Starting /dee2/code/volunteer_pipeline.sh SRR11699268
    current disk space = 2476489052160
    free memory = 637909400 
SRR11699268 SRAfilesize
01beaea52c09e81fc7e45581a8d19d34  SRR11699268.sra
SRR11699268.sra file validated
SRR11699268 is single end
SRR11699268 is conventional basespace
SRR11699268 read1 length is 76 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR11699268_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	52
>>END_MODULE
>>Per base sequence quality	fail
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	31.30875	32.0	32.0	32.0	32.0	32.0
2	31.46975	32.0	32.0	32.0	32.0	32.0
3	31.5775	32.0	32.0	32.0	32.0	32.0
4	31.5585	32.0	32.0	32.0	32.0	32.0
5	31.56225	32.0	32.0	32.0	32.0	32.0
6	35.10825	36.0	36.0	36.0	36.0	36.0
7	35.1935	36.0	36.0	36.0	36.0	36.0
8	35.275	36.0	36.0	36.0	36.0	36.0
9	34.93625	36.0	36.0	36.0	36.0	36.0
10-11	35.142125	36.0	36.0	36.0	36.0	36.0
12-13	35.185874999999996	36.0	36.0	36.0	36.0	36.0
14-15	35.134625	36.0	36.0	36.0	36.0	36.0
16-17	35.210875	36.0	36.0	36.0	36.0	36.0
18-19	35.22325	36.0	36.0	36.0	36.0	36.0
20-21	35.001374999999996	36.0	36.0	36.0	36.0	36.0
22-23	35.09287500000001	36.0	36.0	36.0	36.0	36.0
24-25	35.066874999999996	36.0	36.0	36.0	36.0	36.0
26-27	34.98625	36.0	36.0	36.0	36.0	36.0
28-29	35.061499999999995	36.0	36.0	36.0	36.0	36.0
30-31	35.003375000000005	36.0	36.0	36.0	36.0	36.0
32-33	35.003375000000005	36.0	36.0	36.0	36.0	36.0
34-35	35.10325	36.0	36.0	36.0	36.0	36.0
36-37	35.027249999999995	36.0	36.0	36.0	36.0	36.0
38-39	35.069625	36.0	36.0	36.0	36.0	36.0
40-41	34.94075	36.0	36.0	36.0	36.0	36.0
42-43	34.918125	36.0	36.0	36.0	36.0	36.0
44-45	34.952375	36.0	36.0	36.0	36.0	36.0
46-47	34.853750000000005	36.0	36.0	36.0	36.0	36.0
48-49	34.604625	36.0	36.0	36.0	32.0	36.0
50-51	34.3965	36.0	36.0	36.0	32.0	36.0
52-53	34.01375	36.0	36.0	36.0	32.0	36.0
54-55	33.484125000000006	36.0	36.0	36.0	24.0	36.0
56-57	32.303625	36.0	32.0	36.0	14.0	36.0
58-59	31.280625	36.0	32.0	36.0	14.0	36.0
60-61	29.952625	36.0	20.5	36.0	14.0	36.0
62-63	28.67525	36.0	14.0	36.0	14.0	36.0
64-65	26.2155	32.0	14.0	36.0	14.0	36.0
66-67	23.636625000000002	20.5	14.0	36.0	14.0	36.0
68-69	22.06275	14.0	14.0	34.0	14.0	36.0
70-71	21.63675	14.0	14.0	34.0	14.0	36.0
72-73	20.819499999999998	14.0	14.0	32.0	14.0	36.0
74-75	20.590125	14.0	14.0	32.0	14.0	36.0
76	20.55125	14.0	14.0	27.0	14.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
20	1.0
21	1.0
22	3.0
23	6.0
24	21.0
25	35.0
26	55.0
27	105.0
28	187.0
29	288.0
30	455.0
31	562.0
32	811.0
33	593.0
34	424.0
35	453.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	22.675	31.0	23.275000000000002	23.05
2	22.45	27.85	25.974999999999998	23.724999999999998
3	23.974999999999998	32.7	18.325	25.0
4	29.599999999999998	30.725	19.075	20.599999999999998
5	21.975	27.125	23.525	27.375
6	24.05	27.925	27.500000000000004	20.525
7	32.475	34.150000000000006	17.075000000000003	16.3
8	23.474999999999998	25.924999999999997	29.475	21.125
9	25.8	32.775	18.775	22.650000000000002
10-11	31.525	27.1375	23.1875	18.15
12-13	22.825	22.425	24.712500000000002	30.0375
14-15	29.549999999999997	37.012499999999996	17.775	15.662499999999998
16-17	23.875	24.425	31.5	20.200000000000003
18-19	35.5375	24.975	22.825	16.662499999999998
20-21	23.5375	34.6875	24.224999999999998	17.549999999999997
22-23	32.175	37.2875	14.0625	16.475
24-25	29.325000000000003	38.35	14.662500000000001	17.6625
26-27	28.7	33.2125	17.525	20.5625
28-29	31.6	28.8625	16.1875	23.35
30-31	32.8625	35.35	10.0875	21.7
32-33	28.5625	38.224999999999994	11.175	22.037499999999998
34-35	29.45	30.562499999999996	14.524999999999999	25.4625
36-37	26.424999999999997	33.525	11.6125	28.4375
38-39	21.7375	33.45	14.6	30.2125
