Starting /dee2/code/volunteer_pipeline.sh SRR11699263
    current disk space = 2484237168640
    free memory = 859603316 
SRR11699263 SRAfilesize
d810465c541a69e9444da32e4c9371ef  SRR11699263.sra
SRR11699263.sra file validated
SRR11699263 is single end
SRR11699263 is conventional basespace
SRR11699263 read1 length is 76 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR11699263_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	31.3215	32.0	32.0	32.0	32.0	32.0
2	31.4005	32.0	32.0	32.0	32.0	32.0
3	31.49575	32.0	32.0	32.0	32.0	32.0
4	31.60075	32.0	32.0	32.0	32.0	32.0
5	31.6195	32.0	32.0	32.0	32.0	32.0
6	35.06675	36.0	36.0	36.0	36.0	36.0
7	35.06325	36.0	36.0	36.0	36.0	36.0
8	35.13175	36.0	36.0	36.0	36.0	36.0
9	35.00325	36.0	36.0	36.0	36.0	36.0
10-11	35.1725	36.0	36.0	36.0	36.0	36.0
12-13	35.102375	36.0	36.0	36.0	36.0	36.0
14-15	35.061375	36.0	36.0	36.0	36.0	36.0
16-17	35.16525	36.0	36.0	36.0	36.0	36.0
18-19	35.241	36.0	36.0	36.0	36.0	36.0
20-21	34.9345	36.0	36.0	36.0	36.0	36.0
22-23	34.983625	36.0	36.0	36.0	36.0	36.0
24-25	34.9805	36.0	36.0	36.0	36.0	36.0
26-27	34.958749999999995	36.0	36.0	36.0	36.0	36.0
28-29	34.935874999999996	36.0	36.0	36.0	36.0	36.0
30-31	34.855000000000004	36.0	36.0	36.0	36.0	36.0
32-33	34.89	36.0	36.0	36.0	34.0	36.0
34-35	34.947874999999996	36.0	36.0	36.0	36.0	36.0
36-37	34.873999999999995	36.0	36.0	36.0	36.0	36.0
38-39	34.883250000000004	36.0	36.0	36.0	36.0	36.0
40-41	34.854	36.0	36.0	36.0	36.0	36.0
42-43	34.827375	36.0	36.0	36.0	36.0	36.0
44-45	34.8565	36.0	36.0	36.0	34.0	36.0
46-47	34.8095	36.0	36.0	36.0	36.0	36.0
48-49	34.625375000000005	36.0	36.0	36.0	32.0	36.0
50-51	34.260125	36.0	36.0	36.0	32.0	36.0
52-53	34.3445	36.0	36.0	36.0	32.0	36.0
54-55	34.113875	36.0	36.0	36.0	32.0	36.0
56-57	33.830375	36.0	36.0	36.0	29.5	36.0
58-59	33.420125	36.0	36.0	36.0	27.0	36.0
60-61	33.584	36.0	36.0	36.0	27.0	36.0
62-63	33.3335	36.0	36.0	36.0	27.0	36.0
64-65	33.049625	36.0	32.0	36.0	24.0	36.0
66-67	32.688125	36.0	32.0	36.0	27.0	36.0
68-69	32.700375	36.0	32.0	36.0	24.0	36.0
70-71	32.787	36.0	32.0	36.0	27.0	36.0
72-73	32.67775	36.0	32.0	36.0	14.0	36.0
74-75	32.865624999999994	36.0	32.0	36.0	14.0	36.0
76	30.15625	36.0	27.0	36.0	14.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
20	1.0
21	0.0
22	1.0
23	2.0
24	9.0
25	11.0
26	30.0
27	51.0
28	65.0
29	77.0
30	107.0
31	153.0
32	219.0
33	387.0
34	997.0
35	1890.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	23.5	31.05	25.6	19.85
2	22.325	27.250000000000004	26.075	24.349999999999998
3	23.599999999999998	29.849999999999998	20.974999999999998	25.575
4	27.875	29.525000000000002	20.75	21.85
5	24.0	25.75	23.875	26.375
6	25.4	28.025	26.424999999999997	20.150000000000002
7	33.775	30.8	19.1	16.325
8	24.3	25.35	29.775000000000002	20.575
9	25.55	30.599999999999998	21.099999999999998	22.75
10-11	32.725	26.8125	23.125	17.3375
12-13	24.3875	22.7	24.55	28.3625
14-15	29.9	34.887499999999996	18.4	16.8125
16-17	24.5125	24.5125	30.599999999999998	20.375
18-19	36.412499999999994	23.9875	22.4375	17.1625
20-21	24.3	32.887499999999996	24.712500000000002	18.099999999999998
22-23	32.5625	35.3875	14.9875	17.0625
24-25	29.6375	36.225	14.662500000000001	19.475
26-27	27.6375	32.35	19.125	20.8875
28-29	31.4375	26.8375	17.275	24.45
30-31	32.3875	33.074999999999996	12.612499999999999	21.925
32-33	27.962500000000002	35.975	13.5125	22.55
34-35	30.4	31.1875	15.325	23.0875
