Starting /dee2/code/volunteer_pipeline.sh SRR11699521
    current disk space = 2376658350080
    free memory = 1364617944 
SRR11699521 SRAfilesize
dd0698aaf8be6653d4ae6a7a9c76f524  SRR11699521.sra
SRR11699521.sra file validated
SRR11699521 is single end
SRR11699521 is conventional basespace
SRR11699521 read1 length is 76 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR11699521_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	53
>>END_MODULE
>>Per base sequence quality	fail
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	31.2325	32.0	32.0	32.0	32.0	32.0
2	31.34	32.0	32.0	32.0	32.0	32.0
3	31.50675	32.0	32.0	32.0	32.0	32.0
4	31.50775	32.0	32.0	32.0	32.0	32.0
5	31.44325	32.0	32.0	32.0	32.0	32.0
6	35.0755	36.0	36.0	36.0	36.0	36.0
7	35.136	36.0	36.0	36.0	36.0	36.0
8	35.044	36.0	36.0	36.0	36.0	36.0
9	35.00525	36.0	36.0	36.0	36.0	36.0
10-11	35.02075	36.0	36.0	36.0	36.0	36.0
12-13	35.104749999999996	36.0	36.0	36.0	36.0	36.0
14-15	35.020375	36.0	36.0	36.0	36.0	36.0
16-17	35.127375	36.0	36.0	36.0	36.0	36.0
18-19	35.1855	36.0	36.0	36.0	36.0	36.0
20-21	34.9875	36.0	36.0	36.0	36.0	36.0
22-23	34.928375	36.0	36.0	36.0	36.0	36.0
24-25	34.9755	36.0	36.0	36.0	36.0	36.0
26-27	34.84975	36.0	36.0	36.0	34.0	36.0
28-29	34.773375	36.0	36.0	36.0	32.0	36.0
30-31	34.858625	36.0	36.0	36.0	34.0	36.0
32-33	34.8755	36.0	36.0	36.0	36.0	36.0
34-35	34.9055	36.0	36.0	36.0	36.0	36.0
36-37	34.98425	36.0	36.0	36.0	36.0	36.0
38-39	34.80525	36.0	36.0	36.0	34.0	36.0
40-41	34.827124999999995	36.0	36.0	36.0	36.0	36.0
42-43	34.73725	36.0	36.0	36.0	34.0	36.0
44-45	34.624875	36.0	36.0	36.0	32.0	36.0
46-47	34.791875	36.0	36.0	36.0	36.0	36.0
48-49	34.671499999999995	36.0	36.0	36.0	34.0	36.0
50-51	34.435874999999996	36.0	36.0	36.0	32.0	36.0
52-53	34.445375	36.0	36.0	36.0	32.0	36.0
54-55	34.2755	36.0	36.0	36.0	32.0	36.0
56-57	33.69375	36.0	36.0	36.0	27.0	36.0
58-59	33.40175	36.0	36.0	36.0	27.0	36.0
60-61	33.114625000000004	36.0	36.0	36.0	20.5	36.0
62-63	32.445625	36.0	34.0	36.0	14.0	36.0
64-65	31.417375	36.0	32.0	36.0	14.0	36.0
66-67	29.406	36.0	24.0	36.0	14.0	36.0
68-69	27.570500000000003	32.0	14.0	36.0	14.0	36.0
70-71	26.822125	32.0	14.0	36.0	14.0	36.0
72-73	25.173375	27.0	14.0	36.0	14.0	36.0
74-75	23.808	17.5	14.0	36.0	14.0	36.0
76	23.04575	21.0	14.0	32.0	14.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
19	1.0
20	1.0
21	2.0
22	5.0
23	10.0
24	20.0
25	26.0
26	39.0
27	73.0
28	109.0
29	147.0
30	229.0
31	338.0
32	556.0
33	619.0
34	777.0
35	1048.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	27.200000000000003	27.35	28.325	17.125
2	24.425	25.900000000000002	19.5	30.175
3	25.624999999999996	24.775	19.575	30.025000000000002
4	33.0	28.125	18.525	20.349999999999998
5	20.1	23.5	30.4	26.0
6	23.375	20.625	33.074999999999996	22.925
7	38.9	27.175	18.875	15.049999999999999
8	23.7	21.05	37.824999999999996	17.424999999999997
9	22.975	36.5	21.099999999999998	19.425
10-11	34.050000000000004	22.0875	26.5125	17.349999999999998
12-13	20.375	19.725	28.199999999999996	31.7
14-15	30.062499999999996	37.5375	17.0375	15.3625
16-17	24.099999999999998	21.325	32.65	21.925
18-19	42.4625	20.3125	20.3375	16.8875
20-21	22.3875	28.4375	28.3375	20.837500000000002
22-23	32.4	36.3125	15.3375	15.950000000000001
24-25	28.799999999999997	36.6875	16.400000000000002	18.1125
26-27	24.0125	32.3125	22.325	21.349999999999998
28-29	26.3125	23.5	22.287499999999998	27.900000000000002
30-31	32.6125	29.975	14.662500000000001	22.75
32-33	28.65	34.887499999999996	14.424999999999999	22.037499999999998
34-35	29.862499999999997	29.225	18.125	22.787499999999998
