Starting /dee2/code/volunteer_pipeline.sh SRR11699299
    current disk space = 2467294986240
    free memory = 1569707896 
SRR11699299 SRAfilesize
8191ed4333455bab721cabefd848ad77  SRR11699299.sra
SRR11699299.sra file validated
SRR11699299 is single end
SRR11699299 is conventional basespace
SRR11699299 read1 length is 76 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR11699299_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	51
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	31.343	32.0	32.0	32.0	32.0	32.0
2	31.524	32.0	32.0	32.0	32.0	32.0
3	31.4465	32.0	32.0	32.0	32.0	32.0
4	31.48525	32.0	32.0	32.0	32.0	32.0
5	31.57325	32.0	32.0	32.0	32.0	32.0
6	35.223	36.0	36.0	36.0	36.0	36.0
7	35.17775	36.0	36.0	36.0	36.0	36.0
8	35.19075	36.0	36.0	36.0	36.0	36.0
9	34.95325	36.0	36.0	36.0	36.0	36.0
10-11	35.22	36.0	36.0	36.0	36.0	36.0
12-13	35.130250000000004	36.0	36.0	36.0	36.0	36.0
14-15	35.113875	36.0	36.0	36.0	36.0	36.0
16-17	35.181875	36.0	36.0	36.0	36.0	36.0
18-19	35.2465	36.0	36.0	36.0	36.0	36.0
20-21	35.061375	36.0	36.0	36.0	36.0	36.0
22-23	35.12175	36.0	36.0	36.0	36.0	36.0
24-25	35.081375	36.0	36.0	36.0	36.0	36.0
26-27	35.021375	36.0	36.0	36.0	36.0	36.0
28-29	34.908875	36.0	36.0	36.0	36.0	36.0
30-31	34.93175	36.0	36.0	36.0	36.0	36.0
32-33	34.874375	36.0	36.0	36.0	36.0	36.0
34-35	34.991875	36.0	36.0	36.0	36.0	36.0
36-37	34.997375000000005	36.0	36.0	36.0	36.0	36.0
38-39	34.936125	36.0	36.0	36.0	36.0	36.0
40-41	34.923	36.0	36.0	36.0	36.0	36.0
42-43	34.836625	36.0	36.0	36.0	34.0	36.0
44-45	34.801875	36.0	36.0	36.0	34.0	36.0
46-47	34.86475	36.0	36.0	36.0	36.0	36.0
48-49	34.69725	36.0	36.0	36.0	34.0	36.0
50-51	34.399875	36.0	36.0	36.0	32.0	36.0
52-53	34.059625	36.0	36.0	36.0	32.0	36.0
54-55	33.608875	36.0	36.0	36.0	26.5	36.0
56-57	32.792874999999995	36.0	36.0	36.0	17.5	36.0
58-59	32.048625	36.0	32.0	36.0	14.0	36.0
60-61	31.22425	36.0	32.0	36.0	14.0	36.0
62-63	30.686999999999998	36.0	32.0	36.0	14.0	36.0
64-65	29.81525	36.0	27.0	36.0	14.0	36.0
66-67	28.289625	32.0	14.0	36.0	14.0	36.0
68-69	27.76475	32.0	14.0	36.0	14.0	36.0
70-71	27.85	32.0	14.0	36.0	14.0	36.0
72-73	27.714374999999997	32.0	14.0	36.0	14.0	36.0
74-75	28.095625	32.0	14.0	36.0	14.0	36.0
76	24.8625	27.0	14.0	36.0	14.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
20	3.0
21	1.0
22	0.0
23	5.0
24	19.0
25	30.0
26	39.0
27	61.0
28	94.0
29	153.0
30	265.0
31	337.0
32	434.0
33	661.0
34	1010.0
35	888.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	21.875	29.299999999999997	25.1	23.724999999999998
2	22.525000000000002	27.35	24.075	26.05
3	24.15	32.1	17.525	26.224999999999998
4	29.225	32.6	16.900000000000002	21.275
5	21.5	27.975	24.25	26.275
6	24.825	25.85	25.900000000000002	23.425
7	31.7	32.225	18.825	17.25
8	22.625	25.8	30.525000000000002	21.05
9	24.7	33.425	18.85	23.025000000000002
10-11	30.9625	26.424999999999997	24.1375	18.475
12-13	22.6375	22.325	25.0625	29.975
14-15	29.7875	36.6	18.325	15.287500000000001
16-17	22.3125	25.112499999999997	31.3	21.275
18-19	35.75	25.6125	21.5625	17.075000000000003
20-21	25.275	34.050000000000004	24.3	16.375
22-23	31.8625	37.5	14.774999999999999	15.862499999999999
24-25	29.325000000000003	39.0375	14.9625	16.675
26-27	29.462500000000002	33.0625	16.675	20.8
28-29	32.237500000000004	29.599999999999998	14.912500000000001	23.25
30-31	33.7375	36.125	9.6125	20.525
32-33	29.375	38.4375	10.875	21.3125
34-35	30.2875	30.9875	13.275	25.45
36-37	26.7625	33.3125	10.8875	29.037499999999998
38-39	22.5125	33.300000000000004	14.0375	30.15
40-41	23.0625	28.475	17.825	30.6375
42-43	25.887500000000003	25.424999999999997	20.7625	27.925
44-45	19.275000000000002	30.662499999999998	18.2875	31.775
46-47	19.4875	29.9625	16.1875	34.362500000000004
