Starting /dee2/code/volunteer_pipeline.sh SRR11699370
    current disk space = 2461472804864
    free memory = 572502840 
SRR11699370 SRAfilesize
c47f138d45fa0af90e9fd7ad2de93b7d  SRR11699370.sra
SRR11699370.sra file validated
SRR11699370 is single end
SRR11699370 is conventional basespace
SRR11699370 read1 length is 76 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR11699370_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	31.2685	32.0	32.0	32.0	32.0	32.0
2	31.372	32.0	32.0	32.0	32.0	32.0
3	31.446	32.0	32.0	32.0	32.0	32.0
4	31.57225	32.0	32.0	32.0	32.0	32.0
5	31.548	32.0	32.0	32.0	32.0	32.0
6	34.99575	36.0	36.0	36.0	36.0	36.0
7	35.01075	36.0	36.0	36.0	36.0	36.0
8	35.154	36.0	36.0	36.0	36.0	36.0
9	34.9235	36.0	36.0	36.0	36.0	36.0
10-11	35.154375	36.0	36.0	36.0	36.0	36.0
12-13	35.119875	36.0	36.0	36.0	36.0	36.0
14-15	35.112625	36.0	36.0	36.0	36.0	36.0
16-17	35.1175	36.0	36.0	36.0	36.0	36.0
18-19	35.104	36.0	36.0	36.0	36.0	36.0
20-21	35.007875	36.0	36.0	36.0	36.0	36.0
22-23	34.99125	36.0	36.0	36.0	36.0	36.0
24-25	35.05775	36.0	36.0	36.0	36.0	36.0
26-27	34.940124999999995	36.0	36.0	36.0	36.0	36.0
28-29	35.023624999999996	36.0	36.0	36.0	36.0	36.0
30-31	34.975375	36.0	36.0	36.0	36.0	36.0
32-33	34.8885	36.0	36.0	36.0	34.0	36.0
34-35	34.978125	36.0	36.0	36.0	36.0	36.0
36-37	34.968125	36.0	36.0	36.0	36.0	36.0
38-39	34.867125	36.0	36.0	36.0	36.0	36.0
40-41	34.971125	36.0	36.0	36.0	36.0	36.0
42-43	34.946625	36.0	36.0	36.0	36.0	36.0
44-45	34.8535	36.0	36.0	36.0	36.0	36.0
46-47	34.8585	36.0	36.0	36.0	36.0	36.0
48-49	34.6535	36.0	36.0	36.0	32.0	36.0
50-51	34.33825	36.0	36.0	36.0	32.0	36.0
52-53	33.9265	36.0	36.0	36.0	32.0	36.0
54-55	33.37925	36.0	36.0	36.0	20.5	36.0
56-57	32.296875	36.0	32.0	36.0	14.0	36.0
58-59	31.899124999999998	36.0	32.0	36.0	14.0	36.0
60-61	31.095875	36.0	32.0	36.0	14.0	36.0
62-63	30.537625	36.0	29.5	36.0	14.0	36.0
64-65	29.589	36.0	24.0	36.0	14.0	36.0
66-67	27.496125	32.0	14.0	36.0	14.0	36.0
68-69	27.1985	32.0	14.0	36.0	14.0	36.0
70-71	27.11225	32.0	14.0	36.0	14.0	36.0
72-73	27.13825	32.0	14.0	36.0	14.0	36.0
74-75	27.376875	32.0	14.0	36.0	14.0	36.0
76	24.40425	27.0	14.0	36.0	14.0	36.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
21	1.0
22	3.0
23	5.0
24	14.0
25	37.0
26	41.0
27	76.0
28	107.0
29	167.0
30	281.0
31	314.0
32	447.0
33	706.0
34	1178.0
35	623.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	25.525	30.15	22.3	22.025
2	21.95	27.800000000000004	26.474999999999998	23.775
3	25.324999999999996	31.5	15.55	27.625
4	29.7	33.125	17.65	19.525000000000002
5	20.3	25.124999999999996	26.674999999999997	27.900000000000002
6	25.5	27.525	28.925	18.05
7	32.5	36.225	16.2	15.075
8	20.925	25.55	32.475	21.05
9	23.974999999999998	36.9	14.899999999999999	24.224999999999998
10-11	32.237500000000004	28.6125	22.825	16.325
12-13	20.0375	22.125	26.1	31.7375
14-15	30.6375	40.9625	14.9875	13.4125
16-17	21.512500000000003	22.825	34.725	20.9375
18-19	40.45	24.1125	21.212500000000002	14.224999999999998
20-21	20.6375	36.325	26.0375	17.0
22-23	32.875	39.537499999999994	11.7875	15.8
24-25	30.4	39.6875	13.15	16.7625
26-27	27.8375	32.9875	17.275	21.9
28-29	31.162499999999998	29.099999999999998	16.05	23.6875
30-31	32.337500000000006	35.8375	10.1875	21.637500000000003
32-33	27.625	36.9125	11.65	23.8125