36-37	30.95	33.9875	12.5	22.5625
38-39	26.75	37.737500000000004	12.4	23.1125
40-41	27.1	32.7	14.249999999999998	25.95
42-43	33.1625	28.6125	15.587500000000002	22.6375
44-45	24.7375	34.8375	14.174999999999999	26.25
46-47	25.474999999999998	35.1875	11.6875	27.650000000000002
48-49	21.925	30.2	14.762500000000001	33.1125
50-51	16.675	30.2375	16.8375	36.25
52-53	21.8125	27.55	16.2	34.4375
54-55	21.175	24.7875	19.325	34.7125
56-57	17.849999999999998	26.1625	18.087500000000002	37.9
58-59	17.5375	28.4125	13.450000000000001	40.6
60-61	20.3875	24.8625	15.937499999999998	38.8125
62-63	21.837500000000002	22.525000000000002	15.775	39.8625
64-65	21.85	23.95	15.2125	38.987500000000004
66-67	25.2625	16.925	22.325	35.4875
68-69	27.8375	18.787499999999998	19.0125	34.362500000000004
70-71	29.1375	17.075000000000003	20.724999999999998	33.0625
72-73	23.25	13.9625	25.674999999999997	37.1125
74-75	29.7	11.1	25.9875	33.2125
76	28.249999999999996	12.4	27.325	32.025
>>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	0.0
33	0.0
34	0.0
35	0.5
36	0.5
37	0.0
38	1.0
39	4.0
40	8.5
41	16.0
42	21.0
43	21.0
44	26.0
45	55.0
46	79.0
47	94.0
48	160.5
49	234.5
50	257.0
51	321.5
52	531.0
53	673.5
54	671.0
55	625.5
56	454.0
57	276.5
58	225.0
59	184.5
60	120.5
61	76.0
62	55.0
63	45.5
64	27.0
65	15.5
66	11.0
67	9.0
68	6.5
69	3.5
70	2.0
71	1.0
72	0.5
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	0.5
83	1.0
84	0.5
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	0.5
94	0.5
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	66.975
#Duplication Level	Percentage of deduplicated	Percentage of total
1	88.68980963045912	59.4
2	5.412467338559164	7.249999999999999
3	1.8663680477790219	3.75
4	1.0824934677118327	2.9000000000000004
5	0.4479283314669653	1.5
6	0.7092198581560284	2.85
7	0.3732736095558044	1.7500000000000002
8	0.22396416573348266	1.2
9	0.0	0.0
>10	1.007838745800672	10.125
>50	0.1866368047779022	9.275
>100	0.0	0.0
>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	98	2.45	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TCCGTTGTAGTCTAGCTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	92	2.3	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGAGATCGGAAGAGCAC	75	1.875	No Hit
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTAGATCGGAAGAGCA	55	1.375	No Hit
TCCGTTGTAGTCTAGCTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	51	1.275	No Hit
GCGAGCGTAGTTCAGTGGTAAAACATCTCCTTGCCAAGGAGAGATCGGAA	32	0.8	No Hit
ATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAAC	27	0.675	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
GCCGCCATGGTGAAATTGGTAGACACGCTGCTCTTAGATCGGAAGAGCAC	20	0.5	No Hit
TCCGTTGTAGTCTAGTTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	20	0.5	No Hit
AACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAG	20	0.5	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACT	19	0.475	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTGAGATCGGAAGAGCAC	19	0.475	No Hit
GCGTCTGTAGTCCAACGGTTAGGATAATTGCCAGATCGGAAGAGCACACG	18	0.44999999999999996	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCAGATCGGAAGAGCACAC	18	0.44999999999999996	No Hit
GAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	17	0.42500000000000004	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAGATCGGAAGAGCACA	13	0.325	No Hit
TCCGTTGTAGTCTAGCTGGTCAGGATATTCAGATCGGAAGAGCACACGTC	13	0.325	No Hit
CTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCA	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCACAAGATCGGAAGAGCACACG	13	0.325	No Hit
GCAGTGATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAG	12	0.3	No Hit
ACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTGTAGATCGGAAGAGCA	12	0.3	No Hit
CAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCAC	12	0.3	No Hit
AACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACC	11	0.27499999999999997	TruSeq Adapter, Index 7 (97% over 35bp)
CTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAG	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCA	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTC	11	0.27499999999999997	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTAGATCGGAAGAGCA	11	0.27499999999999997	No Hit
GCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACAC	10	0.25	No Hit
GCCCCCATCGTCTAGTGGTTCAGGACATCTCTCTTTAGATCGGAAGAGCA	10	0.25	No Hit
GGGGATGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAC	10	0.25	TruSeq Adapter, Index 7 (97% over 35bp)
AACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGC	8	0.2	No Hit
GACACGACTCTCGGCAACGGATATCTCGGCAGATCGGAAGAGCACACGTC	8	0.2	No Hit
ATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGA	8	0.2	No Hit
GACACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCAGATCGGAAGA	8	0.2	No Hit
TAATTCATGATCTGGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
CACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCAGATCGGAAGAGC	8	0.2	No Hit
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGAGATCGGAAGAGCACACG	7	0.17500000000000002	No Hit
TGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGT	7	0.17500000000000002	No Hit
TCAAAAGAGGAAAGGCTTGCGGTGGATACCTAGGCACCCAGAGATCGGAA	7	0.17500000000000002	No Hit
TATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGA	7	0.17500000000000002	No Hit
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCCAGATCGGAAGAGCA	7	0.17500000000000002	No Hit
CTAACGAACGAACGATTTGAATAGATCGGAAGAGCACACGTCTGAACTCC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
AGGGCTATAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAC	7	0.17500000000000002	TruSeq Adapter, Index 7 (97% over 35bp)
TCCGTTGTAGTCTAGCTGGTCAGGATACTTAGATCGGAAGAGCACACGTC	7	0.17500000000000002	No Hit
GACACGACTCTCGGCAACGGATATCTCGAGATCGGAAGAGCACACGTCTG	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
GATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGG	7	0.17500000000000002	No Hit
GGGTCGATGCCCGAGCGGTTAATGGGGACGGACTGTAGATCGGAAGAGCA	6	0.15	No Hit
ACACATGCAAATCTAACGAAGTGCTCCTGGACGAGATCGGAAGAGCACAC	6	0.15	No Hit
TACCTGGTTGATCCTGCCAGTAGTCATATGCTTGTCTCAAGATCGGAAGA	6	0.15	No Hit
ATACTGTAGGGGAGGTCCTGCGGCAAAATAGCTCGATGCCAGAATAGATC	6	0.15	No Hit
CCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCGGA	6	0.15	TruSeq Adapter, Index 7 (97% over 35bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCAGATCGGAAGAGCACAC	6	0.15	No Hit
AAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
CATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
GAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAGGTAAAGCCCTACAG	6	0.15	No Hit
TGCCACGATCCACTGAGATCCAGCCCCGCGTCGCACGGATTCGTAGATCG	6	0.15	No Hit
GAGAATTTCTGGAAGGGCTCCCTCTCTTCGGAGAGGGTAAAGCCCTACAG	6	0.15	No Hit
GCACCAGTGGTCTAGTGGTAGAATAAGATCGGAAGAGCACACGTCTGAAC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
CGACACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCAGATCGGAAG	6	0.15	No Hit
TACCTGGTTGATCCTGCCAGTAGTCATATGCTTGTCTAGATCGGAAGAGC	6	0.15	No Hit
ATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCACCGGAT	6	0.15	TruSeq Adapter, Index 7 (97% over 35bp)
CCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
GCGTCTGTAGTCCAACGGTTAGGATAATTGCTAGATCGGAAGAGCACACG	6	0.15	No Hit
GGCGGATGTAGCCAAGTGGATCAAGGCAGTGGATTGTGAGATCGGAAGAG	6	0.15	No Hit
