Starting /dee2/code/volunteer_pipeline.sh SRR23332741
    current disk space = 1463940876
    free memory = 58164580 
SRR23332741 SRAfilesize
ef68a2bce7dfd715968f074adcc70237  SRR23332741.sra
SRR23332741.sra file validated
SRR23332741 is paired end
SRR23332741 is conventional basespace
SRR23332741 read1 length is 41 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR23332741_1.fastq
File type	Conventional base calls
Encoding	Sanger / Illumina 1.9
Total Sequences	4000
Sequences flagged as poor quality	0
Sequence length	41
%GC	53
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	36.3785	37.0	37.0	37.0	37.0	37.0
2	36.4895	37.0	37.0	37.0	37.0	37.0
3	36.329	37.0	37.0	37.0	37.0	37.0
4	36.3235	37.0	37.0	37.0	37.0	37.0
5	36.2725	37.0	37.0	37.0	37.0	37.0
6	36.298	37.0	37.0	37.0	37.0	37.0
7	36.13	37.0	37.0	37.0	37.0	37.0
8	36.29	37.0	37.0	37.0	37.0	37.0
9	36.474	37.0	37.0	37.0	37.0	37.0
10	36.345	37.0	37.0	37.0	37.0	37.0
11	36.3635	37.0	37.0	37.0	37.0	37.0
12	36.3695	37.0	37.0	37.0	37.0	37.0
13	36.303	37.0	37.0	37.0	37.0	37.0
14	36.267	37.0	37.0	37.0	37.0	37.0
15	36.378	37.0	37.0	37.0	37.0	37.0
16	36.401	37.0	37.0	37.0	37.0	37.0
17	36.179	37.0	37.0	37.0	37.0	37.0
18	36.2405	37.0	37.0	37.0	37.0	37.0
19	36.16	37.0	37.0	37.0	37.0	37.0
20	36.3285	37.0	37.0	37.0	37.0	37.0
21	36.266	37.0	37.0	37.0	37.0	37.0
22	36.1925	37.0	37.0	37.0	37.0	37.0
23	36.252	37.0	37.0	37.0	37.0	37.0
24	36.2785	37.0	37.0	37.0	37.0	37.0
25	36.3325	37.0	37.0	37.0	37.0	37.0
26	36.117	37.0	37.0	37.0	37.0	37.0
27	36.2695	37.0	37.0	37.0	37.0	37.0
28	36.2715	37.0	37.0	37.0	37.0	37.0
29	36.336	37.0	37.0	37.0	37.0	37.0
30	36.2225	37.0	37.0	37.0	37.0	37.0
31	36.185	37.0	37.0	37.0	37.0	37.0
32	36.2735	37.0	37.0	37.0	37.0	37.0
33	36.2565	37.0	37.0	37.0	37.0	37.0
34	36.1385	37.0	37.0	37.0	37.0	37.0
35	36.248	37.0	37.0	37.0	37.0	37.0
36	35.858	37.0	37.0	37.0	37.0	37.0
37	36.174	37.0	37.0	37.0	37.0	37.0
38	36.327	37.0	37.0	37.0	37.0	37.0
39	36.103	37.0	37.0	37.0	37.0	37.0
40	36.121	37.0	37.0	37.0	37.0	37.0
41	36.158	37.0	37.0	37.0	37.0	37.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
22	1.0
23	0.0
24	0.0
25	4.0
26	7.0
27	9.0
28	20.0
29	27.0
30	23.0
31	42.0
32	60.0
33	100.0
34	152.0
35	272.0
36	1329.0
37	1954.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	23.525	21.349999999999998	44.975	10.15
2	30.025000000000002	20.375	28.15	21.45
3	31.775	21.95	26.05	20.225
4	19.075	24.099999999999998	36.075	20.75
5	32.175	24.175	21.4	22.25
6	34.475	24.675	19.775000000000002	21.075
7	22.35	35.225	18.75	23.674999999999997
8	36.55	18.95	18.9	25.6
9	26.025	15.65	20.150000000000002	38.175
10	25.3	16.2	32.65	25.85
11	37.5	16.35	20.599999999999998	25.55
12	37.3	17.825	20.925	23.95
13	24.85	18.375	18.975	37.8
14	39.225	20.150000000000002	21.5	19.125
15	38.3	20.0	21.025	20.674999999999997
16	39.7	21.7	20.674999999999997	17.925
17	24.325	35.125	21.65	18.9
18	37.075	19.175	24.85	18.9
19	25.15	20.925	34.325	19.6
20	25.424999999999997	19.125	33.175	22.275
21	40.050000000000004	19.6	20.025000000000002	20.325
22	23.05	34.050000000000004	20.625	22.275
23	25.124999999999996	34.225	19.075	21.575
24	25.374999999999996	19.45	18.325	36.85
25	27.400000000000002	18.35	20.200000000000003	34.050000000000004
26	24.275	18.95	22.325	34.449999999999996
27	37.175000000000004	19.675	20.150000000000002	23.0
28	24.125	18.575	21.175	36.125
29	38.4	17.474999999999998	22.45	21.675
30	23.05	19.6	35.875	21.475
31	22.325	20.375	22.175	35.125
32	22.875	22.275	19.675	35.175
33	37.225	22.775000000000002	20.424999999999997	19.575
34	22.625	35.425000000000004	19.075	22.875
35	21.675	34.9	22.675	20.75
36	22.725	34.1	21.525	21.65
37	21.475	22.5	34.275	21.75
38	23.200000000000003	20.875	33.275	22.650000000000002
39	24.275	21.325	19.375	35.025
40	22.8	22.3	19.975	34.925
41	21.5	21.675	33.2	23.625
>>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	0.5
19	1.0
20	1.0
21	1.5
22	2.0
23	1.5
24	1.0
25	1.0
26	0.5
27	0.0
28	10.5
29	21.0
30	17.0
31	13.0
32	13.0
33	18.5
34	24.0
35	31.5
36	39.0
37	39.0
38	63.5
39	88.0
40	132.5
41	177.0
42	177.0
43	209.0
44	241.0
45	293.5
46	346.0
47	346.0
48	357.0
49	368.0
50	402.5
51	437.0
52	455.5
53	474.0
54	474.0
55	425.5
56	377.0
57	362.0
58	347.0
59	347.0
60	579.0
61	811.0
62	469.0
63	127.0
64	127.0
65	98.0
66	69.0
67	43.5
68	18.0
69	18.0
70	12.5
71	7.0
72	7.5
73	8.0
74	5.0
75	2.0
76	2.0
77	1.0
78	0.0
79	0.5
80	1.0
81	1.0
82	1.0
83	1.0
84	0.5
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	0.0
11	0.0
12	0.0
13	0.0
14	0.0
15	0.0
16	0.0
17	0.0
18	0.0
19	0.0
20	0.0
21	0.0
22	0.0
23	0.0
24	0.0
25	0.0
26	0.0
27	0.0
28	0.0
29	0.0
30	0.0
31	0.0
32	0.0
33	0.0
34	0.0
35	0.0
36	0.0
37	0.0
38	0.0
39	0.0
40	0.0
41	0.0
>>END_MODULE
>>Sequence Length Distribution	pass
#Length	Count
41	4000.0
>>END_MODULE
>>Sequence Duplication Levels	warn
#Total Deduplicated Percentage	63.675000000000004
#Duplication Level	Percentage of deduplicated	Percentage of total
1	79.89791912053397	50.875
2	14.016489988221437	17.849999999999998
3	3.729878288182175	7.124999999999999
4	1.0208087946603848	2.6
5	0.5104043973301924	1.625
6	0.0	0.0
7	0.19630938358853553	0.8750000000000001
8	0.19630938358853553	1.0
9	0.03926187671770711	0.22499999999999998
>10	0.35335689045936397	4.7
>50	0.0	0.0
>100	0.0	0.0
>500	0.03926187671770711	13.125
>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
TGGTGGAGCTGGCGGGAGTTGAACCCGCGTCCGAAATTCCT	525	13.125	No Hit
GGTGGAGCTGGCGGGAGTTGAACCCGCGTCCGAAATTCCTA	31	0.775	No Hit
GTGGAGCTGGCGGGAGTTGAACCCGCGTCCGAAATTCCTAC	28	0.7000000000000001	No Hit
AAAAATAAGCCCGTGTAAGGGAGATTACACAGGCTAAGGAG	27	0.675	No Hit
AAAAAATAAGCCCGTGTAAGGGAGATTACACAGGCTAAGGA	24	0.6	No Hit
AAGGTTAAGCCTCACGGTTCATTAGTACCGTGTCTCCCCCC	22	0.5499999999999999	No Hit
AAAAAAAGGGAGCACTGTATTCACAGCGCTCCCGGTTCGTT	17	0.42500000000000004	No Hit
GGGAATCTCCGAGATGCCGCCGCAGGCTGTAACCCTTGAAC	16	0.4	No Hit
TGCGAAACCTCCGCAATGCGGAGGTTTCTTTTTAAAGAGAC	13	0.325	No Hit
AAAAAAGGGAGCACTGTATTCACAGCGCTCCCGGTTCGTTT	10	0.25	No Hit
AAGGTTAAGCCTCACGGTTCATTAGTACCGGTTAGCTCCCC	9	0.22499999999999998	No Hit
AAGGTTAAGCCTCACGGTTCATTAGTACCGGTTAGCTCAAC	8	0.2	No Hit
AAAAAAATGGCGCACAATGTGCGCCATTTTTCACTTCACAG	8	0.2	No Hit
AAAAAACGCGCCCGAAGGCGCGTTGGCGATACACTCAATAT	8	0.2	No Hit
GCGAAACCTCCGCAATGCGGAGGTTTCTTTTTAAAGAGACA	8	0.2	No Hit
CTTCTTTTGCAACCCACTTTGTGATTCATGACTGGGGTGAA	8	0.2	No Hit
AAGGTTAAGCCTCACGGTTCATTAGTACGAGAGGACCGGGA	7	0.17500000000000002	No Hit
TAAAAAATGGCGCACAATGTGCGCCATTTTTCACTTCACAG	7	0.17500000000000002	No Hit
GGAGCTGGCGGGAGTTGAACCCGCGTCCGAAATTCCTACAT	7	0.17500000000000002	No Hit
TACCTACTTCTTTTGCAACCCACTTTGTGATTCATGACTGG	7	0.17500000000000002	No Hit
AAGGGAATCTCCGAGATGCCGCCGCAGGCTGTAACCCTTGA	7	0.17500000000000002	No Hit
TTCCGGCGAGGCCGAAAGGCGTAGTCGATGGGAAACAGGTT	5	0.125	No Hit
GTTGCAGACTCCAATGAAGTCGGAATCGCTAGTAATCGTGG	5	0.125	No Hit
GCCTGGAAAATCAAGGCTGAGGCGTGATGACGAGGCACTAC	5	0.125	No Hit
GTGTACAAGGTAACCGTAGGGGAACCTGCGGTTGGATCACC	5	0.125	No Hit
AGGGAATCTCCGAGATGCCGCCGCAGGCTGTAACCCTTGAA	5	0.125	No Hit
