Starting /dee2/code/volunteer_pipeline.sh SRR11699262
    current disk space = 2475612692480
    free memory = 1573404880 
SRR11699262 SRAfilesize
8d0ccac34ae3ef20e3cbf47a4571eefc  SRR11699262.sra
SRR11699262.sra file validated
SRR11699262 is single end
SRR11699262 is conventional basespace
SRR11699262 read1 length is 76 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR11699262_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	30.92075	32.0	32.0	32.0	32.0	32.0
2	31.231	32.0	32.0	32.0	32.0	32.0
3	31.41225	32.0	32.0	32.0	32.0	32.0
4	31.369	32.0	32.0	32.0	32.0	32.0
5	31.3845	32.0	32.0	32.0	32.0	32.0
6	34.8195	36.0	36.0	36.0	32.0	36.0
7	34.7945	36.0	36.0	36.0	32.0	36.0
8	34.81825	36.0	36.0	36.0	32.0	36.0
9	34.78575	36.0	36.0	36.0	32.0	36.0
10-11	34.84925	36.0	36.0	36.0	34.0	36.0
12-13	34.906125	36.0	36.0	36.0	32.0	36.0
14-15	34.813	36.0	36.0	36.0	32.0	36.0
16-17	34.85075	36.0	36.0	36.0	34.0	36.0
18-19	34.970749999999995	36.0	36.0	36.0	36.0	36.0
20-21	34.766375	36.0	36.0	36.0	34.0	36.0
22-23	34.706	36.0	36.0	36.0	32.0	36.0
24-25	34.765	36.0	36.0	36.0	34.0	36.0
26-27	34.58225	36.0	36.0	36.0	32.0	36.0
28-29	34.621875	36.0	36.0	36.0	32.0	36.0
30-31	34.708749999999995	36.0	36.0	36.0	34.0	36.0
32-33	34.639375	36.0	36.0	36.0	32.0	36.0
34-35	34.6815	36.0	36.0	36.0	32.0	36.0
36-37	34.791	36.0	36.0	36.0	34.0	36.0
38-39	34.697500000000005	36.0	36.0	36.0	32.0	36.0
40-41	34.646	36.0	36.0	36.0	32.0	36.0
42-43	34.53975	36.0	36.0	36.0	32.0	36.0
44-45	34.637125	36.0	36.0	36.0	32.0	36.0
46-47	34.646875	36.0	36.0	36.0	32.0	36.0
48-49	34.497749999999996	36.0	36.0	36.0	32.0	36.0
50-51	34.198	36.0	36.0	36.0	32.0	36.0
52-53	34.037625	36.0	36.0	36.0	32.0	36.0
54-55	33.946	36.0	36.0	36.0	29.5	36.0
56-57	33.4715	36.0	36.0	36.0	27.0	36.0
58-59	33.07825	36.0	34.0	36.0	24.0	36.0
60-61	33.243125000000006	36.0	36.0	36.0	27.0	36.0
62-63	32.895375	36.0	34.0	36.0	17.5	36.0
64-65	32.420249999999996	36.0	32.0	36.0	14.0	36.0
66-67	31.85725	36.0	32.0	36.0	14.0	36.0
68-69	32.281499999999994	36.0	32.0	36.0	14.0	36.0
70-71	32.016125	36.0	32.0	36.0	14.0	36.0
72-73	31.661375	36.0	32.0	36.0	14.0	36.0
74-75	32.551	36.0	32.0	36.0	14.0	36.0
76	30.3585	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	4.0
23	8.0
24	13.0
25	30.0
26	48.0
27	55.0
28	74.0
29	107.0
30	134.0
31	196.0
32	255.0
33	368.0
34	1032.0
35	1675.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	27.525	28.125	25.5	18.85
2	25.55	25.825	23.45	25.174999999999997
3	26.5	28.875	19.0	25.624999999999996
4	31.2	33.425	18.875	16.5
5	20.575	25.124999999999996	29.049999999999997	25.25
6	25.3	23.325000000000003	32.550000000000004	18.825
7	36.675000000000004	29.275000000000002	19.325	14.725
8	22.575	24.025	36.75	16.650000000000002
9	22.825	36.225	19.975	20.974999999999998
10-11	33.5	25.124999999999996	26.174999999999997	15.2
12-13	21.099999999999998	22.3875	25.937500000000004	30.575000000000003
14-15	29.1375	39.2	17.2	14.4625
16-17	22.05	22.7	36.225	19.025
18-19	40.9375	21.65	22.5625	14.85
20-21	22.5875	31.0375	26.674999999999997	19.7
22-23	32.4375	37.175000000000004	14.912500000000001	15.475
24-25	28.95	38.6125	15.837499999999999	16.6
26-27	25.974999999999998	32.3125	19.9875	21.725
28-29	27.037499999999998	24.6125	20.9125	27.437499999999996
30-31	34.849999999999994	30.875000000000004	12.375	21.9
32-33	27.8125	36.6125	13.075000000000001	22.5
34-35	30.2125	29.875	17.2	22.7125
36-37	28.499999999999996	33.5875	12.75	25.162499999999998
38-39	24.3	35.975	13.600000000000001	26.125
40-41	26.737499999999997	28.825	16.3625	28.075
42-43	32.6	26.8125	18.2375	22.35
