Starting /dee2/code/volunteer_pipeline.sh SRR11699421
    current disk space = 2477019385856
    free memory = 950461372 
SRR11699421 SRAfilesize
e5077dfccfb2a389a8e37cdc7cf97610  SRR11699421.sra
SRR11699421.sra file validated
SRR11699421 is single end
SRR11699421 is conventional basespace
SRR11699421 read1 length is 76 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR11699421_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	31.3145	32.0	32.0	32.0	32.0	32.0
2	31.2715	32.0	32.0	32.0	32.0	32.0
3	31.48525	32.0	32.0	32.0	32.0	32.0
4	31.5155	32.0	32.0	32.0	32.0	32.0
5	31.52425	32.0	32.0	32.0	32.0	32.0
6	35.00425	36.0	36.0	36.0	36.0	36.0
7	35.07	36.0	36.0	36.0	36.0	36.0
8	35.1425	36.0	36.0	36.0	36.0	36.0
9	34.91925	36.0	36.0	36.0	36.0	36.0
10-11	35.079	36.0	36.0	36.0	36.0	36.0
12-13	35.093999999999994	36.0	36.0	36.0	36.0	36.0
14-15	35.074749999999995	36.0	36.0	36.0	36.0	36.0
16-17	35.025625000000005	36.0	36.0	36.0	36.0	36.0
18-19	35.09775	36.0	36.0	36.0	36.0	36.0
20-21	34.987375	36.0	36.0	36.0	36.0	36.0
22-23	35.003625	36.0	36.0	36.0	36.0	36.0
24-25	34.980625	36.0	36.0	36.0	36.0	36.0
26-27	34.8525	36.0	36.0	36.0	34.0	36.0
28-29	34.945375	36.0	36.0	36.0	36.0	36.0
30-31	34.91425	36.0	36.0	36.0	36.0	36.0
32-33	34.908625	36.0	36.0	36.0	36.0	36.0
34-35	34.96025	36.0	36.0	36.0	36.0	36.0
36-37	34.870625000000004	36.0	36.0	36.0	36.0	36.0
38-39	34.844375	36.0	36.0	36.0	34.0	36.0
40-41	34.85125	36.0	36.0	36.0	36.0	36.0
42-43	34.83725	36.0	36.0	36.0	34.0	36.0
44-45	34.828375	36.0	36.0	36.0	32.0	36.0
46-47	34.831	36.0	36.0	36.0	36.0	36.0
48-49	34.677625	36.0	36.0	36.0	34.0	36.0
50-51	34.335625	36.0	36.0	36.0	32.0	36.0
52-53	34.4515	36.0	36.0	36.0	32.0	36.0
54-55	34.235125	36.0	36.0	36.0	32.0	36.0
56-57	33.969625	36.0	36.0	36.0	32.0	36.0
58-59	33.7575	36.0	36.0	36.0	27.0	36.0
60-61	33.893	36.0	36.0	36.0	29.5	36.0
62-63	33.855125	36.0	36.0	36.0	32.0	36.0
64-65	33.75425	36.0	36.0	36.0	29.5	36.0
66-67	33.145875000000004	36.0	32.0	36.0	27.0	36.0
68-69	33.172375	36.0	32.0	36.0	27.0	36.0
70-71	33.370125	36.0	34.0	36.0	27.0	36.0
72-73	33.19925	36.0	34.0	36.0	24.0	36.0
74-75	33.306625	36.0	34.0	36.0	26.5	36.0
76	30.925	36.0	32.0	36.0	14.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
21	1.0
22	1.0
23	5.0
24	15.0
25	16.0
26	22.0
27	49.0
28	52.0
29	77.0
30	104.0
31	124.0
32	192.0
33	290.0
34	896.0
35	2156.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	22.85	30.825000000000003	27.575	18.75
2	23.799999999999997	27.150000000000002	21.8	27.250000000000004
3	24.8	29.525000000000002	16.125	29.549999999999997
4	28.825	28.775000000000002	23.25	19.15
5	21.025	24.575	24.775	29.625
6	22.825	31.2	25.124999999999996	20.849999999999998
7	36.475	30.125	18.175	15.225
8	20.95	22.375	36.8	19.875
9	22.95	37.875	19.375	19.8
10-11	31.974999999999998	24.962500000000002	23.7375	19.325
12-13	21.7	20.5375	26.900000000000002	30.862499999999997
14-15	30.6875	37.9625	17.625	13.725000000000001
16-17	24.3	24.2625	33.95	17.4875
18-19	38.7125	23.0375	22.8625	15.387500000000001
20-21	23.575	32.574999999999996	25.637500000000003	18.212500000000002
22-23	34.225	36.9125	14.2	14.662500000000001
24-25	30.412499999999998	38.0625	13.875000000000002	17.65
26-27	29.825000000000003	31.424999999999997	18.325	20.424999999999997
28-29	31.525	26.450000000000003	15.925	26.1
30-31	35.425000000000004	31.275	9.9625	23.3375
32-33	27.1125	35.7375	14.149999999999999	23.0
34-35	31.637500000000003	30.375000000000004	15.925	22.0625
36-37	26.5625	34.637499999999996	13.675	25.124999999999996
