAGCACACGT	6	0.15	No Hit
TAATTCATGATCTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTAGATCGGAAGAGCA	6	0.15	No Hit
TATTCTGGTGTCCTAGGCGTAGAGGAACCACAGATCGGAAGAGCACACGT	5	0.125	No Hit
TCAAAAGAGGAAAGGCTTGCGGTGGATAAGATCGGAAGAGCACACGTCTG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
TACCTGGTTGATCCTGCCAGTAGTCATATGCTTGTCTCAAGATCGGAAGA	5	0.125	No Hit
TCTCATGGAGAGTTCGATCCTGGCTCAAGATCGGAAGAGCACACGTCTGA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
GCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TCCAGCCCCGCGTCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
GACACGACTCTCGGCAACGGATATCTCGGCAGATCGGAAGAGCACACGTC	5	0.125	No Hit
AAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAACTCCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCAGATCGGAAGAGCACAC	5	0.125	No Hit
CACCCCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCAGATCGGAAGAGCACAC	5	0.125	No Hit
ATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAG	5	0.125	No Hit
GCACCAGTGGTCTAGTGGTAGAATAAGATCGGAAGAGCACACGTCTGAAC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGAGATCGGAAGAGCACACGT	5	0.125	No Hit
CCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GCACCAGTGGTCTAGTGGTAGAATAGATCGGAAGAGCACACGTCTGAACT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
CGACACGACTCTCGGCAACGGAAGATCGGAAGAGCACACGTCTGAACTCC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACAGATCGGAAGAGCACACGT	5	0.125	No Hit
AGGGATGTAGCGCAGCTTGGTAGCGCTTTTGTTTTAGATCGGAAGAGCAC	5	0.125	No Hit
CGACACGACTCTCGGCAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
>>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	0.025	0.0	0.0	0.0	0.0
2	0.1	0.0	0.0	0.0	0.0
3	0.125	0.0	0.0	0.0	0.0
4	0.15	0.0	0.0	0.0	0.0
5	0.275	0.0	0.0	0.0	0.0
6	0.375	0.0	0.0	0.0	0.0
7	0.45	0.0	0.0	0.0	0.0
8	0.775	0.0	0.0	0.0	0.0
9	1.325	0.0	0.0	0.0	0.0
10	1.825	0.0	0.0	0.0	0.0
11	2.175	0.0	0.0	0.0	0.0
12	2.8	0.0	0.0	0.0	0.0
13	4.125	0.0	0.0	0.0	0.0
14	6.2	0.0	0.0	0.0	0.0
15	8.175	0.0	0.0	0.0	0.0
16	9.975	0.0	0.0	0.0	0.0
17	12.85	0.0	0.0	0.0	0.0
18	16.1	0.0	0.0	0.0	0.0
19	18.0	0.0	0.0	0.0	0.0
20	21.2	0.0	0.0	0.0	0.0
21	24.0	0.0	0.0	0.0	0.0
22	28.775	0.0	0.0	0.0	0.0
23	37.775	0.0	0.0	0.0	0.0
24	41.45	0.0	0.0	0.0	0.0
25	51.7	0.0	0.0	0.0	0.0
26	56.225	0.0	0.0	0.0	0.0
27	58.775	0.0	0.0	0.0	0.0
28	61.55	0.0	0.0	0.0	0.0
29	64.25	0.0	0.0	0.0	0.0
30	66.45	0.0	0.0	0.0	0.0
31	70.75	0.0	0.0	0.0	0.0
32	73.575	0.0	0.0	0.0	0.0
33	76.425	0.0	0.0	0.0	0.0
34	78.725	0.0	0.0	0.0	0.0
35	80.8	0.0	0.0	0.0	0.0
36	83.675	0.0	0.0	0.0	0.0
37	85.55	0.0	0.0	0.0	0.0
38	86.825	0.0	0.0	0.0	0.0
39	87.9	0.0	0.0	0.0	0.0
40	88.85	0.0	0.0	0.0	0.0
41	89.275	0.0	0.0	0.0	0.0
42	90.05	0.0	0.0	0.0	0.0
43	90.475	0.0	0.0	0.0	0.0
44	90.95	0.0	0.0	0.0	0.0
45	91.225	0.0	0.0	0.0	0.0
46	91.5	0.0	0.0	0.0	0.0
47	91.6	0.0	0.0	0.0	0.0
48	91.8	0.0	0.0	0.0	0.0
49	92.075	0.0	0.0	0.0	0.0
50	92.1	0.0	0.0	0.0	0.0
51	92.15	0.0	0.0	0.0	0.0
52	92.2	0.0	0.0	0.0	0.0
53	92.25	0.0	0.0	0.0	0.0
54	92.25	0.0	0.0	0.0	0.0
55	92.25	0.0	0.0	0.0	0.0
56	92.275	0.0	0.0	0.0	0.0
57	92.3	0.0	0.0	0.0	0.0
58	92.3	0.0	0.0	0.0	0.0
59	92.325	0.0	0.0	0.0	0.0
60	92.325	0.0	0.0	0.0	0.0
61	92.325	0.0	0.0	0.0	0.0
62	92.325	0.0	0.0	0.0	0.0
63	92.325	0.0	0.0	0.0	0.0
64	92.325	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	fail
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
TGGTCAG	30	7.878043E-8	70.00001	17
AGCTCAG	15	0.0020658788	70.00001	9
GGGCACA	15	0.0020658788	70.00001	34
TTGTAGT	30	7.878043E-8	70.00001	5
AGGATAA	15	0.0020658788	70.00001	22
TAGCTCA	15	0.0020658788	70.00001	8
AGGGCAC	15	0.0020658788	70.00001	33
TAGTCTA	30	7.878043E-8	70.00001	8
AAGGGCA	15	0.0020658788	70.00001	32
CACCAGT	15	0.0020658788	70.00001	2
GCACCAG	15	0.0020658788	70.00001	1
AGTCTAG	30	7.878043E-8	70.00001	9
GCTCAGA	15	0.0020658788	70.00001	10
GTAGTCT	30	7.878043E-8	70.00001	7
TCTAGCT	25	2.3570374E-6	70.0	11
GCTGGTC	25	2.3570374E-6	70.0	15
TAGCTGG	25	2.3570374E-6	70.0	13
CCGTTGT	25	2.3570374E-6	70.0	2
GGTCAGG	25	2.3570374E-6	70.0	18
CTGGTCA	25	2.3570374E-6	70.0	16
>>END_MODULE
Rejected 342141 READS because READLEN < 1
Read 342141 spots for SRR11699351.sra
Written 342141 spots for SRR11699351.sra
Rejected 342141 READS because READLEN < 1
Read 342141 spots for SRR11699351.sra
Written 342141 spots for SRR11699351.sra
Rejected 342141 READS because READLEN < 1
Read 342141 spots for SRR11699351.sra
Written 342141 spots for SRR11699351.sra
Rejected 342141 READS because READLEN < 1
Read 342141 spots for SRR11699351.sra
Written 342141 spots for SRR11699351.sra
Rejected 342141 READS because READLEN < 1
Read 342141 spots for SRR11699351.sra
Written 342141 spots for SRR11699351.sra
Rejected 342141 READS because READLEN < 1
Read 342141 spots for SRR11699351.sra
Written 342141 spots for SRR11699351.sra
Rejected 342141 READS because READLEN < 1
Read 342141 spots for SRR11699351.sra
Written 342141 spots for SRR11699351.sra
Rejected 342141 READS because READLEN < 1
Read 342141 spots for SRR11699351.sra
Written 342141 spots for SRR11699351.sra
Rejected 342141 READS because READLEN < 1
Read 342141 spots for SRR11699351.sra
Written 342141 spots for SRR11699351.sra
Rejected 342157 READS because READLEN < 1
Read 342157 spots for SRR11699351.sra
Written 342157 spots for SRR11699351.sra
Rejected 342141 READS because READLEN < 1
Read 342141 spots for SRR11699351.sra
Written 342141 spots for SRR11699351.sra
Rejected 342141 READS because READLEN < 1
Read 342141 spots for SRR11699351.sra
Written 342141 spots for SRR11699351.sra
Rejected 342141 READS because READLEN < 1
Read 342141 spots for SRR11699351.sra
Written 342141 spots for SRR11699351.sra
Rejected 342141 READS because READLEN < 1
Read 342141 spots for SRR11699351.sra
Written 342141 spots for SRR11699351.sra
Rejected 342141 READS because READLEN < 1
Read 342141 spots for SRR11699351.sra
Written 342141 spots for SRR11699351.sra
Rejected 342141 READS because READLEN < 1
Read 342141 spots for SRR11699351.sra
Written 342141 spots for SRR11699351.sra
Rejected 342141 READS because READLEN < 1
Read 342141 spots for SRR11699351.sra
Written 342141 spots for SRR11699351.sra
Rejected 342141 READS because READLEN < 1
Read 342141 spots for SRR11699351.sra
Written 342141 spots for SRR11699351.sra
Rejected 342141 READS because READLEN < 1
Read 342141 spots for SRR11699351.sra
Written 342141 spots for SRR11699351.sra
Rejected 342141 READS because READLEN < 1
Read 342141 spots for SRR11699351.sra
Written 342141 spots for SRR11699351.sra
SRR ids: ['SRR11699351.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_1mnn9gra
SRR11699351.sra spots: 6842836
blocks: [[1, 342141], [342142, 684282], [684283, 1026423], [1026424, 1368564], [1368565, 1710705], [1710706, 2052846], [2052847, 2394987], [2394988, 2737128], [2737129, 3079269], [3079270, 3421410], [3421411, 3763551], [3763552, 4105692], [4105693, 4447833], [4447834, 4789974], [4789975, 5132115], [5132116, 5474256], [5474257, 5816397], [5816398, 6158538], [6158539, 6500679], [6500680, 6842836]]
SRR11699351 file size 1300909
SRR11699351 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 SRR11699351 SRR11699351_1.fastq
Input file:	SRR11699351_1.fastq
trimmed:	SRR11699351-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 19:05:37 2025 >> started