34-35	31.65	29.75	13.65	24.95
36-37	24.6625	34.975	11.525	28.8375
38-39	23.8125	32.824999999999996	14.399999999999999	28.962500000000002
40-41	23.375	30.075000000000003	16.8625	29.6875
42-43	25.900000000000002	25.775	19.925	28.4
44-45	21.2	32.1125	15.174999999999999	31.5125
46-47	20.225	29.6375	16.4875	33.650000000000006
48-49	16.8625	27.325	18.85	36.9625
50-51	16.425	27.650000000000002	20.8625	35.0625
52-53	21.340167520940117	22.515314414301788	23.177897237154642	32.96662082760345
54-55	18.7375	25.6	22.725	32.9375
56-57	16.950000000000003	23.325000000000003	22.95	36.775000000000006
58-59	20.2875	25.2125	24.275	30.225
60-61	22.4375	20.7125	30.3	26.55
62-63	17.9875	21.975	34.075	25.9625
64-65	14.1625	19.275000000000002	34.175	32.3875
66-67	17.6125	15.2	35.5625	31.624999999999996
68-69	19.225	15.462500000000002	36.5875	28.725
70-71	19.875	16.025	38.3125	25.7875
72-73	20.575	14.274999999999999	35.35	29.799999999999997
74-75	20.1375	11.9125	37.5375	30.412499999999998
76	12.0	10.775	47.05	30.175
>>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	0.5
29	1.0
30	0.5
31	0.0
32	0.0
33	0.0
34	0.0
35	0.0
36	1.0
37	2.0
38	2.0
39	3.5
40	7.5
41	18.5
42	27.0
43	46.0
44	81.5
45	184.5
46	271.0
47	449.5
48	783.5
49	739.5
50	540.0
51	529.5
52	446.5
53	294.0
54	214.0
55	168.0
56	96.5
57	69.0
58	67.0
59	45.0
60	15.5
61	7.5
62	7.0
63	4.5
64	1.0
65	0.5
66	1.0
67	1.0
68	0.5
69	0.0
70	0.0
71	0.0
72	0.0
73	0.0
74	0.0
75	0.0
76	0.0
77	0.0
78	0.0
79	0.0
80	0.0
81	0.0
82	0.0
83	0.0
84	0.0
85	0.0
86	0.0
87	0.0
88	0.5
89	0.5
90	0.0
91	0.0
92	0.0
93	0.5
94	0.5
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	0.0125
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	56.05
#Duplication Level	Percentage of deduplicated	Percentage of total
1	88.00178412132024	49.325
2	5.44157002676182	6.1
3	1.873327386262266	3.15
4	1.070472792149866	2.4
5	0.847457627118644	2.375
6	0.535236396074933	1.7999999999999998
7	0.08920606601248886	0.35000000000000003
8	0.22301516503122212	1.0
9	0.31222123104371097	1.575
>10	1.3380909901873328	16.900000000000002
>50	0.22301516503122212	8.475000000000001
>100	0.04460303300624443	6.550000000000001
>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	262	6.550000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
ATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAAC	100	2.5	Illumina Multiplexing PCR Primer 2.01 (100% over 25bp)
GAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	70	1.7500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
CTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCA	63	1.575	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
TCCGTTGTAGTCTAGCTGGTCAGGATAAGATCGGAAGAGCACACGTCTGA	55	1.375	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
AACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAG	51	1.275	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
AACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCGAT	50	1.25	TruSeq Adapter, Index 2 (100% over 37bp)
TCCGTTGTAGTCTAGCTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	43	1.075	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGAGATCGGAAGAGCAC	42	1.05	No Hit
AGGGCTATAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCGA	39	0.975	TruSeq Adapter, Index 2 (100% over 36bp)
GGGGATGTAGCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCGA	37	0.9249999999999999	TruSeq Adapter, Index 2 (100% over 36bp)
TCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACT	33	0.8250000000000001	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
ACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGT	32	0.8	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
AACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	31	0.775	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCAGATCGGAAGAGCACAC	30	0.75	No Hit
ATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCGATGTAT	29	0.7250000000000001	TruSeq Adapter, Index 2 (100% over 41bp)
TAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCA	24	0.6	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCGATGTA	23	0.575	TruSeq Adapter, Index 2 (100% over 40bp)
CCAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGT	23	0.575	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
GAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	23	0.575	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
ATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACT	20	0.5	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
CTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTCCAG	19	0.475	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
TAATTCATGATCTGGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCAC	19	0.475	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
AAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
TCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTC	15	0.375	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
CGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCGATGT	15	0.375	TruSeq Adapter, Index 2 (100% over 39bp)
GCGTCTGTAGTCCAACGGTTAGGATAATTGCCAGATCGGAAGAGCACACG	13	0.325	No Hit
TGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGT	13	0.325	No Hit
CTAACGAACGAACGATTTGAATAGATCGGAAGAGCACACGTCTGAACTCC	13	0.325	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
GGGATTGTAGTTCAATCGGAAGAGCACACGTCTGAACTCCAGTCACCGAT	13	0.325	TruSeq Adapter, Index 2 (97% over 37bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCTCTAGATCGGAAGAGCA	11	0.27499999999999997	No Hit
TCCGTTGTAGTCTAGTTGGTCAGGATACTCAGATCGGAAGAGCACACGTC	11	0.27499999999999997	No Hit
ACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTC	10	0.25	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCAGATCGGAAGAGCACACGTC	10	0.25	No Hit
TGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGC	10	0.25	No Hit
GGGGATGTAGCTCAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCG	10	0.25	TruSeq Adapter, Index 2 (100% over 35bp)
CGACACGACTCTCGGCAACGGATAAGATCGGAAGAGCACACGTCTGAACT	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
AACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
AACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCTGAACTCCAGT	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 31bp)
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGGCAGATCGGAAGAGCACAC	9	0.22499999999999998	No Hit
TCCGTTGTAGTCTAGCTGGTCAGGATATTCGAGATCGGAAGAGCACACGT	9	0.22499999999999998	No Hit
ACGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC	9	0.22499999999999998	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCACAAGATCGGAAGAGCACACG	9	0.22499999999999998	No Hit
GCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACAC	8	0.2	No Hit
GCGAGCGTAGTTCAGTGGTAAAACATCTCCTTGCCAAGGAGAGATCGGAA	8	0.2	No Hit
GAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACACGTC	8	0.2	No Hit
CCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCT	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTAGATCGGAAGAGCA	8	0.2	No Hit
ATCCTAACGAACGAACGATTTGAAGATCGGAAGAGCACACGTCTGAACTC	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TCCGTTGTAGTCTAGCTGGTTAGGATAAGATCGGAAGAGCACACGTCTGA	7	0.17500000000000002	Illumina Multiplexing PCR Primer 2.01 (100% over 23bp)
CAGCCCCGCGTCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAACT	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 26bp)
GCCCCGCGTCGCACGGATTCGTAGATCGGAAGAGCACACGTCTGAACTCC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 28bp)
TATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAGATCGGAAGAGCACA	6	0.15	No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCCAGATCGGAAGAGCACA	6	0.15	No Hit
CGAACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCG	6	0.15	TruSeq Adapter, Index 2 (100% over 35bp)
TATGCAGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGA	6	0.15	No Hit
AGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCGATG	6	0.15	TruSeq Adapter, Index 2 (100% over 38bp)
GATGAAGAACGTAGCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACC	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
TTTGGATTGAAGGGAGCTCTGAGATCGGAAGAGCACACGTCTGAACTCCA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
GGAGGTCCTGCGGCAAAATAGCTCGATGCCAGAATAGATCGGAAGAGCAC	6	0.15	No Hit
ATCCTAACGAACGAACGATTAGATCGGAAGAGCACACGTCTGAACTCCAG	6	0.15	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
ACGATTTGAACAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCGATG	6	0.15	TruSeq Adapter, Index 2 (100% over 38bp)
TCCGTTGTAGTCTAGGTGGTTAGGATACTCAGATCGGAAGAGCACACGTC	5	0.125	No Hit
GGGTCGATGCCCGAGCGGTTAATGGGGACGGACTGTAGATCGGAAGAGCA	5	0.125	No Hit
CAAGATGAGTGCTCTCTCAGATCGGAAGAGCACACGTCTGAACTCCAGTC	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)
AGCTGAGGCATCCTAACGAACGAACGATTTGAACAGATCGGAAGAGCACA	5	0.125	No Hit
TGCAAATCTAACGAAGTGCTCCTGGACGAGATCGGAAGAGCACACGTCTG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
AAAATAGCTCGATGCCAGAATAGATCGGAAGAGCACACGTCTGAACTCCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 29bp)
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)
CGGATTCGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCGATGTA	5	0.125	TruSeq Adapter, Index 2 (100% over 40bp)
GCGTTTGTAGTCCAACGGTTAGGATAATTGCCAGATCGGAAGAGCACACG	5	0.125	No Hit
GAGGCATCCTAACGAACGAACGATTTGAAAGATCGGAAGAGCACACGTCT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 21bp)
CACGACTCTCGGCAACGGAGATCGGAAGAGCACACGTCTGAACTCCAGTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 32bp)
CGACACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCAGATCGGAAG	5	0.125	No Hit
GCGACCCCAGGTCAGTCGGGACTAGATCGGAAGAGCACACGTCTGAACTC	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTAGATCGGAAGAGCACA	5	0.125	No Hit
GAACGAACGATTTGAATAGATCGGAAGAGCACACGTCTGAACTCCAGTCA	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 33bp)
GCGACCCCAGGTCAGTCGGGAGATCGGAAGAGCACACGTCTGAACTCCAG	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 30bp)