GTTCCCGGGCCTTGTACACACCGCCCGTCACACCATGGGAG	5	0.125	No Hit
TTTATGAGGTCCGGATTGGAGTCTGCAACTCGACTCCATGA	5	0.125	No Hit
GTACAAGGTAACCGTAGGGGAACCTGCGGTTGGATCACCTC	5	0.125	No Hit
TCTCGTACTAGGAGTGGACGCATCACTGGTGTTCGGGTTGT	5	0.125	No Hit
TGTGTACAAGGTAACCGTAGGGGAACCTGCGGTTGGATCAC	5	0.125	No Hit
TGGAGCTGGCGGGAGTTGAACCCGCGTCCGAAATTCCTACA	5	0.125	No Hit
ACCGTCGCCCGGTTTAAGCGTGTAGGCTGGTTTTCCAGGCA	5	0.125	No Hit
AGGTTAAGCCTCACGGTTCATTAGTACCGTGTCTCCCCCCA	5	0.125	No Hit
>>END_MODULE
>>Adapter Content	pass
#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	0.0	0.0	0.0	0.0	0.0
3	0.0	0.0	0.0	0.0	0.0
4	0.1	0.0	0.0	0.0	0.0
5	0.125	0.0	0.0	0.0	0.0
6	0.125	0.0	0.0	0.0	0.0
7	0.125	0.0	0.0	0.0	0.0
8	0.125	0.0	0.0	0.0	0.0
9	0.175	0.0	0.0	0.0	0.0
10	0.175	0.0	0.0	0.0	0.0
11	0.175	0.0	0.0	0.0	0.0
12	0.175	0.0	0.0	0.0	0.0
13	0.2	0.0	0.0	0.0	0.0
14	0.2	0.0	0.0	0.0	0.0
15	0.275	0.0	0.0	0.0	0.0
16	0.35	0.0	0.0	0.0	0.0
17	0.45	0.0	0.0	0.0	0.0
18	0.55	0.0	0.0	0.0	0.0
19	0.625	0.0	0.0	0.0	0.0
20	0.625	0.0	0.0	0.0	0.0
21	0.675	0.0	0.0	0.0	0.0
22	0.7	0.0	0.0	0.0	0.0
23	0.75	0.0	0.0	0.0	0.0
24	0.825	0.0	0.0	0.0	0.0
25	0.875	0.0	0.0	0.0	0.0
26	0.95	0.0	0.0	0.0	0.0
27	0.975	0.0	0.0	0.0	0.0
28	1.1	0.0	0.0	0.0	0.0
29	1.175	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	fail
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
TGGTGGA	45	2.588422E-9	35.000004	1
GTGGAGC	45	2.588422E-9	35.000004	3
GCGGGAG	50	7.2541297E-9	31.499998	12
GTTGAAC	50	7.2541297E-9	31.499998	18
GAAATTC	50	7.2541297E-9	31.499998	33
AAATTCC	50	7.2541297E-9	31.499998	34
AATTCCT	50	7.2541297E-9	31.499998	35
GTCCGAA	50	7.2541297E-9	31.499998	29
AACCCGC	50	7.2541297E-9	31.499998	22
ACCCGCG	50	7.2541297E-9	31.499998	23
GGGAGTT	50	7.2541297E-9	31.499998	14
GAGTTGA	50	7.2541297E-9	31.499998	16
CTGGCGG	50	7.2541297E-9	31.499998	9
CCCGCGT	50	7.2541297E-9	31.499998	24
GAACCCG	50	7.2541297E-9	31.499998	21
CGGGAGT	50	7.2541297E-9	31.499998	13
GCGTCCG	50	7.2541297E-9	31.499998	27
CGAAATT	50	7.2541297E-9	31.499998	32
AGTTGAA	50	7.2541297E-9	31.499998	17
TTGAACC	50	7.2541297E-9	31.499998	19
>>END_MODULE
SRR23332741 read2 length is 39-50 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR23332741_2.fastq
File type	Conventional base calls
Encoding	Sanger / Illumina 1.9
Total Sequences	4000
Sequences flagged as poor quality	0
Sequence length	39-50
%GC	52
>>END_MODULE
>>Per base sequence quality	fail
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	20.462	11.0	11.0	37.0	11.0	37.0
2	21.9455	11.0	11.0	37.0	11.0	37.0
3	25.2125	25.0	11.0	37.0	11.0	37.0
4	36.0645	37.0	37.0	37.0	37.0	37.0
5	36.059	37.0	37.0	37.0	37.0	37.0
6	35.9245	37.0	37.0	37.0	37.0	37.0
7	35.732	37.0	37.0	37.0	37.0	37.0
8	35.8805	37.0	37.0	37.0	37.0	37.0
9	35.716	37.0	37.0	37.0	37.0	37.0
10	35.876	37.0	37.0	37.0	37.0	37.0
11	35.867	37.0	37.0	37.0	37.0	37.0
12	35.9	37.0	37.0	37.0	37.0	37.0
13	35.8935	37.0	37.0	37.0	37.0	37.0
14	35.9705	37.0	37.0	37.0	37.0	37.0
15	35.743	37.0	37.0	37.0	37.0	37.0
16	35.987	37.0	37.0	37.0	37.0	37.0
17	35.9925	37.0	37.0	37.0	37.0	37.0
18	36.0805	37.0	37.0	37.0	37.0	37.0
19	36.0715	37.0	37.0	37.0	37.0	37.0
20	36.014	37.0	37.0	37.0	37.0	37.0
21	36.0045	37.0	37.0	37.0	37.0	37.0
22	36.1475	37.0	37.0	37.0	37.0	37.0
23	36.0735	37.0	37.0	37.0	37.0	37.0
24	36.031	37.0	37.0	37.0	37.0	37.0
25	35.995	37.0	37.0	37.0	37.0	37.0
26	36.02	37.0	37.0	37.0	37.0	37.0
27	35.9425	37.0	37.0	37.0	37.0	37.0
28	35.988	37.0	37.0	37.0	37.0	37.0
29	36.0725	37.0	37.0	37.0	37.0	37.0
30	36.0575	37.0	37.0	37.0	37.0	37.0
31	35.935	37.0	37.0	37.0	37.0	37.0
32	35.8635	37.0	37.0	37.0	37.0	37.0
33	35.914	37.0	37.0	37.0	37.0	37.0
34	36.0255	37.0	37.0	37.0	37.0	37.0
35	35.951	37.0	37.0	37.0	37.0	37.0
36	36.134	37.0	37.0	37.0	37.0	37.0
37	36.0135	37.0	37.0	37.0	37.0	37.0
38	35.86	37.0	37.0	37.0	37.0	37.0
39	36.049	37.0	37.0	37.0	37.0	37.0
40	36.00825206301575	37.0	37.0	37.0	37.0	37.0
41	35.75818954738685	37.0	37.0	37.0	37.0	37.0
42	35.90072518129532	37.0	37.0	37.0	37.0	37.0
43	35.76938469234617	37.0	37.0	37.0	37.0	37.0
44	35.94909274193548	37.0	37.0	37.0	37.0	37.0
45	35.70714472651139	37.0	37.0	37.0	37.0	37.0
46	35.95374041765794	37.0	37.0	37.0	37.0	37.0
47	35.952893674293406	37.0	37.0	37.0	37.0	37.0
48	35.99046061597166	37.0	37.0	37.0	37.0	37.0
49	35.903799019607845	37.0	37.0	37.0	37.0	37.0
50	35.80634691669672	37.0	37.0	37.0	37.0	37.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
15	1.0
16	0.0
17	0.0
18	1.0
19	3.0
20	3.0
21	4.0
22	13.0
23	8.0
24	14.0
25	14.0
26	12.0
27	22.0
28	25.0
29	37.0
30	54.0
31	64.0
32	88.0
33	175.0
34	377.0
35	1760.0
36	1110.0
37	215.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	0.025	40.875	29.925	29.175
2	32.300000000000004	41.775	12.3	13.625000000000002
3	26.8	44.85	15.049999999999999	13.3
4	79.14999999999999	8.200000000000001	5.525	7.124999999999999
5	66.07499999999999	16.0	10.775	7.1499999999999995
6	57.925000000000004	20.125	9.75	12.2
7	36.9	40.725	10.975	11.4
8	43.7	20.825	12.174999999999999	23.3
9	20.974999999999998	39.85	26.3	12.875
10	40.949999999999996	22.75	17.5	18.8
11	29.275000000000002	40.2	16.25	14.274999999999999
12	23.3	26.575	24.875	25.25
13	38.2	14.299999999999999	27.500000000000004	20.0
14	35.775	16.025	23.575	24.625
15	28.625	17.675	42.675000000000004	11.025
16	44.05	21.275	22.7	11.975
17	26.450000000000003	33.575	17.95	22.025
18	15.975	39.15	27.6	17.275
19	19.025	19.3	34.1	27.575
20	15.625	23.575	31.025000000000002	29.775000000000002
21	18.725	42.699999999999996	14.025000000000002	24.55
22	38.975	29.25	14.374999999999998	17.4
23	24.025	29.375	19.775000000000002	26.825
24	23.425	23.400000000000002	13.875000000000002	39.300000000000004
25	39.0	17.224999999999998	13.100000000000001	30.675
26	32.65	21.625	13.425	32.300000000000004
27	39.15	23.974999999999998	21.25	15.625
28	35.05	24.55	26.125	14.274999999999999
29	25.575	14.95	44.1	15.375
30	20.125	15.65	50.55	13.675
31	18.3	21.95	39.825	19.925
32	33.975	13.975000000000001	20.8	31.25
33	22.1	14.249999999999998	15.85	47.8
34	25.575	17.675	23.525	33.225
35	14.025000000000002	33.425	22.525000000000002	30.025000000000002
36	14.274999999999999	38.525	28.925	18.275
37	16.950000000000003	45.15	13.475000000000001	24.425
38	21.85	19.625	11.75	46.775
39	36.4	17.974999999999998	12.25	33.375
40	22.655663915978995	20.7551887971993	19.80495123780945	36.78419604901225
41	17.95448862215554	38.85971492873218	26.78169542385596	16.404101025256317
42	21.280320080020005	28.107026756689173	29.107276819204802	21.50537634408602
43	29.014507253626814	24.412206103051524	17.63381690845423	28.939469734867433
44	39.76814516129033	14.717741935483872	18.447580645161292	27.06653225806452
45	17.69170374247579	17.142109395446216	33.21120125621565	31.95498560586234
46	29.20962199312715	19.984139571768438	32.46100978059741	18.345228654507004
47	31.332436069986542	15.908479138627188	25.437415881561236	27.321668909825032
48	28.481875170346143	24.25729081493595	24.775143090760427	22.48569092395748
