Starting /dee2/code/volunteer_pipeline.sh SRR11699291
    current disk space = 2467959148544
    free memory = 1579008852 
SRR11699291 SRAfilesize
f5e70a97e64d28a0443b5b2967c7b515  SRR11699291.sra
SRR11699291.sra file validated
SRR11699291 is single end
SRR11699291 is conventional basespace
SRR11699291 read1 length is 76 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR11699291_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	31.20625	32.0	32.0	32.0	32.0	32.0
2	31.35225	32.0	32.0	32.0	32.0	32.0
3	31.397	32.0	32.0	32.0	32.0	32.0
4	31.46	32.0	32.0	32.0	32.0	32.0
5	31.52925	32.0	32.0	32.0	32.0	32.0
6	35.06375	36.0	36.0	36.0	36.0	36.0
7	35.07425	36.0	36.0	36.0	36.0	36.0
8	34.99375	36.0	36.0	36.0	36.0	36.0
9	34.857	36.0	36.0	36.0	32.0	36.0
10-11	35.084374999999994	36.0	36.0	36.0	36.0	36.0
12-13	35.054625	36.0	36.0	36.0	36.0	36.0
14-15	35.03425	36.0	36.0	36.0	36.0	36.0
16-17	35.096875	36.0	36.0	36.0	36.0	36.0
18-19	35.1135	36.0	36.0	36.0	36.0	36.0
20-21	34.908125	36.0	36.0	36.0	36.0	36.0
22-23	34.984375	36.0	36.0	36.0	36.0	36.0
24-25	34.977	36.0	36.0	36.0	36.0	36.0
26-27	34.7915	36.0	36.0	36.0	34.0	36.0
28-29	34.85125	36.0	36.0	36.0	36.0	36.0
30-31	34.896875	36.0	36.0	36.0	36.0	36.0
32-33	34.84525	36.0	36.0	36.0	34.0	36.0
34-35	34.998875	36.0	36.0	36.0	36.0	36.0
36-37	34.963499999999996	36.0	36.0	36.0	36.0	36.0
38-39	34.938625	36.0	36.0	36.0	36.0	36.0
40-41	34.844125000000005	36.0	36.0	36.0	34.0	36.0
42-43	34.782375	36.0	36.0	36.0	34.0	36.0
44-45	34.784625000000005	36.0	36.0	36.0	32.0	36.0
46-47	34.795874999999995	36.0	36.0	36.0	32.0	36.0
48-49	34.61875	36.0	36.0	36.0	32.0	36.0
50-51	34.531375	36.0	36.0	36.0	32.0	36.0
52-53	34.377125	36.0	36.0	36.0	32.0	36.0
54-55	34.33175	36.0	36.0	36.0	32.0	36.0
56-57	33.89125	36.0	36.0	36.0	29.5	36.0
58-59	33.881125	36.0	36.0	36.0	32.0	36.0
60-61	33.980125	36.0	36.0	36.0	32.0	36.0
62-63	33.849875	36.0	36.0	36.0	29.5	36.0
64-65	33.672125	36.0	36.0	36.0	27.0	36.0
66-67	33.189875	36.0	32.0	36.0	27.0	36.0
68-69	33.16975	36.0	32.0	36.0	27.0	36.0
70-71	33.226124999999996	36.0	34.0	36.0	27.0	36.0
72-73	32.965125	36.0	34.0	36.0	24.0	36.0
74-75	33.222375	36.0	34.0	36.0	24.0	36.0
76	31.141	36.0	32.0	36.0	14.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
20	1.0
21	1.0
22	2.0
23	3.0
24	11.0
25	17.0
26	30.0
27	40.0
28	60.0
29	81.0
30	110.0
31	135.0
32	181.0
33	328.0
34	852.0
35	2148.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	27.450000000000003	29.2	21.375	21.975
2	24.15	26.35	25.275	24.224999999999998
3	26.400000000000002	32.475	17.299999999999997	23.825
4	28.975	31.424999999999997	17.7	21.9
5	22.625	28.975	23.0	25.4
6	26.424999999999997	27.250000000000004	25.3	21.025
7	32.074999999999996	33.900000000000006	19.3	14.725
8	21.625	26.974999999999998	30.175	21.224999999999998
9	26.224999999999998	33.25	17.75	22.775000000000002
10-11	32.2625	28.65	22.0	17.0875
12-13	22.15	22.9375	25.0	29.912499999999998
14-15	30.15	38.324999999999996	17.175	14.35
16-17	24.15	24.2875	31.374999999999996	20.1875
18-19	34.9125	24.525	24.2875	16.275000000000002
20-21	24.825	33.300000000000004	24.575	17.299999999999997
22-23	32.275	38.1	14.2875	15.3375
24-25	28.799999999999997	39.0375	15.725	16.4375
26-27	30.075000000000003	31.35	17.125	21.45
28-29	31.15	28.8875	16.4375	23.525
30-31	33.7	35.612500000000004	9.575	21.1125
32-33	29.462500000000002	38.1125	12.1375	20.2875
34-35	30.099999999999998	29.725	15.137500000000001	25.0375
36-37	27.500000000000004	32.9375	11.525	28.037499999999998
38-39	23.775	34.5625	12.937499999999998	28.725
40-41	24.4375	28.95	17.825	28.787499999999998
42-43	26.700000000000003	25.95	20.3	27.05
44-45	20.9875	32.5625	17.4375	29.012500000000003
46-47	21.45	30.825000000000003	16.35	31.374999999999996
48-49	15.125	26.974999999999998	19.662499999999998	38.237500000000004
