Starting /dee2/code/volunteer_pipeline.sh SRR11699620
    current disk space = 2455639060480
    free memory = 1003892204 
SRR11699620 SRAfilesize
6fd3ef3c72fbf359830bbd28643f59ea  SRR11699620.sra
SRR11699620.sra file validated
SRR11699620 is single end
SRR11699620 is conventional basespace
SRR11699620 read1 length is 76 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR11699620_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	30.981	32.0	32.0	32.0	32.0	32.0
2	31.3555	32.0	32.0	32.0	32.0	32.0
3	31.50875	32.0	32.0	32.0	32.0	32.0
4	31.4585	32.0	32.0	32.0	32.0	32.0
5	31.45825	32.0	32.0	32.0	32.0	32.0
6	35.06825	36.0	36.0	36.0	36.0	36.0
7	35.0635	36.0	36.0	36.0	36.0	36.0
8	35.06925	36.0	36.0	36.0	36.0	36.0
9	34.79075	36.0	36.0	36.0	32.0	36.0
10-11	35.004374999999996	36.0	36.0	36.0	36.0	36.0
12-13	35.052125000000004	36.0	36.0	36.0	36.0	36.0
14-15	34.943625	36.0	36.0	36.0	36.0	36.0
16-17	34.986000000000004	36.0	36.0	36.0	36.0	36.0
18-19	35.10625	36.0	36.0	36.0	36.0	36.0
20-21	34.93425	36.0	36.0	36.0	36.0	36.0
22-23	34.884874999999994	36.0	36.0	36.0	36.0	36.0
24-25	34.925250000000005	36.0	36.0	36.0	36.0	36.0
26-27	34.8635	36.0	36.0	36.0	34.0	36.0
28-29	34.852125	36.0	36.0	36.0	34.0	36.0
30-31	34.83425	36.0	36.0	36.0	36.0	36.0
32-33	34.854875	36.0	36.0	36.0	34.0	36.0
34-35	34.818375	36.0	36.0	36.0	36.0	36.0
36-37	34.923375	36.0	36.0	36.0	36.0	36.0
38-39	34.8565	36.0	36.0	36.0	34.0	36.0
40-41	34.850875	36.0	36.0	36.0	36.0	36.0
42-43	34.796625000000006	36.0	36.0	36.0	34.0	36.0
44-45	34.684625	36.0	36.0	36.0	32.0	36.0
46-47	34.773875000000004	36.0	36.0	36.0	32.0	36.0
48-49	34.551125	36.0	36.0	36.0	32.0	36.0
50-51	34.44675	36.0	36.0	36.0	32.0	36.0
52-53	34.32425	36.0	36.0	36.0	32.0	36.0
54-55	34.134625	36.0	36.0	36.0	32.0	36.0
56-57	33.740750000000006	36.0	36.0	36.0	27.0	36.0
58-59	33.329	36.0	36.0	36.0	27.0	36.0
60-61	33.372375	36.0	36.0	36.0	27.0	36.0
62-63	32.7775	36.0	34.0	36.0	14.0	36.0
64-65	32.583375000000004	36.0	32.0	36.0	14.0	36.0
66-67	32.227875	36.0	32.0	36.0	17.5	36.0
68-69	32.669124999999994	36.0	32.0	36.0	27.0	36.0
70-71	32.70675	36.0	32.0	36.0	24.0	36.0
72-73	32.104	36.0	32.0	36.0	14.0	36.0
74-75	32.500625	36.0	32.0	36.0	14.0	36.0
76	30.53	32.0	27.0	36.0	14.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
20	1.0
21	2.0
22	2.0
23	6.0
24	9.0
25	16.0
26	30.0
27	38.0
28	53.0
29	83.0
30	127.0
31	174.0
32	217.0
33	410.0
34	1237.0
35	1595.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	25.224999999999998	30.125	20.925	23.724999999999998
2	18.575	26.325	29.125	25.974999999999998
3	25.124999999999996	34.0	14.774999999999999	26.1
4	25.3	36.525	16.175	22.0
5	22.900000000000002	24.975	23.825	28.299999999999997
6	27.05	30.025000000000002	23.599999999999998	19.325
7	30.0	37.85	15.725	16.425
8	19.7	28.625	28.65	23.025000000000002
9	24.975	33.2	16.950000000000003	24.875
10-11	31.612499999999997	30.625000000000004	22.662499999999998	15.1
12-13	21.8625	23.425	23.549999999999997	31.162499999999998
14-15	28.1	41.3125	16.950000000000003	13.6375
16-17	23.325000000000003	21.987499999999997	33.637499999999996	21.05
18-19	36.125	24.7875	25.275	13.8125
20-21	20.9875	38.1375	25.7	15.174999999999999
22-23	30.7125	39.425	13.775	16.0875
24-25	27.35	38.824999999999996	16.5625	17.2625
26-27	28.975	31.7875	18.6	20.6375
28-29	32.375	29.6875	17.0625	20.875
30-31	33.137499999999996	36.5	10.037500000000001	20.325
32-33	30.7625	38.9	10.8375	19.5
34-35	31.275	31.912499999999998	11.5	25.3125
36-37	26.337500000000002	34.55	10.65	28.462500000000002
38-39	25.6	34.449999999999996	12.0125	27.9375
40-41	24.887500000000003	30.9625	16.9875	27.1625
42-43	27.537499999999998	25.5625	19.925	26.974999999999998
44-45	21.475	32.5625	16.4375	29.525000000000002