44-45	23.5375	36.3375	14.912500000000001	25.2125
46-47	25.8	33.525	12.85	27.825
48-49	18.95	28.8375	15.275	36.9375
50-51	17.6375	28.3875	17.299999999999997	36.675000000000004
52-53	21.7375	25.637500000000003	18.75	33.875
54-55	21.675	23.225	22.7125	32.3875
56-57	20.974999999999998	24.3125	21.4875	33.225
58-59	23.35	25.937500000000004	17.7625	32.95
60-61	17.7875	20.724999999999998	23.95	37.5375
62-63	14.1375	24.474999999999998	20.474999999999998	40.9125
64-65	16.825000000000003	27.925	22.662499999999998	32.587500000000006
66-67	18.875	15.262500000000001	30.675	35.1875
68-69	17.625	18.8	27.875	35.699999999999996
70-71	24.675	17.1875	31.1875	26.950000000000003
72-73	21.175	15.75	28.537499999999998	34.5375
74-75	20.275000000000002	15.775	25.837500000000002	38.1125
76	15.1	19.525000000000002	31.85	33.525
>>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	0.5
27	0.5
28	0.0
29	0.0
30	0.0
31	0.0
32	0.0
33	0.0
34	0.0
35	1.0
36	1.0
37	0.0
38	0.5
39	2.0
40	7.0
41	11.5
42	12.0
43	23.5
44	51.5
45	109.0
46	150.0
47	179.5
48	332.0
49	637.5
50	820.0
51	713.5
52	586.0
53	544.5
54	524.0
55	377.5
56	182.0
57	97.5
58	62.0
59	58.5
60	38.5
61	16.5
62	11.0
63	10.0
64	7.5
65	4.0
66	2.0
67	2.0
68	1.5
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	0.5
91	1.0
92	1.0
93	0.5
94	0.0
95	0.0
96	0.0
97	0.5
98	0.5
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	67.55
#Duplication Level	Percentage of deduplicated	Percentage of total
1	89.85936343449296	60.699999999999996
2	4.293116210214656	5.800000000000001
3	1.8134715025906734	3.675
4	1.1843079200592153	3.2
5	0.8142116950407106	2.75
6	0.44411547002220575	1.7999999999999998
7	0.33308660251665434	1.575
8	0.11102886750555144	0.6
9	0.11102886750555144	0.675
>10	0.8882309400444115	9.925
>50	0.11102886750555144	5.6000000000000005
>100	0.03700962250185048	3.6999999999999997
>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	148	3.6999999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGAGATCGGAAGAGCAC	93	2.325	No Hit
CTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCA	66	1.6500000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTAGATCGGAAGAGCA	65	1.625	No Hit
TCCGTTGTAGTCTAGCTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	33	0.8250000000000001	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCAGATCGGAAGAGCACAC	30	0.75	No Hit
TCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACT	29	0.7250000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TCCGTTGTAGTCTAGCTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	29	0.7250000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
ATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAAC	28	0.7000000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
GAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	20	0.5	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
GGGGATGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACGTG	18	0.44999999999999996	TruSeq Adapter, Index 15 (97% over 36bp)
AACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAG	17	0.42500000000000004	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
ACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
TAATTCATGATCTGGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCA	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GCCGCCATGGTGAAATTGGTAGACACGCTGCTCTTAGATCGGAAGAGCAC	13	0.325	No Hit
TCCGTTGTAGTCTAGTTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	13	0.325	No Hit
GCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAA	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
AACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACGTGC	12	0.3	TruSeq Adapter, Index 18 (97% over 37bp)
ATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACT	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
AGGGATGTAGCGCAGCTTGGTAGCGCTTTTGTTTTAGATCGGAAGAGCAC	12	0.3	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTAGATCGGAAGAGCA	12	0.3	No Hit
TCCGTTGTAGTCTAGGTGGTTAGGATACTCAGATCGGAAGAGCACACGTC	11	0.27499999999999997	No Hit
GCAGTGATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAG	11	0.27499999999999997	No Hit
AACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
CAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCAC	11	0.27499999999999997	No Hit
TGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGC	10	0.25	No Hit
GGGTCGATGCCCGAGCGGTTAATGGGGACGGACTGAGATCGGAAGAGCAC	10	0.25	No Hit
ATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACGTGCCAAT	9	0.22499999999999998	TruSeq Adapter, Index 20 (97% over 38bp)
CTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAG	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTGAGATCGGAAGAGCAC	9	0.22499999999999998	No Hit
GCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACAC	8	0.2	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGAGATCGGAAGGGCAC	8	0.2	No Hit
TGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGT	8	0.2	No Hit
GTGATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATC	7	0.17500000000000002	No Hit
AACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACG	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAGATCGGAAGAGCACA	7	0.17500000000000002	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCCAGATCGGAAGAGCACA	7	0.17500000000000002	No Hit
CCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGT	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
AGGGATGTAGCGCAGCTTGGTAGCGCTTTTGTTTTGAGATCGGAAGAGCA	7	0.17500000000000002	No Hit
GAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTAGATCGGAAGAGCACA	7	0.17500000000000002	No Hit
GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTGAGATCGGAAGAGCACA	7	0.17500000000000002	No Hit
GCGTCTGTAGTCCAACGGTTAGGATAATTGCCAGATCGGAAGAGCACACG	6	0.15	No Hit
AGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACA	6	0.15	No Hit
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTAGATCGGAAGGGCA	6	0.15	No Hit
GCCCCCATCGTCTAGTGGTTCAGGACATCTCTCTTTAGATCGGAAGAGCA	6	0.15	No Hit
GCGAGCGTAGTTCAGTGGTAAAACATCTCCTTGCCAAGGAGAGATCGGAA	6	0.15	No Hit
ACACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCAGATCGGAAGAG	6	0.15	No Hit
TTTGGATTGAAGGGAGCTCTGAGATCGGAAGAGCACACGTCTGAACTCCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
CATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
GCACCAGTAGTCTAGTGGTAGAATAGATCGGAAGAGCACACGTCTGAACT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
CTTCTGGCGGAGGGCACGTCTGCCTGGGCGTCACGCAGATCGGAAGAGCA	6	0.15	No Hit
CGACACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCAGATCGGAAG	6	0.15	No Hit
AGCAAGGATTGACAGACTGAGAGCTCTTTCTTGATTCTATGAGATCGGAA	6	0.15	No Hit
CGACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
AAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAACTCCAG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
ACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
CTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
TATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGA	5	0.125	No Hit
GGCGGATGTAGCCAAGTGGATCAAGGCAGTGGATTGTAGATCGGAAGAGC	5	0.125	No Hit
AACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
TCCACAGGCTTTCTTGAACTGAGATCGGAAGAGCACACGTCTGAACTCCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
