Starting /dee2/code/volunteer_pipeline.sh SRR11699255
    current disk space = 2484276137984
    free memory = 1577328320 
SRR11699255 SRAfilesize
dbfc8cbc821bbe7736d327e1bd229a0d  SRR11699255.sra
SRR11699255.sra file validated
SRR11699255 is single end
SRR11699255 is conventional basespace
SRR11699255 read1 length is 76 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR11699255_1.fastq
File type	Conventional base calls
Encoding	Sanger / Illumina 1.9
Total Sequences	4000
Sequences flagged as poor quality	0
Sequence length	76
%GC	48
>>END_MODULE
>>Per base sequence quality	warn
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	31.2845	32.0	32.0	32.0	32.0	32.0
2	31.4195	32.0	32.0	32.0	32.0	32.0
3	31.41925	32.0	32.0	32.0	32.0	32.0
4	31.4695	32.0	32.0	32.0	32.0	32.0
5	31.51225	32.0	32.0	32.0	32.0	32.0
6	35.12075	36.0	36.0	36.0	36.0	36.0
7	35.0145	36.0	36.0	36.0	36.0	36.0
8	35.22375	36.0	36.0	36.0	36.0	36.0
9	34.971	36.0	36.0	36.0	36.0	36.0
10-11	35.150875	36.0	36.0	36.0	36.0	36.0
12-13	35.137375	36.0	36.0	36.0	36.0	36.0
14-15	35.072625	36.0	36.0	36.0	36.0	36.0
16-17	35.095875	36.0	36.0	36.0	36.0	36.0
18-19	35.132125	36.0	36.0	36.0	36.0	36.0
20-21	35.01675	36.0	36.0	36.0	36.0	36.0
22-23	35.027375	36.0	36.0	36.0	36.0	36.0
24-25	34.907375	36.0	36.0	36.0	34.0	36.0
26-27	34.8895	36.0	36.0	36.0	36.0	36.0
28-29	34.903999999999996	36.0	36.0	36.0	36.0	36.0
30-31	34.899375	36.0	36.0	36.0	36.0	36.0
32-33	34.897875	36.0	36.0	36.0	36.0	36.0
34-35	34.965125	36.0	36.0	36.0	36.0	36.0
36-37	34.918875	36.0	36.0	36.0	36.0	36.0
38-39	34.907125	36.0	36.0	36.0	36.0	36.0
40-41	34.936375	36.0	36.0	36.0	36.0	36.0
42-43	34.802	36.0	36.0	36.0	34.0	36.0
44-45	34.769625000000005	36.0	36.0	36.0	34.0	36.0
46-47	34.741375	36.0	36.0	36.0	34.0	36.0
48-49	34.530125	36.0	36.0	36.0	32.0	36.0
50-51	34.130875	36.0	36.0	36.0	32.0	36.0
52-53	33.651875000000004	36.0	36.0	36.0	26.5	36.0
54-55	33.333749999999995	36.0	36.0	36.0	17.5	36.0
56-57	32.263125	36.0	32.0	36.0	14.0	36.0
58-59	31.43375	36.0	32.0	36.0	14.0	36.0
60-61	30.555	36.0	29.5	36.0	14.0	36.0
62-63	29.853875	36.0	24.0	36.0	14.0	36.0
64-65	28.6945	36.0	14.0	36.0	14.0	36.0
66-67	26.4285	32.0	14.0	36.0	14.0	36.0
68-69	25.580625	29.5	14.0	36.0	14.0	36.0
70-71	25.127125	27.0	14.0	36.0	14.0	36.0
72-73	25.217125	27.0	14.0	36.0	14.0	36.0
74-75	25.565125000000002	29.5	14.0	36.0	14.0	36.0
76	24.1455	21.0	14.0	36.0	14.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
21	2.0
22	2.0
23	9.0
24	10.0
25	28.0
26	51.0
27	94.0
28	127.0
29	222.0
30	369.0
31	427.0
32	485.0
33	713.0
34	865.0
35	596.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	24.55	32.375	19.775000000000002	23.3
2	26.400000000000002	27.725	25.85	20.025000000000002
3	26.775	32.475	18.975	21.775
4	28.000000000000004	34.075	18.8	19.125
5	22.075	25.95	24.474999999999998	27.500000000000004
6	28.549999999999997	25.775	26.424999999999997	19.25
7	30.775000000000002	34.050000000000004	18.925	16.25
8	23.65	26.775	29.525000000000002	20.05
9	24.5	32.5	19.575	23.425
10-11	30.912499999999998	28.975	22.475	17.6375
12-13	23.3625	24.3	23.7375	28.599999999999998
14-15	28.725	37.25	17.849999999999998	16.175
16-17	23.2125	25.887500000000003	32.7875	18.1125
18-19	36.4875	25.4875	21.975	16.05
20-21	24.8125	35.325	22.6125	17.25
22-23	31.6	37.4	13.475000000000001	17.525
24-25	29.775000000000002	39.287499999999994	13.212499999999999	17.724999999999998
26-27	28.3625	32.85	15.950000000000001	22.8375