46-47	21.1375	29.75	17.0125	32.1
48-49	16.2375	27.787499999999998	19.400000000000002	36.575
50-51	17.3125	25.7625	22.2125	34.7125
52-53	19.7	22.237499999999997	24.8	33.2625
54-55	19.325	24.45	24.0375	32.1875
56-57	19.662499999999998	19.9875	27.450000000000003	32.9
58-59	16.7875	17.3625	35.575	30.275000000000002
60-61	17.4	16.1875	35.9625	30.45
62-63	19.7125	18.6125	33.287499999999994	28.3875
64-65	18.825	17.724999999999998	32.1	31.35
66-67	18.35	12.4	37.45	31.8
68-69	18.9625	13.4125	39.0375	28.5875
70-71	23.5625	13.925	37.2	25.3125
72-73	21.0625	12.3625	35.0	31.574999999999996
74-75	24.325	8.8125	34.1875	32.675
76	17.125	8.649999999999999	40.325	33.900000000000006
>>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	0.0
35	0.5
36	1.5
37	2.0
38	3.5
39	4.0
40	10.0
41	22.0
42	27.0
43	40.5
44	77.0
45	153.0
46	206.0
47	329.5
48	820.0
49	883.5
50	580.0
51	508.5
52	421.0
53	309.5
54	214.0
55	179.5
56	100.5
57	62.5
58	69.0
59	45.0
60	13.5
61	6.0
62	6.0
63	4.0
64	1.5
65	1.5
66	1.0
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	0.5
98	0.5
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	60.099999999999994
#Duplication Level	Percentage of deduplicated	Percentage of total
1	88.97670549084859	53.474999999999994
2	4.9916805324459235	6.0
3	1.747088186356073	3.15
4	1.1647254575707155	2.8000000000000003
5	0.6655574043261231	2.0
6	0.33277870216306155	1.2
7	0.20798668885191346	0.8750000000000001
8	0.2911813643926789	1.4000000000000001
9	0.24958402662229617	1.35
>10	1.2063227953410982	14.625
>50	0.08319467554076539	3.85
>100	0.08319467554076539	9.275
>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	264	6.6000000000000005	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
ATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAAC	107	2.675	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
CTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCA	89	2.225	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	65	1.625	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
TCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACT	48	1.2	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
ACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	43	1.075	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
ATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACT	38	0.95	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GCGAGCGTAGTTCAGTGGTAAAACATCTCCTTGCCAAGGAGAGATCGGAA	36	0.8999999999999999	No Hit
AACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAG	36	0.8999999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TCCGTTGTAGTCTAGCTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	33	0.8250000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
TAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCA	28	0.7000000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GCGTCTGTAGTCCAACGGTTAGGATAATTGCCAGATCGGAAGAGCACACG	22	0.5499999999999999	No Hit
CCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGT	22	0.5499999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
CTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAG	22	0.5499999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCAGATCGGAAGAGCACAC	21	0.525	No Hit
AACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	21	0.525	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGAGATCGGAAGAGCAC	20	0.5	No Hit
GAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	19	0.475	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
ATCCTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTC	14	0.35000000000000003	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
CATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAA	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTC	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GGGGATGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACGTT	13	0.325	TruSeq Adapter, Index 9 (97% over 36bp)
GCGACCCCAGGTCAGTCGGGACTAGATCGGAAGAGCACACGTCTGAACTC	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
AACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACGTTT	13	0.325	TruSeq Adapter, Index 21 (100% over 37bp)
ACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACG	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
ACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTC	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
TGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGC	11	0.27499999999999997	No Hit
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCAGATCGGAAGAGCACAC	11	0.27499999999999997	No Hit
GAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTC	11	0.27499999999999997	No Hit
ATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACGTTTCGAT	11	0.27499999999999997	TruSeq Adapter, Index 21 (97% over 41bp)
CACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTCCA	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCAGATCGGAAGAGCACACGTC	10	0.25	No Hit
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGAGATCGGAAGAGCACACGT	10	0.25	No Hit
AACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACG	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCAGATCGGAAGAGCACACG	9	0.22499999999999998	No Hit
GATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACGTTTCGA	9	0.22499999999999998	TruSeq Adapter, Index 21 (97% over 39bp)
CCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTC	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
CAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCAC	9	0.22499999999999998	No Hit
TCCGTTGTAGTCTAGTTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	9	0.22499999999999998	No Hit
TCCGTTGTAGTCTAGTTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCCAGATCGGAAGAGCACA	8	0.2	No Hit
TAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAG	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
AAGATACGGGTTCGATTCCCGTCGCTCGCCCCAAGATCGGAAGAGCACAC	8	0.2	No Hit
GGAGGTCCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCAC	8	0.2	No Hit
CCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCT	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
CACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCAGATCGGAAGAGC	8	0.2	No Hit
AACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGT	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GCACCAGTAGTCTAGTGGTAGAATAGTACCCAGATCGGAAGAGCACACGT	7	0.17500000000000002	No Hit
ACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACGTTTC	7	0.17500000000000002	TruSeq Adapter, Index 21 (100% over 38bp)
TCCGTTGTAGTCTAGCTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	7	0.17500000000000002	No Hit
GCGACCCCAGGTCAGTCGGGACTACCCGCTAGATCGGAAGAGCACACGTC	7	0.17500000000000002	No Hit
ACACATGCAAATCTAACGAAGTGCTCCTGGACGAGATCGGAAGAGCACAC	6	0.15	No Hit
CAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
TGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGT	6	0.15	No Hit
TTTGGATTGAAGGGAGCTCTGAGATCGGAAGAGCACACGTCTGAACTCCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
CACGACTCTCGGCAACGGATATCAGATCGGAAGAGCACACGTCTGAACTC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
CTAACGAACGAACGATTTGAATAGATCGGAAGAGCACACGTCTGAACTCC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GCCGCCATGGTGAAATTGGTAGACACGCTGCTCTTAGATCGGAAGAGCAC	6	0.15	No Hit
GCCCCCATCGTCTAGTGGTTCAGGACAAGATCGGAAGAGCACACGTCTGA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
CGACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
CGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACGT	5	0.125	TruSeq Adapter, Index 1 (97% over 35bp)
CGACACGACTCTCGGCAACGAGATCGGAAGAGCACACGTCTGAACTCCAG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
AAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAACTCCAG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GGGCATTTGGTCTAGTGGTATGATTCTCAGATCGGAAGAGCACACGTCTG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
TAAGTAGTAAGCCCACCCCAAGATGAGTGCTCTCTCAGATCGGAAGAGCA	5	0.125	No Hit
TGAGGCATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTC	5	0.125	No Hit
GCGTTTGTAGTCCAACGGTTAGGATAATTGCCAGATCGGAAGAGCACACG	5	0.125	No Hit
ATCCTAACGAACGAACGATTAGATCGGAAGAGCACACGTCTGAACTCCAG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GACACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCAGATCGGAAGA	5	0.125	No Hit
TCCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTC	5	0.125	No Hit
CACGACTCTCGGCAACGGATATCTCGGCAGATCGGAAGAGCACACGTCTG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
ACACGACTCTCGGCAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTAGATCGGAAGAGCA	5	0.125	No Hit
TATTCTGGTGTCCTAGGCGTAGAGGAACCACAAGATCGGAAGAGCACACG	5	0.125	No Hit
GCGAGCGTAGTTCAGTGGTAAAACATCTCCTTGCCAAGGAGATCGGAAGA	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	0.025	0.0	0.0	0.0	0.0
2	0.05	0.0	0.0	0.0	0.0
3	0.075	0.0	0.0	0.0	0.0
4	0.075	0.0	0.0	0.0	0.0
5	0.075	0.0	0.0	0.0	0.0
6	0.1	0.0	0.0	0.0	0.0
7	0.175	0.0	0.0	0.0	0.0
8	0.3	0.0	0.0	0.0	0.0
9	0.675	0.0	0.0	0.0	0.0
10	1.025	0.0	0.0	0.0	0.0
11	1.3	0.0	0.0	0.0	0.0
12	1.925	0.0	0.0	0.0	0.0
13	2.7	0.0	0.0	0.0	0.0
14	3.825	0.0	0.0	0.0	0.0
15	4.875	0.0	0.0	0.0	0.0
16	6.2	0.0	0.0	0.0	0.0
17	8.4	0.0	0.0	0.0	0.0
18	11.625	0.0	0.0	0.0	0.0
19	13.4	0.0	0.0	0.0	0.0
20	16.75	0.0	0.0	0.0	0.0
21	20.9	0.0	0.0	0.0	0.0
22	26.825	0.0	0.0	0.0	0.0
23	37.225	0.0	0.0	0.0	0.0
24	40.625	0.0	0.0	0.0	0.0
25	48.55	0.0	0.0	0.0	0.0
26	54.375	0.0	0.0	0.0	0.0
27	56.75	0.0	0.0	0.0	0.0
28	60.35	0.0	0.0	0.0	0.0
29	63.15	0.0	0.0	0.0	0.0
30	65.8	0.0	0.0	0.0	0.0
31	69.7	0.0	0.0	0.0	0.0
32	72.75	0.0	0.0	0.0	0.0
33	75.85	0.0	0.0	0.0	0.0
34	78.675	0.0	0.0	0.0	0.0
35	80.55	0.0	0.0	0.0	0.0
36	83.525	0.0	0.0	0.0	0.0
37	85.4	0.0	0.0	0.0	0.0
38	87.225	0.0	0.0	0.0	0.0
39	88.35	0.0	0.0	0.0	0.0
40	89.2	0.0	0.0	0.0	0.0
41	90.0	0.0	0.0	0.0	0.0
42	91.625	0.0	0.0	0.0	0.0
43	92.175	0.0	0.0	0.0	0.0
44	92.475	0.0	0.0	0.0	0.0
45	92.7	0.0	0.0	0.0	0.0
46	92.975	0.0	0.0	0.0	0.0
47	93.15	0.0	0.0	0.0	0.0
48	93.25	0.0	0.0	0.0	0.0
49	93.325	0.0	0.0	0.0	0.0
50	93.425	0.0	0.0	0.0	0.0
51	93.45	0.0	0.0	0.0	0.0
52	93.525	0.0	0.0	0.0	0.0
53	93.55	0.0	0.0	0.0	0.0
54	93.55	0.0	0.0	0.0	0.0
55	93.55	0.0	0.0	0.0	0.0
56	93.575	0.0	0.0	0.0	0.0
57	93.575	0.0	0.0	0.0	0.0
58	93.575	0.0	0.0	0.0	0.0
59	93.6	0.0	0.0	0.0	0.0
60	93.6	0.0	0.0	0.0	0.0
61	93.6	0.0	0.0	0.0	0.0
62	93.6	0.0	0.0	0.0	0.0
63	93.6	0.0	0.0	0.0	0.0
64	93.6	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
GCACCAG	15	0.0020658788	70.00001	1
CACCAGT	20	0.0064587677	52.5	2
CTAACGA	110	0.0	41.363636	1
TCTTCTG	35	0.00111172	40.000004	70
TAACGAA	115	0.0	39.565216	2
GAACGAA	135	0.0	33.703705	6
TTGAACA	115	1.8189894E-11	33.47826	17
TGAACAG	115	1.8189894E-11	33.47826	18
TTTGAAC	120	2.910383E-11	32.083336	16
ACAGATC	120	2.910383E-11	32.083336	21
GAACAGA	120	2.910383E-11	32.083336	19
AACGATT	145	0.0	31.379313	11
GAACGAT	145	0.0	31.379313	10
GATTTGA	145	0.0	31.379313	14
ATTTGAA	145	0.0	31.379313	15
ACGATTT	145	0.0	31.379313	12
CGATTTG	145	0.0	31.379313	13
AACAGAT	125	4.7293724E-11	30.8	20
ATGCCGT	160	0.0	28.4375	70
TATGCCG	185	5.456968E-12	24.594595	69
>>END_MODULE
Rejected 356551 READS because READLEN < 1
Read 356551 spots for SRR11699620.sra
Written 356551 spots for SRR11699620.sra
Rejected 356551 READS because READLEN < 1