40-41	24.349999999999998	28.5875	16.9875	30.075000000000003
42-43	25.25	27.075	19.8375	27.8375
44-45	20.6125	31.1	17.224999999999998	31.0625
46-47	20.525	31.424999999999997	14.7125	33.3375
48-49	15.412500000000001	29.375	16.3125	38.9
50-51	15.0	27.3625	17.1625	40.475
52-53	19.3625	24.15	16.45	40.0375
54-55	18.825	26.325	16.875	37.974999999999994
56-57	17.2875	26.337500000000002	15.325	41.05
58-59	18.775	24.65	13.2875	43.2875
60-61	22.6375	17.8625	16.162499999999998	43.3375
62-63	22.6375	20.0375	18.875	38.45
64-65	17.837500000000002	19.1375	23.849999999999998	39.175
66-67	19.475	14.0125	28.4125	38.1
68-69	22.75	14.025000000000002	29.2375	33.9875
70-71	19.7	14.1875	32.737500000000004	33.375
72-73	16.25	11.1125	35.1625	37.475
74-75	14.475	9.9625	36.225	39.3375
76	13.8	9.225	40.45	36.525
>>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	0.0
31	0.0
32	0.0
33	0.0
34	0.0
35	0.5
36	1.0
37	1.0
38	1.0
39	0.5
40	1.0
41	7.5
42	13.0
43	11.0
44	24.0
45	55.0
46	71.0
47	95.0
48	206.0
49	406.0
50	519.0
51	571.0
52	623.5
53	586.0
54	548.0
55	468.0
56	349.0
57	247.0
58	184.0
59	148.0
60	97.0
61	56.0
62	30.0
63	22.0
64	10.5
65	6.5
66	3.5
67	1.0
68	1.5
69	1.5
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	0.0
96	0.0
97	0.0
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	64.1
#Duplication Level	Percentage of deduplicated	Percentage of total
1	89.0795631825273	57.099999999999994
2	5.14820592823713	6.6000000000000005
3	1.9500780031201248	3.75
4	0.9750390015600624	2.5
5	0.31201248049922	1.0
6	0.27301092043681746	1.05
7	0.5460218408736349	2.45
8	0.3510140405616225	1.7999999999999998
9	0.0390015600624025	0.22499999999999998
>10	1.24804992199688	16.825000000000003
>50	0.0390015600624025	1.875
>100	0.0390015600624025	4.825
>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	193	4.825	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
ATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAAC	75	1.875	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
GAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	48	1.2	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
CTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCA	41	1.0250000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGAGATCGGAAGAGCAC	38	0.95	No Hit
TCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACT	36	0.8999999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TCCGTTGTAGTCTAGCTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	35	0.8750000000000001	No Hit
AACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAG	30	0.75	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
AGGGCTATAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACC	30	0.75	TruSeq Adapter, Index 1 (97% over 36bp)
GGGGATGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACC	28	0.7000000000000001	TruSeq Adapter, Index 1 (97% over 36bp)
ACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	27	0.675	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
AACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACCG	24	0.6	TruSeq Adapter, Index 5 (97% over 37bp)
TAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCA	24	0.6	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTAGATCGGAAGAGCA	22	0.5499999999999999	No Hit
CTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAG	22	0.5499999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
AACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	22	0.5499999999999999	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
CCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGT	21	0.525	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	19	0.475	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
ATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACCGCCAT	19	0.475	TruSeq Adapter, Index 5 (97% over 37bp)
TCCGTTGTAGTCTAGCTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	17	0.42500000000000004	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
TAATTCATGATCTGGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
ATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACT	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
CGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACCGCC	14	0.35000000000000003	TruSeq Adapter, Index 5 (97% over 37bp)
GATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACCGCCA	14	0.35000000000000003	TruSeq Adapter, Index 5 (97% over 37bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAGATCGGAAGAGCACA	13	0.325	No Hit
CAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTC	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
TGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGT	12	0.3	No Hit
AGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACCGC	12	0.3	TruSeq Adapter, Index 5 (97% over 37bp)
TCCGTTGTAGTCTAGTTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	12	0.3	No Hit
GCGACCCCAGGTCAGTCGGGACTAGATCGGAAGAGCACACGTCTGAACTC	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GCGTCTGTAGTCCAACGGTTAGGATAATTGCCAGATCGGAAGAGCACACG	10	0.25	No Hit
AAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
GGGGATGTAGCTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAC	10	0.25	TruSeq Adapter, Index 5 (100% over 35bp)
TCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTC	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
ACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACA	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
CACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTCCA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
ACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
TATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGA	8	0.2	No Hit
TCCGTTGTAGTCTAGCTGGTCAGGATATTCAGATCGGAAGAGCACACGTC	8	0.2	No Hit
CTAACGAACGAACGATTTGAATAGATCGGAAGAGCACACGTCTGAACTCC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTGAGATCGGAAGAGCAC	8	0.2	No Hit
TTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACCGCCATG	8	0.2	TruSeq Adapter, Index 5 (97% over 37bp)
GAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTC	8	0.2	No Hit
TATTCTGGTGTCCTAGGCGTAGAGGAACCACAAGATCGGAAGAGCACACG	8	0.2	No Hit
ATCCTAACGAACGAACGATTTGAATAGATCGGAAGAGCACACGTCTGAAC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
CGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAC	7	0.17500000000000002	TruSeq Adapter, Index 5 (100% over 35bp)
GACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
ATCCTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACACCGCCATGGG	7	0.17500000000000002	TruSeq Adapter, Index 5 (97% over 37bp)
ACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTCC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GCCGCCATGGTGAAATTGGTAGACACGCTGCTCTTAGATCGGAAGAGCAC	7	0.17500000000000002	No Hit
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTAGATCGGAAGAGCACA	7	0.17500000000000002	No Hit
TCCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTC	7	0.17500000000000002	No Hit
TCTCATGGAGAGTTCGATCCTGGCTCAGGAGATCGGAAGAGCACACGTCT	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
CCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
CAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCAC	7	0.17500000000000002	No Hit
AGGGATGTAGCGCAGCTTGGTAGCGCTTTTGTTTAGATCGGAAGAGCACA	7	0.17500000000000002	No Hit
AGGGATGTAGCGCAGCTTGGTAGCGCTTTTGTTTTAGATCGGAAGAGCAC	7	0.17500000000000002	No Hit
AACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