28-29	31.6	28.275	15.174999999999999	24.95
30-31	33.7	35.1375	10.1125	21.05
32-33	26.674999999999997	37.65	12.35	23.325000000000003
34-35	29.4125	30.6875	14.2625	25.637500000000003
36-37	23.7125	33.5875	12.9125	29.7875
38-39	21.1875	32.1875	15.462500000000002	31.162499999999998
40-41	23.9125	27.700000000000003	18.7375	29.65
42-43	25.374999999999996	26.05	22.2	26.375
44-45	21.075	32.7125	17.5125	28.7
46-47	21.475	32.2	15.262500000000001	31.0625
48-49	15.225	29.6625	17.775	37.3375
50-51	14.762500000000001	30.45	18.587500000000002	36.199999999999996
52-53	19.4875	28.249999999999996	20.549999999999997	31.7125
54-55	17.875	29.4125	22.6875	30.025000000000002
56-57	15.25	29.9375	24.087500000000002	30.725
58-59	17.3625	29.8375	21.4875	31.3125
60-61	14.825	34.325	22.237499999999997	28.6125
62-63	12.4625	37.3875	23.6375	26.5125
64-65	11.4375	27.6875	30.0375	30.837500000000002
66-67	14.000000000000002	18.0375	34.150000000000006	33.8125
68-69	15.425	19.287499999999998	35.0	30.2875
70-71	18.35	19.2625	36.3875	26.0
72-73	15.687499999999998	20.625	32.375	31.3125
74-75	16.7625	19.8	32.0	31.4375
76	9.85	15.525	43.9	30.725
>>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	0.5
31	0.5
32	0.0
33	0.0
34	0.0
35	0.0
36	1.0
37	2.0
38	4.0
39	9.5
40	27.0
41	55.5
42	70.0
43	103.0
44	234.5
45	455.0
46	577.0
47	668.5
48	673.5
49	549.0
50	511.0
51	436.0
52	298.5
53	188.0
54	140.0
55	122.0
56	84.5
57	42.0
58	19.0
59	15.0
60	9.5
61	4.5
62	1.0
63	3.5
64	4.0
65	3.5
66	2.5
67	0.0
68	0.0
69	0.0
70	0.5
71	1.0
72	1.0
73	0.5
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	0.5
91	0.5
92	0.0
93	0.5
94	0.5
95	0.0
96	0.0
97	0.0
98	0.5
99	0.5
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	66.27499999999999
#Duplication Level	Percentage of deduplicated	Percentage of total
1	90.45643153526972	59.95
2	4.602036967182195	6.1
3	1.4334213504337987	2.85
4	0.7544322897019993	2.0
5	0.6035458317615994	2.0
6	0.37721614485099964	1.5
7	0.2263296869105998	1.05
8	0.15088645794039984	0.8
9	0.2263296869105998	1.35
>10	1.0939268200678989	15.75
>50	0.03772161448509996	1.325
>100	0.03772161448509996	5.325
>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	213	5.325	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
CTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCA	53	1.325	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
ATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAAC	44	1.0999999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
AGGGCTATAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTGC	34	0.8500000000000001	TruSeq Adapter, Index 11 (97% over 36bp)
AACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAG	33	0.8250000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	31	0.775	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
AACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTGCA	30	0.75	TruSeq Adapter, Index 11 (97% over 36bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTAGATCGGAAGAGCACA	30	0.75	No Hit
AACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	29	0.7250000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACT	28	0.7000000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
ACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	28	0.7000000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GGGGATGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTGC	28	0.7000000000000001	TruSeq Adapter, Index 11 (97% over 36bp)
ATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTGCAAAAT	27	0.675	TruSeq Adapter, Index 11 (97% over 36bp)
CGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTGCAAA	27	0.675	TruSeq Adapter, Index 11 (97% over 36bp)
TAATTCATGATCTGGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	24	0.6	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGAGATCGGAAGAGCAC	24	0.6	No Hit
CTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAG	23	0.575	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCA	20	0.5	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
CGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTG	17	0.42500000000000004	TruSeq Adapter, Index 2 (97% over 35bp)
GATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTGCAAAA	17	0.42500000000000004	TruSeq Adapter, Index 11 (97% over 36bp)
ATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACT	16	0.4	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GGGATTGTAGTTCAATTAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTAGATCGGAAGAGCA	15	0.375	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCAGATCGGAAGAGCACAC	13	0.325	No Hit
CCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGT	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
CCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCT	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
AGGGATGTAGCGCAGCTTGGTAGCGCTTTTGTTTTAGATCGGAAGAGCAC	12	0.3	No Hit
GAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAGATCGGAAGAGCACA	10	0.25	No Hit
TGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGC	10	0.25	No Hit
CAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCAC	10	0.25	No Hit
GCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACAC	9	0.22499999999999998	No Hit
AACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGT	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
CATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAA	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
GGAGGTCCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCAC	9	0.22499999999999998	No Hit
TCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTC	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)
CAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
GCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
ACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTGCAA	8	0.2	TruSeq Adapter, Index 11 (97% over 36bp)
AAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
TGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGT	7	0.17500000000000002	No Hit
CGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
CGTCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GGGATTGTAGTTCAATCGGAAGAGCACACGTCTGAACTCCAGTCACTGCA	7	0.17500000000000002	TruSeq Adapter, Index 4 (97% over 35bp)
GCGACCCCAGGTCAGTCGGGACTAGATCGGAAGAGCACACGTCTGAACTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
GCCCCGCGTCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAACTCC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCAGATCGGAAGAGCACACGTCT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
AGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTGCAA	6	0.15	TruSeq Adapter, Index 11 (97% over 36bp)
TCCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTC	6	0.15	No Hit
TAATTCATGATCTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAA	6	0.15	No Hit
TGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTGCAAAATCTC	6	0.15	TruSeq Adapter, Index 11 (97% over 36bp)
GAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTGC	6	0.15	TruSeq Adapter, Index 11 (97% over 36bp)
TACCTGGTTGATCCTGCCAGATCGGAAGAGCACACGTCTGAACTCCAGTC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTAGATCGGAAGAGCA	6	0.15	No Hit
AACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCAGATCGGAAGAGCACACG	5	0.125	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCCAGATCGGAAGAGCACA	5	0.125	No Hit
GCAGTGATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAG	5	0.125	No Hit
ACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
TATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGA	5	0.125	No Hit
TAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TCCACAGGCTTTCTTGAACTGAGATCGGAAGAGCACACGTCTGAACTCCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TCTGCCTGGGCGTCACGCAGATCGGAAGAGCACACGTCTGAACTCCAGTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
GGTCCCATGGTCTAGCGGTTAGGACATTGGACTCTGAGATCGGAAGAGCA	5	0.125	No Hit
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTGAGATCGGAAGAGCAC	5	0.125	No Hit
GACACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCAGATCGGAAGA	5	0.125	No Hit
GGTAGTTCGACCGTGGATTTTAGATCGGAAGAGCACACGTCTGAACTCCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
AGATCATGTTGCAGCTTCACTAGATCGGAAGAGCACACGTCTGAACTCCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTGTAGATCGGAAGAGCA	5	0.125	No Hit
TTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTGCAAAATC	5	0.125	TruSeq Adapter, Index 11 (97% over 36bp)
>>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	0.175	0.0	0.0	0.0	0.0
3	0.425	0.0	0.0	0.0	0.0
4	0.525	0.0	0.0	0.0	0.0
5	0.575	0.0	0.0	0.0	0.0
6	0.85	0.0	0.0	0.0	0.0
7	1.125	0.0	0.0	0.0	0.0
8	1.35	0.0	0.0	0.0	0.0
9	2.5	0.0	0.0	0.0	0.0
10	3.275	0.0	0.0	0.0	0.0
11	4.65	0.0	0.0	0.0	0.0
12	5.775	0.0	0.0	0.0	0.0
13	7.825	0.0	0.0	0.0	0.0
14	10.975	0.0	0.0	0.0	0.0
15	12.975	0.0	0.0	0.0	0.0
16	15.1	0.0	0.0	0.0	0.0
17	18.825	0.0	0.0	0.0	0.0
18	22.275	0.0	0.0	0.0	0.0
19	24.875	0.0	0.0	0.0	0.0
20	28.375	0.0	0.0	0.0	0.0
21	32.275	0.0	0.0	0.0	0.0
22	37.85	0.0	0.0	0.0	0.0
23	47.925	0.0	0.0	0.0	0.0
24	51.05	0.0	0.0	0.0	0.0
25	59.4	0.0	0.0	0.0	0.0
26	62.7	0.0	0.0	0.0	0.0
27	64.875	0.0	0.0	0.0	0.0
28	66.625	0.0	0.0	0.0	0.0
29	68.275	0.0	0.0	0.0	0.0
30	70.2	0.0	0.0	0.0	0.0
31	72.4	0.0	0.0	0.0	0.0
32	74.0	0.0	0.0	0.0	0.0
33	75.475	0.0	0.0	0.0	0.0
34	78.1	0.0	0.0	0.0	0.0
35	81.35	0.0	0.0	0.0	0.0
36	84.7	0.0	0.0	0.0	0.0
37	87.45	0.0	0.0	0.0	0.0
38	88.825	0.0	0.0	0.0	0.0
39	89.825	0.0	0.0	0.0	0.0
40	90.625	0.0	0.0	0.0	0.0
41	91.5	0.0	0.0	0.0	0.0
42	92.15	0.0	0.0	0.0	0.0
43	92.725	0.0	0.0	0.0	0.0
44	93.025	0.0	0.0	0.0	0.0
45	93.375	0.0	0.0	0.0	0.0
46	94.0	0.0	0.0	0.0	0.0
47	94.425	0.0	0.0	0.0	0.0
48	94.725	0.0	0.0	0.0	0.0
49	95.25	0.0	0.0	0.0	0.0
50	95.475	0.0	0.0	0.0	0.0
51	95.55	0.0	0.0	0.0	0.0
52	95.575	0.0	0.0	0.0	0.0
53	95.625	0.0	0.0	0.0	0.0
54	95.65	0.0	0.0	0.0	0.0
55	95.675	0.0	0.0	0.0	0.0
56	95.7	0.0	0.0	0.0	0.0
57	95.7	0.0	0.0	0.0	0.0
58	95.7	0.0	0.0	0.0	0.0
59	95.725	0.0	0.0	0.0	0.0
60	95.725	0.0	0.0	0.0	0.0
61	95.725	0.0	0.0	0.0	0.0
62	95.75	0.0	0.0	0.0	0.0
63	95.75	0.0	0.0	0.0	0.0
64	95.75	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
TTTGAAA	15	0.0020658788	70.00001	16
CTATAGC	15	0.0020658788	70.00001	5
AGGGCTA	15	0.0020658788	70.00001	1
ACCGCCC	15	0.0020658788	70.00001	27
GCTATAG	15	0.0020658788	70.00001	4
GGCTATA	15	0.0020658788	70.00001	3
TTGAAAG	15	0.0020658788	70.00001	17
TATAGCT	15	0.0020658788	70.00001	6