Read 356551 spots for SRR11699620.sra
Written 356551 spots for SRR11699620.sra
Rejected 356551 READS because READLEN < 1
Read 356551 spots for SRR11699620.sra
Written 356551 spots for SRR11699620.sra
Rejected 356551 READS because READLEN < 1
Read 356551 spots for SRR11699620.sra
Written 356551 spots for SRR11699620.sra
Rejected 356551 READS because READLEN < 1
Read 356551 spots for SRR11699620.sra
Written 356551 spots for SRR11699620.sra
Rejected 356551 READS because READLEN < 1
Read 356551 spots for SRR11699620.sra
Written 356551 spots for SRR11699620.sra
Rejected 356551 READS because READLEN < 1
Read 356551 spots for SRR11699620.sra
Written 356551 spots for SRR11699620.sra
Rejected 356551 READS because READLEN < 1
Read 356551 spots for SRR11699620.sra
Written 356551 spots for SRR11699620.sra
Rejected 356551 READS because READLEN < 1
Read 356551 spots for SRR11699620.sra
Written 356551 spots for SRR11699620.sra
Rejected 356551 READS because READLEN < 1
Read 356551 spots for SRR11699620.sra
Written 356551 spots for SRR11699620.sra
Rejected 356551 READS because READLEN < 1
Read 356551 spots for SRR11699620.sra
Written 356551 spots for SRR11699620.sra
Rejected 356551 READS because READLEN < 1
Read 356551 spots for SRR11699620.sra
Written 356551 spots for SRR11699620.sra
Rejected 356551 READS because READLEN < 1
Read 356551 spots for SRR11699620.sra
Written 356551 spots for SRR11699620.sra
Rejected 356551 READS because READLEN < 1
Read 356551 spots for SRR11699620.sra
Written 356551 spots for SRR11699620.sra
Rejected 356551 READS because READLEN < 1
Read 356551 spots for SRR11699620.sra
Written 356551 spots for SRR11699620.sra
Rejected 356554 READS because READLEN < 1
Read 356554 spots for SRR11699620.sra
Written 356554 spots for SRR11699620.sra
Rejected 356551 READS because READLEN < 1
Read 356551 spots for SRR11699620.sra
Written 356551 spots for SRR11699620.sra
Rejected 356551 READS because READLEN < 1
Read 356551 spots for SRR11699620.sra
Written 356551 spots for SRR11699620.sra
Rejected 356551 READS because READLEN < 1
Read 356551 spots for SRR11699620.sra
Written 356551 spots for SRR11699620.sra
Rejected 356551 READS because READLEN < 1
Read 356551 spots for SRR11699620.sra
Written 356551 spots for SRR11699620.sra
SRR ids: ['SRR11699620.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_i04zglh9
SRR11699620.sra spots: 7131023
blocks: [[1, 356551], [356552, 713102], [713103, 1069653], [1069654, 1426204], [1426205, 1782755], [1782756, 2139306], [2139307, 2495857], [2495858, 2852408], [2852409, 3208959], [3208960, 3565510], [3565511, 3922061], [3922062, 4278612], [4278613, 4635163], [4635164, 4991714], [4991715, 5348265], [5348266, 5704816], [5704817, 6061367], [6061368, 6417918], [6417919, 6774469], [6774470, 7131023]]
SRR11699620 file size 1355789
SRR11699620 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 SRR11699620 SRR11699620_1.fastq
Input file:	SRR11699620_1.fastq
trimmed:	SRR11699620-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 11:42:24 2025 >> started

Sat Jun 21 11:42:29 2025 >> done (4.976s)
7131023 reads processed; of these:
1204643 (16.89%) short reads filtered out after trimming by size control
   3144 ( 0.04%) empty reads filtered out after trimming by size control
5923236 (83.06%) reads available; of these:
5837145 (98.55%) trimmed reads available after processing
  86091 ( 1.45%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	 176686	  2.98%
 19	 272313	  4.60%
 20	 317070	  5.35%
 21	 456457	  7.71%
 22	 731332	 12.35%
 23	 269723	  4.55%
 24	 537906	  9.08%
 25	 360355	  6.08%
 26	 207941	  3.51%
 27	 243901	  4.12%
 28	 173014	  2.92%
 29	 184698	  3.12%
 30	 277354	  4.68%