49	28.982843137254903	12.285539215686274	41.268382352941174	17.463235294117645
50	30.07573025604039	15.073927154706093	26.794085827623515	28.056256761630006
>>END_MODULE
>>Per sequence GC content	fail
#GC Content	Count
0	3.0
1	2.0
2	1.0
3	0.5
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	0.5
18	1.0
19	1.5
20	2.0
21	2.0
22	2.0
23	1.0
24	0.0
25	1.0
26	2.5
27	3.5
28	4.0
29	8.5
30	15.5
31	24.5
32	33.5
33	41.5
34	48.5
35	50.0
36	52.0
37	56.5
38	57.0
39	70.0
40	99.5
41	118.5
42	112.0
43	106.5
44	113.5
45	113.5
46	114.0
47	159.0
48	205.0
49	212.0
50	224.0
51	403.5
52	587.0
53	733.5
54	892.0
55	846.0
56	738.0
57	573.5
58	422.5
59	287.0
60	155.5
61	102.0
62	62.5
63	52.0
64	45.0
65	33.0
66	24.5
67	19.5
68	10.0
69	9.5
70	12.5
71	7.5
72	4.5
73	6.0
74	4.5
75	2.0
76	1.0
77	1.0
78	1.0
79	1.5
80	2.0
81	1.0
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	1.0
92	2.0
93	1.5
94	1.0
95	1.0
96	1.0
97	0.5
98	0.0
99	1.0
100	2.0
>>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	0.0
11	0.0
12	0.0
13	0.0
14	0.0
15	0.0
16	0.0
17	0.0
18	0.0
19	0.0
20	0.0
21	0.0
22	0.0
23	0.0
24	0.0
25	0.0
26	0.0
27	0.0
28	0.0
29	0.0
30	0.0
31	0.0
32	0.0
33	0.0
34	0.0
35	0.0
36	0.0
37	0.0
38	0.0
39	0.0
40	0.0
41	0.0
42	0.0
43	0.0
44	0.0
45	0.0
46	0.0
47	0.0
48	0.0
49	0.0
50	0.0
>>END_MODULE
>>Sequence Length Distribution	warn
#Length	Count
39	1.0
40	0.0
41	0.0
42	1.0
43	30.0
44	147.0
45	38.0
46	68.0
47	46.0
48	405.0
49	491.0
50	2773.0
>>END_MODULE
>>Sequence Duplication Levels	warn
#Total Deduplicated Percentage	61.75000000000001
#Duplication Level	Percentage of deduplicated	Percentage of total
1	87.24696356275304	53.87499999999999
2	4.817813765182186	5.949999999999999
3	1.9028340080971662	3.5249999999999995
4	1.417004048582996	3.5000000000000004
5	1.0931174089068825	3.375
6	0.7692307692307693	2.85
7	0.4048582995951417	1.7500000000000002
8	0.3643724696356275	1.7999999999999998
9	0.3643724696356275	2.025
>10	1.4979757085020242	15.35
>50	0.08097165991902834	3.45
>100	0.04048582995951417	2.55
>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
AAAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	102	2.55	No Hit
AAAGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	74	1.8499999999999999	No Hit
AAAGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	64	1.6	No Hit
AGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	41	1.0250000000000001	No Hit
AAAGGGAGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTGC	36	0.8999999999999999	No Hit
CAAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	33	0.8250000000000001	No Hit
TAAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	32	0.8	No Hit
CCAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	26	0.65	No Hit
AGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTGC	21	0.525	No Hit
TGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	20	0.5	No Hit
TAAGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	19	0.475	No Hit
AATGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	18	0.44999999999999996	No Hit
AGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	18	0.44999999999999996	No Hit
AAAGGGAGAAAGGAGGTGATCCAGCCGCACCTTCCGATACGGCTACCTTG	17	0.42500000000000004	No Hit
CACGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	17	0.42500000000000004	No Hit
CGAGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	17	0.42500000000000004	No Hit
CAAGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	17	0.42500000000000004	No Hit
CAAGGGAGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTGC	16	0.4	No Hit
TAAGGGAGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTGC	16	0.4	No Hit
CAAGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	15	0.375	No Hit
AACGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	15	0.375	No Hit
CGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	15	0.375	No Hit
AGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	15	0.375	No Hit
CGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	14	0.35000000000000003	No Hit
CGAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	13	0.325	No Hit
CTGAAAAACATAACCCATAAAATGCTAGCTGTACCAGGAACCACCT	12	0.3	No Hit
TGGGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	12	0.3	No Hit
ACAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	12	0.3	No Hit
AGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	11	0.27499999999999997	No Hit
CCAGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	11	0.27499999999999997	No Hit
CTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	11	0.27499999999999997	No Hit
CACGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	11	0.27499999999999997	No Hit
TGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	11	0.27499999999999997	No Hit
TGAGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	11	0.27499999999999997	No Hit
TATGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	11	0.27499999999999997	No Hit
AATGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	10	0.25	No Hit
TGTGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	10	0.25	No Hit
CATGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	10	0.25	No Hit
AGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	10	0.25	No Hit
TATGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	10	0.25	No Hit
AATGGGAGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTGC	9	0.22499999999999998	No Hit
TGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	9	0.22499999999999998	No Hit
ACCGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	9	0.22499999999999998	No Hit
TGAGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	9	0.22499999999999998	No Hit
CCGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	9	0.22499999999999998	No Hit
TGGGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	9	0.22499999999999998	No Hit
AGAGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	9	0.22499999999999998	No Hit
AATGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	9	0.22499999999999998	No Hit
ATAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	9	0.22499999999999998	No Hit
CGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	8	0.2	No Hit
TGTGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	8	0.2	No Hit
TGTGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	8	0.2	No Hit
TATGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	8	0.2	No Hit
AAAGCTGAAAAACATAACCCATAAAATGCTAGCTGTACCAGGAACCACCT	8	0.2	No Hit
CGGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	8	0.2	No Hit
CCGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	8	0.2	No Hit
TAAGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	8	0.2	No Hit
TTTGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	8	0.2	No Hit
TCAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	7	0.17500000000000002	No Hit
CCCGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	7	0.17500000000000002	No Hit
CGTGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	7	0.17500000000000002	No Hit
AGGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	7	0.17500000000000002	No Hit
AACGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	7	0.17500000000000002	No Hit
TGCGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	7	0.17500000000000002	No Hit
CGGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	7	0.17500000000000002	No Hit
TAGGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	7	0.17500000000000002	No Hit
AAGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	7	0.17500000000000002	No Hit
AACGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	7	0.17500000000000002	No Hit
TTAGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	6	0.15	No Hit
ATGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	6	0.15	No Hit
AGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTA	6	0.15	No Hit
TTAGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	6	0.15	No Hit
TGTGGGAGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTGC	6	0.15	No Hit
CCAGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	6	0.15	No Hit
ATGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	6	0.15	No Hit
TACGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	6	0.15	No Hit
ACGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	6	0.15	No Hit
TAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	6	0.15	No Hit
CGGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	6	0.15	No Hit
CATGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	6	0.15	No Hit
AGAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	6	0.15	No Hit
TGAGGGAGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTGC	6	0.15	No Hit
TACGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	6	0.15	No Hit
CCCGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	6	0.15	No Hit
AGGGAGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTGC	6	0.15	No Hit
AAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	6	0.15	No Hit
CTGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	6	0.15	No Hit
TTCGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	5	0.125	No Hit
CTGGGAGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTGC	5	0.125	No Hit
TCGGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	5	0.125	No Hit
AAGGGAGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTGC	5	0.125	No Hit
AGGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	5	0.125	No Hit
TTAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	5	0.125	No Hit
CGCGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	5	0.125	No Hit
AGAGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	5	0.125	No Hit
AAGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	5	0.125	No Hit
AAAGTGTCTTGCGAGGATAAGTGCATTATGAATATCTTACATATATGTGT	5	0.125	No Hit
AGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGT	5	0.125	No Hit
CTCGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	5	0.125	No Hit
TGCGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	5	0.125	No Hit
TCTGGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTT	5	0.125	No Hit
ACAGGGAGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTGC	5	0.125	No Hit
CGGGGAGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTGC	5	0.125	No Hit
AGACACGGTACTAATGAACCGTGAGGCTTAACCTTATGGGAGAC	5	0.125	No Hit
TAGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	5	0.125	No Hit
CCGGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	5	0.125	No Hit
ACAGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	5	0.125	No Hit
CAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	5	0.125	No Hit
TGGGAGATTCCTGGAAGCAGGGCATTTGTTGCTTCAGCACCGTAGTGC	5	0.125	No Hit
TTTGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	5	0.125	No Hit
ACGGGAGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTGCGC	5	0.125	No Hit
AGACACGGTTCATTAGTACCGGTTAGCTCAACGCATCGCTCAAC	5	0.125	No Hit
TCTGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	5	0.125	No Hit
CTAGGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATG	5	0.125	No Hit
>>END_MODULE
>>Adapter Content	pass
#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	0.0	0.0	0.0	0.0	0.0
3	0.0	0.0	0.0	0.0	0.0
4	0.0	0.0	0.0	0.0	0.0
5	0.0	0.0	0.0	0.0	0.0
6	0.0	0.0	0.0	0.0	0.0
7	0.0	0.0	0.0	0.0	0.0
8	0.0	0.0	0.0	0.0	0.0
9	0.0	0.0	0.0	0.0	0.0
10	0.0	0.0	0.0	0.0	0.0
11	0.025	0.0	0.0	0.0	0.0
12	0.075	0.0	0.0	0.0	0.0
13	0.15	0.0	0.0	0.0	0.0
14	0.15	0.0	0.0	0.0	0.0
15	0.15	0.0	0.0	0.0	0.0
16	0.15	0.0	0.0	0.0	0.0
17	0.15	0.0	0.0	0.0	0.0
18	0.175	0.0	0.0	0.0	0.0
19	0.175	0.0	0.0	0.0	0.0
20	0.3	0.0	0.0	0.0	0.0
21	0.325	0.0	0.0	0.0	0.0
22	0.325	0.0	0.0	0.0	0.0
23	0.35	0.0	0.0	0.0	0.0
24	0.4	0.0	0.0	0.0	0.0
25	0.45	0.0	0.0	0.0	0.0
26	0.55	0.0	0.0	0.0	0.0
27	0.575	0.0	0.0	0.0	0.0
28	0.675	0.0	0.0	0.0	0.0
29	0.725	0.0	0.0	0.0	0.0
30	0.75	0.0	0.0	0.0	0.0
31	0.775	0.0	0.0	0.0	0.0
32	0.85	0.0	0.0	0.0	0.0
33	0.925	0.0	0.0	0.0	0.0
34	0.975	0.0	0.0	0.0	0.0
35	1.0	0.0	0.0	0.0	0.0
36	1.025	0.0	0.0	0.0	0.0
37	1.125	0.0	0.0	0.0	0.0
38	1.2	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
CCTTGTT	35	2.9610228E-5	45.01299	44
GTAGTGC	35	2.9610228E-5	45.01299	44
AGGGGCT	20	7.502455E-4	43.325	3
AAGGGAG	50	1.6370905E-11	43.325	2
AAAGGGA	40	6.0954335E-9	43.325	1
GTGCATG	45	2.3729135E-6	42.01212	44
AGGGAGA	75	0.0	37.548332	3
CGTAGTG	35	9.1055146E-5	37.510822	43
GCTGCGC	35	0.0017605902	36.01039	44
ACCTTGT	45	8.882087E-6	35.0101	43
GGTGCAT	45	8.882087E-6	35.0101	43
GGGAGAG	50	4.3768523E-8	34.66	4
CTGATTC	45	8.3130544E-7	33.69722	8
GGCTGAT	45	8.3130544E-7	33.69722	6
GCTGATT	45	8.3130544E-7	33.69722	7
GGGGCTG	45	8.3130544E-7	33.69722	4
GGGCTGA	45	8.3130544E-7	33.69722	5
GGAGATT	40	1.5675065E-5	32.49375	5
TGATTCT	40	1.5675065E-5	32.49375	9
TTCTGGA	40	1.5675065E-5	32.49375	12
>>END_MODULE
Read 820933 spots for SRR23332741.sra
Written 820933 spots for SRR23332741.sra
Read 820933 spots for SRR23332741.sra
Written 820933 spots for SRR23332741.sra
Read 820933 spots for SRR23332741.sra
Written 820933 spots for SRR23332741.sra
Read 820933 spots for SRR23332741.sra
Written 820933 spots for SRR23332741.sra
Read 820933 spots for SRR23332741.sra
Written 820933 spots for SRR23332741.sra
Read 820933 spots for SRR23332741.sra
Written 820933 spots for SRR23332741.sra
Read 820933 spots for SRR23332741.sra
Written 820933 spots for SRR23332741.sra
Read 820934 spots for SRR23332741.sra
Written 820934 spots for SRR23332741.sra
SRR ids: ['SRR23332741.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_fu38ifgw
SRR23332741.sra spots: 6567465
blocks: [[1, 820933], [820934, 1641866], [1641867, 2462799], [2462800, 3283732], [3283733, 4104665], [4104666, 4925598], [4925599, 5746531], [5746532, 6567465]]
SRR23332741 file size 799524
SRR23332741 completed basic pipeline successfully
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	/usr/local/bin/skewer -f sanger -l 18 -q 10 -k inf -t 8 -o SRR23332741 SRR23332741_1.fastq SRR23332741_2.fastq
Input file:	SRR23332741_1.fastq
Paired file:	SRR23332741_2.fastq
trimmed:	SRR23332741-trimmed-pair1.fastq, SRR23332741-trimmed-pair2.fastq

