Starting /dee2/code/volunteer_pipeline.sh SRR11699654
    current disk space = 2452557758464
    free memory = 1581517920 
SRR11699654 SRAfilesize
1827761f6812440e21d33ba8e7a43f26  SRR11699654.sra
SRR11699654.sra file validated
SRR11699654 is single end
SRR11699654 is conventional basespace
SRR11699654 read1 length is 76 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR11699654_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	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	31.1005	32.0	32.0	32.0	32.0	32.0
2	31.32875	32.0	32.0	32.0	32.0	32.0
3	31.517	32.0	32.0	32.0	32.0	32.0
4	31.487	32.0	32.0	32.0	32.0	32.0
5	31.4455	32.0	32.0	32.0	32.0	32.0
6	34.91325	36.0	36.0	36.0	36.0	36.0
7	34.98125	36.0	36.0	36.0	36.0	36.0
8	35.00475	36.0	36.0	36.0	36.0	36.0
9	34.83075	36.0	36.0	36.0	32.0	36.0
10-11	35.027249999999995	36.0	36.0	36.0	36.0	36.0
12-13	35.08225	36.0	36.0	36.0	36.0	36.0
14-15	35.0245	36.0	36.0	36.0	36.0	36.0
16-17	35.026875000000004	36.0	36.0	36.0	36.0	36.0
18-19	35.073625	36.0	36.0	36.0	36.0	36.0
20-21	34.929249999999996	36.0	36.0	36.0	36.0	36.0
22-23	34.963375	36.0	36.0	36.0	36.0	36.0
24-25	34.917625	36.0	36.0	36.0	36.0	36.0
26-27	34.871125000000006	36.0	36.0	36.0	34.0	36.0
28-29	34.856875	36.0	36.0	36.0	36.0	36.0
30-31	34.88275	36.0	36.0	36.0	36.0	36.0
32-33	34.871750000000006	36.0	36.0	36.0	34.0	36.0
34-35	34.91625	36.0	36.0	36.0	36.0	36.0
36-37	34.867875	36.0	36.0	36.0	36.0	36.0
38-39	34.831	36.0	36.0	36.0	34.0	36.0
40-41	34.854375	36.0	36.0	36.0	36.0	36.0
42-43	34.792375	36.0	36.0	36.0	34.0	36.0
44-45	34.725125000000006	36.0	36.0	36.0	32.0	36.0
46-47	34.720749999999995	36.0	36.0	36.0	32.0	36.0
48-49	34.568375	36.0	36.0	36.0	32.0	36.0
50-51	34.225125000000006	36.0	36.0	36.0	32.0	36.0
52-53	33.959625	36.0	36.0	36.0	32.0	36.0
54-55	33.558	36.0	36.0	36.0	24.0	36.0
56-57	32.838375	36.0	32.0	36.0	14.0	36.0
58-59	32.358875	36.0	32.0	36.0	14.0	36.0
60-61	31.91375	36.0	32.0	36.0	14.0	36.0
62-63	31.288	36.0	32.0	36.0	14.0	36.0
64-65	30.814375	36.0	32.0	36.0	14.0	36.0
66-67	29.260125000000002	32.0	27.0	36.0	14.0	36.0
68-69	28.801000000000002	32.0	20.5	36.0	14.0	36.0
70-71	29.06425	34.0	20.5	36.0	14.0	36.0
72-73	29.183374999999998	36.0	24.0	36.0	14.0	36.0
74-75	29.336624999999998	36.0	21.0	36.0	14.0	36.0
76	25.937	32.0	14.0	36.0	14.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
21	2.0
22	3.0
23	11.0
24	16.0
25	20.0
26	54.0
27	71.0
28	103.0
29	138.0
30	183.0
31	282.0
32	365.0
33	561.0
34	1274.0
35	917.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	25.6	30.349999999999998	23.775	20.275000000000002
2	24.2	26.35	25.3	24.15
3	27.575	30.075000000000003	18.85	23.5
4	28.4	31.624999999999996	18.625	21.349999999999998
5	22.35	25.8	24.474999999999998	27.375
6	25.1	27.0	27.800000000000004	20.1
7	33.900000000000006	32.975	18.375	14.75
8	22.175	25.074999999999996	31.900000000000002	20.849999999999998
9	25.074999999999996	34.375	19.45	21.099999999999998
10-11	32.0125	28.199999999999996	22.4875	17.299999999999997
12-13	21.95	22.400000000000002	24.9375	30.7125
14-15	29.4875	38.0625	17.175	15.275
16-17	24.474999999999998	22.075	33.1625	20.2875
18-19	37.1875	24.462500000000002	22.5	15.85
20-21	22.5875	33.6	26.0625	17.75
22-23	31.612499999999997	38.337500000000006	14.05	16.0
24-25	28.249999999999996	37.8125	15.925	18.0125
26-27	28.1625	32.0375	18.1375	21.6625
28-29	28.4375	28.325	19.3625	23.875
30-31	34.599999999999994	32.4625	11.3125	21.625
32-33	27.6375	36.8625	13.5625	21.9375
34-35	30.662499999999998	31.025000000000002	15.262500000000001	23.05
36-37	26.7625	34.625	11.725	26.887499999999996
38-39	24.15	33.1625	14.575	28.1125
40-41	26.1125	29.849999999999998	15.475	28.5625