 31	 219510	  3.71%
 32	 228503	  3.86%
 33	 211277	  3.57%
 34	 159691	  2.70%
 35	 197667	  3.34%
 36	 133889	  2.26%
 37	  99818	  1.69%
 38	  71217	  1.20%
 39	  67519	  1.14%
 40	  49267	  0.83%
 41	 110919	  1.87%
 42	  35872	  0.61%
 43	  26385	  0.45%
 44	  16856	  0.28%
 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	      2	  0.00%
 75	      1	  0.00%
 76	  86091	  1.45%
5923236 reads passed initial QC


criterion=sequence-density
sequence-density=3.79
sequence-density-rank=1
fanout-score=1.00
fanout-score-rank=15
prefix-density=0.01
prefix-fanout=1.0
sequence=TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTCACCCGAAAGACCCGGGTT


criterion=fanout-score
sequence-density=0.49
sequence-density-rank=13
fanout-score=15.18
fanout-score-rank=1
prefix-density=1.63
prefix-fanout=4.6
sequence=GTCTAGTGGTATGATTCTCGCTT
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 11:42:52
                             Started mapping on |	Jun 21 11:42:53
                                    Finished on |	Jun 21 11:43:10
       Mapping speed, Million of reads per hour |	1254.33

                          Number of input reads |	5923236
                      Average input read length |	27
                                    UNIQUE READS:
                   Uniquely mapped reads number |	449536
                        Uniquely mapped reads % |	7.59%
                          Average mapped length |	24.13
                       Number of splices: Total |	10754
            Number of splices: Annotated (sjdb) |	4689
                       Number of splices: GT/AG |	9836
                       Number of splices: GC/AG |	658
                       Number of splices: AT/AC |	7
               Number of splices: Non-canonical |	253
                      Mismatch rate per base, % |	1.12%
                         Deletion rate per base |	0.01%
                        Deletion average length |	1.28
                        Insertion rate per base |	0.01%
                       Insertion average length |	1.13
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	623066
             % of reads mapped to multiple loci |	10.52%
        Number of reads mapped to too many loci |	1207890
             % of reads mapped to too many loci |	20.39%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	5.84%
                     % of reads unmapped: other |	55.66%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	4850634	4850634	4850634
N_multimapping	623066	623066	623066
N_noFeature	369880	382386	434654
N_ambiguous	2429	38	24
UnstrandedReadsAssigned:77227 PositiveStrandReadsAssigned:67112 NegativeStrandReadsAssigned:14858
Dataset is classified unstranded
MeadianReadLen=25 20thPercentileLength=21 echo kmer=19
SRR11699620 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: SRR11699620-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 5,923,236 reads, 1,061,549 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 849 rounds

  72540 SRR11699620.ke.tsv
  44303 SRR11699620.se.tsv
 116843 total
==> SRR11699620.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Zm00001eb096110_T001	2067	1968	0	0
Zm00001eb321680_T001	3417	3318	2	0.594576
Zm00001eb323640_T001	3273	3174	0	0
Zm00001eb314140_T001	893	794	1	1.24232
Zm00001eb080260_T001	3529	3430	0	0
Zm00001eb026490_T001	2433	2334	1	0.422623
Zm00001eb026490_T002	2229	2130	0	0
Zm00001eb026490_T003	2220	2121	0	0
Zm00001eb281360_T001	2412	2313	0	0

==> SRR11699620.se.tsv <==
Zm00001eb015280	0
Zm00001eb000610	0
Zm00001eb033210	1
Zm00001eb044610	0
Zm00001eb014360	0
Zm00001eb051320	0
Zm00001eb021860	0
Zm00001eb011690	0
Zm00001eb016840	0
Zm00001eb052060	0
SRR11699620 completed mapping pipeline successfully