GGGCTAT	15	0.0020658788	70.00001	2
TGGTCAG	20	7.003785E-5	70.0	17
TTCAATT	25	2.3570374E-6	70.0	11
TTGTAGT	25	2.3570374E-6	70.0	5
ATTGGTC	20	7.003785E-5	70.0	15
CACCGCC	20	7.003785E-5	70.0	26
GGATTGT	25	2.3570374E-6	70.0	2
CAATTGG	20	7.003785E-5	70.0	13
TCAATTG	20	7.003785E-5	70.0	12
GGTCAGA	20	7.003785E-5	70.0	18
GTTCAAT	25	2.3570374E-6	70.0	10
GATTGTA	25	2.3570374E-6	70.0	3
>>END_MODULE
Rejected 228086 READS because READLEN < 1
Read 228086 spots for SRR11699255.sra
Written 228086 spots for SRR11699255.sra
Rejected 228086 READS because READLEN < 1
Read 228086 spots for SRR11699255.sra
Written 228086 spots for SRR11699255.sra
Rejected 228086 READS because READLEN < 1
Read 228086 spots for SRR11699255.sra
Written 228086 spots for SRR11699255.sra
Rejected 228086 READS because READLEN < 1
Read 228086 spots for SRR11699255.sra
Written 228086 spots for SRR11699255.sra
Rejected 228086 READS because READLEN < 1
Read 228086 spots for SRR11699255.sra
Written 228086 spots for SRR11699255.sra
Rejected 228086 READS because READLEN < 1
Read 228086 spots for SRR11699255.sra
Written 228086 spots for SRR11699255.sra
Rejected 228086 READS because READLEN < 1
Read 228086 spots for SRR11699255.sra
Written 228086 spots for SRR11699255.sra
Rejected 228086 READS because READLEN < 1
Read 228086 spots for SRR11699255.sra
Written 228086 spots for SRR11699255.sra
Rejected 228086 READS because READLEN < 1
Read 228086 spots for SRR11699255.sra
Written 228086 spots for SRR11699255.sra
Rejected 228086 READS because READLEN < 1
Read 228086 spots for SRR11699255.sra
Written 228086 spots for SRR11699255.sra
Rejected 228086 READS because READLEN < 1
Read 228086 spots for SRR11699255.sra
Written 228086 spots for SRR11699255.sra
Rejected 228086 READS because READLEN < 1
Read 228086 spots for SRR11699255.sra
Written 228086 spots for SRR11699255.sra
Rejected 228086 READS because READLEN < 1
Read 228086 spots for SRR11699255.sra
Written 228086 spots for SRR11699255.sra
Rejected 228086 READS because READLEN < 1
Read 228086 spots for SRR11699255.sra
Written 228086 spots for SRR11699255.sra
Rejected 228086 READS because READLEN < 1
Rejected 228086 READS because READLEN < 1
Read 228086 spots for SRR11699255.sra
Read 228086 spots for SRR11699255.sra
Written 228086 spots for SRR11699255.sra
Written 228086 spots for SRR11699255.sra
Rejected 228086 READS because READLEN < 1
Read 228086 spots for SRR11699255.sra
Written 228086 spots for SRR11699255.sra
Rejected 228086 READS because READLEN < 1
Read 228086 spots for SRR11699255.sra
Written 228086 spots for SRR11699255.sra
Rejected 228086 READS because READLEN < 1
Read 228086 spots for SRR11699255.sra
Written 228086 spots for SRR11699255.sra
Rejected 228090 READS because READLEN < 1
Read 228090 spots for SRR11699255.sra
Written 228090 spots for SRR11699255.sra
SRR ids: ['SRR11699255.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_fyc89rek
SRR11699255.sra spots: 4561724
blocks: [[1, 228086], [228087, 456172], [456173, 684258], [684259, 912344], [912345, 1140430], [1140431, 1368516], [1368517, 1596602], [1596603, 1824688], [1824689, 2052774], [2052775, 2280860], [2280861, 2508946], [2508947, 2737032], [2737033, 2965118], [2965119, 3193204], [3193205, 3421290], [3421291, 3649376], [3649377, 3877462], [3877463, 4105548], [4105549, 4333634], [4333635, 4561724]]
SRR11699255 file size 866518
SRR11699255 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 SRR11699255 SRR11699255_1.fastq