36-37	25.074999999999996	34.112500000000004	13.8375	26.974999999999998
38-39	24.425	33.2	14.35	28.025
40-41	24.7875	30.0	16.575	28.6375
42-43	27.9125	27.1	20.125	24.8625
44-45	22.45	33.2	17.175	27.175
46-47	23.775	32.025	16.0125	28.1875
48-49	16.2375	29.099999999999998	19.400000000000002	35.2625
50-51	16.1375	27.975	20.4375	35.449999999999996
52-53	17.65	24.3625	25.087500000000002	32.9
54-55	18.987499999999997	22.95	27.500000000000004	30.562499999999996
56-57	14.149999999999999	24.5625	29.862499999999997	31.424999999999997
58-59	14.1625	23.474999999999998	33.35	29.012500000000003
60-61	14.05	20.549999999999997	33.0125	32.3875
62-63	16.2375	23.8875	28.249999999999996	31.624999999999996
64-65	13.950000000000001	25.15	30.475	30.425
66-67	15.2125	16.7875	35.4	32.6
68-69	16.0	17.675	35.35	30.975
70-71	17.549999999999997	15.737499999999999	40.8375	25.874999999999996
72-73	19.075	16.3875	35.9375	28.599999999999998
74-75	20.5	15.2375	31.874999999999996	32.3875
76	14.174999999999999	17.75	37.824999999999996	30.25
>>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	1.5
37	3.0
38	5.0
39	11.5
40	24.5
41	51.0
42	69.0
43	90.0
44	151.5
45	308.5
46	425.0
47	620.5
48	687.5
49	553.0
50	547.0
51	488.0
52	367.5
53	249.0
54	192.0
55	149.0
56	105.5
57	67.5
58	30.0
59	27.0
60	17.5
61	6.5
62	2.0
63	3.5
64	4.5
65	4.0
66	2.5
67	1.0
68	1.0
69	1.0
70	0.5
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	0.5
96	1.0
97	0.5
98	0.0
99	0.0
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	69.72500000000001
#Duplication Level	Percentage of deduplicated	Percentage of total
1	90.46253137325206	63.075
2	4.302617425600574	6.0
3	1.6851918250268914	3.5249999999999995
4	1.0756543564001435	3.0
5	0.5736823234134099	2.0
6	0.35855145213338113	1.5
7	0.32269630692004303	1.575
8	0.17927572606669057	1.0
9	0.07171029042667623	0.44999999999999996
>10	0.8963786303334529	12.6
>50	0.035855145213338116	1.4749999999999999
>100	0.035855145213338116	3.8
>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	152	3.8	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
ATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAAC	59	1.4749999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTAGATCGGAAGAGCA	48	1.2	No Hit
CTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCA	45	1.125	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGAGATCGGAAGAGCAC	43	1.075	No Hit
GAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	35	0.8750000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
TCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACT	26	0.65	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TCCTCAGTAGCTCAGTGGTAGAGCGGTCGGCTGAGATCGGAAGAGCACAC	24	0.6	No Hit
ATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACT	24	0.6	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TCCGTTGTAGTCTAGCTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	23	0.575	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
TAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCA	20	0.5	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
ACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	19	0.475	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
AACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTTTG	18	0.44999999999999996	TruSeq Adapter, Index 3 (97% over 37bp)
AACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	17	0.42500000000000004	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GGAGGTCCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCAC	16	0.4	No Hit
ATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTTTGCAAT	15	0.375	TruSeq Adapter, Index 3 (97% over 37bp)
GAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	14	0.35000000000000003	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
AACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAG	14	0.35000000000000003	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGT	13	0.325	No Hit
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTGAGATCGGAAGAGCAC	13	0.325	No Hit
CCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGT	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTTTGCAA	12	0.3	TruSeq Adapter, Index 3 (97% over 37bp)
TCCTCAGTAGCTCAGTGGTAGAGCGGTCGGCTAGATCGGAAGAGCACACG	12	0.3	No Hit
CTAACGAACGAACGATTTGAATAGATCGGAAGAGCACACGTCTGAACTCC	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
ACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTC	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
TGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGC	10	0.25	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTAGATCGGAAGAGCA	10	0.25	No Hit
TTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTTTGCAATC	9	0.22499999999999998	TruSeq Adapter, Index 3 (97% over 37bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCACAAGATCGGAAGAGCACACG	9	0.22499999999999998	No Hit
TATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAGATCGGAAGAGCACA	8	0.2	No Hit
AAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTAGATCGGAAGAGCACA	8	0.2	No Hit
AGATCGGAAGAGCACACGTCTGAACTCCAGTCACTTTGCAATCTCGTATG	8	0.2	TruSeq Adapter, Index 3 (97% over 37bp)
GCGACCCCAGGTCAGTCGGGACTAGATCGGAAGAGCACACGTCTGAACTC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
CGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTT	7	0.17500000000000002	TruSeq Adapter, Index 1 (97% over 35bp)
AGGGCTATAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTTT	7	0.17500000000000002	TruSeq Adapter, Index 12 (97% over 36bp)
CAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
TTTGGATTGAAGGGAGCTCTGAGATCGGAAGAGCACACGTCTGAACTCCA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
CTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAG	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TCCGTTGTAGTCTAGTTGGTCAGGATATTCGGCTCTAGATCGGAAGAGCA	7	0.17500000000000002	No Hit
TCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TAATTCATGATCTGGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TCCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTC	7	0.17500000000000002	No Hit
GCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACAC	6	0.15	No Hit
GCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
ATACTGTAGGGGAGGTCCTGCGGCAAAATAGCTCGATGCCAGAATAGATC	6	0.15	No Hit
GCCCCCATCGTCTAGTGGTTCAGGACATCTCTCTTTAGATCGGAAGAGCA	6	0.15	No Hit
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTAGATCGGAAGAGCACA	6	0.15	No Hit
AGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTTTGC	6	0.15	TruSeq Adapter, Index 3 (97% over 37bp)
GATGAAGAACGTAGCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCAGATCGGAAGAGCACAC	6	0.15	No Hit
TGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTTTGCAATCTC	6	0.15	TruSeq Adapter, Index 3 (97% over 37bp)
ACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTTTGC	6	0.15	TruSeq Adapter, Index 3 (97% over 37bp)
GTGATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATC	5	0.125	No Hit
AAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAACTCCAG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
CTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCAGATCGGAAGAGCACACGTCT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
TATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGA	5	0.125	No Hit
CGACACGACTCTCGGCAACGGATATCTCGAGATCGGAAGAGCACACGTCT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
TAAGTAGTAAGCCCACCCCAAGATGAGTGCTCTCTCAGATCGGAAGAGCA	5	0.125	No Hit
AGCGGAGTAGAGCAGTTAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
CATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
ACGTCTGCCTGGGCGTCACGCAGATCGGAAGAGCACACGTCTGAACTCCA	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)
GACACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCAGATCGGAAGA	5	0.125	No Hit
GGGGATGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTTT	5	0.125	TruSeq Adapter, Index 12 (97% over 36bp)
CCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
CCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
GAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACTTT	5	0.125	TruSeq Adapter, Index 12 (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	0.2	0.0	0.0	0.0	0.0
2	0.425	0.0	0.0	0.0	0.0
3	0.6	0.0	0.0	0.0	0.0
4	0.625	0.0	0.0	0.0	0.0
5	0.725	0.0	0.0	0.0	0.0
6	1.0	0.0	0.0	0.0	0.0
7	1.075	0.0	0.0	0.0	0.0
8	1.5	0.0	0.0	0.0	0.0
9	2.05	0.0	0.0	0.0	0.0
10	2.7	0.0	0.0	0.0	0.0
11	3.125	0.0	0.0	0.0	0.0
12	4.0	0.0	0.0	0.0	0.0
13	5.375	0.0	0.0	0.0	0.0
14	7.025	0.0	0.0	0.0	0.0
15	8.2	0.0	0.0	0.0	0.0
16	9.575	0.0	0.0	0.0	0.0
17	12.35	0.0	0.0	0.0	0.0
18	15.425	0.0	0.0	0.0	0.0
19	17.3	0.0	0.0	0.0	0.0
20	20.225	0.0	0.0	0.0	0.0
21	22.925	0.0	0.0	0.0	0.0
22	27.275	0.0	0.0	0.0	0.0
23	35.075	0.0	0.0	0.0	0.0
24	38.4	0.0	0.0	0.0	0.0
25	46.125	0.0	0.0	0.0	0.0
26	50.025	0.0	0.0	0.0	0.0
27	52.75	0.0	0.0	0.0	0.0
28	55.9	0.0	0.0	0.0	0.0
29	58.2	0.0	0.0	0.0	0.0
30	60.425	0.0	0.0	0.0	0.0
31	62.775	0.0	0.0	0.0	0.0
32	65.175	0.0	0.0	0.0	0.0
33	67.65	0.0	0.0	0.0	0.0
34	70.975	0.0	0.0	0.0	0.0
35	74.2	0.0	0.0	0.0	0.0
36	79.125	0.0	0.0	0.0	0.0
37	83.725	0.0	0.0	0.0	0.0
38	85.6	0.0	0.0	0.0	0.0
39	86.925	0.0	0.0	0.0	0.0
40	88.7	0.0	0.0	0.0	0.0
41	89.975	0.0	0.0	0.0	0.0
42	91.075	0.0	0.0	0.0	0.0
43	91.8	0.0	0.0	0.0	0.0
44	92.5	0.0	0.0	0.0	0.0
45	93.3	0.0	0.0	0.0	0.0
46	93.975	0.0	0.0	0.0	0.0
47	94.4	0.0	0.0	0.0	0.0
48	94.975	0.0	0.0	0.0	0.0
49	95.475	0.0	0.0	0.0	0.0
50	95.875	0.0	0.0	0.0	0.0
51	96.0	0.0	0.0	0.0	0.0
52	96.025	0.0	0.0	0.0	0.0
53	96.175	0.0	0.0	0.0	0.0
54	96.25	0.0	0.0	0.0	0.0
55	96.275	0.0	0.0	0.0	0.0
56	96.325	0.0	0.0	0.0	0.0
57	96.375	0.0	0.0	0.0	0.0
58	96.375	0.0	0.0	0.0	0.0
59	96.375	0.0	0.0	0.0	0.0
60	96.375	0.0	0.0	0.0	0.0
61	96.375	0.0	0.0	0.0	0.0
62	96.375	0.0	0.0	0.0	0.0
63	96.4	0.0	0.0	0.0	0.0
64	96.4	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
CACACCA	15	0.0020658788	70.00001	29
TTGTAGT	15	0.0020658788	70.00001	5
TCAGGAT	15	0.0020658788	70.00001	20
ACCACAC	15	0.0020658788	70.00001	27
ACCAATC	15	0.0020658788	70.00001	32
ACACCAA	15	0.0020658788	70.00001	30
CCGTTGT	15	0.0020658788	70.00001	2
TAGTCTA	15	0.0020658788	70.00001	8
GGTCAGG	15	0.0020658788	70.00001	18
CCACACC	15	0.0020658788	70.00001	28
CACCAAT	15	0.0020658788	70.00001	31