48-49	14.524999999999999	25.637500000000003	19.662499999999998	40.175
50-51	14.875	23.625	20.837500000000002	40.6625
52-53	16.6875	21.7	23.025000000000002	38.587500000000006
54-55	15.975	22.8375	22.8625	38.324999999999996
56-57	12.5125	18.125	25.362499999999997	44.0
58-59	13.9625	17.1625	24.5375	44.3375
60-61	15.137500000000001	15.65	30.5125	38.7
62-63	15.325	17.599999999999998	31.724999999999998	35.35
64-65	11.475	16.7	33.637499999999996	38.1875
66-67	14.475	11.899999999999999	36.8125	36.8125
68-69	16.55	12.975	35.4375	35.0375
70-71	17.675	12.862499999999999	38.3125	31.15
72-73	18.4875	11.9125	35.3125	34.2875
74-75	19.875	8.325000000000001	35.6625	36.1375
76	11.95	8.799999999999999	45.925	33.324999999999996
>>END_MODULE
>>Per sequence GC content	fail
#GC Content	Count
0	0.0
1	0.0
2	0.0
3	0.0
4	0.0
5	0.0
6	0.0
7	0.0
8	0.0
9	0.0
10	0.0
11	0.0
12	0.0
13	0.0
14	0.0
15	0.0
16	0.0
17	0.0
18	0.0
19	0.0
20	0.0
21	0.0
22	0.0
23	0.0
24	0.0
25	0.0
26	0.0
27	0.0
28	0.0
29	0.0
30	0.0
31	0.0
32	0.0
33	0.0
34	0.0
35	0.0
36	0.0
37	0.0
38	0.5
39	1.0
40	3.0
41	9.0
42	13.0
43	21.0
44	45.0
45	104.0
46	147.0
47	196.0
48	390.0
49	698.0
50	861.0
51	705.0
52	531.5
53	441.0
54	368.0
55	323.0
56	217.0
57	136.5
58	117.0
59	92.5
60	48.5
61	19.0
62	9.0
63	8.0
64	4.5
65	1.5
66	1.0
67	1.0
68	0.5
69	0.0
70	0.0
71	0.0
72	0.0
73	0.0
74	0.0
75	0.0
76	0.0
77	0.0
78	0.0
79	0.0
80	0.0
81	0.0
82	0.0
83	0.0
84	0.0
85	0.0
86	0.0
87	0.0
88	0.0
89	0.0
90	0.0
91	0.0
92	0.0
93	0.0
94	0.0
95	0.0
96	0.0
97	0.0
98	0.5
99	1.5
100	2.0
>>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	65.47500000000001
#Duplication Level	Percentage of deduplicated	Percentage of total
1	89.46162657502865	58.575
2	4.925544100801833	6.45
3	1.9091256204658267	3.75
4	0.9545628102329133	2.5
5	0.4963726613211149	1.625
6	0.3436426116838488	1.35
7	0.19091256204658266	0.8750000000000001
8	0.22909507445589922	1.2
9	0.19091256204658266	1.125
>10	1.221840397098129	16.325
>50	0.038182512409316534	1.675
>100	0.038182512409316534	4.55
>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	182	4.55	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
ATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAAC	67	1.675	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
AGGGCTATAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTC	42	1.05	TruSeq Adapter, Index 1 (97% over 36bp)
GAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	42	1.05	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGAGATCGGAAGAGCAC	41	1.0250000000000001	No Hit
CTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCA	37	0.9249999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
AACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAG	36	0.8999999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TAATTCATGATCTGGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	34	0.8500000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TCCGTTGTAGTCTAGCTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	33	0.8250000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
ACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	33	0.8250000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
CCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGT	27	0.675	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
TAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCA	27	0.675	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACT	25	0.625	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GGGGATGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTC	25	0.625	TruSeq Adapter, Index 1 (97% over 36bp)
AACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTCG	19	0.475	TruSeq Adapter, Index 12 (97% over 37bp)
ATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTCGCTAT	16	0.4	TruSeq Adapter, Index 12 (97% over 37bp)
TCCGTTGTAGTCTAGCTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	16	0.4	No Hit
AACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTAGATCGGAAGAGCA	14	0.35000000000000003	No Hit
TCCGTTGTAGTCTAGTTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	14	0.35000000000000003	No Hit
ACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC	14	0.35000000000000003	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TAATTCATGATCTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGT	12	0.3	No Hit
ACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTC	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
TTTGGATTGAAGGGAGCTCTGAGATCGGAAGAGCACACGTCTGAACTCCA	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
ATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACT	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
CACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTCCA	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
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)
CAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTC	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
GACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTC	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
CATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAA	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
CTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAG	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
CGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTCGCT	10	0.25	TruSeq Adapter, Index 12 (97% over 37bp)
GCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACAC	9	0.22499999999999998	No Hit
CTAACGAACGAACGATTTGAACAGATCGGAAGGGCACACGTCTGAACTCC	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (96% over 28bp)
AAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
GAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTCGCTA	9	0.22499999999999998	TruSeq Adapter, Index 12 (97% over 37bp)
CGACACGACTCTCGGCAACGAGATCGGAAGAGCACACGTCTGAACTCCAG	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGC	8	0.2	No Hit
GACACGACTCTCGGCAACGGATATCTCGGCAGATCGGAAGAGCACACGTC	8	0.2	No Hit
GGGGACGTAGCTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCT	8	0.2	TruSeq Adapter, Index 1 (97% over 35bp)
ATCCTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GGGGATGTAGCTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCT	8	0.2	TruSeq Adapter, Index 1 (97% over 35bp)
TCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCT	7	0.17500000000000002	TruSeq Adapter, Index 1 (97% over 35bp)
CGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCT	7	0.17500000000000002	TruSeq Adapter, Index 1 (97% over 35bp)
ACACGACTCTCGGCAACGGATATCTCGGCAGATCGGAAGAGCACACGTCT	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
ACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTCGC	7	0.17500000000000002	TruSeq Adapter, Index 12 (97% over 37bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCACAAGATCGGAAGAGCACACG	7	0.17500000000000002	No Hit
GCGTCTGTAGTCCAACGGTTAGGATAATTGCCAGATCGGAAGAGCACACG	6	0.15	No Hit
TGAAGCTGCCAGCATGATCTGAGATCGGAAGAGCACACGTCTGAACTCCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTCGCTATC	6	0.15	TruSeq Adapter, Index 12 (97% over 37bp)
ACGTCTGCCTGGGCGTCACGCAGATCGGAAGAGCACACGTCTGAACTCCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTGAGATCGGAAGAGCAC	6	0.15	No Hit
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGAGATCGGAAGAGCACACGT	6	0.15	No Hit
GAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTC	6	0.15	No Hit