50-51	16.7125	25.2875	22.05	35.949999999999996
52-53	18.275	24.8	23.7375	33.1875
54-55	16.3875	26.3125	26.437500000000004	30.862499999999997
56-57	12.1375	22.237499999999997	30.375000000000004	35.25
58-59	16.525000000000002	22.037499999999998	28.875	32.5625
60-61	15.049999999999999	22.925	33.387499999999996	28.6375
62-63	13.125	25.2125	35.8	25.8625
64-65	12.8875	21.2625	35.4	30.45
66-67	17.525	14.499999999999998	35.025	32.95
68-69	16.725	16.775000000000002	37.05	29.45
70-71	18.9625	16.025	39.9125	25.1
72-73	18.387500000000003	14.637500000000001	36.012499999999996	30.9625
74-75	21.7	11.387500000000001	35.199999999999996	31.7125
76	15.65	11.1	41.425	31.825
>>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	0.5
25	1.0
26	0.5
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	1.0
36	1.0
37	0.0
38	0.5
39	3.5
40	12.0
41	36.5
42	55.0
43	72.0
44	121.0
45	280.5
46	408.0
47	672.5
48	773.0
49	571.5
50	534.0
51	498.0
52	388.0
53	239.0
54	164.0
55	125.0
56	88.5
57	61.5
58	32.0
59	21.5
60	9.5
61	7.5
62	7.0
63	5.5
64	3.0
65	1.0
66	0.0
67	0.0
68	0.5
69	0.5
70	0.5
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	0.0
83	0.0
84	0.0
85	0.0
86	0.5
87	1.0
88	0.5
89	0.0
90	0.0
91	0.0
92	0.0
93	0.0
94	0.5
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	65.825
#Duplication Level	Percentage of deduplicated	Percentage of total
1	89.51766046334978	58.925000000000004
2	5.165210786175465	6.800000000000001
3	1.4432206608431448	2.85
4	0.8355488036460311	2.1999999999999997
5	0.7216103304215724	2.375
6	0.3038359285985568	1.2
7	0.34181541967337636	1.575
8	0.2658564375237372	1.4000000000000001
9	0.189897455374098	1.125
>10	1.1014052411697683	13.8
>50	0.0759589821496392	3.4000000000000004
>100	0.0379794910748196	4.35
>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	174	4.35	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
ATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAAC	71	1.775	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
CTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCA	65	1.625	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	49	1.225	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
ATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACT	42	1.05	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GGGGATGTAGCTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTC	40	1.0	TruSeq Adapter, Index 5 (97% over 35bp)
TCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACT	32	0.8	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TCCGTTGTAGTCTAGCTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	31	0.775	No Hit
TAATTCATGATCTGGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	27	0.675	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGAGATCGGAAGAGCAC	23	0.575	No Hit
AACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAG	23	0.575	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
CCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGT	19	0.475	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
ACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	19	0.475	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
TAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCA	18	0.44999999999999996	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GCGTCTGTAGTCCAACGGTTAGGATAATTGCCAGATCGGAAGAGCACACG	15	0.375	No Hit
CTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAG	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
AACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTCGT	15	0.375	TruSeq Adapter, Index 16 (97% over 37bp)
ATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTCGTATAT	15	0.375	TruSeq Adapter, Index 16 (97% over 37bp)
ACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTC	14	0.35000000000000003	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
GGGGATGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTCG	14	0.35000000000000003	TruSeq Adapter, Index 10 (97% over 36bp)
AACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	14	0.35000000000000003	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
CTAACGAACGAACGATTTGAACAGATCGGAAGGGCACACGTCTGAACTCC	13	0.325	Illumina Multiplexing PCR Primer 2.01 (96% over 28bp)
TCCGTTGTAGTCTAGCTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCAGATCGGAAGAGCACAC	13	0.325	No Hit
GGGGACGTAGCTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTC	13	0.325	TruSeq Adapter, Index 5 (97% over 35bp)
TCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTC	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTAGATCGGAAGAGCA	11	0.27499999999999997	No Hit
GAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GCGACCCCAGGTCAGTCGGGACTAGATCGGAAGAGCACACGTCTGAACTC	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
CGACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACT	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTC	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
AAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
AACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGT	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GCCGCCATGGTGAAATTGGTAGACACGCTGCTCTTAGATCGGAAGAGCAC	9	0.22499999999999998	No Hit
GAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTC	9	0.22499999999999998	No Hit
TCCGTTGTAGTCTAGTTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	9	0.22499999999999998	No Hit
ACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACT	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGAGATCGGAAGAGCACACG	8	0.2	No Hit
CGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTC	8	0.2	TruSeq Adapter, Index 5 (97% over 35bp)
TGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGC	8	0.2	No Hit
AAAGGCTGACGCGGGCTCTAGATCGGAAGAGCACACGTCTGAACTCCAGT	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
TTTGGATTGAAGGGAGCTCTGAGATCGGAAGAGCACACGTCTGAACTCCA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
AGGGCTATAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTCG	8	0.2	TruSeq Adapter, Index 10 (97% over 36bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTAGATCGGAAGAGCACA	8	0.2	No Hit
TCCGTTGTAGTCTAGGTGGTTAGGATACTCAGATCGGAAGAGCACACGTC	7	0.17500000000000002	No Hit
AAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAACTCCAG	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GCGACCCCAGGTCAGTCGGGAAGATCGGAAGAGCACACGTCTGAACTCCA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTCGTATA	7	0.17500000000000002	TruSeq Adapter, Index 16 (97% over 37bp)
CCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTAGATCGGAAGAGCACA	7	0.17500000000000002	No Hit
CCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCT	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
AGGGATGTAGCGCAGCTTGGTAGCGCTTTTGTTTTAGATCGGAAGAGCAC	7	0.17500000000000002	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTAGATCGGAAGAGCA	7	0.17500000000000002	No Hit
AACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGT	6	0.15	No Hit
TAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAG	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
CTAACGAACGAACGATTTGAATAGATCGGAAGAGCACACGTCTGAACTCC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
AGCGGAGTAGAGCAGTTAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
GCGTCTGTAGTCCAACGGTTAGGATAATTGCAGATCGGAAGAGCACACGT	6	0.15	No Hit
TAATTCATGATCTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCACAAGATCGGAAGAGCACACG	6	0.15	No Hit
GCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACAC	5	0.125	No Hit
CGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTCGTAT	5	0.125	TruSeq Adapter, Index 16 (97% over 37bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGAGATCGGAAGGGCAC	5	0.125	No Hit
ATCCTAACGAACGAACGATTTGAATAGATCGGAAGAGCACACGTCTGAAC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
CAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
GCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
GACACGACTCTCGGCAACGGATATCTCGGCAGATCGGAAGAGCACACGTC	5	0.125	No Hit
GGAGAGATGGCTGAGTGGACTAAAGCGGCGGATTGAGATCGGAAGAGCAC	5	0.125	No Hit
ATCCTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
ATCCTAACGAACGAACGATTTGAACAGATCGGAAGGGCACACGTCTGAAC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (96% over 25bp)
CATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
CCCCGCGTCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAACTCCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
ACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTCC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTGAGATCGGAAGAGCAC	5	0.125	No Hit
TCCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTC	5	0.125	No Hit
GGTAGTTCGACCGTGGATTTAGATCGGAAGAGCACACGTCTGAACTCCAG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GCACCAGTGGTCTAGTGGTAGAATAGATCGGAAGAGCACACGTCTGAACT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
CAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCAC	5	0.125	No Hit
GATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGG	5	0.125	No Hit
>>END_MODULE
>>Adapter Content	fail
#Position	Illumina Universal Adapter	Illumina Small RNA 3' Adapter	Illumina Small RNA 5' Adapter	Nextera Transposase Sequence	SOLID Small RNA Adapter
1	0.05	0.0	0.0	0.0	0.0
2	0.1	0.0	0.0	0.0	0.0
3	0.15	0.0	0.0	0.0	0.0
4	0.225	0.0	0.0	0.0	0.0
5	0.275	0.0	0.0	0.0	0.0
6	0.35	0.0	0.0	0.0	0.0
7	0.425	0.0	0.0	0.0	0.0
8	0.55	0.0	0.0	0.0	0.0
9	0.975	0.0	0.0	0.0	0.0
10	1.5	0.0	0.0	0.0	0.0
11	1.875	0.0	0.0	0.0	0.0
12	2.375	0.0	0.0	0.0	0.0
13	3.45	0.0	0.0	0.0	0.0
14	4.95	0.0	0.0	0.0	0.0
15	7.75	0.0	0.0	0.0	0.0
16	9.35	0.0	0.0	0.0	0.0
17	12.35	0.0	0.0	0.0	0.0
18	15.4	0.0	0.0	0.0	0.0
19	17.475	0.0	0.0	0.0	0.0
20	20.675	0.0	0.0	0.0	0.0
21	24.15	0.0	0.0	0.0	0.0
22	30.075	0.0	0.0	0.0	0.0
23	38.4	0.0	0.0	0.0	0.0
24	41.7	0.0	0.0	0.0	0.0
25	49.35	0.0	0.0	0.0	0.0
26	53.6	0.0	0.0	0.0	0.0
27	55.8	0.0	0.0	0.0	0.0
28	58.0	0.0	0.0	0.0	0.0
29	60.25	0.0	0.0	0.0	0.0
30	62.75	0.0	0.0	0.0	0.0
31	66.425	0.0	0.0	0.0	0.0
32	69.075	0.0	0.0	0.0	0.0
33	71.425	0.0	0.0	0.0	0.0
34	73.7	0.0	0.0	0.0	0.0
35	75.775	0.0	0.0	0.0	0.0
36	78.925	0.0	0.0	0.0	0.0
37	81.375	0.0	0.0	0.0	0.0
38	82.6	0.0	0.0	0.0	0.0
39	83.575	0.0	0.0	0.0	0.0
40	84.4	0.0	0.0	0.0	0.0
41	85.375	0.0	0.0	0.0	0.0
42	86.35	0.0	0.0	0.0	0.0
43	86.85	0.0	0.0	0.0	0.0
44	87.25	0.0	0.0	0.0	0.0
45	87.75	0.0	0.0	0.0	0.0
46	88.025	0.0	0.0	0.0	0.0
47	88.35	0.0	0.0	0.0	0.0
48	88.55	0.0	0.0	0.0	0.0
49	88.775	0.0	0.0	0.0	0.0
50	88.9	0.0	0.0	0.0	0.0
51	89.075	0.0	0.0	0.0	0.0
52	89.1	0.0	0.0	0.0	0.0
53	89.125	0.0	0.0	0.0	0.0
54	89.2	0.0	0.0	0.0	0.0
55	89.225	0.0	0.0	0.0	0.0
56	89.25	0.0	0.0	0.0	0.0
57	89.275	0.0	0.0	0.0	0.0
58	89.325	0.0	0.0	0.0	0.0
59	89.35	0.0	0.0	0.0	0.0
60	89.35	0.0	0.0	0.0	0.0
61	89.35	0.0	0.0	0.0	0.0
62	89.35	0.0	0.0	0.0	0.0
63	89.35	0.0	0.0	0.0	0.0
64	89.35	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
GGATGTA	15	0.0020658788	70.00001	3
TGGTCAG	15	0.0020658788	70.00001	17
TCAAGAT	15	0.0020658788	70.00001	12
AGCTCAA	15	0.0020658788	70.00001	9
TTGTAGT	15	0.0020658788	70.00001	5
GATGTAG	15	0.0020658788	70.00001	4
TAGCTCA	35	2.6138878E-9	70.00001	8
TGTAGCT	15	0.0020658788	70.00001	6
GGGATGT	15	0.0020658788	70.00001	2
TTGAAAG	15	0.0020658788	70.00001	17
ATGTAGC	15	0.0020658788	70.00001	5
GGGGATG	15	0.0020658788	70.00001	1
GCTCAGA	15	0.0020658788	70.00001	10
GCTCAAG	15	0.0020658788	70.00001	10
TATAGCT	15	0.0020658788	70.00001	6