TCCGTTG	15	0.0020658788	70.00001	1
CGTTGTA	15	0.0020658788	70.00001	3
AGTCTAG	15	0.0020658788	70.00001	9
CAGGATA	15	0.0020658788	70.00001	21
GTCAGGA	15	0.0020658788	70.00001	19
GTAGTCT	15	0.0020658788	70.00001	7
GTTGTAG	15	0.0020658788	70.00001	4
GTAGAGG	20	7.003785E-5	70.0	19
>>END_MODULE
Rejected 210191 READS because READLEN < 1
Read 210191 spots for SRR11699263.sra
Written 210191 spots for SRR11699263.sra
Rejected 210191 READS because READLEN < 1
Read 210191 spots for SRR11699263.sra
Written 210191 spots for SRR11699263.sra
Rejected 210191 READS because READLEN < 1
Read 210191 spots for SRR11699263.sra
Written 210191 spots for SRR11699263.sra
Rejected 210191 READS because READLEN < 1
Read 210191 spots for SRR11699263.sra
Written 210191 spots for SRR11699263.sra
Rejected 210191 READS because READLEN < 1
Read 210191 spots for SRR11699263.sra
Written 210191 spots for SRR11699263.sra
Rejected 210191 READS because READLEN < 1
Read 210191 spots for SRR11699263.sra
Written 210191 spots for SRR11699263.sra
Rejected 210191 READS because READLEN < 1
Read 210191 spots for SRR11699263.sra
Written 210191 spots for SRR11699263.sra
Rejected 210191 READS because READLEN < 1
Read 210191 spots for SRR11699263.sra
Written 210191 spots for SRR11699263.sra
Rejected 210191 READS because READLEN < 1
Read 210191 spots for SRR11699263.sra
Written 210191 spots for SRR11699263.sra
Rejected 210191 READS because READLEN < 1
Read 210191 spots for SRR11699263.sra
Written 210191 spots for SRR11699263.sra
Rejected 210191 READS because READLEN < 1
Read 210191 spots for SRR11699263.sra
Written 210191 spots for SRR11699263.sra
Rejected 210191 READS because READLEN < 1
Read 210191 spots for SRR11699263.sra
Written 210191 spots for SRR11699263.sra
Rejected 210191 READS because READLEN < 1
Read 210191 spots for SRR11699263.sra
Written 210191 spots for SRR11699263.sra
Rejected 210191 READS because READLEN < 1
Read 210191 spots for SRR11699263.sra
Written 210191 spots for SRR11699263.sra
Rejected 210191 READS because READLEN < 1
Read 210191 spots for SRR11699263.sra
Written 210191 spots for SRR11699263.sra
Rejected 210191 READS because READLEN < 1
Read 210191 spots for SRR11699263.sra
Written 210191 spots for SRR11699263.sra
Rejected 210191 READS because READLEN < 1
Read 210191 spots for SRR11699263.sra
Written 210191 spots for SRR11699263.sra
Rejected 210191 READS because READLEN < 1
Read 210191 spots for SRR11699263.sra
Written 210191 spots for SRR11699263.sra
Rejected 210191 READS because READLEN < 1
Read 210191 spots for SRR11699263.sra
Written 210191 spots for SRR11699263.sra
Rejected 210203 READS because READLEN < 1
Read 210203 spots for SRR11699263.sra
Written 210203 spots for SRR11699263.sra
SRR ids: ['SRR11699263.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_apewnvi0
SRR11699263.sra spots: 4203832
blocks: [[1, 210191], [210192, 420382], [420383, 630573], [630574, 840764], [840765, 1050955], [1050956, 1261146], [1261147, 1471337], [1471338, 1681528], [1681529, 1891719], [1891720, 2101910], [2101911, 2312101], [2312102, 2522292], [2522293, 2732483], [2732484, 2942674], [2942675, 3152865], [3152866, 3363056], [3363057, 3573247], [3573248, 3783438], [3783439, 3993629], [3993630, 4203832]]
SRR11699263 file size 798365
SRR11699263 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 SRR11699263 SRR11699263_1.fastq