38-39	24.125	32.324999999999996	14.625	28.925
40-41	25.162499999999998	29.6625	15.262500000000001	29.912499999999998
42-43	28.3625	28.925	18.587500000000002	24.125
44-45	21.6875	33.5875	16.75	27.975
46-47	22.7625	31.65	14.6875	30.9
48-49	14.0875	30.162499999999998	16.537499999999998	39.2125
50-51	13.1875	29.325000000000003	18.3125	39.175
52-53	14.787500000000001	25.174999999999997	22.8	37.237500000000004
54-55	15.012500000000001	25.2	27.962500000000002	31.825
56-57	10.274999999999999	30.049999999999997	23.3375	36.3375
58-59	8.9	30.3	24.875	35.925000000000004
60-61	6.0249999999999995	27.437499999999996	30.8125	35.725
62-63	11.537500000000001	26.924999999999997	28.8375	32.7
64-65	11.35	25.5125	28.199999999999996	34.9375
66-67	13.325000000000001	19.0	32.3625	35.3125
68-69	13.0	18.525	32.15	36.325
70-71	15.3625	17.6625	36.9125	30.062499999999996
72-73	14.274999999999999	20.875	35.575	29.275000000000002
74-75	17.175	17.45	32.45	32.925
76	13.225000000000001	14.05	35.6	37.125
>>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	1.0
33	2.0
34	1.0
35	0.0
36	2.5
37	5.0
38	8.5
39	12.0
40	15.0
41	41.0
42	64.0
43	77.5
44	157.0
45	293.5
46	364.0
47	606.5
48	682.0
49	497.0
50	479.0
51	497.5
52	438.5
53	315.0
54	269.0
55	180.0
56	86.0
57	53.0
58	25.0
59	18.5
60	8.0
61	4.0
62	4.0
63	2.0
64	0.5
65	0.5
66	0.0
67	0.0
68	0.5
69	0.5
70	0.0
71	0.0
72	0.0
73	0.0
74	0.0
75	0.0
76	0.0
77	0.0
78	0.0
79	0.0
80	0.0
81	0.0
82	0.0
83	0.0
84	0.0
85	0.0
86	0.0
87	0.0
88	0.0
89	0.0
90	0.0
91	0.0
92	0.0
93	0.0
94	0.0
95	0.0
96	0.0
97	0.0
98	0.0
99	0.5
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	61.575
#Duplication Level	Percentage of deduplicated	Percentage of total
1	89.36256597645148	55.025
2	4.344295574502639	5.35
3	2.2736500203004466	4.2
4	0.8526187576126675	2.1
5	0.6496142915144133	2.0
6	0.3654080389768575	1.35
7	0.32480714575720665	1.4000000000000001
8	0.32480714575720665	1.6
9	0.16240357287860333	0.8999999999999999
>10	1.1774259033698742	15.925
>50	0.08120178643930166	3.225
>100	0.08120178643930166	6.925000000000001
>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	153	3.8249999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TCCTCAGTAGCTCAGTGGTAGAGCGGTCGGCTGAGATCGGAAGAGCACAC	124	3.1	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGAGATCGGAAGAGCAC	77	1.925	No Hit
ATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAAC	52	1.3	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TCCGTTGTAGTCTAGCTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	49	1.225	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
GAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	44	1.0999999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTAGATCGGAAGAGCA	39	0.975	No Hit
CTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCA	35	0.8750000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACT	35	0.8750000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TAATTCATGATCTGGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	34	0.8500000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TCCTCAGTAGCTCAGTGGTAGAGCGGTCGGCTGTAGATCGGAAGAGCACA	31	0.775	No Hit
GCCGCCATGGTGAAATTGGTAGACACGCTGCTCTTAGATCGGAAGAGCAC	30	0.75	No Hit
GGGGATGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTA	29	0.7250000000000001	TruSeq Adapter, Index 2 (97% over 36bp)
ACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	29	0.7250000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
AACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAG	24	0.6	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