CGACACGACTCTCGGCAACGGATATCTCGAGATCGGAAGAGCACACGTCT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
TGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGC	6	0.15	No Hit
CATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
GGGGACGTAGCTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACAC	6	0.15	TruSeq Adapter, Index 5 (100% over 35bp)
CGACACGACTCTCGGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
AGATAAAAGGCTGACGCGGGCTCTAGATCGGAAGAGCACACGTCTGAACT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TAATTCATGATCTGGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
CGACACGACTCTCGGCAACGAGATCGGAAGAGCACACGTCTGAACTCCAG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TCCAGCCCCGCGTCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TGAGGCATCCTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
ATCCTAACGAACGAACGATTAGATCGGAAGAGCACACGTCTGAACTCCAG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GACACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCAGATCGGAAGA	5	0.125	No Hit
TCCGTTGTAGTCTAGCTGGTCAGGATAGATCGGAAGAGCACACGTCTGAA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
GATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGG	5	0.125	No Hit
>>END_MODULE
>>Adapter Content	fail
#Position	Illumina Universal Adapter	Illumina Small RNA 3' Adapter	Illumina Small RNA 5' Adapter	Nextera Transposase Sequence	SOLID Small RNA Adapter
1	0.075	0.0	0.0	0.0	0.0
2	0.175	0.0	0.0	0.0	0.0
3	0.3	0.0	0.0	0.0	0.0
4	0.3	0.0	0.0	0.0	0.0
5	0.4	0.0	0.0	0.0	0.0
6	0.7	0.0	0.0	0.0	0.0
7	0.775	0.0	0.0	0.0	0.0
8	1.2	0.0	0.0	0.0	0.0
9	1.925	0.0	0.0	0.0	0.0
10	2.75	0.0	0.0	0.0	0.0
11	3.575	0.0	0.0	0.0	0.0
12	4.275	0.0	0.0	0.0	0.0
13	5.375	0.0	0.0	0.0	0.0
14	8.225	0.0	0.0	0.0	0.0
15	9.975	0.0	0.0	0.0	0.0
16	11.825	0.0	0.0	0.0	0.0
17	15.3	0.0	0.0	0.0	0.0
18	18.45	0.0	0.0	0.0	0.0
19	21.15	0.0	0.0	0.0	0.0
20	25.2	0.0	0.0	0.0	0.0
21	28.95	0.0	0.0	0.0	0.0
22	33.9	0.0	0.0	0.0	0.0
23	43.05	0.0	0.0	0.0	0.0
24	46.925	0.0	0.0	0.0	0.0
25	54.625	0.0	0.0	0.0	0.0
26	59.2	0.0	0.0	0.0	0.0
27	62.075	0.0	0.0	0.0	0.0
28	64.775	0.0	0.0	0.0	0.0
29	66.75	0.0	0.0	0.0	0.0
30	68.75	0.0	0.0	0.0	0.0
31	72.75	0.0	0.0	0.0	0.0
32	74.825	0.0	0.0	0.0	0.0
33	76.85	0.0	0.0	0.0	0.0
34	79.15	0.0	0.0	0.0	0.0
35	81.75	0.0	0.0	0.0	0.0
36	85.325	0.0	0.0	0.0	0.0
37	87.825	0.0	0.0	0.0	0.0
38	88.925	0.0	0.0	0.0	0.0
39	89.65	0.0	0.0	0.0	0.0
40	90.825	0.0	0.0	0.0	0.0
41	91.525	0.0	0.0	0.0	0.0
42	92.075	0.0	0.0	0.0	0.0
43	92.575	0.0	0.0	0.0	0.0
44	92.975	0.0	0.0	0.0	0.0
45	93.2	0.0	0.0	0.0	0.0
46	93.5	0.0	0.0	0.0	0.0
47	93.825	0.0	0.0	0.0	0.0
48	94.075	0.0	0.0	0.0	0.0
49	94.325	0.0	0.0	0.0	0.0
50	94.525	0.0	0.0	0.0	0.0
51	94.625	0.0	0.0	0.0	0.0
52	94.675	0.0	0.0	0.0	0.0
53	94.7	0.0	0.0	0.0	0.0
54	94.8	0.0	0.0	0.0	0.0
55	94.85	0.0	0.0	0.0	0.0
56	94.875	0.0	0.0	0.0	0.0
57	94.9	0.0	0.0	0.0	0.0
58	94.9	0.0	0.0	0.0	0.0
59	94.9	0.0	0.0	0.0	0.0
60	94.9	0.0	0.0	0.0	0.0
61	94.9	0.0	0.0	0.0	0.0
62	94.9	0.0	0.0	0.0	0.0
63	94.9	0.0	0.0	0.0	0.0
64	94.9	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
GTAGATC	15	0.0020658788	70.00001	23
GGATGTA	15	0.0020658788	70.00001	3
GATACTC	15	0.0020658788	70.00001	24
AGGATAC	15	0.0020658788	70.00001	22
GATGTAG	15	0.0020658788	70.00001	4
GGATACT	15	0.0020658788	70.00001	23
ACTCAGA	15	0.0020658788	70.00001	27
GGGATGT	15	0.0020658788	70.00001	2
ATGTAGC	15	0.0020658788	70.00001	5
ATACTCA	15	0.0020658788	70.00001	25
TACTCAG	15	0.0020658788	70.00001	26
TGGTCAG	25	2.3570374E-6	70.0	17
TCTAGCT	20	7.003785E-5	70.0	11
TTGTAGT	25	2.3570374E-6	70.0	5
GCTGGTC	20	7.003785E-5	70.0	15
TAGCTGG	20	7.003785E-5	70.0	13
TAGCTCA	25	2.3570374E-6	70.0	8
CCGTTGT	20	7.003785E-5	70.0	2
TAGTCTA	20	7.003785E-5	70.0	8
GGTCAGG	20	7.003785E-5	70.0	18
>>END_MODULE