Input file:	SRR11699255_1.fastq
trimmed:	SRR11699255-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 03:01:00 2025 >> started

Wed Jun 18 03:01:02 2025 >> done (2.107s)
4561724 reads processed; of these:
1134883 (24.88%) short reads filtered out after trimming by size control
   2050 ( 0.04%) empty reads filtered out after trimming by size control
3424791 (75.08%) reads available; of these:
3314030 (96.77%) trimmed reads available after processing
 110761 ( 3.23%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	 112725	  3.29%
 19	 160853	  4.70%
 20	 174699	  5.10%
 21	 275663	  8.05%
 22	 479649	 14.01%
 23	 141459	  4.13%
 24	 355525	 10.38%
 25	 145985	  4.26%
 26	 105655	  3.09%
 27	  93023	  2.72%
 28	  85495	  2.50%
 29	  98464	  2.88%
 30	  94860	  2.77%
 31	  87502	  2.55%
 32	  84743	  2.47%
 33	 103044	  3.01%
 34	 143140	  4.18%
 35	 156032	  4.56%
 36	 119822	  3.50%
 37	  66246	  1.93%
 38	  45125	  1.32%
 39	  44160	  1.29%
 40	  35472	  1.04%
 41	  36046	  1.05%
 42	  27255	  0.80%
 43	  23130	  0.68%
 44	  18254	  0.53%
 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	      1	  0.00%
 71	      0	  0.00%
 72	      0	  0.00%
 73	      0	  0.00%
 74	      0	  0.00%
 75	      3	  0.00%
 76	 110761	  3.23%
3424791 reads passed initial QC


criterion=sequence-density
sequence-density=4.60
sequence-density-rank=1
fanout-score=1.00
fanout-score-rank=15
prefix-density=0.01
prefix-fanout=1.0
sequence=GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTCAAGGCGGAAG


criterion=fanout-score
sequence-density=0.19
sequence-density-rank=19
fanout-score=18.90
fanout-score-rank=1
prefix-density=0.75
prefix-fanout=4.8
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:
    1 (100.00%) aligned 0 times
    0 (0.00%) aligned exactly 1 time
    0 (0.00%) aligned >1 times
0.00% overall alignment rate
Adapter seq not found in reference. Now shuffling file before clipping
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	skewer -f sanger -l 18 -t 20 -x GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTCAAGGCGGAAG -o SRR11699255 -
Input file:	STDIN
trimmed:	SRR11699255-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTCAAGGCGGAAG
-- maximum error ratio allowed (-r):	0.100
-- maximum indel error ratio allowed (-d):	0.030
-- minimum read length allowed after trimming (-l):	18
-- file format (-f):		Sanger/Illumina 1.8+ FASTQ 
-- minimum overlap length for adapter detection (-k):	3
-- number of concurrent threads (-t):	20
Wed Jun 18 03:01:13 2025 >> started

Wed Jun 18 03:01:14 2025 >> done (1.387s)
2054875 reads processed; of these:
   5496 ( 0.27%) short reads filtered out after trimming by size control
  94962 ( 4.62%) empty reads filtered out after trimming by size control
1954417 (95.11%) reads available; of these:
  13880 ( 0.71%) trimmed reads available after processing
1940537 (99.29%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  68155	  3.49%
 19	  96919	  4.96%
 20	 104233	  5.33%
 21	 164050	  8.39%
 22	 287115	 14.69%
 23	  84313	  4.31%
 24	 208000	 10.64%
 25	  87047	  4.45%
 26	  59416	  3.04%
 27	  54783	  2.80%
 28	  50948	  2.61%
 29	  52325	  2.68%
 30	  56562	  2.89%
 31	  52041	  2.66%
 32	  46464	  2.38%
 33	  49823	  2.55%
 34	  60256	  3.08%
 35	  70166	  3.59%
 36	  66318	  3.39%
 37	  37000	  1.89%
 38	  26102	  1.34%
 39	  25607	  1.31%
 40	  19047	  0.97%
 41	  21174	  1.08%
 42	  15924	  0.81%