CTAACGAACGAACGATTTGAACAGATCGGAAGGGCACACGTCTGAACTCC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (96% over 28bp)
AAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCAGATCGGAAGAGCACACGTCT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
CTAACGAACGAACGATTTGAATAGATCGGAAGAGCACACGTCTGAACTCC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTAGATCGGAAGAGCACA	5	0.125	No Hit
TCCGTTGTAGTCTAGCTGGTTAGGATAAGATCGGAAGAGCACACGTCTGA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
TCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TCCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTC	5	0.125	No Hit
TAATTCATGATCTGGAGATCGGAAGAGCACACGTCTGAACTCCAGTCACG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GCAGTGATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAAAGA	5	0.125	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTAGATCGGAAGAGCACA	5	0.125	No Hit
TACCTGGTTGATCCTGCCAGTAGTCATATGCTTGTCTCAAAGATTAGATC	5	0.125	No Hit
GATGTATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGG	5	0.125	No Hit
TATTCTGGTGTCCTAGGCGTAGAGGAACCACAAGATCGGAAGAGCACACG	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	0.0	0.0	0.0	0.0	0.0
2	0.025	0.0	0.0	0.0	0.0
3	0.025	0.0	0.0	0.0	0.0
4	0.05	0.0	0.0	0.0	0.0
5	0.05	0.0	0.0	0.0	0.0
6	0.1	0.0	0.0	0.0	0.0
7	0.125	0.0	0.0	0.0	0.0
8	0.175	0.0	0.0	0.0	0.0
9	0.55	0.0	0.0	0.0	0.0
10	0.875	0.0	0.0	0.0	0.0
11	1.1	0.0	0.0	0.0	0.0
12	1.55	0.0	0.0	0.0	0.0
13	2.1	0.0	0.0	0.0	0.0
14	3.375	0.0	0.0	0.0	0.0
15	4.35	0.0	0.0	0.0	0.0
16	5.275	0.0	0.0	0.0	0.0
17	7.25	0.0	0.0	0.0	0.0
18	9.025	0.0	0.0	0.0	0.0
19	10.525	0.0	0.0	0.0	0.0
20	12.575	0.0	0.0	0.0	0.0
21	14.8	0.0	0.0	0.0	0.0
22	19.5	0.0	0.0	0.0	0.0
23	26.325	0.0	0.0	0.0	0.0
24	28.5	0.0	0.0	0.0	0.0
25	37.475	0.0	0.0	0.0	0.0
26	40.125	0.0	0.0	0.0	0.0
27	42.45	0.0	0.0	0.0	0.0
28	44.9	0.0	0.0	0.0	0.0
29	46.925	0.0	0.0	0.0	0.0
30	49.05	0.0	0.0	0.0	0.0
31	53.2	0.0	0.0	0.0	0.0
32	55.4	0.0	0.0	0.0	0.0
33	57.925	0.0	0.0	0.0	0.0
34	61.1	0.0	0.0	0.0	0.0
35	64.575	0.0	0.0	0.0	0.0
36	71.05	0.0	0.0	0.0	0.0
37	76.625	0.0	0.0	0.0	0.0
38	78.4	0.0	0.0	0.0	0.0
39	79.9	0.0	0.0	0.0	0.0
40	81.025	0.0	0.0	0.0	0.0
41	82.075	0.0	0.0	0.0	0.0
42	83.5	0.0	0.0	0.0	0.0
43	84.625	0.0	0.0	0.0	0.0
44	85.325	0.0	0.0	0.0	0.0
45	85.8	0.0	0.0	0.0	0.0
46	86.775	0.0	0.0	0.0	0.0
47	87.25	0.0	0.0	0.0	0.0
48	87.775	0.0	0.0	0.0	0.0
49	88.45	0.0	0.0	0.0	0.0
50	88.775	0.0	0.0	0.0	0.0
51	89.0	0.0	0.0	0.0	0.0
52	89.15	0.0	0.0	0.0	0.0
53	89.325	0.0	0.0	0.0	0.0
54	89.35	0.0	0.0	0.0	0.0
55	89.525	0.0	0.0	0.0	0.0
56	89.525	0.0	0.0	0.0	0.0
57	89.55	0.0	0.0	0.0	0.0
58	89.55	0.0	0.0	0.0	0.0
59	89.55	0.0	0.0	0.0	0.0
60	89.575	0.0	0.0	0.0	0.0
61	89.575	0.0	0.0	0.0	0.0
62	89.575	0.0	0.0	0.0	0.0
63	89.575	0.0	0.0	0.0	0.0
64	89.575	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	fail
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
TCTAGCT	30	7.878043E-8	70.00001	11
GATACTC	15	0.0020658788	70.00001	24
TTCAATT	30	7.878043E-8	70.00001	11
TTGTAGT	70	0.0	70.00001	5
AGGATAC	15	0.0020658788	70.00001	22
TCAGGAT	30	7.878043E-8	70.00001	20
GCTGGTC	30	7.878043E-8	70.00001	15
TAGCTGG	30	7.878043E-8	70.00001	13
CCGTTGT	35	2.6138878E-9	70.00001	2
TAGTCTA	35	2.6138878E-9	70.00001	8
GGTCAGG	30	7.878043E-8	70.00001	18
GTTCAAT	30	7.878043E-8	70.00001	10
TAGTTCA	35	2.6138878E-9	70.00001	8
GGATACT	15	0.0020658788	70.00001	23
ACTCAGA	15	0.0020658788	70.00001	27
CTGGTCA	30	7.878043E-8	70.00001	16
TGTAGTC	45	3.6379788E-12	70.00001	6
CTAGCTG	30	7.878043E-8	70.00001	12
GGGATTG	30	7.878043E-8	70.00001	1
GTCTAGC	30	7.878043E-8	70.00001	10
>>END_MODULE