Parameters used:
-- 3' end adapter sequence (-x):	AGATCGGAAGAGCACACGTCTGAACTCCAGTCAC
-- paired 3' end adapter sequence (-y):	AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTA
-- 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 
-- number of concurrent threads (-t):	8
Wed Mar 25 02:56:45 2026 >> started

Wed Mar 25 02:56:49 2026 >> done (4.180s)
6567465 read pairs processed; of these:
   1914 ( 0.03%) short read pairs filtered out after trimming by size control
     36 ( 0.00%) empty read pairs filtered out after trimming by size control
6565515 (99.97%) read pairs available; of these:
  45148 ( 0.69%) trimmed read pairs available after processing
6520367 (99.31%) untrimmed read pairs available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	    399	  0.01%
 19	    686	  0.01%
 20	   1133	  0.02%
 21	    751	  0.01%
 22	    658	  0.01%
 23	    749	  0.01%
 24	    913	  0.01%
 25	   1385	  0.02%
 26	   1008	  0.02%
 27	   1180	  0.02%
 28	    916	  0.01%
 29	   1545	  0.02%
 30	   1073	  0.02%
 31	   1247	  0.02%
 32	   1323	  0.02%
 33	   1969	  0.03%
 34	   2312	  0.04%
 35	   2435	  0.04%
 36	   2797	  0.04%
 37	   2364	  0.04%
 38	   3077	  0.05%
 39	   3560	  0.05%
 40	   8657	  0.13%
 41	   7518	  0.11%
 42	 277103	  4.22%
 43	 146769	  2.24%
 44	 594085	  9.05%
 45	5497903	 83.74%
6565515 reads passed initial QC