Wed Jun 18 19:14:22 2025 >> done (524.883s)
6842836 reads processed; of these:
1258966 (18.40%) short reads filtered out after trimming by size control
   2682 ( 0.04%) empty reads filtered out after trimming by size control
5581188 (81.56%) reads available; of these:
5466929 (97.95%) trimmed reads available after processing
 114259 ( 2.05%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	 165231	  2.96%
 19	 255354	  4.58%
 20	 255206	  4.57%
 21	 384346	  6.89%
 22	 637909	 11.43%
 23	 266157	  4.77%
 24	 731405	 13.10%
 25	 330982	  5.93%
 26	 193173	  3.46%
 27	 207189	  3.71%
 28	 156123	  2.80%
 29	 167038	  2.99%
 30	 306981	  5.50%
 31	 196726	  3.52%
 32	 197187	  3.53%
 33	 148868	  2.67%
 34	 135694	  2.43%
 35	 186948	  3.35%
 36	 132566	  2.38%
 37	  93946	  1.68%
 38	  68954	  1.24%
 39	  61266	  1.10%
 40	  47759	  0.86%
 41	  52250	  0.94%
 42	  37443	  0.67%
 43	  30440	  0.55%
 44	  19782	  0.35%
 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	      1	  0.00%
 75	      5	  0.00%
 76	 114259	  2.05%
5581188 reads passed initial QC