42-43	28.575	28.025	18.2875	25.112499999999997
44-45	22.8875	32.2	15.975	28.9375
46-47	23.4875	31.0375	14.7125	30.7625
48-49	17.1125	28.5625	16.7125	37.6125
50-51	16.7625	25.887500000000003	18.862499999999997	38.487500000000004
52-53	20.6875	22.2625	20.25	36.8
54-55	20.1	22.4625	21.9	35.5375
56-57	19.85	20.200000000000003	21.85	38.1
58-59	18.65	20.849999999999998	20.3	40.2
60-61	18.8125	16.2125	24.675	40.300000000000004
62-63	17.5375	18.3	21.837500000000002	42.325
64-65	16.3375	18.099999999999998	25.7875	39.775
66-67	16.9625	14.0125	31.35	37.675
68-69	18.2375	14.2875	30.6875	36.7875
70-71	22.162499999999998	13.325000000000001	31.9875	32.525
72-73	19.225	13.5625	29.5	37.7125
74-75	22.275	10.95	29.762499999999996	37.012499999999996
76	12.775	12.425	38.65	36.15
>>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	1.0
35	1.0
36	1.0
37	2.0
38	2.5
39	3.5
40	4.0
41	8.5
42	13.0
43	18.0
44	32.0
45	61.5
46	82.0
47	116.5
48	212.0
49	372.0
50	471.0
51	666.5
52	698.5
53	534.0
54	533.0
55	477.0
56	344.0
57	196.0
58	125.0
59	94.0
60	74.5
61	51.0
62	16.0
63	15.0
64	8.0
65	2.0
66	2.0
67	2.0
68	1.0
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	0.5
91	0.5
92	0.0
93	0.0
94	1.0
95	1.0
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	66.0
#Duplication Level	Percentage of deduplicated	Percentage of total
1	88.97727272727273	58.72500000000001
2	5.113636363636364	6.75
3	1.9696969696969695	3.9
4	1.0606060606060608	2.8000000000000003
5	0.4924242424242424	1.625
6	0.3787878787878788	1.5
7	0.4166666666666667	1.925
8	0.30303030303030304	1.6
9	0.11363636363636363	0.675
>10	1.0606060606060608	13.3
>50	0.07575757575757576	3.025
>100	0.03787878787878788	4.175
>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	167	4.175	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
ATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAAC	66	1.6500000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGAGATCGGAAGAGCAC	55	1.375	No Hit
CTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCA	50	1.25	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	35	0.8750000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
ATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACT	34	0.8500000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
CTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAG	30	0.75	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCA	29	0.7250000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACT	24	0.6	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GGGGATGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACGTC	24	0.6	TruSeq Adapter, Index 1 (97% over 36bp)
AACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAG	23	0.575	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTAGATCGGAAGAGCA	21	0.525	No Hit
ACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	21	0.525	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GCGTCTGTAGTCCAACGGTTAGGATAATTGCCAGATCGGAAGAGCACACG	19	0.475	No Hit
AACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACGTCC	18	0.44999999999999996	TruSeq Adapter, Index 18 (100% over 37bp)
TCCGTTGTAGTCTAGCTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	18	0.44999999999999996	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
AGGGCTATAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACGTC	17	0.42500000000000004	TruSeq Adapter, Index 1 (97% over 36bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCAGATCGGAAGAGCACAC	15	0.375	No Hit
ATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACGTCCGCAT	15	0.375	TruSeq Adapter, Index 18 (100% over 41bp)
TCCGTTGTAGTCTAGCTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	15	0.375	No Hit
CCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGT	14	0.35000000000000003	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GCCGCCATGGTGAAATTGGTAGACACGCTGCTCTTAGATCGGAAGAGCAC	13	0.325	No Hit
ATCCTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTC	12	0.3	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
AGGGATGTAGCGCAGCTTGGTAGCGCTTTTGTTTTAGATCGGAAGAGCAC	12	0.3	No Hit
CGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACGT	11	0.27499999999999997	TruSeq Adapter, Index 1 (97% over 35bp)
CGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACGTCCGC	11	0.27499999999999997	TruSeq Adapter, Index 18 (100% over 39bp)
GAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	11	0.27499999999999997	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCCAGATCGGAAGAGCACA	10	0.25	No Hit
TAATTCATGATCTGGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
CCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCT	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
TCCGTTGTAGTCTAGTTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	10	0.25	No Hit
ACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTC	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
TGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGC	9	0.22499999999999998	No Hit
GATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACGTCCGCA	9	0.22499999999999998	TruSeq Adapter, Index 18 (100% over 40bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGAGATCGGAAGAGCACACG	8	0.2	No Hit
TATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAGATCGGAAGAGCACA	8	0.2	No Hit
GACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACTC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
AGCGGAGTAGAGCAGTTAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTGAGATCGGAAGAGCAC	8	0.2	No Hit
GCACCAGTGGTCTAGTGGTAGAATAAGATCGGAAGAGCACACGTCTGAAC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTAGATCGGAAGAGCACA	8	0.2	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTAGATCGGAAGAGCA	8	0.2	No Hit
TGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGT	7	0.17500000000000002	No Hit
GCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 24bp)
TCGACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAAC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCAGATCGGAAGAGCACACGTC	7	0.17500000000000002	No Hit
TAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAG	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
GCGAGCGTAGTTCAGTGGTAAAACATCTCCTTGCCAAGGAGAGATCGGAA	7	0.17500000000000002	No Hit
GGGTCGATGCCCGAGCGGTTAATGGGGACGGACTGAGATCGGAAGAGCAC	7	0.17500000000000002	No Hit
TACCTGGTTGATCCTGCCAGTAGTCATATGCTTGTCTAGATCGGAAGAGC	7	0.17500000000000002	No Hit
AACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
CACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCAGATCGGAAGAGC	7	0.17500000000000002	No Hit
TATTCTGGTGTCCTAGGCGTAGAGGAACCACAAGATCGGAAGAGCACACG	7	0.17500000000000002	No Hit
CGACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCACAGATCGGAAGAGCACACGT	6	0.15	No Hit
TACCTGGTTGATCCTGCCAGTAGTCATATGCTTGTCTCAAGATCGGAAGA	6	0.15	No Hit
TATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGA	6	0.15	No Hit
TATTCTGGTGTCCTAGGCGTAGAGGAGATCGGAAGAGCACACGTCTGAAC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCAGATCGGAAGAGCACAC	6	0.15	No Hit
AAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
GAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTC	6	0.15	No Hit
GCGACCCCAGGTCAGTCGGGACTAGATCGGAAGAGCACACGTCTGAACTC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
CAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCAC	6	0.15	No Hit