AAGGAAGCTATAAGTAATAGATCGGAAGAGCACACGTCTGAACTCCAGTC	23	0.575	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
AACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	23	0.575	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
AGGGCTATAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTA	22	0.5499999999999999	TruSeq Adapter, Index 2 (97% over 36bp)
CCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGT	19	0.475	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
TAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCA	19	0.475	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
AACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTAT	15	0.375	TruSeq Adapter, Index 2 (97% over 37bp)
AGCGGAGTAGAGCAGTTAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	14	0.35000000000000003	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTAGATCGGAAGAGCA	14	0.35000000000000003	No Hit
ATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACT	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TAACTGACTGGTCGTAGGTTCGAATCCTACTTGGGGAGCCAAGATCGGAA	12	0.3	No Hit
AGCGGAGTAGAGCAGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GCGAGCGTAGTTCAGTGGTAAAACATCTCCTTGCCAAGGAGAGATCGGAA	11	0.27499999999999997	No Hit
TCCTCAGTAGCTCAGTGGTAGAGCGGTCGGCTAGATCGGAAGAGCACACG	11	0.27499999999999997	No Hit
TGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGT	10	0.25	No Hit
CATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAA	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTGAGATCGGAAGAGCAC	10	0.25	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCAGATCGGAAGAGCACAC	10	0.25	No Hit
GATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTATACA	10	0.25	TruSeq Adapter, Index 2 (97% over 37bp)
CACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTCCA	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
ATATTCTGGTGTCCTAGGCGTAGAGGAACCACAAGATCGGAAGAGCACAC	9	0.22499999999999998	No Hit
TCCACAGGCTTTCTTGAACTGAGATCGGAAGAGCACACGTCTGAACTCCA	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
CGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTATAC	8	0.2	TruSeq Adapter, Index 2 (97% over 37bp)
CAGCCCCGCGTCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAACT	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
CGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCT	8	0.2	TruSeq Adapter, Index 1 (97% over 35bp)
TCCTCAGTAGCTCAGTGGTAGAGCGGTCGGCTGTTAGATCGGAAGAGCAC	8	0.2	No Hit
GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTGAGATCGGAAGAGCACA	8	0.2	No Hit
GAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTC	8	0.2	No Hit
ATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTATACAT	8	0.2	TruSeq Adapter, Index 2 (97% over 37bp)
ACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTATACATC	7	0.17500000000000002	TruSeq Adapter, Index 2 (97% over 37bp)
GGCGGATGTAGCCAAGTGGATCAAGGCAGTGGATTGTAGATCGGAAGAGC	7	0.17500000000000002	No Hit
TGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGC	7	0.17500000000000002	No Hit
AAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
CTAACGAACGAACGATTTGAATAGATCGGAAGAGCACACGTCTGAACTCC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TCCGTTGTAGTCTAGTTGGTCAGGATATTCGGCTCTAGATCGGAAGAGCA	7	0.17500000000000002	No Hit
TCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTA	7	0.17500000000000002	TruSeq Adapter, Index 2 (97% over 36bp)
TCCTCAGTAGCTCAGTGGTAGAGCGGTCGGCAGATCGGAAGAGCACACGT	6	0.15	No Hit
GACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
ACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCT	6	0.15	TruSeq Adapter, Index 1 (97% over 35bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCCAGATCGGAAGAGCA	6	0.15	No Hit
AACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
ATATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAGATCGGAAGAGCAC	6	0.15	No Hit
TAATTCATGATCTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
CAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCAC	6	0.15	No Hit
AGGGATGTAGCGCAGCTTGGTAGCGCTTTTGTTTTAGATCGGAAGAGCAC	6	0.15	No Hit
AACTGACTGGTCGTAGGTTCGAATCCTACTTGGGGAGCCAAGATCGGAAG	5	0.125	No Hit
AACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
CAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCCAGATCGGAAGAGCACA	5	0.125	No Hit
TGAAGCTGCCAGCATGATCTGAGATCGGAAGAGCACACGTCTGAACTCCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GCCCCCATCGTCTAGTGGTTCAGGACATCTCTCTTTAGATCGGAAGAGCA	5	0.125	No Hit
GGAGAGATGGCTGAGTGGACTAAAGCGGCGGATTGAGATCGGAAGAGCAC	5	0.125	No Hit
ACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTATA	5	0.125	TruSeq Adapter, Index 2 (97% over 37bp)
GGGTCGATGCCCGAGCGGTTAATGGGGACGGACTGAGATCGGAAGAGCAC	5	0.125	No Hit
GCGACCCCAGGTCAGTCGGGACTACCCGCTGAGTAGATCGGAAGAGCACA	5	0.125	No Hit
TTCTAGTTAATACGTGTGCTTGGGAGTCCAGATCGGAAGAGCACACGTCT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
AGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
AGATCATGTTGCAGCTTCACTAGATCGGAAGAGCACACGTCTGAACTCCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTGTAGATCGGAAGAGCA	5	0.125	No Hit
GCGACCCCAGGTCAGTCGGGACTACCCGCTAGATCGGAAGAGCACACGTC	5	0.125	No Hit
AAATCTGTTGGGCTACAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	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	0.075	0.0	0.0	0.0	0.0
2	0.075	0.0	0.0	0.0	0.0
3	0.1	0.0	0.0	0.0	0.0
4	0.125	0.0	0.0	0.0	0.0
5	0.125	0.0	0.0	0.0	0.0
6	0.2	0.0	0.0	0.0	0.0
7	0.25	0.0	0.0	0.0	0.0
8	0.475	0.0	0.0	0.0	0.0
9	0.825	0.0	0.0	0.0	0.0
10	1.3	0.0	0.0	0.0	0.0
11	1.675	0.0	0.0	0.0	0.0
12	2.225	0.0	0.0	0.0	0.0
13	2.925	0.0	0.0	0.0	0.0
14	5.475	0.0	0.0	0.0	0.0
15	6.975	0.0	0.0	0.0	0.0
16	8.425	0.0	0.0	0.0	0.0
17	12.45	0.0	0.0	0.0	0.0
18	15.575	0.0	0.0	0.0	0.0
19	18.325	0.0	0.0	0.0	0.0
20	22.025	0.0	0.0	0.0	0.0
21	24.675	0.0	0.0	0.0	0.0
22	29.775	0.0	0.0	0.0	0.0
23	36.9	0.0	0.0	0.0	0.0
24	39.775	0.0	0.0	0.0	0.0
25	48.325	0.0	0.0	0.0	0.0
26	51.85	0.0	0.0	0.0	0.0
27	54.35	0.0	0.0	0.0	0.0
28	57.925	0.0	0.0	0.0	0.0
29	59.8	0.0	0.0	0.0	0.0
30	62.05	0.0	0.0	0.0	0.0
31	64.55	0.0	0.0	0.0	0.0
32	66.3	0.0	0.0	0.0	0.0
33	68.275	0.0	0.0	0.0	0.0
34	74.0	0.0	0.0	0.0	0.0
35	77.525	0.0	0.0	0.0	0.0
36	83.525	0.0	0.0	0.0	0.0
37	87.4	0.0	0.0	0.0	0.0
38	89.025	0.0	0.0	0.0	0.0
39	89.725	0.0	0.0	0.0	0.0
40	90.6	0.0	0.0	0.0	0.0
41	91.475	0.0	0.0	0.0	0.0
42	92.7	0.0	0.0	0.0	0.0
43	93.15	0.0	0.0	0.0	0.0
44	93.45	0.0	0.0	0.0	0.0
45	93.7	0.0	0.0	0.0	0.0
46	93.925	0.0	0.0	0.0	0.0
47	94.225	0.0	0.0	0.0	0.0
48	94.425	0.0	0.0	0.0	0.0
49	94.6	0.0	0.0	0.0	0.0
50	94.625	0.0	0.0	0.0	0.0
51	94.65	0.0	0.0	0.0	0.0
52	94.65	0.0	0.0	0.0	0.0
53	94.7	0.0	0.0	0.0	0.0
54	94.7	0.0	0.0	0.0	0.0
55	94.75	0.0	0.0	0.0	0.0
56	94.75	0.0	0.0	0.0	0.0
57	94.75	0.0	0.0	0.0	0.0
58	94.75	0.0	0.0	0.0	0.0
59	94.775	0.0	0.0	0.0	0.0
60	94.775	0.0	0.0	0.0	0.0
61	94.775	0.0	0.0	0.0	0.0
62	94.775	0.0	0.0	0.0	0.0
63	94.775	0.0	0.0	0.0	0.0
64	94.775	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
GTTGAGA	15	0.0020658788	70.00001	32
GAGCGGT	15	0.0020658788	70.00001	21
TCTAGCT	15	0.0020658788	70.00001	11
CACGTTG	15	0.0020658788	70.00001	29