CTCAAGA	15	0.0020658788	70.00001	11
AGCTCAG	20	7.003785E-5	70.0	9
GTAGCTC	20	7.003785E-5	70.0	7
CAAGATC	20	0.0064587677	52.5	13
TTTGAAA	20	0.0064587677	52.5	16
>>END_MODULE
Rejected 182630 READS because READLEN < 1
Read 182630 spots for SRR11699291.sra
Written 182630 spots for SRR11699291.sra
Rejected 182630 READS because READLEN < 1
Read 182630 spots for SRR11699291.sra
Written 182630 spots for SRR11699291.sra
Rejected 182630 READS because READLEN < 1
Read 182630 spots for SRR11699291.sra
Written 182630 spots for SRR11699291.sra
Rejected 182630 READS because READLEN < 1
Read 182630 spots for SRR11699291.sra
Written 182630 spots for SRR11699291.sra
Rejected 182630 READS because READLEN < 1
Read 182630 spots for SRR11699291.sra
Written 182630 spots for SRR11699291.sra
Rejected 182630 READS because READLEN < 1
Read 182630 spots for SRR11699291.sra
Written 182630 spots for SRR11699291.sra
Rejected 182630 READS because READLEN < 1
Read 182630 spots for SRR11699291.sra
Written 182630 spots for SRR11699291.sra
Rejected 182630 READS because READLEN < 1
Read 182630 spots for SRR11699291.sra
Written 182630 spots for SRR11699291.sra
Rejected 182630 READS because READLEN < 1
Read 182630 spots for SRR11699291.sra
Written 182630 spots for SRR11699291.sra
Rejected 182630 READS because READLEN < 1
Read 182630 spots for SRR11699291.sra
Written 182630 spots for SRR11699291.sra
Rejected 182637 READS because READLEN < 1
Read 182637 spots for SRR11699291.sra
Written 182637 spots for SRR11699291.sra
Rejected 182630 READS because READLEN < 1
Read 182630 spots for SRR11699291.sra
Written 182630 spots for SRR11699291.sra
Rejected 182630 READS because READLEN < 1
Read 182630 spots for SRR11699291.sra
Written 182630 spots for SRR11699291.sra
Rejected 182630 READS because READLEN < 1
Read 182630 spots for SRR11699291.sra
Written 182630 spots for SRR11699291.sra
Rejected 182630 READS because READLEN < 1
Read 182630 spots for SRR11699291.sra
Written 182630 spots for SRR11699291.sra
Rejected 182630 READS because READLEN < 1
Read 182630 spots for SRR11699291.sra
Written 182630 spots for SRR11699291.sra
Rejected 182630 READS because READLEN < 1
Read 182630 spots for SRR11699291.sra
Written 182630 spots for SRR11699291.sra
Rejected 182630 READS because READLEN < 1
Read 182630 spots for SRR11699291.sra
Written 182630 spots for SRR11699291.sra
Rejected 182630 READS because READLEN < 1
Read 182630 spots for SRR11699291.sra
Written 182630 spots for SRR11699291.sra
Rejected 182630 READS because READLEN < 1
Read 182630 spots for SRR11699291.sra
Written 182630 spots for SRR11699291.sra
SRR ids: ['SRR11699291.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_o4iet18r
SRR11699291.sra spots: 3652607
blocks: [[1, 182630], [182631, 365260], [365261, 547890], [547891, 730520], [730521, 913150], [913151, 1095780], [1095781, 1278410], [1278411, 1461040], [1461041, 1643670], [1643671, 1826300], [1826301, 2008930], [2008931, 2191560], [2191561, 2374190], [2374191, 2556820], [2556821, 2739450], [2739451, 2922080], [2922081, 3104710], [3104711, 3287340], [3287341, 3469970], [3469971, 3652607]]
SRR11699291 file size 693395
SRR11699291 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 SRR11699291 SRR11699291_1.fastq
Input file:	SRR11699291_1.fastq
trimmed:	SRR11699291-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 09:53:17 2025 >> started

Wed Jun 18 09:53:19 2025 >> done (2.383s)
3652607 reads processed; of these:
 731998 (20.04%) short reads filtered out after trimming by size control
   1416 ( 0.04%) empty reads filtered out after trimming by size control
2919193 (79.92%) reads available; of these:
2841150 (97.33%) trimmed reads available after processing
  78043 ( 2.67%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  94444	  3.24%