CACGACTCTCGGCAACGGATATCTCGGCAGATCGGAAGAGCACACGTCTG	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
GCGACCCCAGGTCAGTCGGGAGATCGGAAGAGCACACGTCTGAACTCCAG	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAAAGATCGGAAGAGCA	5	0.125	No Hit
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGAGATCGGAAGAGCACACG	5	0.125	No Hit
TCCGTTGTAGTCTAGTTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
CTTATCGGATTGGACGTGCCTCGAAGAAGATCGGAAGAGCACACGTCTGA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
GCGACCCCAGGTCAGTCGGGAAGATCGGAAGAGCACACGTCTGAACTCCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GGGCCTGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTC	5	0.125	TruSeq Adapter, Index 1 (97% over 36bp)
CGACACGACTCTCGGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TCAAAAGAGGAAAGGCTTGCGGTGGATAGATCGGAAGAGCACACGTCTGA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCAGATCGGAAGAGCACAC	5	0.125	No Hit
CCCGCGTCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAACTCCAG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
CGACACGACTCTCGGCAACGGAAGATCGGAAGAGCACACGTCTGAACTCC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
CAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCAC	5	0.125	No Hit
GAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTC	5	0.125	TruSeq Adapter, Index 1 (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	0.075	0.0	0.0	0.0	0.0
2	0.175	0.0	0.0	0.0	0.0
3	0.2	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	0.3	0.0	0.0	0.0	0.0
7	0.375	0.0	0.0	0.0	0.0
8	0.625	0.0	0.0	0.0	0.0
9	1.25	0.0	0.0	0.0	0.0
10	1.675	0.0	0.0	0.0	0.0
11	2.35	0.0	0.0	0.0	0.0
12	3.125	0.0	0.0	0.0	0.0
13	4.3	0.0	0.0	0.0	0.0
14	7.6	0.0	0.0	0.0	0.0
15	9.675	0.0	0.0	0.0	0.0
16	11.4	0.0	0.0	0.0	0.0
17	14.85	0.0	0.0	0.0	0.0
18	18.15	0.0	0.0	0.0	0.0
19	20.725	0.0	0.0	0.0	0.0
20	24.85	0.0	0.0	0.0	0.0
21	29.225	0.0	0.0	0.0	0.0
22	35.3	0.0	0.0	0.0	0.0
23	44.725	0.0	0.0	0.0	0.0
24	48.075	0.0	0.0	0.0	0.0
25	56.775	0.0	0.0	0.0	0.0
26	60.725	0.0	0.0	0.0	0.0
27	63.7	0.0	0.0	0.0	0.0
28	66.65	0.0	0.0	0.0	0.0
29	68.925	0.0	0.0	0.0	0.0
30	71.025	0.0	0.0	0.0	0.0
31	75.125	0.0	0.0	0.0	0.0
32	77.4	0.0	0.0	0.0	0.0
33	79.525	0.0	0.0	0.0	0.0
34	81.35	0.0	0.0	0.0	0.0
35	83.075	0.0	0.0	0.0	0.0
36	85.975	0.0	0.0	0.0	0.0
37	88.125	0.0	0.0	0.0	0.0
38	89.25	0.0	0.0	0.0	0.0
39	90.15	0.0	0.0	0.0	0.0
40	90.675	0.0	0.0	0.0	0.0
41	91.15	0.0	0.0	0.0	0.0
42	91.775	0.0	0.0	0.0	0.0
43	91.975	0.0	0.0	0.0	0.0
44	92.3	0.0	0.0	0.0	0.0
45	92.675	0.0	0.0	0.0	0.0
46	92.825	0.0	0.0	0.0	0.0
47	93.025	0.0	0.0	0.0	0.0
48	93.1	0.0	0.0	0.0	0.0
49	93.15	0.0	0.0	0.0	0.0
50	93.2	0.0	0.0	0.0	0.0
51	93.275	0.0	0.0	0.0	0.0
52	93.3	0.0	0.0	0.0	0.0
53	93.325	0.0	0.0	0.0	0.0
54	93.35	0.0	0.0	0.0	0.0
55	93.35	0.0	0.0	0.0	0.0
56	93.35	0.0	0.0	0.0	0.0
57	93.35	0.0	0.0	0.0	0.0
58	93.35	0.0	0.0	0.0	0.0
59	93.35	0.0	0.0	0.0	0.0
60	93.35	0.0	0.0	0.0	0.0
61	93.35	0.0	0.0	0.0	0.0
62	93.35	0.0	0.0	0.0	0.0
63	93.35	0.0	0.0	0.0	0.0
64	93.35	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
TGGTCAG	15	0.0020658788	70.00001	17
ACACGAC	15	0.0020658788	70.00001	1
TCTAGCT	15	0.0020658788	70.00001	11
TTGTAGT	15	0.0020658788	70.00001	5
TCAGGAT	15	0.0020658788	70.00001	20
GCTGGTC	15	0.0020658788	70.00001	15
CCGTTGT	15	0.0020658788	70.00001	2
GGTCAGG	15	0.0020658788	70.00001	18
CTGGTCA	15	0.0020658788	70.00001	16
TGTAGTC	15	0.0020658788	70.00001	6
CTAGCTG	15	0.0020658788	70.00001	12
GTCTAGC	15	0.0020658788	70.00001	10
TCCGTTG	15	0.0020658788	70.00001	1
CGTTGTA	15	0.0020658788	70.00001	3
CAGGATA	15	0.0020658788	70.00001	21
GTCAGGA	15	0.0020658788	70.00001	19
GTTGTAG	15	0.0020658788	70.00001	4
TAGTCTA	20	7.003785E-5	70.0	8
AGTCTAG	20	7.003785E-5	70.0	9
GTAGTCT	20	7.003785E-5	70.0	7
>>END_MODULE
Rejected 227791 READS because READLEN < 1