Input file:	SRR11699263_1.fastq
trimmed:	SRR11699263-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 03:02:16 2025 >> started

Wed Jun 18 03:02:18 2025 >> done (1.809s)
4203832 reads processed; of these:
 741537 (17.64%) short reads filtered out after trimming by size control
   9269 ( 0.22%) empty reads filtered out after trimming by size control
3453026 (82.14%) reads available; of these:
3305454 (95.73%) trimmed reads available after processing
 147572 ( 4.27%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  89171	  2.58%
 19	 140575	  4.07%
 20	 135054	  3.91%
 21	 195250	  5.65%
 22	 313324	  9.07%
 23	 129582	  3.75%
 24	 317845	  9.20%
 25	 160417	  4.65%
 26	 107798	  3.12%
 27	 117695	  3.41%
 28	  93013	  2.69%
 29	  98168	  2.84%
 30	 109290	  3.17%
 31	 104475	  3.03%
 32	 116541	  3.38%
 33	 148785	  4.31%
 34	 153250	  4.44%
 35	 188798	  5.47%
 36	 185618	  5.38%
 37	  79464	  2.30%
 38	  66191	  1.92%
 39	  61877	  1.79%
 40	  46945	  1.36%
 41	  44886	  1.30%
 42	  40106	  1.16%
 43	  35243	  1.02%
 44	  26091	  0.76%
 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	      0	  0.00%
 73	      0	  0.00%
 74	      0	  0.00%
 75	      2	  0.00%
 76	 147572	  4.27%
3453026 reads passed initial QC


criterion=sequence-density
sequence-density=3.68
sequence-density-rank=1
fanout-score=21.12
fanout-score-rank=1
prefix-density=3.76
prefix-fanout=20.7
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACTTTGCAATCTCGTATGCCGTCTTCTGCTTG


criterion=fanout-score
sequence-density=3.68
sequence-density-rank=1
fanout-score=21.12
fanout-score-rank=1
prefix-density=3.76
prefix-fanout=20.7
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACTTTGCAATCTCGTATGCCGTCTTCTGCTTG
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 AGATCGGAAGAGCACACGTCTGAACTCCAGTCACTTTGCAATCTCGTATGCCGTCTTCTGCTTG -o SRR11699263 -
Input file:	STDIN
trimmed:	SRR11699263-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	AGATCGGAAGAGCACACGTCTGAACTCCAGTCACTTTGCAATCTCGTATGCCGTCTTCTGCTTG
-- 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 03:02:24 2025 >> started

Wed Jun 18 03:02:25 2025 >> done (1.279s)
1726513 reads processed; of these:
   2730 ( 0.16%) short reads filtered out after trimming by size control
     21 ( 0.00%) empty reads filtered out after trimming by size control
1723762 (99.84%) reads available; of these:
  87720 ( 5.09%) trimmed reads available after processing
1636042 (94.91%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  44955	  2.61%
 19	  71736	  4.16%
 20	  69713	  4.04%
 21	  99512	  5.77%
 22	 156596	  9.08%
 23	  63264	  3.67%
 24	 156325	  9.07%
 25	  80188	  4.65%
 26	  53800	  3.12%
 27	  58370	  3.39%
 28	  46357	  2.69%
 29	  48952	  2.84%
 30	  55044	  3.19%
 31	  52279	  3.03%
 32	  58174	  3.37%
 33	  74231	  4.31%
 34	  76254	  4.42%
 35	  94578	  5.49%
 36	  92748	  5.38%
 37	  39407	  2.29%
 38	  32746	  1.90%
 39	  31105	  1.80%
 40	  24781	  1.44%
 41	  22605	  1.31%
 42	  19709	  1.14%
 43	  16159	  0.94%
 44	  12714	  0.74%
 45	  15885	  0.92%
 46	  10552	  0.61%
 47	   8741	  0.51%
 48	  10898	  0.63%
 49	   6120	  0.36%
 50	   4030	  0.23%
 51	   2787	  0.16%
 52	   1755	  0.10%
 53	   1268	  0.07%
 54	    942	  0.05%
 55	    522	  0.03%
 56	    337	  0.02%
 57	    335	  0.02%
 58	    377	  0.02%
 59	     85	  0.00%
 60	    102	  0.01%
 61	    134	  0.01%