criterion=sequence-density
sequence-density=1.36
sequence-density-rank=1
fanout-score=2.03
fanout-score-rank=21
prefix-density=1.21
prefix-fanout=2.0
sequence=GTTCCCGGGCCTTGTACACACCGCCCGTCACACCATGGGAGTGGGTTGCAAAAGAAGTAGGTAGCTTAACCTTCG


criterion=fanout-score
sequence-density=0.04
sequence-density-rank=34
fanout-score=4.89
fanout-score-rank=1
prefix-density=0.17
prefix-fanout=1.0
sequence=TCCACTCCGGTCCTCTCGTACTAGGAGTGGACGCATCACTGGTGTTCGGGTTGTCATGCCAATGGCACTGCCCGGTAGCTA


criterion=sequence-density
sequence-density=14.38
sequence-density-rank=1
fanout-score=21.29
fanout-score-rank=6
prefix-density=11.12
prefix-fanout=21.3
sequence=GGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTTACGACTTCACCCCAGTCATGAATCACAAAGTGGTAAGCGCCCTCCCGAAGGTTAAGCTACCTACTTCTTTTGCAACCCACTCCCATGGTGTGACGGGCGGTGTGTACAAGGCCCGGGAACGTATTCACCGTGGCATTCTGATCCACGATTACTAGCGATTCCGACTTCATGGAGTCGAGTTGCAGACTCCAATCCGGACTACGACGCACTTTATGAGGTCCGCTTGCTCTCGCGAGGTCGCTTCTCTTTGTATGCGCCATTGTAGCACGTGTGTAGCCCTGGTCGTAAGGGCCATGATGACTTGACGTCATCCCCACCTTCCTCCAGTTTATCACTGGCAGTCTCCTTTGAGTTCCCGGCCGGACCGCTGGCAACAAAGGATAAGGGTTGCGCTCGTTGCGGGACTTAACCCAACATTTCACAACACGAGCTGACGACAGCCATGCAGCACCTGTCTCACGGTT