TCGGCTG	15	0.0020658788	70.00001	27
TCAGGAT	15	0.0020658788	70.00001	20
GCTGGTC	15	0.0020658788	70.00001	15
AGTGGTA	15	0.0020658788	70.00001	14
TAGCTGG	15	0.0020658788	70.00001	13
GCGGTCG	15	0.0020658788	70.00001	23
CCATGGT	15	0.0020658788	70.00001	5
CCTGAGA	15	0.0020658788	70.00001	32
CCGTTGT	15	0.0020658788	70.00001	2
GGCTGAG	15	0.0020658788	70.00001	29
TAGTCTA	15	0.0020658788	70.00001	8
TAGTTTA	15	0.0020658788	70.00001	9
GGTCAGG	15	0.0020658788	70.00001	18
TTGAGAT	15	0.0020658788	70.00001	33
TCAGTGG	15	0.0020658788	70.00001	12
CTGGTCA	15	0.0020658788	70.00001	16
>>END_MODULE
Rejected 213609 READS because READLEN < 1
Read 213609 spots for SRR11699421.sra
Written 213609 spots for SRR11699421.sra
Rejected 213609 READS because READLEN < 1
Read 213609 spots for SRR11699421.sra
Written 213609 spots for SRR11699421.sra
Rejected 213609 READS because READLEN < 1
Read 213609 spots for SRR11699421.sra
Rejected 213609 READS because READLEN < 1
Read 213609 spots for SRR11699421.sra
Written 213609 spots for SRR11699421.sra
Written 213609 spots for SRR11699421.sra
Rejected 213609 READS because READLEN < 1
Read 213609 spots for SRR11699421.sra
Written 213609 spots for SRR11699421.sra
Rejected 213625 READS because READLEN < 1
Read 213625 spots for SRR11699421.sra
Written 213625 spots for SRR11699421.sra
Rejected 213609 READS because READLEN < 1
Read 213609 spots for SRR11699421.sra
Written 213609 spots for SRR11699421.sra
Rejected 213609 READS because READLEN < 1
Read 213609 spots for SRR11699421.sra
Rejected 213609 READS because READLEN < 1
Read 213609 spots for SRR11699421.sra
Written 213609 spots for SRR11699421.sra
Written 213609 spots for SRR11699421.sra
Rejected 213609 READS because READLEN < 1
Read 213609 spots for SRR11699421.sra
Written 213609 spots for SRR11699421.sra
Rejected 213609 READS because READLEN < 1
Read 213609 spots for SRR11699421.sra
Written 213609 spots for SRR11699421.sra
Rejected 213609 READS because READLEN < 1
Read 213609 spots for SRR11699421.sra
Written 213609 spots for SRR11699421.sra
Rejected 213609 READS because READLEN < 1
Read 213609 spots for SRR11699421.sra
Written 213609 spots for SRR11699421.sra
Rejected 213609 READS because READLEN < 1
Read 213609 spots for SRR11699421.sra
Written 213609 spots for SRR11699421.sra
Rejected 213609 READS because READLEN < 1
Read 213609 spots for SRR11699421.sra
Written 213609 spots for SRR11699421.sra
Rejected 213609 READS because READLEN < 1
Read 213609 spots for SRR11699421.sra
Rejected 213609 READS because READLEN < 1
Read 213609 spots for SRR11699421.sra
Written 213609 spots for SRR11699421.sra
Written 213609 spots for SRR11699421.sra
Rejected 213609 READS because READLEN < 1
Read 213609 spots for SRR11699421.sra
Written 213609 spots for SRR11699421.sra
Rejected 213609 READS because READLEN < 1
Read 213609 spots for SRR11699421.sra
Written 213609 spots for SRR11699421.sra
Rejected 213609 READS because READLEN < 1
Read 213609 spots for SRR11699421.sra
Written 213609 spots for SRR11699421.sra
SRR ids: ['SRR11699421.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_c70400cr
SRR11699421.sra spots: 4272196
blocks: [[1, 213609], [213610, 427218], [427219, 640827], [640828, 854436], [854437, 1068045], [1068046, 1281654], [1281655, 1495263], [1495264, 1708872], [1708873, 1922481], [1922482, 2136090], [2136091, 2349699], [2349700, 2563308], [2563309, 2776917], [2776918, 2990526], [2990527, 3204135], [3204136, 3417744], [3417745, 3631353], [3631354, 3844962], [3844963, 4058571], [4058572, 4272196]]