Read 227791 spots for SRR11699299.sra
Written 227791 spots for SRR11699299.sra
Rejected 227791 READS because READLEN < 1
Read 227791 spots for SRR11699299.sra
Written 227791 spots for SRR11699299.sra
Rejected 227791 READS because READLEN < 1
Read 227791 spots for SRR11699299.sra
Written 227791 spots for SRR11699299.sra
Rejected 227791 READS because READLEN < 1
Read 227791 spots for SRR11699299.sra
Written 227791 spots for SRR11699299.sra
Rejected 227791 READS because READLEN < 1
Read 227791 spots for SRR11699299.sra
Written 227791 spots for SRR11699299.sra
Rejected 227791 READS because READLEN < 1
Read 227791 spots for SRR11699299.sra
Written 227791 spots for SRR11699299.sra
Rejected 227791 READS because READLEN < 1
Read 227791 spots for SRR11699299.sra
Written 227791 spots for SRR11699299.sra
Rejected 227791 READS because READLEN < 1
Read 227791 spots for SRR11699299.sra
Written 227791 spots for SRR11699299.sra
Rejected 227791 READS because READLEN < 1
Read 227791 spots for SRR11699299.sra
Written 227791 spots for SRR11699299.sra
Rejected 227791 READS because READLEN < 1
Read 227791 spots for SRR11699299.sra
Written 227791 spots for SRR11699299.sra
Rejected 227791 READS because READLEN < 1
Read 227791 spots for SRR11699299.sra
Written 227791 spots for SRR11699299.sra
Rejected 227791 READS because READLEN < 1
Read 227791 spots for SRR11699299.sra
Written 227791 spots for SRR11699299.sra
Rejected 227791 READS because READLEN < 1
Read 227791 spots for SRR11699299.sra
Written 227791 spots for SRR11699299.sra
Rejected 227791 READS because READLEN < 1
Read 227791 spots for SRR11699299.sra
Written 227791 spots for SRR11699299.sra
Rejected 227791 READS because READLEN < 1
Read 227791 spots for SRR11699299.sra
Written 227791 spots for SRR11699299.sra
Rejected 227810 READS because READLEN < 1
Read 227810 spots for SRR11699299.sra
Written 227810 spots for SRR11699299.sra
Rejected 227791 READS because READLEN < 1
Read 227791 spots for SRR11699299.sra
Written 227791 spots for SRR11699299.sra
Rejected 227791 READS because READLEN < 1
Read 227791 spots for SRR11699299.sra
Written 227791 spots for SRR11699299.sra
Rejected 227791 READS because READLEN < 1
Read 227791 spots for SRR11699299.sra
Written 227791 spots for SRR11699299.sra
Rejected 227791 READS because READLEN < 1
Read 227791 spots for SRR11699299.sra
Written 227791 spots for SRR11699299.sra
SRR ids: ['SRR11699299.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_s139_e6h
SRR11699299.sra spots: 4555839
blocks: [[1, 227791], [227792, 455582], [455583, 683373], [683374, 911164], [911165, 1138955], [1138956, 1366746], [1366747, 1594537], [1594538, 1822328], [1822329, 2050119], [2050120, 2277910], [2277911, 2505701], [2505702, 2733492], [2733493, 2961283], [2961284, 3189074], [3189075, 3416865], [3416866, 3644656], [3644657, 3872447], [3872448, 4100238], [4100239, 4328029], [4328030, 4555839]]
SRR11699299 file size 865397
SRR11699299 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 SRR11699299 SRR11699299_1.fastq
Input file:	SRR11699299_1.fastq
trimmed:	SRR11699299-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 10:39:36 2025 >> started

Wed Jun 18 10:39:37 2025 >> done (1.812s)
4555839 reads processed; of these:
 979599 (21.50%) short reads filtered out after trimming by size control
   4492 ( 0.10%) empty reads filtered out after trimming by size control
3571748 (78.40%) reads available; of these:
3513139 (98.36%) trimmed reads available after processing
  58609 ( 1.64%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	 129879	  3.64%
 19	 190960	  5.35%
 20	 191267	  5.35%
 21	 269843	  7.55%
 22	 448328	 12.55%
 23	 174714	  4.89%
 24	 428085	 11.99%