criterion=fanout-score
sequence-density=0.74
sequence-density-rank=14
fanout-score=153.36
fanout-score-rank=1
prefix-density=10.56
prefix-fanout=10.8
sequence=GGAGACACGGTACTAATGAACCGTGAGGCTTAACCTTATGGGAGACA
Potential 3prime adapter identified. Now checking if in reference sequence
/dee2/code/volunteer_pipeline.sh: line 987: -f: command not found
/dee2/code/volunteer_pipeline.sh: line 988: -f: command not found
Adapter seq not found in reference. Now shuffling file before clipping
skewer v0.2.2 [April 4, 2016]
COMMAND LINE:	/usr/local/bin/skewer -f sanger -l 18 -t 8 -x GTTCCCGGGCCTTGTACACACCGCCCGTCACACCATGGGAGTGGGTTGCAAAAGAAGTAGGTAGCTTAACCTTCG -y GGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTTACGACTTCACCCCAGTCATGAATCACAAAGTGGTAAGCGCCCTCCCGAAGGTTAAGCTACCTACTTCTTTTGCAACCCACTCCCATGGTGTGACGGGCGGTGTGTACAAGGCCCGGGAACGTATTCACCGTGGCATTCTGATCCACGATTACTAGCGATTCCGACTTCATGGAGTCGAGTTGCAGACTCCAATCCGGACTACGACGCACTTTATGAGGTCCGCTTGCTCTCGCGAGGTCGCTTCTCTTTGTATGCGCCATTGTAGCACGTGTGTAGCCCTGGTCGTAAGGGCCATGATGACTTGACGTCATCCCCACCTTCCTCCAGTTTATCACTGGCAGTCTCCTTTGAGTTCCCGGCCGGACCGCTGGCAACAAAGGATAAGGGTTGCGCTCGTTGCGGGACTTAACCCAACATTTCACAACACGAGCTGACGACAGCCATGCAGCACCTGTCTCACGGTT -o SRR23332741 SRR23332741_1.fastq SRR23332741_2.fastq
Input file:	SRR23332741_1.fastq
Paired file:	SRR23332741_2.fastq
trimmed:	SRR23332741-trimmed-pair1.fastq, SRR23332741-trimmed-pair2.fastq

Parameters used:
-- 3' end adapter sequence (-x):	GTTCCCGGGCCTTGTACACACCGCCCGTCACACCATGGGAGTGGGTTGCAAAAGAAGTAGGTAG
-- paired 3' end adapter sequence (-y):	GGGAGAGGAGGTGATCCAACCGCAGGTTCCCCTACGGTTACCTTGTTACGACTTCACCCCAGTC
-- maximum error ratio allowed (-r):	0.100
-- maximum indel error ratio allowed (-d):	0.030
-- minimum read length allowed after trimming (-l):	18
-- file format (-f):		Sanger/Illumina 1.8+ FASTQ 
-- number of concurrent threads (-t):	8
Wed Mar 25 02:57:00 2026 >> started