SRR11699421 file size 811383
SRR11699421 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 SRR11699421 SRR11699421_1.fastq
Input file:	SRR11699421_1.fastq
trimmed:	SRR11699421-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 Jun 19 22:49:22 2025 >> started

Thu Jun 19 22:57:25 2025 >> done (483.148s)
4272196 reads processed; of these:
 733468 (17.17%) short reads filtered out after trimming by size control
   3322 ( 0.08%) empty reads filtered out after trimming by size control
3535406 (82.75%) reads available; of these:
3462400 (97.94%) trimmed reads available after processing
  73006 ( 2.06%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	 117789	  3.33%
 19	 148957	  4.21%
 20	 138258	  3.91%
 21	 205504	  5.81%
 22	 350953	  9.93%
 23	 135495	  3.83%
 24	 390499	 11.05%
 25	 152894	  4.32%
 26	  95497	  2.70%
 27	 144653	  4.09%
 28	  82296	  2.33%
 29	 102027	  2.89%
 30	  99532	  2.82%
 31	  89408	  2.53%
 32	  90222	  2.55%
 33	 264688	  7.49%
 34	 144506	  4.09%
 35	 229841	  6.50%
 36	 190681	  5.39%
 37	  62886	  1.78%
 38	  42595	  1.20%
 39	  38116	  1.08%
 40	  35362	  1.00%
 41	  50616	  1.43%
 42	  27301	  0.77%
 43	  19406	  0.55%
 44	  12414	  0.35%
 45	      0	  0.00%
 46	      0	  0.00%
 47	      0	  0.00%
 48	      0	  0.00%
 49	      0	  0.00%
 50	      0	  0.00%
 51	      0	  0.00%
 52	      0	  0.00%
 53	      0	  0.00%
 54	      0	  0.00%
 55	      0	  0.00%
 56	      0	  0.00%
 57	      0	  0.00%
 58	      0	  0.00%
 59	      0	  0.00%
 60	      0	  0.00%
 61	      0	  0.00%
 62	      0	  0.00%
 63	      0	  0.00%
 64	      0	  0.00%
 65	      0	  0.00%
 66	      0	  0.00%
 67	      0	  0.00%
 68	      0	  0.00%
 69	      0	  0.00%
 70	      0	  0.00%
 71	      0	  0.00%
 72	      1	  0.00%
 73	      0	  0.00%
 74	      1	  0.00%
 75	      2	  0.00%
 76	  73006	  2.06%
3535406 reads passed initial QC


criterion=sequence-density
sequence-density=7.04
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=18
prefix-density=0.00
prefix-fanout=1.0
sequence=TCCTCAGTAGCTCAGTGGTAGAGCGGTCGGCTGTTAACTGACT


criterion=fanout-score
sequence-density=0.01
sequence-density-rank=39
fanout-score=65.14
fanout-score-rank=1
prefix-density=0.36
prefix-fanout=1.0
sequence=CCTCGTGTTTAGTTGCCACTATGAGTTTGGAACCCTGAACAGACCGCCGGTGTTAAGCCGGAGGAAGGAGATCGGAA
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 TCCTCAGTAGCTCAGTGGTAGAGCGGTCGGCTGTTAACTGACT -o SRR11699421 -
Input file:	STDIN
trimmed:	SRR11699421-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	TCCTCAGTAGCTCAGTGGTAGAGCGGTCGGCTGTTAACTGACT
-- 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
Thu Jun 19 22:57:43 2025 >> started

Thu Jun 19 22:57:50 2025 >> done (6.934s)
2651555 reads processed; of these:
   6997 ( 0.26%) short reads filtered out after trimming by size control
 189818 ( 7.16%) empty reads filtered out after trimming by size control
2454740 (92.58%) reads available; of these:
  54247 ( 2.21%) trimmed reads available after processing
2400493 (97.79%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  88733	  3.61%
 19	 111334	  4.54%
 20	 103816	  4.23%
 21	 155218	  6.32%
 22	 263217	 10.72%
 23	 102067	  4.16%
 24	 291600	 11.88%
 25	 115898	  4.72%
 26	  79292	  3.23%
 27	 107783	  4.39%
 28	  59818	  2.44%
 29	  69059	  2.81%
 30	  72016	  2.93%
 31	  61756	  2.52%
 32	  53595	  2.18%
 33	  74786	  3.05%
 34	  79325	  3.23%
 35	 159700	  6.51%
 36	 137279	  5.59%
 37	  47040	  1.92%
 38	  32071	  1.31%