 62	     91	  0.01%
 63	     23	  0.00%
 64	     15	  0.00%
 65	      9	  0.00%
 66	     14	  0.00%
 67	      8	  0.00%
 68	      8	  0.00%
 69	      3	  0.00%
 70	      8	  0.00%
 71	      2	  0.00%
 72	      3	  0.00%
 73	     12	  0.00%
 74	      0	  0.00%
 75	      0	  0.00%
 76	   6394	  0.37%


criterion=sequence-density
sequence-density=3.51
sequence-density-rank=1
fanout-score=1.00
fanout-score-rank=20
prefix-density=0.02
prefix-fanout=1.0
sequence=TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTCACCCGAAAGACCCGGGTT


criterion=fanout-score
sequence-density=0.54
sequence-density-rank=8
fanout-score=16.85
fanout-score-rank=1
prefix-density=0.50
prefix-fanout=16.9
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACTTTGCAATCTCGTATGCCGTCTT
                                 Started job on |	Jun 18 03:02:36
                             Started mapping on |	Jun 18 03:02:36
                                    Finished on |	Jun 18 03:02:48
       Mapping speed, Million of reads per hour |	1035.08

                          Number of input reads |	3450275
                      Average input read length |	29
                                    UNIQUE READS:
                   Uniquely mapped reads number |	320305
                        Uniquely mapped reads % |	9.28%
                          Average mapped length |	26.05
                       Number of splices: Total |	8024
            Number of splices: Annotated (sjdb) |	4561
                       Number of splices: GT/AG |	7322
                       Number of splices: GC/AG |	366
                       Number of splices: AT/AC |	3
               Number of splices: Non-canonical |	333
                      Mismatch rate per base, % |	1.10%
                         Deletion rate per base |	0.02%
                        Deletion average length |	1.47
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.40
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	308813
             % of reads mapped to multiple loci |	8.95%
        Number of reads mapped to too many loci |	886107
             % of reads mapped to too many loci |	25.68%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	7.22%
                     % of reads unmapped: other |	48.87%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	2821157	2821157	2821157
N_multimapping	308813	308813	308813
N_noFeature	246035	254691	308862
N_ambiguous	2844	40	22
UnstrandedReadsAssigned:71426 PositiveStrandReadsAssigned:65574 NegativeStrandReadsAssigned:11421
Dataset is classified positive stranded
MeadianReadLen=28 20thPercentileLength=22 echo kmer=19
SRR11699263 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: SRR11699263-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 3,450,275 reads, 508,990 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 873 rounds

  72540 SRR11699263.ke.tsv
  44303 SRR11699263.se.tsv
 116843 total
==> SRR11699263.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Zm00001eb096110_T001	2067	1968	0	0
Zm00001eb321680_T001	3417	3318	4	2.33792
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

==> SRR11699263.se.tsv <==
Zm00001eb015280	0
Zm00001eb000610	0
Zm00001eb033210	0
Zm00001eb044610	0
Zm00001eb014360	0
Zm00001eb051320	1
Zm00001eb021860	0
Zm00001eb011690	0
Zm00001eb016840	1
Zm00001eb052060	0
SRR11699263 completed mapping pipeline successfully