Wed Mar 25 02:57:04 2026 >> done (3.386s)
5106512 read pairs processed; of these:
  42253 ( 0.83%) short read pairs filtered out after trimming by size control
   9778 ( 0.19%) empty read pairs filtered out after trimming by size control
5054481 (98.98%) read pairs available; of these:
   2162 ( 0.04%) trimmed read pairs available after processing
5052319 (99.96%) untrimmed read pairs available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	    300	  0.01%
 19	    540	  0.01%
 20	    920	  0.02%
 21	    594	  0.01%
 22	    517	  0.01%
 23	    602	  0.01%
 24	    724	  0.01%
 25	   1076	  0.02%
 26	    792	  0.02%
 27	    924	  0.02%
 28	    707	  0.01%
 29	   1185	  0.02%
 30	    828	  0.02%
 31	    983	  0.02%
 32	   1035	  0.02%
 33	   1496	  0.03%
 34	   1814	  0.04%
 35	   1891	  0.04%
 36	   2212	  0.04%
 37	   1839	  0.04%
 38	   2346	  0.05%
 39	   2766	  0.05%
 40	   6781	  0.13%
 41	   5815	  0.12%
 42	 215367	  4.26%
 43	 113804	  2.25%
 44	 438560	  8.68%
 45	4248063	 84.05%


criterion=sequence-density
sequence-density=1.21
sequence-density-rank=1
fanout-score=2.02
fanout-score-rank=25
prefix-density=1.14
prefix-fanout=2.0
sequence=GTTCCCGGGCCTTGTACACACCGCCCGTCACACCATGGGAGTGGGTTGCAAAAGAAGTAGGTAGCTTAACCTTCG


criterion=fanout-score
sequence-density=0.12
sequence-density-rank=29
fanout-score=6.69
fanout-score-rank=1
prefix-density=0.78
prefix-fanout=1.0
sequence=TAGCGATTCCGACTTCATG


criterion=sequence-density
sequence-density=14.10
sequence-density-rank=1
fanout-score=16.26
fanout-score-rank=10
prefix-density=12.07
prefix-fanout=16.3
sequence=GGGGCTGATTCTGGATTCGACGGGATTTGCGAAACCCAAGGTGCATGCCGAGGGGCGGTTGGCCTCGTAAAAAGCCGCAAAAAATAGTCGCAAACGACGAAAACTACGCTTTAGCAGCTTAATAACCTGCTTAGAGCCCTCTCTCCCTAGCCTCCGCTCTTAGGACGGGGATCAAGAGAGGTCAAACCCAAAAGAGATCGCGTGGAAGCCCTGCCTGGGGTTGAAGCGTTAAAACTTAATCAGGCTAGTTTGTTAGTGGCGTGTCCGTCCGCAGCTGGCAAGCGAATGTAAAGACTGACTAAGCATGTAGTACCGAGGATGTAGGAATTTCGGACGCGGGTTCAACTCCCGCCAGCTCCACCA


criterion=fanout-score
sequence-density=0.75
sequence-density-rank=14
fanout-score=152.14
fanout-score-rank=1
prefix-density=10.53
prefix-fanout=10.8
sequence=GGAGACACGGTACTAATGAACCGTGAGGCTTAACCTTATGGGAGAC
SRR23332741 testing PE reads STAR mapping to Ensembl genome
                                 Started job on |	Mar 25 02:57:21
                             Started mapping on |	Mar 25 02:57:21
                                    Finished on |	Mar 25 03:00:31
       Mapping speed, Million of reads per hour |	123.41

                          Number of input reads |	6513484
                      Average input read length |	90
                                    UNIQUE READS:
                   Uniquely mapped reads number |	3549069
                        Uniquely mapped reads % |	54.49%
                          Average mapped length |	87.78
                       Number of splices: Total |	199575
            Number of splices: Annotated (sjdb) |	1861
                       Number of splices: GT/AG |	179772
                       Number of splices: GC/AG |	4140
                       Number of splices: AT/AC |	569
               Number of splices: Non-canonical |	15094
                      Mismatch rate per base, % |	0.27%
                         Deletion rate per base |	0.01%
                        Deletion average length |	1.42
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.03
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	1323061
             % of reads mapped to multiple loci |	20.31%
        Number of reads mapped to too many loci |	1222696
             % of reads mapped to too many loci |	18.77%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	6.06%
                     % of reads unmapped: other |	0.36%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	1641355	1641355	1641355
N_multimapping	1323061	1323061	1323061
N_noFeature	98668	3241977	223755
N_ambiguous	365380	47553	150492
UnstrandedReadsAssigned:3085021 PositiveStrandReadsAssigned:259539 NegativeStrandReadsAssigned:3174822
Dataset is classified negative stranded
MeadianReadLen=41 20thPercentileLength=41 echo kmer=37
SRR23332741 Starting Kallisto paired end mapping to ensembl reference transcriptome

[quant] fragment length distribution will be estimated from the data
[index] k-mer length: 31
[index] number of targets: 4,322
[index] number of k-mers: 3,915,872
[index] number of equivalence classes: 4,486
[quant] running in paired-end mode
[quant] will process pair 1: SRR23332741-trimmed-pair1.fastq
                             SRR23332741-trimmed-pair2.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 6,513,484 reads, 1,316,357 reads pseudoaligned
[quant] estimated average fragment length: 213.81
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 64 rounds

  4323 SRR23332741.ke.tsv
  4497 SRR23332741.se.tsv
  8820 total
==> SRR23332741.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
AAC73112	66	13.15	150	1999.19
AAC73113	2463	2250.19	188	14.6429
AAC73114	933	720.19	110	26.7691
AAC73115	1287	1074.19	218	35.5683
AAC73116	297	115.558	7	10.6166
AAC73117	777	564.375	85	26.3961
AAC73118	1431	1218.19	32	4.60387
AAC73119	954	741.19	1823	431.068
AAC73120	588	376.993	160	74.3831

==> SRR23332741.se.tsv <==
b0001	255
b0002	172
b0003	94
b0004	208
b0005	7
b0006	96
b0007	32
b0008	1826
b0009	189
b0010	22
SRR23332741 completed mapping pipeline successfully