ATCCTAACGAACGAACGATTTGAATAGATCGGAAGAGCACACGTCTGAAC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
GGTAGTTCGACCGTGGATAGATCGGAAGAGCACACGTCTGAACTCCAGTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
CAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
ACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
GGCGGATGTAGCCAAGTGGATCAAGGCAGTGGATTGTAGATCGGAAGAGC	5	0.125	No Hit
CGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
AACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GACACGACTCTCGGCAACGGATATCAGATCGGAAGAGCACACGTCTGAAC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
GGAGAGATGGCTGAGTGGACTAAAGCGGCGGATTGAGATCGGAAGAGCAC	5	0.125	No Hit
ACGTCTGCCTGGGCGTCACGCAGATCGGAAGAGCACACGTCTGAACTCCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
AACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAGTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
ACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACGTCCG	5	0.125	TruSeq Adapter, Index 18 (100% over 38bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGAGATCGGAAGAGCACACGT	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	0.1	0.0	0.0	0.0	0.0
3	0.2	0.0	0.0	0.0	0.0
4	0.25	0.0	0.0	0.0	0.0
5	0.475	0.0	0.0	0.0	0.0
6	0.6	0.0	0.0	0.0	0.0
7	0.8	0.0	0.0	0.0	0.0
8	1.0	0.0	0.0	0.0	0.0
9	1.65	0.0	0.0	0.0	0.0
10	2.275	0.0	0.0	0.0	0.0
11	3.025	0.0	0.0	0.0	0.0
12	3.575	0.0	0.0	0.0	0.0
13	4.625	0.0	0.0	0.0	0.0
14	6.725	0.0	0.0	0.0	0.0
15	8.025	0.0	0.0	0.0	0.0
16	9.05	0.0	0.0	0.0	0.0
17	11.15	0.0	0.0	0.0	0.0
18	14.0	0.0	0.0	0.0	0.0
19	15.975	0.0	0.0	0.0	0.0
20	18.5	0.0	0.0	0.0	0.0
21	22.5	0.0	0.0	0.0	0.0
22	27.375	0.0	0.0	0.0	0.0
23	35.375	0.0	0.0	0.0	0.0
24	38.425	0.0	0.0	0.0	0.0
25	46.35	0.0	0.0	0.0	0.0
26	51.425	0.0	0.0	0.0	0.0
27	54.0	0.0	0.0	0.0	0.0
28	56.675	0.0	0.0	0.0	0.0
29	59.225	0.0	0.0	0.0	0.0
30	61.8	0.0	0.0	0.0	0.0
31	65.3	0.0	0.0	0.0	0.0
32	67.95	0.0	0.0	0.0	0.0
33	71.025	0.0	0.0	0.0	0.0
34	74.35	0.0	0.0	0.0	0.0
35	78.175	0.0	0.0	0.0	0.0
36	83.225	0.0	0.0	0.0	0.0
37	86.4	0.0	0.0	0.0	0.0
38	88.3	0.0	0.0	0.0	0.0
39	89.675	0.0	0.0	0.0	0.0
40	91.1	0.0	0.0	0.0	0.0
41	91.75	0.0	0.0	0.0	0.0
42	92.825	0.0	0.0	0.0	0.0
43	93.575	0.0	0.0	0.0	0.0
44	94.225	0.0	0.0	0.0	0.0
45	94.5	0.0	0.0	0.0	0.0
46	94.75	0.0	0.0	0.0	0.0
47	94.975	0.0	0.0	0.0	0.0
48	95.125	0.0	0.0	0.0	0.0
49	95.325	0.0	0.0	0.0	0.0
50	95.4	0.0	0.0	0.0	0.0
51	95.4	0.0	0.0	0.0	0.0
52	95.525	0.0	0.0	0.0	0.0
53	95.55	0.0	0.0	0.0	0.0
54	95.575	0.0	0.0	0.0	0.0
55	95.575	0.0	0.0	0.0	0.0
56	95.575	0.0	0.0	0.0	0.0
57	95.6	0.0	0.0	0.0	0.0
58	95.65	0.0	0.0	0.0	0.0
59	95.675	0.0	0.0	0.0	0.0
60	95.675	0.0	0.0	0.0	0.0
61	95.675	0.0	0.0	0.0	0.0
62	95.675	0.0	0.0	0.0	0.0
63	95.675	0.0	0.0	0.0	0.0
64	95.675	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
GGATGTA	15	0.0020658788	70.00001	3
TAGCGCA	15	0.0020658788	70.00001	8
TGGTCAG	15	0.0020658788	70.00001	17
AGCTTGG	15	0.0020658788	70.00001	14
TTGTAGT	15	0.0020658788	70.00001	5
TGGTAGC	15	0.0020658788	70.00001	18
GATGTAG	15	0.0020658788	70.00001	4
AGGGATG	15	0.0020658788	70.00001	1
CTTGGTA	15	0.0020658788	70.00001	16
GCAGCTT	15	0.0020658788	70.00001	12
CGCAGCT	15	0.0020658788	70.00001	11
TGTAGCG	15	0.0020658788	70.00001	6
GCTTGGT	15	0.0020658788	70.00001	15
GGGATGT	15	0.0020658788	70.00001	2
GCGCAGC	15	0.0020658788	70.00001	10
TTGGTCA	15	0.0020658788	70.00001	16
ATGTAGC	15	0.0020658788	70.00001	5
AGCGCAG	15	0.0020658788	70.00001	9
CAGCTTG	15	0.0020658788	70.00001	13
TTGGTAG	20	0.0064587677	52.5	17
>>END_MODULE
Rejected 194133 READS because READLEN < 1
Read 194133 spots for SRR11699654.sra
Written 194133 spots for SRR11699654.sra
Rejected 194133 READS because READLEN < 1
Read 194133 spots for SRR11699654.sra
Written 194133 spots for SRR11699654.sra