 19	 147068	  5.04%
 20	 143242	  4.91%
 21	 224037	  7.67%
 22	 314178	 10.76%
 23	 136119	  4.66%
 24	 283415	  9.71%
 25	 159872	  5.48%
 26	  97030	  3.32%
 27	  97636	  3.34%
 28	  88758	  3.04%
 29	  92275	  3.16%
 30	 147798	  5.06%
 31	  92518	  3.17%
 32	  88491	  3.03%
 33	  85676	  2.93%
 34	  85348	  2.92%
 35	 129197	  4.43%
 36	  91979	  3.15%
 37	  54243	  1.86%
 38	  38346	  1.31%
 39	  35286	  1.21%
 40	  28314	  0.97%
 41	  34647	  1.19%
 42	  22105	  0.76%
 43	  17785	  0.61%
 44	  11337	  0.39%
 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	      0	  0.00%
 73	      0	  0.00%
 74	      1	  0.00%
 75	      4	  0.00%
 76	  78043	  2.67%
2919193 reads passed initial QC


criterion=sequence-density
sequence-density=3.20
sequence-density-rank=1
fanout-score=1.00
fanout-score-rank=14
prefix-density=0.02
prefix-fanout=1.0
sequence=TCCGTTGTAGTCTAGCTGGTCAGGATA


criterion=fanout-score
sequence-density=0.17
sequence-density-rank=21
fanout-score=220.61
fanout-score-rank=1
prefix-density=2.12
prefix-fanout=17.4
sequence=AGATCGGAAGGGCACACGTCTG
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 09:53:41
                             Started mapping on |	Jun 18 09:53:42
                                    Finished on |	Jun 18 09:53:54
       Mapping speed, Million of reads per hour |	875.76

                          Number of input reads |	2919193
                      Average input read length |	28
                                    UNIQUE READS:
                   Uniquely mapped reads number |	284263
                        Uniquely mapped reads % |	9.74%
                          Average mapped length |	25.09
                       Number of splices: Total |	5433
            Number of splices: Annotated (sjdb) |	3004
                       Number of splices: GT/AG |	4967
                       Number of splices: GC/AG |	288
                       Number of splices: AT/AC |	4
               Number of splices: Non-canonical |	174
                      Mismatch rate per base, % |	0.57%
                         Deletion rate per base |	0.01%
                        Deletion average length |	1.49
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.10
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	319423
             % of reads mapped to multiple loci |	10.94%
        Number of reads mapped to too many loci |	641548
             % of reads mapped to too many loci |	21.98%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	6.28%
                     % of reads unmapped: other |	51.06%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	2315507	2315507	2315507
N_multimapping	319423	319423	319423
N_noFeature	225608	235717	272458
N_ambiguous	1727	22	12
UnstrandedReadsAssigned:56928 PositiveStrandReadsAssigned:48524 NegativeStrandReadsAssigned:11793
Dataset is classified unstranded
MeadianReadLen=25 20thPercentileLength=21 echo kmer=19
SRR11699291 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: SRR11699291-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 2,919,193 reads, 588,216 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 846 rounds

  72540 SRR11699291.ke.tsv
  44303 SRR11699291.se.tsv
 116843 total
==> SRR11699291.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Zm00001eb096110_T001	2067	1968	0	0
Zm00001eb321680_T001	3417	3318	5	2.78817
Zm00001eb323640_T001	3273	3174	0	0
Zm00001eb314140_T001	893	794	1	2.33027
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

==> SRR11699291.se.tsv <==
Zm00001eb015280	1
Zm00001eb000610	0
Zm00001eb033210	0
Zm00001eb044610	0
Zm00001eb014360	0
Zm00001eb051320	0
Zm00001eb021860	0
Zm00001eb011690	0
Zm00001eb016840	0
Zm00001eb052060	0
SRR11699291 completed mapping pipeline successfully