TCCGTTGTAGTCTAGGTGGTTAGGATACTCAGATCGGAAGAGCACACGTC	5	0.125	No Hit
AGGGATGTAGCGCAGCTTGGTAGCTTTTGTTTTAGATCGGAAGAGCACAC	5	0.125	No Hit
TATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAATCCATCCCGAATTT	5	0.125	No Hit
ACACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCAGATCGGAAGAG	5	0.125	No Hit
ATATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAGATCGGAAGAGCAC	5	0.125	No Hit
CACGACTCTCGGCAACGGATATCTCGAGATCGGAAGAGCACACGTCTGAA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
CAGTGATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGA	5	0.125	No Hit
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTAGATCGGAAGAGCACA	5	0.125	No Hit
TCCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTC	5	0.125	No Hit
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGAGATCGGAAGAGCACACGT	5	0.125	No Hit
TCCGTTGTAGTCTAGCTGGTCAGGATAGATCGGAAGAGCACACGTCTGAA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
ACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
>>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	0.1	0.0	0.0	0.0	0.0
2	0.125	0.0	0.0	0.0	0.0
3	0.15	0.0	0.0	0.0	0.0
4	0.15	0.0	0.0	0.0	0.0
5	0.2	0.0	0.0	0.0	0.0
6	0.225	0.0	0.0	0.0	0.0
7	0.275	0.0	0.0	0.0	0.0
8	0.375	0.0	0.0	0.0	0.0
9	0.675	0.0	0.0	0.0	0.0
10	0.95	0.0	0.0	0.0	0.0
11	1.125	0.0	0.0	0.0	0.0
12	1.325	0.0	0.0	0.0	0.0
13	1.775	0.0	0.0	0.0	0.0
14	2.65	0.0	0.0	0.0	0.0
15	3.275	0.0	0.0	0.0	0.0
16	3.825	0.0	0.0	0.0	0.0
17	5.175	0.0	0.0	0.0	0.0
18	6.25	0.0	0.0	0.0	0.0
19	7.05	0.0	0.0	0.0	0.0
20	8.875	0.0	0.0	0.0	0.0
21	10.75	0.0	0.0	0.0	0.0
22	13.175	0.0	0.0	0.0	0.0
23	18.675	0.0	0.0	0.0	0.0
24	20.775	0.0	0.0	0.0	0.0
25	29.025	0.0	0.0	0.0	0.0
26	31.625	0.0	0.0	0.0	0.0
27	34.15	0.0	0.0	0.0	0.0
28	39.0	0.0	0.0	0.0	0.0
29	41.0	0.0	0.0	0.0	0.0
30	43.55	0.0	0.0	0.0	0.0
31	49.475	0.0	0.0	0.0	0.0
32	52.675	0.0	0.0	0.0	0.0
33	55.9	0.0	0.0	0.0	0.0
34	59.35	0.0	0.0	0.0	0.0
35	62.55	0.0	0.0	0.0	0.0
36	69.15	0.0	0.0	0.0	0.0
37	75.25	0.0	0.0	0.0	0.0
38	78.05	0.0	0.0	0.0	0.0
39	79.975	0.0	0.0	0.0	0.0
40	82.05	0.0	0.0	0.0	0.0
41	83.5	0.0	0.0	0.0	0.0
42	86.0	0.0	0.0	0.0	0.0
43	86.975	0.0	0.0	0.0	0.0
44	88.075	0.0	0.0	0.0	0.0
45	88.775	0.0	0.0	0.0	0.0
46	89.975	0.0	0.0	0.0	0.0
47	90.8	0.0	0.0	0.0	0.0
48	91.575	0.0	0.0	0.0	0.0
49	92.85	0.0	0.0	0.0	0.0
50	93.4	0.0	0.0	0.0	0.0
51	93.825	0.0	0.0	0.0	0.0
52	94.075	0.0	0.0	0.0	0.0
53	94.325	0.0	0.0	0.0	0.0
54	94.425	0.0	0.0	0.0	0.0
55	94.45	0.0	0.0	0.0	0.0
56	94.5	0.0	0.0	0.0	0.0
57	94.55	0.0	0.0	0.0	0.0
58	94.6	0.0	0.0	0.0	0.0
59	94.625	0.0	0.0	0.0	0.0
60	94.625	0.0	0.0	0.0	0.0
61	94.65	0.0	0.0	0.0	0.0
62	94.65	0.0	0.0	0.0	0.0
63	94.675	0.0	0.0	0.0	0.0
64	94.675	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
CGACACG	15	0.0020658788	70.00001	1
GTAGAGG	15	0.0020658788	70.00001	19
GTGTCCT	15	0.0020658788	70.00001	8
GATATTC	15	0.0020658788	70.00001	24
GAGGAAC	15	0.0020658788	70.00001	22
TGTCCTA	15	0.0020658788	70.00001	9
TTGTAGT	45	3.6379788E-12	70.00001	5
TCCTAGG	15	0.0020658788	70.00001	11
TCTGGTG	15	0.0020658788	70.00001	4
AGGATAT	15	0.0020658788	70.00001	22
AGGATAC	15	0.0020658788	70.00001	22
GGCGTAG	15	0.0020658788	70.00001	16
AGAGGAA	15	0.0020658788	70.00001	21
TTCTGGT	15	0.0020658788	70.00001	3
GGATTGT	15	0.0020658788	70.00001	2
AGGCGTA	15	0.0020658788	70.00001	15
AGGAACC	15	0.0020658788	70.00001	23
CCGTTGT	30	7.878043E-8	70.00001	2
TAGTCTA	35	2.6138878E-9	70.00001	8
CGTAGAG	15	0.0020658788	70.00001	18
>>END_MODULE
Rejected 225904 READS because READLEN < 1
Read 225904 spots for SRR11699521.sra
Written 225904 spots for SRR11699521.sra
Rejected 225904 READS because READLEN < 1
Read 225904 spots for SRR11699521.sra