AGGGATGTAGCGCAGCTTGGTAGCGCTTTTGTTTTAGATCGGAAGAGCAC	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	0.1	0.0	0.0	0.0	0.0
2	0.275	0.0	0.0	0.0	0.0
3	0.325	0.0	0.0	0.0	0.0
4	0.375	0.0	0.0	0.0	0.0
5	0.425	0.0	0.0	0.0	0.0
6	0.55	0.0	0.0	0.0	0.0
7	0.7	0.0	0.0	0.0	0.0
8	0.875	0.0	0.0	0.0	0.0
9	1.975	0.0	0.0	0.0	0.0
10	3.05	0.0	0.0	0.0	0.0
11	3.725	0.0	0.0	0.0	0.0
12	4.6	0.0	0.0	0.0	0.0
13	6.75	0.0	0.0	0.0	0.0
14	10.1	0.0	0.0	0.0	0.0
15	11.5	0.0	0.0	0.0	0.0
16	13.15	0.0	0.0	0.0	0.0
17	16.6	0.0	0.0	0.0	0.0
18	20.375	0.0	0.0	0.0	0.0
19	22.425	0.0	0.0	0.0	0.0
20	25.675	0.0	0.0	0.0	0.0
21	29.625	0.0	0.0	0.0	0.0
22	35.175	0.0	0.0	0.0	0.0
23	45.475	0.0	0.0	0.0	0.0
24	48.375	0.0	0.0	0.0	0.0
25	54.85	0.0	0.0	0.0	0.0
26	59.85	0.0	0.0	0.0	0.0
27	61.85	0.0	0.0	0.0	0.0
28	65.775	0.0	0.0	0.0	0.0
29	67.95	0.0	0.0	0.0	0.0
30	70.55	0.0	0.0	0.0	0.0
31	74.425	0.0	0.0	0.0	0.0
32	76.875	0.0	0.0	0.0	0.0
33	79.3	0.0	0.0	0.0	0.0
34	82.625	0.0	0.0	0.0	0.0
35	84.85	0.0	0.0	0.0	0.0
36	87.9	0.0	0.0	0.0	0.0
37	89.775	0.0	0.0	0.0	0.0
38	91.025	0.0	0.0	0.0	0.0
39	91.75	0.0	0.0	0.0	0.0
40	92.6	0.0	0.0	0.0	0.0
41	93.275	0.0	0.0	0.0	0.0
42	93.975	0.0	0.0	0.0	0.0
43	94.425	0.0	0.0	0.0	0.0
44	94.75	0.0	0.0	0.0	0.0
45	94.85	0.0	0.0	0.0	0.0
46	95.025	0.0	0.0	0.0	0.0
47	95.225	0.0	0.0	0.0	0.0
48	95.325	0.0	0.0	0.0	0.0
49	95.5	0.0	0.0	0.0	0.0
50	95.525	0.0	0.0	0.0	0.0
51	95.525	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	95.55	0.0	0.0	0.0	0.0
55	95.55	0.0	0.0	0.0	0.0
56	95.55	0.0	0.0	0.0	0.0
57	95.55	0.0	0.0	0.0	0.0
58	95.55	0.0	0.0	0.0	0.0
59	95.575	0.0	0.0	0.0	0.0
60	95.575	0.0	0.0	0.0	0.0
61	95.575	0.0	0.0	0.0	0.0
62	95.575	0.0	0.0	0.0	0.0
63	95.575	0.0	0.0	0.0	0.0
64	95.575	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	fail
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
TGGTCAG	45	3.6379788E-12	70.00001	17
TTCAATT	15	0.0020658788	70.00001	11
TCAGGAT	30	7.878043E-8	70.00001	20
ATTGGTC	15	0.0020658788	70.00001	15
CACCGCC	15	0.0020658788	70.00001	26
GGATTGT	15	0.0020658788	70.00001	2
ACCGCCC	15	0.0020658788	70.00001	27
CAATTGG	15	0.0020658788	70.00001	13
TCAATTG	15	0.0020658788	70.00001	12
TAGTCTA	30	7.878043E-8	70.00001	8
GGTCAGG	30	7.878043E-8	70.00001	18
GGTCAGA	15	0.0020658788	70.00001	18
GTTCAAT	15	0.0020658788	70.00001	10
GATTGTA	15	0.0020658788	70.00001	3
CAGAGCA	15	0.0020658788	70.00001	21
GAGCACC	15	0.0020658788	70.00001	23
ATTGTAG	15	0.0020658788	70.00001	4
TCAGAGC	15	0.0020658788	70.00001	20
TGTAGTC	30	7.878043E-8	70.00001	6
GGGATTG	15	0.0020658788	70.00001	1
>>END_MODULE
Rejected 213857 READS because READLEN < 1
Read 213857 spots for SRR11699370.sra
Written 213857 spots for SRR11699370.sra
Rejected 213857 READS because READLEN < 1
Read 213857 spots for SRR11699370.sra
Written 213857 spots for SRR11699370.sra
Rejected 213857 READS because READLEN < 1
Rejected 213857 READS because READLEN < 1
Read 213857 spots for SRR11699370.sra
Read 213857 spots for SRR11699370.sra
Written 213857 spots for SRR11699370.sra
Written 213857 spots for SRR11699370.sra
Rejected 213857 READS because READLEN < 1
Read 213857 spots for SRR11699370.sra
Written 213857 spots for SRR11699370.sra
Rejected 213870 READS because READLEN < 1
Read 213870 spots for SRR11699370.sra