Rejected 207255 READS because READLEN < 1
Read 207255 spots for SRR11699268.sra
Written 207255 spots for SRR11699268.sra
Rejected 207255 READS because READLEN < 1
Read 207255 spots for SRR11699268.sra
Written 207255 spots for SRR11699268.sra
Rejected 207255 READS because READLEN < 1
Read 207255 spots for SRR11699268.sra
Written 207255 spots for SRR11699268.sra
Rejected 207255 READS because READLEN < 1
Read 207255 spots for SRR11699268.sra
Written 207255 spots for SRR11699268.sra
Rejected 207255 READS because READLEN < 1
Read 207255 spots for SRR11699268.sra
Written 207255 spots for SRR11699268.sra
Rejected 207255 READS because READLEN < 1
Read 207255 spots for SRR11699268.sra
Written 207255 spots for SRR11699268.sra
Rejected 207255 READS because READLEN < 1
Read 207255 spots for SRR11699268.sra
Written 207255 spots for SRR11699268.sra
Rejected 207255 READS because READLEN < 1
Read 207255 spots for SRR11699268.sra
Written 207255 spots for SRR11699268.sra
Rejected 207255 READS because READLEN < 1
Read 207255 spots for SRR11699268.sra
Written 207255 spots for SRR11699268.sra
Rejected 207255 READS because READLEN < 1
Read 207255 spots for SRR11699268.sra
Written 207255 spots for SRR11699268.sra
Rejected 207255 READS because READLEN < 1
Read 207255 spots for SRR11699268.sra
Written 207255 spots for SRR11699268.sra
Rejected 207255 READS because READLEN < 1
Read 207255 spots for SRR11699268.sra
Written 207255 spots for SRR11699268.sra
Rejected 207255 READS because READLEN < 1
Read 207255 spots for SRR11699268.sra
Written 207255 spots for SRR11699268.sra
Rejected 207255 READS because READLEN < 1
Read 207255 spots for SRR11699268.sra
Written 207255 spots for SRR11699268.sra
Rejected 207255 READS because READLEN < 1
Read 207255 spots for SRR11699268.sra
Written 207255 spots for SRR11699268.sra
Rejected 207255 READS because READLEN < 1
Read 207255 spots for SRR11699268.sra
Written 207255 spots for SRR11699268.sra
Rejected 207255 READS because READLEN < 1
Read 207255 spots for SRR11699268.sra
Written 207255 spots for SRR11699268.sra
Rejected 207255 READS because READLEN < 1
Read 207255 spots for SRR11699268.sra
Written 207255 spots for SRR11699268.sra
Rejected 207255 READS because READLEN < 1
Read 207255 spots for SRR11699268.sra
Written 207255 spots for SRR11699268.sra
Rejected 207269 READS because READLEN < 1
Read 207269 spots for SRR11699268.sra
Written 207269 spots for SRR11699268.sra
SRR ids: ['SRR11699268.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_8cuvob8l
SRR11699268.sra spots: 4145114
blocks: [[1, 207255], [207256, 414510], [414511, 621765], [621766, 829020], [829021, 1036275], [1036276, 1243530], [1243531, 1450785], [1450786, 1658040], [1658041, 1865295], [1865296, 2072550], [2072551, 2279805], [2279806, 2487060], [2487061, 2694315], [2694316, 2901570], [2901571, 3108825], [3108826, 3316080], [3316081, 3523335], [3523336, 3730590], [3730591, 3937845], [3937846, 4145114]]
SRR11699268 file size 787183
SRR11699268 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 SRR11699268 SRR11699268_1.fastq
Input file:	SRR11699268_1.fastq
trimmed:	SRR11699268-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 03:51:08 2025 >> started

Wed Jun 18 03:51:10 2025 >> done (1.778s)
4145114 reads processed; of these:
 809748 (19.53%) short reads filtered out after trimming by size control
   2856 ( 0.07%) empty reads filtered out after trimming by size control
3332510 (80.40%) reads available; of these:
3260668 (97.84%) trimmed reads available after processing
  71842 ( 2.16%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	 104897	  3.15%
 19	 172933	  5.19%
 20	 170894	  5.13%
 21	 217212	  6.52%
 22	 385930	 11.58%
 23	 152323	  4.57%