Written 225904 spots for SRR11699521.sra
Rejected 225904 READS because READLEN < 1
Read 225904 spots for SRR11699521.sra
Written 225904 spots for SRR11699521.sra
Rejected 225904 READS because READLEN < 1
Read 225904 spots for SRR11699521.sra
Written 225904 spots for SRR11699521.sra
Rejected 225904 READS because READLEN < 1
Read 225904 spots for SRR11699521.sra
Written 225904 spots for SRR11699521.sra
Rejected 225904 READS because READLEN < 1
Read 225904 spots for SRR11699521.sra
Written 225904 spots for SRR11699521.sra
Rejected 225904 READS because READLEN < 1
Read 225904 spots for SRR11699521.sra
Written 225904 spots for SRR11699521.sra
Rejected 225904 READS because READLEN < 1
Read 225904 spots for SRR11699521.sra
Written 225904 spots for SRR11699521.sra
Rejected 225904 READS because READLEN < 1
Read 225904 spots for SRR11699521.sra
Written 225904 spots for SRR11699521.sra
Rejected 225904 READS because READLEN < 1
Read 225904 spots for SRR11699521.sra
Written 225904 spots for SRR11699521.sra
Rejected 225904 READS because READLEN < 1
Read 225904 spots for SRR11699521.sra
Written 225904 spots for SRR11699521.sra
Rejected 225904 READS because READLEN < 1
Read 225904 spots for SRR11699521.sra
Written 225904 spots for SRR11699521.sra
Rejected 225904 READS because READLEN < 1
Read 225904 spots for SRR11699521.sra
Written 225904 spots for SRR11699521.sra
Rejected 225915 READS because READLEN < 1
Read 225915 spots for SRR11699521.sra
Written 225915 spots for SRR11699521.sra
Rejected 225904 READS because READLEN < 1
Read 225904 spots for SRR11699521.sra
Written 225904 spots for SRR11699521.sra
Rejected 225904 READS because READLEN < 1
Read 225904 spots for SRR11699521.sra
Written 225904 spots for SRR11699521.sra
Rejected 225904 READS because READLEN < 1
Read 225904 spots for SRR11699521.sra
Written 225904 spots for SRR11699521.sra
Rejected 225904 READS because READLEN < 1
Read 225904 spots for SRR11699521.sra
Written 225904 spots for SRR11699521.sra
Rejected 225904 READS because READLEN < 1
Read 225904 spots for SRR11699521.sra
Written 225904 spots for SRR11699521.sra
Rejected 225904 READS because READLEN < 1
Read 225904 spots for SRR11699521.sra
Written 225904 spots for SRR11699521.sra
SRR ids: ['SRR11699521.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_rdx6lu09
SRR11699521.sra spots: 4518091
blocks: [[1, 225904], [225905, 451808], [451809, 677712], [677713, 903616], [903617, 1129520], [1129521, 1355424], [1355425, 1581328], [1581329, 1807232], [1807233, 2033136], [2033137, 2259040], [2259041, 2484944], [2484945, 2710848], [2710849, 2936752], [2936753, 3162656], [3162657, 3388560], [3388561, 3614464], [3614465, 3840368], [3840369, 4066272], [4066273, 4292176], [4292177, 4518091]]
SRR11699521 file size 858209
SRR11699521 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 SRR11699521 SRR11699521_1.fastq
Input file:	SRR11699521_1.fastq
trimmed:	SRR11699521-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
Thu Jul  3 17:52:28 2025 >> started

Thu Jul  3 17:52:31 2025 >> done (2.908s)
4518091 reads processed; of these:
 335557 ( 7.43%) short reads filtered out after trimming by size control
   6177 ( 0.14%) empty reads filtered out after trimming by size control
4176357 (92.44%) reads available; of these:
3892742 (93.21%) trimmed reads available after processing
 283615 ( 6.79%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  50162	  1.20%
 19	  75370	  1.80%
 20	  85882	  2.06%
 21	 132055	  3.16%
 22	 253038	  6.06%
 23	 108703	  2.60%
 24	 343836	  8.23%
 25	 138012	  3.30%