Written 213870 spots for SRR11699370.sra
Rejected 213857 READS because READLEN < 1
Read 213857 spots for SRR11699370.sra
Written 213857 spots for SRR11699370.sra
Rejected 213857 READS because READLEN < 1
Read 213857 spots for SRR11699370.sra
Written 213857 spots for SRR11699370.sra
Rejected 213857 READS because READLEN < 1
Read 213857 spots for SRR11699370.sra
Written 213857 spots for SRR11699370.sra
Rejected 213857 READS because READLEN < 1
Read 213857 spots for SRR11699370.sra
Rejected 213857 READS because READLEN < 1
Read 213857 spots for SRR11699370.sra
Written 213857 spots for SRR11699370.sra
Written 213857 spots for SRR11699370.sra
Rejected 213857 READS because READLEN < 1
Read 213857 spots for SRR11699370.sra
Written 213857 spots for SRR11699370.sra
Rejected 213857 READS because READLEN < 1
Read 213857 spots for SRR11699370.sra
Written 213857 spots for SRR11699370.sra
Rejected 213857 READS because READLEN < 1
Read 213857 spots for SRR11699370.sra
Written 213857 spots for SRR11699370.sra
Rejected 213857 READS because READLEN < 1
Read 213857 spots for SRR11699370.sra
Written 213857 spots for SRR11699370.sra
Rejected 213857 READS because READLEN < 1
Read 213857 spots for SRR11699370.sra
Written 213857 spots for SRR11699370.sra
Rejected 213857 READS because READLEN < 1
Read 213857 spots for SRR11699370.sra
Written 213857 spots for SRR11699370.sra
Rejected 213857 READS because READLEN < 1
Read 213857 spots for SRR11699370.sra
Written 213857 spots for SRR11699370.sra
Rejected 213857 READS because READLEN < 1
Read 213857 spots for SRR11699370.sra
Written 213857 spots for SRR11699370.sra
Rejected 213857 READS because READLEN < 1
Read 213857 spots for SRR11699370.sra
Written 213857 spots for SRR11699370.sra
SRR ids: ['SRR11699370.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_jzlvzdow
SRR11699370.sra spots: 4277153
blocks: [[1, 213857], [213858, 427714], [427715, 641571], [641572, 855428], [855429, 1069285], [1069286, 1283142], [1283143, 1496999], [1497000, 1710856], [1710857, 1924713], [1924714, 2138570], [2138571, 2352427], [2352428, 2566284], [2566285, 2780141], [2780142, 2993998], [2993999, 3207855], [3207856, 3421712], [3421713, 3635569], [3635570, 3849426], [3849427, 4063283], [4063284, 4277153]]
SRR11699370 file size 812327
SRR11699370 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 SRR11699370 SRR11699370_1.fastq
Input file:	SRR11699370_1.fastq
trimmed:	SRR11699370-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 22:49:13 2025 >> started

Wed Jun 18 22:51:13 2025 >> done (119.829s)
4277153 reads processed; of these:
 980519 (22.92%) short reads filtered out after trimming by size control
   4229 ( 0.10%) empty reads filtered out after trimming by size control
3292405 (76.98%) reads available; of these:
3238964 (98.38%) trimmed reads available after processing
  53441 ( 1.62%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  95790	  2.91%
 19	 160725	  4.88%
 20	 171411	  5.21%
 21	 248507	  7.55%
 22	 449539	 13.65%
 23	 123602	  3.75%
 24	 272528	  8.28%
 25	 212141	  6.44%
 26	 105215	  3.20%
 27	 151706	  4.61%
 28	  82030	  2.49%
 29	  91446	  2.78%
 30	 183823	  5.58%
 31	 102835	  3.12%
 32	 104761	  3.18%
 33	 130850	  3.97%
 34	  99710	  3.03%