 25	 196277	  5.50%
 26	 128318	  3.59%
 27	 165602	  4.64%
 28	 106383	  2.98%
 29	 109835	  3.08%
 30	 171882	  4.81%
 31	 102336	  2.87%
 32	  94231	  2.64%
 33	  87034	  2.44%
 34	  86120	  2.41%
 35	 128070	  3.59%
 36	  83255	  2.33%
 37	  52100	  1.46%
 38	  36679	  1.03%
 39	  35021	  0.98%
 40	  25368	  0.71%
 41	  29681	  0.83%
 42	  18096	  0.51%
 43	  14650	  0.41%
 44	   9123	  0.26%
 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	      1	  0.00%
 72	      0	  0.00%
 73	      0	  0.00%
 74	      0	  0.00%
 75	      1	  0.00%
 76	  58609	  1.64%
3571748 reads passed initial QC


criterion=sequence-density
sequence-density=4.50
sequence-density-rank=1
fanout-score=1.00
fanout-score-rank=15
prefix-density=0.00
prefix-fanout=1.0
sequence=TCCGTTGTAGTCTAGCTGGTCAGGATA


criterion=fanout-score
sequence-density=0.01
sequence-density-rank=37
fanout-score=27.82
fanout-score-rank=1
prefix-density=0.16
prefix-fanout=1.0
sequence=GCCTCGAAGCTCCCTTCCCAACGGGCGGCGTGCTGAATCCTTTGCAGACGACTTAAAACGCGACGGGGCATTGTAAGTGGCAGAGTGGCCTTGCTGCCACGATCCACTGAGATCCAGCCCCGCGTCGCACGGATTCGT
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 10:39:47
                             Started mapping on |	Jun 18 10:39:48
                                    Finished on |	Jun 18 10:40:01
       Mapping speed, Million of reads per hour |	989.10

                          Number of input reads |	3571748
                      Average input read length |	26
                                    UNIQUE READS:
                   Uniquely mapped reads number |	375984
                        Uniquely mapped reads % |	10.53%
                          Average mapped length |	24.05
                       Number of splices: Total |	8667
            Number of splices: Annotated (sjdb) |	3748
                       Number of splices: GT/AG |	8102
                       Number of splices: GC/AG |	426
                       Number of splices: AT/AC |	8
               Number of splices: Non-canonical |	131
                      Mismatch rate per base, % |	1.34%
                         Deletion rate per base |	0.01%
                        Deletion average length |	1.40
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.40
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	480710
             % of reads mapped to multiple loci |	13.46%
        Number of reads mapped to too many loci |	671729
             % of reads mapped to too many loci |	18.81%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	6.01%
                     % of reads unmapped: other |	51.20%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	2715054	2715054	2715054
N_multimapping	480710	480710	480710
N_noFeature	307079	320241	360586
N_ambiguous	2271	22	20
UnstrandedReadsAssigned:66634 PositiveStrandReadsAssigned:55721 NegativeStrandReadsAssigned:15378
Dataset is classified unstranded
MeadianReadLen=24 20thPercentileLength=21 echo kmer=19
SRR11699299 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: SRR11699299-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 3,571,748 reads, 709,355 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 861 rounds

  72540 SRR11699299.ke.tsv
  44303 SRR11699299.se.tsv
 116843 total
==> SRR11699299.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Zm00001eb096110_T001	2067	1968	0	0
Zm00001eb321680_T001	3417	3318	2	0.903207
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

==> SRR11699299.se.tsv <==
Zm00001eb015280	0
Zm00001eb000610	0
Zm00001eb033210	0
Zm00001eb044610	0
Zm00001eb014360	0
Zm00001eb051320	0
Zm00001eb021860	0
Zm00001eb011690	0
Zm00001eb016840	0
Zm00001eb052060	0
SRR11699299 completed mapping pipeline successfully