Rejected 194133 READS because READLEN < 1
Read 194133 spots for SRR11699654.sra
Written 194133 spots for SRR11699654.sra
Rejected 194133 READS because READLEN < 1
Read 194133 spots for SRR11699654.sra
Written 194133 spots for SRR11699654.sra
Rejected 194133 READS because READLEN < 1
Read 194133 spots for SRR11699654.sra
Written 194133 spots for SRR11699654.sra
Rejected 194133 READS because READLEN < 1
Read 194133 spots for SRR11699654.sra
Written 194133 spots for SRR11699654.sra
Rejected 194133 READS because READLEN < 1
Read 194133 spots for SRR11699654.sra
Written 194133 spots for SRR11699654.sra
Rejected 194133 READS because READLEN < 1
Read 194133 spots for SRR11699654.sra
Written 194133 spots for SRR11699654.sra
Rejected 194133 READS because READLEN < 1
Read 194133 spots for SRR11699654.sra
Written 194133 spots for SRR11699654.sra
Rejected 194133 READS because READLEN < 1
Read 194133 spots for SRR11699654.sra
Written 194133 spots for SRR11699654.sra
Rejected 194133 READS because READLEN < 1
Read 194133 spots for SRR11699654.sra
Written 194133 spots for SRR11699654.sra
Rejected 194133 READS because READLEN < 1
Read 194133 spots for SRR11699654.sra
Written 194133 spots for SRR11699654.sra
Rejected 194148 READS because READLEN < 1
Read 194148 spots for SRR11699654.sra
Written 194148 spots for SRR11699654.sra
Rejected 194133 READS because READLEN < 1
Read 194133 spots for SRR11699654.sra
Written 194133 spots for SRR11699654.sra
Rejected 194133 READS because READLEN < 1
Read 194133 spots for SRR11699654.sra
Written 194133 spots for SRR11699654.sra
Rejected 194133 READS because READLEN < 1
Read 194133 spots for SRR11699654.sra
Written 194133 spots for SRR11699654.sra
Rejected 194133 READS because READLEN < 1
Read 194133 spots for SRR11699654.sra
Written 194133 spots for SRR11699654.sra
Rejected 194133 READS because READLEN < 1
Read 194133 spots for SRR11699654.sra
Written 194133 spots for SRR11699654.sra
Rejected 194133 READS because READLEN < 1
Read 194133 spots for SRR11699654.sra
Written 194133 spots for SRR11699654.sra
Rejected 194133 READS because READLEN < 1
Read 194133 spots for SRR11699654.sra
Written 194133 spots for SRR11699654.sra
SRR ids: ['SRR11699654.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_phodqvcj
SRR11699654.sra spots: 3882675
blocks: [[1, 194133], [194134, 388266], [388267, 582399], [582400, 776532], [776533, 970665], [970666, 1164798], [1164799, 1358931], [1358932, 1553064], [1553065, 1747197], [1747198, 1941330], [1941331, 2135463], [2135464, 2329596], [2329597, 2523729], [2523730, 2717862], [2717863, 2911995], [2911996, 3106128], [3106129, 3300261], [3300262, 3494394], [3494395, 3688527], [3688528, 3882675]]
SRR11699654 file size 737207
SRR11699654 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 SRR11699654 SRR11699654_1.fastq
Input file:	SRR11699654_1.fastq
trimmed:	SRR11699654-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
Sat Jun 21 18:44:14 2025 >> started

Sat Jun 21 18:44:16 2025 >> done (2.342s)
3882675 reads processed; of these:
 621163 (16.00%) short reads filtered out after trimming by size control
   2449 ( 0.06%) empty reads filtered out after trimming by size control
3259063 (83.94%) reads available; of these:
3200462 (98.20%) trimmed reads available after processing
  58601 ( 1.80%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  80508	  2.47%
 19	 119802	  3.68%
 20	 147091	  4.51%
 21	 198800	  6.10%
 22	 326952	 10.03%
 23	 136492	  4.19%
 24	 317004	  9.73%
 25	 171323	  5.26%
 26	 110854	  3.40%
 27	 122067	  3.75%
 28	  98539	  3.02%
 29	 106465	  3.27%
 30	 148163	  4.55%
 31	 117049	  3.59%
 32	 119468	  3.67%