criterion=sequence-density
sequence-density=4.20
sequence-density-rank=1
fanout-score=1.00
fanout-score-rank=14
prefix-density=0.01
prefix-fanout=1.0
sequence=TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTCACCCGAAAGACCCGGGTT


criterion=fanout-score
sequence-density=1.53
sequence-density-rank=2
fanout-score=16.26
fanout-score-rank=1
prefix-density=1.64
prefix-fanout=15.2
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACTCATTCATCTCGTATGCCGTCTTCTGCTTGA
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 18 19:19:27
                             Started mapping on |	Jun 18 19:20:10
                                    Finished on |	Jun 18 19:24:09
       Mapping speed, Million of reads per hour |	84.07

                          Number of input reads |	5581188
                      Average input read length |	27
                                    UNIQUE READS:
                   Uniquely mapped reads number |	581763
                        Uniquely mapped reads % |	10.42%
                          Average mapped length |	24.10
                       Number of splices: Total |	12409
            Number of splices: Annotated (sjdb) |	5301
                       Number of splices: GT/AG |	11506
                       Number of splices: GC/AG |	629
                       Number of splices: AT/AC |	4
               Number of splices: Non-canonical |	270
                      Mismatch rate per base, % |	1.17%
                         Deletion rate per base |	0.01%
                        Deletion average length |	1.43
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.12
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	745372
             % of reads mapped to multiple loci |	13.36%
        Number of reads mapped to too many loci |	1072427
             % of reads mapped to too many loci |	19.22%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	6.35%
                     % of reads unmapped: other |	50.66%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	4254053	4254053	4254053
N_multimapping	745372	745372	745372
N_noFeature	490646	506720	562697
N_ambiguous	3081	56	48
UnstrandedReadsAssigned:88036 PositiveStrandReadsAssigned:74987 NegativeStrandReadsAssigned:19018
Dataset is classified unstranded
MeadianReadLen=25 20thPercentileLength=22 echo kmer=19
SRR11699351 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: SRR11699351-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 5,581,188 reads, 1,099,104 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 932 rounds

  72540 SRR11699351.ke.tsv
  44303 SRR11699351.se.tsv
 116843 total
==> SRR11699351.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Zm00001eb096110_T001	2067	1968	0	0
Zm00001eb321680_T001	3417	3318	2	0.586571
Zm00001eb323640_T001	3273	3174	1	0.306592
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

==> SRR11699351.se.tsv <==
Zm00001eb015280	1
Zm00001eb000610	0
Zm00001eb033210	2
Zm00001eb044610	0
Zm00001eb014360	0
Zm00001eb051320	1
Zm00001eb021860	0
Zm00001eb011690	0
Zm00001eb016840	0
Zm00001eb052060	0
SRR11699351 completed mapping pipeline successfully