Rejected 186718 READS because READLEN < 1
Read 186718 spots for SRR11699262.sra
Written 186718 spots for SRR11699262.sra
Rejected 186718 READS because READLEN < 1
Read 186718 spots for SRR11699262.sra
Written 186718 spots for SRR11699262.sra
Rejected 186718 READS because READLEN < 1
Read 186718 spots for SRR11699262.sra
Written 186718 spots for SRR11699262.sra
Rejected 186718 READS because READLEN < 1
Read 186718 spots for SRR11699262.sra
Written 186718 spots for SRR11699262.sra
Rejected 186718 READS because READLEN < 1
Read 186718 spots for SRR11699262.sra
Written 186718 spots for SRR11699262.sra
Rejected 186718 READS because READLEN < 1
Read 186718 spots for SRR11699262.sra
Written 186718 spots for SRR11699262.sra
Rejected 186718 READS because READLEN < 1
Read 186718 spots for SRR11699262.sra
Written 186718 spots for SRR11699262.sra
Rejected 186718 READS because READLEN < 1
Read 186718 spots for SRR11699262.sra
Written 186718 spots for SRR11699262.sra
Rejected 186718 READS because READLEN < 1
Read 186718 spots for SRR11699262.sra
Written 186718 spots for SRR11699262.sra
Rejected 186718 READS because READLEN < 1
Read 186718 spots for SRR11699262.sra
Written 186718 spots for SRR11699262.sra
Rejected 186718 READS because READLEN < 1
Read 186718 spots for SRR11699262.sra
Written 186718 spots for SRR11699262.sra
Rejected 186718 READS because READLEN < 1
Read 186718 spots for SRR11699262.sra
Written 186718 spots for SRR11699262.sra
Rejected 186718 READS because READLEN < 1
Read 186718 spots for SRR11699262.sra
Written 186718 spots for SRR11699262.sra
Rejected 186718 READS because READLEN < 1
Read 186718 spots for SRR11699262.sra
Written 186718 spots for SRR11699262.sra
Rejected 186718 READS because READLEN < 1
Read 186718 spots for SRR11699262.sra
Written 186718 spots for SRR11699262.sra
Rejected 186718 READS because READLEN < 1
Read 186718 spots for SRR11699262.sra
Written 186718 spots for SRR11699262.sra
Rejected 186718 READS because READLEN < 1
Read 186718 spots for SRR11699262.sra
Written 186718 spots for SRR11699262.sra
Rejected 186718 READS because READLEN < 1
Read 186718 spots for SRR11699262.sra
Written 186718 spots for SRR11699262.sra
Rejected 186737 READS because READLEN < 1
Read 186737 spots for SRR11699262.sra
Written 186737 spots for SRR11699262.sra
Rejected 186718 READS because READLEN < 1
Read 186718 spots for SRR11699262.sra
Written 186718 spots for SRR11699262.sra
SRR ids: ['SRR11699262.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_t4m0lc1j
SRR11699262.sra spots: 3734379
blocks: [[1, 186718], [186719, 373436], [373437, 560154], [560155, 746872], [746873, 933590], [933591, 1120308], [1120309, 1307026], [1307027, 1493744], [1493745, 1680462], [1680463, 1867180], [1867181, 2053898], [2053899, 2240616], [2240617, 2427334], [2427335, 2614052], [2614053, 2800770], [2800771, 2987488], [2987489, 3174206], [3174207, 3360924], [3360925, 3547642], [3547643, 3734379]]
SRR11699262 file size 708967
SRR11699262 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 SRR11699262 SRR11699262_1.fastq
Input file:	SRR11699262_1.fastq
trimmed:	SRR11699262-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 04:24:24 2025 >> started

Wed Jun 18 04:24:26 2025 >> done (1.693s)
3734379 reads processed; of these:
 489003 (13.09%) short reads filtered out after trimming by size control
   2818 ( 0.08%) empty reads filtered out after trimming by size control
3242558 (86.83%) reads available; of these:
3074419 (94.81%) trimmed reads available after processing