 26	 110498	  2.65%
 27	 227882	  5.46%
 28	 100641	  2.41%
 29	 121972	  2.92%
 30	 259134	  6.20%
 31	 142497	  3.41%
 32	 152877	  3.66%
 33	 173025	  4.14%
 34	 164943	  3.95%
 35	 304245	  7.28%
 36	 274234	  6.57%
 37	 120431	  2.88%
 38	  94414	  2.26%
 39	  95014	  2.28%
 40	  77840	  1.86%
 41	 118777	  2.84%
 42	  67651	  1.62%
 43	  56246	  1.35%
 44	  43353	  1.04%
 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	      1	  0.00%
 73	      0	  0.00%
 74	      0	  0.00%
 75	      9	  0.00%
 76	 283615	  6.79%
4176357 reads passed initial QC


criterion=sequence-density
sequence-density=9.45
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=0.34
sequence-density-rank=20
fanout-score=23.40
fanout-score-rank=1
prefix-density=1.44
prefix-fanout=5.5
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 |	Jul 03 17:52:55
                             Started mapping on |	Jul 03 17:52:55
                                    Finished on |	Jul 03 17:53:07
       Mapping speed, Million of reads per hour |	1252.91

                          Number of input reads |	4176357
                      Average input read length |	33
                                    UNIQUE READS:
                   Uniquely mapped reads number |	373377
                        Uniquely mapped reads % |	8.94%
                          Average mapped length |	28.00
                       Number of splices: Total |	7965
            Number of splices: Annotated (sjdb) |	3727
                       Number of splices: GT/AG |	7362
                       Number of splices: GC/AG |	293
                       Number of splices: AT/AC |	5
               Number of splices: Non-canonical |	305
                      Mismatch rate per base, % |	1.33%
                         Deletion rate per base |	0.01%
                        Deletion average length |	1.52
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.12
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	554967
             % of reads mapped to multiple loci |	13.29%
        Number of reads mapped to too many loci |	1123010
             % of reads mapped to too many loci |	26.89%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	12.11%
                     % of reads unmapped: other |	38.77%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	3248013	3248013	3248013
N_multimapping	554967	554967	554967
N_noFeature	313871	323082	362213
N_ambiguous	1983	20	16
UnstrandedReadsAssigned:57523 PositiveStrandReadsAssigned:50275 NegativeStrandReadsAssigned:11148
Dataset is classified unstranded
MeadianReadLen=31 20thPercentileLength=24 echo kmer=19
SRR11699521 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: SRR11699521-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 4,176,357 reads, 1,167,192 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 926 rounds

  72540 SRR11699521.ke.tsv
  44303 SRR11699521.se.tsv
 116843 total
==> SRR11699521.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Zm00001eb096110_T001	2067	1968	0	0
Zm00001eb321680_T001	3417	3318	1	0.28976
Zm00001eb323640_T001	3273	3174	0	0
Zm00001eb314140_T001	893	794	0	0
Zm00001eb080260_T001	3529	3430	1	0.280298
Zm00001eb026490_T001	2433	2334	0	0
Zm00001eb026490_T002	2229	2130	0	0
Zm00001eb026490_T003	2220	2121	0	0
Zm00001eb281360_T001	2412	2313	0	0

==> SRR11699521.se.tsv <==
Zm00001eb015280	0
Zm00001eb000610	0
Zm00001eb033210	0
Zm00001eb044610	0
Zm00001eb014360	0
Zm00001eb051320	1
Zm00001eb021860	0
Zm00001eb011690	0
Zm00001eb016840	0
Zm00001eb052060	0
SRR11699521 completed mapping pipeline successfully