 39	  28688	  1.17%
 40	  26318	  1.07%
 41	  37612	  1.53%
 42	  19713	  0.80%
 43	  13294	  0.54%
 44	   9071	  0.37%
 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	      9	  0.00%
 72	     37	  0.00%
 73	   8444	  0.34%
 74	      1	  0.00%
 75	      1	  0.00%
 76	  46148	  1.88%


criterion=sequence-density
sequence-density=4.52
sequence-density-rank=1
fanout-score=1.00
fanout-score-rank=14
prefix-density=0.02
prefix-fanout=1.0
sequence=TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTCACCCGAAAGACCCGGGTT


criterion=fanout-score
sequence-density=0.21
sequence-density-rank=20
fanout-score=20.71
fanout-score-rank=1
prefix-density=4.24
prefix-fanout=1.0
sequence=GTCTAGCTGGTTAGGATA
                                 Started job on |	Jun 19 23:01:46
                             Started mapping on |	Jun 19 23:02:23
                                    Finished on |	Jun 19 23:07:07
       Mapping speed, Million of reads per hour |	42.32

                          Number of input reads |	3338591
                      Average input read length |	28
                                    UNIQUE READS:
                   Uniquely mapped reads number |	360150
                        Uniquely mapped reads % |	10.79%
                          Average mapped length |	25.09
                       Number of splices: Total |	7382
            Number of splices: Annotated (sjdb) |	3564
                       Number of splices: GT/AG |	6812
                       Number of splices: GC/AG |	367
                       Number of splices: AT/AC |	6
               Number of splices: Non-canonical |	197
                      Mismatch rate per base, % |	1.05%
                         Deletion rate per base |	0.01%
                        Deletion average length |	1.41
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.26
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	372213
             % of reads mapped to multiple loci |	11.15%
        Number of reads mapped to too many loci |	969624
             % of reads mapped to too many loci |	29.04%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	6.50%
                     % of reads unmapped: other |	42.52%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	2606228	2606228	2606228
N_multimapping	372213	372213	372213
N_noFeature	295690	305656	348214
N_ambiguous	2012	22	25
UnstrandedReadsAssigned:62448 PositiveStrandReadsAssigned:54472 NegativeStrandReadsAssigned:11911
Dataset is classified unstranded
MeadianReadLen=25 20thPercentileLength=22 echo kmer=19
SRR11699421 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: SRR11699421-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 3,338,591 reads, 731,656 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 875 rounds

  72540 SRR11699421.ke.tsv
  44303 SRR11699421.se.tsv
 116843 total
==> SRR11699421.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Zm00001eb096110_T001	2067	1968	0	0
Zm00001eb321680_T001	3417	3318	2	0.936345
Zm00001eb323640_T001	3273	3174	2	0.978825
Zm00001eb314140_T001	893	794	0	0
Zm00001eb080260_T001	3529	3430	1	0.452885
Zm00001eb026490_T001	2433	2334	0	0
Zm00001eb026490_T002	2229	2130	0	0
Zm00001eb026490_T003	2220	2121	0	0
Zm00001eb281360_T001	2412	2313	0	0

==> SRR11699421.se.tsv <==
Zm00001eb015280	0
Zm00001eb000610	0
Zm00001eb033210	0
Zm00001eb044610	0
Zm00001eb014360	0
Zm00001eb051320	1
Zm00001eb021860	0
Zm00001eb011690	0
Zm00001eb016840	0
Zm00001eb052060	0
SRR11699421 completed mapping pipeline successfully