 35	 135126	  4.10%
 36	  86036	  2.61%
 37	  51989	  1.58%
 38	  37055	  1.13%
 39	  34961	  1.06%
 40	  24042	  0.73%
 41	  38225	  1.16%
 42	  19976	  0.61%
 43	  15238	  0.46%
 44	   9695	  0.29%
 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	  53441	  1.62%
3292405 reads passed initial QC


criterion=sequence-density
sequence-density=6.29
sequence-density-rank=1
fanout-score=1.00
fanout-score-rank=15
prefix-density=0.01
prefix-fanout=1.0
sequence=TCCGTTGTAGTCTAGCTGGTCAGGATA


criterion=fanout-score
sequence-density=0.24
sequence-density-rank=23
fanout-score=28.71
fanout-score-rank=1
prefix-density=1.03
prefix-fanout=6.7
sequence=TAGCTCAGTGGTAGAGC
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 22:57:11
                             Started mapping on |	Jun 18 22:58:08
                                    Finished on |	Jun 18 23:01:33
       Mapping speed, Million of reads per hour |	57.82

                          Number of input reads |	3292405
                      Average input read length |	27
                                    UNIQUE READS:
                   Uniquely mapped reads number |	232488
                        Uniquely mapped reads % |	7.06%
                          Average mapped length |	23.92
                       Number of splices: Total |	4897
            Number of splices: Annotated (sjdb) |	1797
                       Number of splices: GT/AG |	4413
                       Number of splices: GC/AG |	361
                       Number of splices: AT/AC |	0
               Number of splices: Non-canonical |	123
                      Mismatch rate per base, % |	1.17%
                         Deletion rate per base |	0.01%
                        Deletion average length |	1.52
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.24
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	376041
             % of reads mapped to multiple loci |	11.42%
        Number of reads mapped to too many loci |	761637
             % of reads mapped to too many loci |	23.13%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	5.76%
                     % of reads unmapped: other |	52.63%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	2683876	2683876	2683876
N_multimapping	376041	376041	376041
N_noFeature	197806	203944	225335
N_ambiguous	1047	20	19
UnstrandedReadsAssigned:33635 PositiveStrandReadsAssigned:28524 NegativeStrandReadsAssigned:7134
Dataset is classified unstranded
MeadianReadLen=25 20thPercentileLength=21 echo kmer=19
SRR11699370 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: SRR11699370-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 3,292,405 reads, 620,981 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 973 rounds

  72540 SRR11699370.ke.tsv
  44303 SRR11699370.se.tsv
 116843 total
==> SRR11699370.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
Zm00001eb096110_T001	2067	1968	0	0
Zm00001eb321680_T001	3417	3318	4	2.23778
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

==> SRR11699370.se.tsv <==
Zm00001eb015280	0
Zm00001eb000610	0
Zm00001eb033210	0
Zm00001eb044610	0
Zm00001eb014360	0
Zm00001eb051320	0
Zm00001eb021860	0
Zm00001eb011690	0
Zm00001eb016840	0
Zm00001eb052060	0
SRR11699370 completed mapping pipeline successfully