 43	  13620	  0.70%
 44	  10823	  0.55%
 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	      1	  0.00%
 71	      0	  0.00%
 72	      0	  0.00%
 73	   1667	  0.09%
 74	      0	  0.00%
 75	      1	  0.00%
 76	  64517	  3.30%


criterion=sequence-density
sequence-density=2.76
sequence-density-rank=1
fanout-score=12.75
fanout-score-rank=2
prefix-density=2.83
prefix-fanout=12.5
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACTGCAAAATCTCGTAT


criterion=fanout-score
sequence-density=0.20
sequence-density-rank=18
fanout-score=18.72
fanout-score-rank=1
prefix-density=0.78
prefix-fanout=4.7
sequence=GTCTAGTGGTATGATTCTCGCTT
                                 Started job on |	Jun 18 03:01:30
                             Started mapping on |	Jun 18 03:01:31
                                    Finished on |	Jun 18 03:01:43
       Mapping speed, Million of reads per hour |	997.30

                          Number of input reads |	3324333
                      Average input read length |	28
                                    UNIQUE READS:
                   Uniquely mapped reads number |	344387
                        Uniquely mapped reads % |	10.36%
                          Average mapped length |	24.58
                       Number of splices: Total |	7776
            Number of splices: Annotated (sjdb) |	3890
                       Number of splices: GT/AG |	7146
                       Number of splices: GC/AG |	359
                       Number of splices: AT/AC |	2
               Number of splices: Non-canonical |	269
                      Mismatch rate per base, % |	1.06%
                         Deletion rate per base |	0.01%
                        Deletion average length |	1.46
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.25
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	346748
             % of reads mapped to multiple loci |	10.43%
        Number of reads mapped to too many loci |	680272
             % of reads mapped to too many loci |	20.46%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	7.16%
                     % of reads unmapped: other |	51.59%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	2633198	2633198	2633198
N_multimapping	346748	346748	346748
N_noFeature	274092	283394	332600
N_ambiguous	2526	25	20
UnstrandedReadsAssigned:67769 PositiveStrandReadsAssigned:60968 NegativeStrandReadsAssigned:11767
Dataset is classified positive stranded
MeadianReadLen=24 20thPercentileLength=21 echo kmer=19
SRR11699255 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: SRR11699255-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 3,324,333 reads, 464,033 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 860 rounds

  72540 SRR11699255.ke.tsv
  44303 SRR11699255.se.tsv
 116843 total
==> SRR11699255.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Zm00001eb096110_T001	2067	1968	0	0
Zm00001eb321680_T001	3417	3318	6	3.7832
Zm00001eb323640_T001	3273	3174	0	0
Zm00001eb314140_T001	893	794	0	0
Zm00001eb080260_T001	3529	3430	0	0
Zm00001eb026490_T001	2433	2334	0	0
Zm00001eb026490_T002	2229	2130	0	0
Zm00001eb026490_T003	2220	2121	0	0
Zm00001eb281360_T001	2412	2313	0	0

==> SRR11699255.se.tsv <==
Zm00001eb015280	0
Zm00001eb000610	0
Zm00001eb033210	0
Zm00001eb044610	0
Zm00001eb014360	0
Zm00001eb051320	0
Zm00001eb021860	0
Zm00001eb011690	0
Zm00001eb016840	0
Zm00001eb052060	0
SRR11699255 completed mapping pipeline successfully