 24	 338682	 10.16%
 25	 197603	  5.93%
 26	 111150	  3.34%
 27	 127959	  3.84%
 28	  93447	  2.80%
 29	  96856	  2.91%
 30	 168982	  5.07%
 31	  93948	  2.82%
 32	  87665	  2.63%
 33	  96558	  2.90%
 34	 114653	  3.44%
 35	 155878	  4.68%
 36	 119665	  3.59%
 37	  59021	  1.77%
 38	  42265	  1.27%
 39	  39256	  1.18%
 40	  28348	  0.85%
 41	  31759	  0.95%
 42	  22220	  0.67%
 43	  18852	  0.57%
 44	  11708	  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	      1	  0.00%
 69	      0	  0.00%
 70	      1	  0.00%
 71	      0	  0.00%
 72	      1	  0.00%
 73	      0	  0.00%
 74	      0	  0.00%
 75	      1	  0.00%
 76	  71842	  2.16%
3332510 reads passed initial QC


criterion=sequence-density
sequence-density=4.75
sequence-density-rank=1
fanout-score=1.00
fanout-score-rank=14
prefix-density=0.02
prefix-fanout=1.0
sequence=TCCGTTGTAGTCTAGCTGGTCAGGATA


criterion=fanout-score
sequence-density=0.27
sequence-density-rank=19
fanout-score=18.80
fanout-score-rank=1
prefix-density=3.47
prefix-fanout=1.4
sequence=GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTG
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 03:52:19
                             Started mapping on |	Jun 18 03:52:20
                                    Finished on |	Jun 18 03:52:39
       Mapping speed, Million of reads per hour |	631.42

                          Number of input reads |	3332510
                      Average input read length |	27
                                    UNIQUE READS:
                   Uniquely mapped reads number |	318690
                        Uniquely mapped reads % |	9.56%
                          Average mapped length |	24.56
                       Number of splices: Total |	8641
            Number of splices: Annotated (sjdb) |	4806
                       Number of splices: GT/AG |	7949
                       Number of splices: GC/AG |	474
                       Number of splices: AT/AC |	5
               Number of splices: Non-canonical |	213
                      Mismatch rate per base, % |	1.08%
                         Deletion rate per base |	0.01%
                        Deletion average length |	1.60
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.55
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	364474
             % of reads mapped to multiple loci |	10.94%
        Number of reads mapped to too many loci |	794019
             % of reads mapped to too many loci |	23.83%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	6.02%
                     % of reads unmapped: other |	49.66%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	2649346	2649346	2649346
N_multimapping	364474	364474	364474
N_noFeature	239063	246195	308657
N_ambiguous	2935	23	19
UnstrandedReadsAssigned:76692 PositiveStrandReadsAssigned:72472 NegativeStrandReadsAssigned:10014
Dataset is classified positive stranded
MeadianReadLen=25 20thPercentileLength=21 echo kmer=19
SRR11699268 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: SRR11699268-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 3,332,510 reads, 435,752 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 828 rounds

  72540 SRR11699268.ke.tsv
  44303 SRR11699268.se.tsv
 116843 total
==> SRR11699268.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Zm00001eb096110_T001	2067	1968	0	0
Zm00001eb321680_T001	3417	3318	1	0.701512
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

==> SRR11699268.se.tsv <==
Zm00001eb015280	0
Zm00001eb000610	0
Zm00001eb033210	0
Zm00001eb044610	0
Zm00001eb014360	0
Zm00001eb051320	1
Zm00001eb021860	0
Zm00001eb011690	0
Zm00001eb016840	0
Zm00001eb052060	0
SRR11699268 completed mapping pipeline successfully