 168139 ( 5.19%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  63994	  1.97%
 19	 100275	  3.09%
 20	 106688	  3.29%
 21	 201597	  6.22%
 22	 295166	  9.10%
 23	 108793	  3.36%
 24	 350402	 10.81%
 25	 110808	  3.42%
 26	  86799	  2.68%
 27	 114196	  3.52%
 28	  74075	  2.28%
 29	  89338	  2.76%
 30	 168164	  5.19%
 31	  88021	  2.71%
 32	  92840	  2.86%
 33	 122092	  3.77%
 34	 137250	  4.23%
 35	 230664	  7.11%
 36	 175422	  5.41%
 37	  69263	  2.14%
 38	  54265	  1.67%
 39	  52024	  1.60%
 40	  44085	  1.36%
 41	  52679	  1.62%
 42	  34358	  1.06%
 43	  28486	  0.88%
 44	  22667	  0.70%
 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	      7	  0.00%
 76	 168139	  5.19%
3242558 reads passed initial QC


criterion=sequence-density
sequence-density=6.54
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=0.32
sequence-density-rank=21
fanout-score=211.41
fanout-score-rank=1
prefix-density=4.51
prefix-fanout=15.1
sequence=AGATCGGAAGGGCACACGTCTG
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 04:24:37
                             Started mapping on |	Jun 18 04:24:38
                                    Finished on |	Jun 18 04:24:49
       Mapping speed, Million of reads per hour |	1061.20

                          Number of input reads |	3242558
                      Average input read length |	30
                                    UNIQUE READS:
                   Uniquely mapped reads number |	338483
                        Uniquely mapped reads % |	10.44%
                          Average mapped length |	25.86
                       Number of splices: Total |	7329
            Number of splices: Annotated (sjdb) |	3303
                       Number of splices: GT/AG |	6746
                       Number of splices: GC/AG |	327
                       Number of splices: AT/AC |	10
               Number of splices: Non-canonical |	246
                      Mismatch rate per base, % |	1.14%
                         Deletion rate per base |	0.01%
                        Deletion average length |	1.42
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.23
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	436094
             % of reads mapped to multiple loci |	13.45%
        Number of reads mapped to too many loci |	899773
             % of reads mapped to too many loci |	27.75%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	9.44%
                     % of reads unmapped: other |	38.92%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	2467981	2467981	2467981
N_multimapping	436094	436094	436094
N_noFeature	278294	287739	326933
N_ambiguous	2149	25	28
UnstrandedReadsAssigned:58040 PositiveStrandReadsAssigned:50719 NegativeStrandReadsAssigned:11522
Dataset is classified unstranded
MeadianReadLen=29 20thPercentileLength=22 echo kmer=19
SRR11699262 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: SRR11699262-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 3,242,558 reads, 771,017 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 886 rounds

  72540 SRR11699262.ke.tsv
  44303 SRR11699262.se.tsv
 116843 total
==> SRR11699262.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Zm00001eb096110_T001	2067	1968	0	0
Zm00001eb321680_T001	3417	3318	3	1.34576
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	2	1.287

==> SRR11699262.se.tsv <==
Zm00001eb015280	1
Zm00001eb000610	0
Zm00001eb033210	0
Zm00001eb044610	0
Zm00001eb014360	0
Zm00001eb051320	0
Zm00001eb021860	0
Zm00001eb011690	0
Zm00001eb016840	0
Zm00001eb052060	0
SRR11699262 completed mapping pipeline successfully