 33	 124506	  3.82%
 34	 128440	  3.94%
 35	 194822	  5.98%
 36	 132008	  4.05%
 37	  72937	  2.24%
 38	  51848	  1.59%
 39	  43168	  1.32%
 40	  34854	  1.07%
 41	  40281	  1.24%
 42	  25181	  0.77%
 43	  18999	  0.58%
 44	  12838	  0.39%
 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	      1	  0.00%
 75	      2	  0.00%
 76	  58601	  1.80%
3259063 reads passed initial QC


criterion=sequence-density
sequence-density=3.19
sequence-density-rank=1
fanout-score=1.00
fanout-score-rank=16
prefix-density=0.01
prefix-fanout=1.0
sequence=TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTCACCCGAAAGACCCGGGTT


criterion=fanout-score
sequence-density=1.39
sequence-density-rank=3
fanout-score=20.98
fanout-score-rank=1
prefix-density=1.42
prefix-fanout=20.5
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACGTCCGCATCTCGTATGCCGTCTTCT
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 21 18:44:39
                             Started mapping on |	Jun 21 18:44:39
                                    Finished on |	Jun 21 18:44:51
       Mapping speed, Million of reads per hour |	977.72

                          Number of input reads |	3259063
                      Average input read length |	28
                                    UNIQUE READS:
                   Uniquely mapped reads number |	293572
                        Uniquely mapped reads % |	9.01%
                          Average mapped length |	25.10
                       Number of splices: Total |	6333
            Number of splices: Annotated (sjdb) |	2604
                       Number of splices: GT/AG |	5715
                       Number of splices: GC/AG |	416
                       Number of splices: AT/AC |	4
               Number of splices: Non-canonical |	198
                      Mismatch rate per base, % |	1.19%
                         Deletion rate per base |	0.01%
                        Deletion average length |	1.39
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.22
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	366427
             % of reads mapped to multiple loci |	11.24%
        Number of reads mapped to too many loci |	798120
             % of reads mapped to too many loci |	24.49%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	7.30%
                     % of reads unmapped: other |	47.96%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	2599064	2599064	2599064
N_multimapping	366427	366427	366427
N_noFeature	244911	252987	283976
N_ambiguous	1559	25	21
UnstrandedReadsAssigned:47102 PositiveStrandReadsAssigned:40560 NegativeStrandReadsAssigned:9575
Dataset is classified unstranded
MeadianReadLen=27 20thPercentileLength=22 echo kmer=19
SRR11699654 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: SRR11699654-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 3,259,063 reads, 688,740 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 846 rounds

  72540 SRR11699654.ke.tsv
  44303 SRR11699654.se.tsv
 116843 total
==> SRR11699654.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Zm00001eb096110_T001	2067	1968	0	0
Zm00001eb321680_T001	3417	3318	1	0.465371
Zm00001eb323640_T001	3273	3174	0	0
Zm00001eb314140_T001	893	794	0	0
Zm00001eb080260_T001	3529	3430	2	0.90035
Zm00001eb026490_T001	2433	2334	0	0
Zm00001eb026490_T002	2229	2130	0	0
Zm00001eb026490_T003	2220	2121	0	0
Zm00001eb281360_T001	2412	2313	0	0

==> SRR11699654.se.tsv <==
Zm00001eb015280	0
Zm00001eb000610	0
Zm00001eb033210	0
Zm00001eb044610	0
Zm00001eb014360	0
Zm00001eb051320	0
Zm00001eb021860	0
Zm00001eb011690	0
Zm00001eb016840	0
Zm00001eb052060	0
SRR11699654 completed mapping pipeline successfully
