Starting /dee2/code/volunteer_pipeline.sh SRR34296809
    current disk space = 222590000
    free memory = 201319144 
SRR34296809 SRAfilesize
36c30f88c3b0fba63958d48d49bc8ad5  SRR34296809.sra
SRR34296809.sra file validated
SRR34296809 is single end
SRR34296809 is conventional basespace
SRR34296809 read1 length is 51 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR34296809_1.fastq
File type	Conventional base calls
Encoding	Sanger / Illumina 1.9
Total Sequences	4000
Sequences flagged as poor quality	0
Sequence length	51
%GC	50
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	33.39325	37.0	37.0	37.0	20.0	37.0
2	34.63475	37.0	37.0	37.0	20.0	37.0
3	35.222	37.0	37.0	37.0	37.0	37.0
4	35.39075	37.0	37.0	37.0	37.0	37.0
5	35.8755	37.0	37.0	37.0	37.0	37.0
6	35.73475	37.0	37.0	37.0	37.0	37.0
7	35.9515	37.0	37.0	37.0	37.0	37.0
8	36.13775	37.0	37.0	37.0	37.0	37.0
9	35.5645	37.0	37.0	37.0	37.0	37.0
10	36.161	37.0	37.0	37.0	37.0	37.0
11	36.39075	37.0	37.0	37.0	37.0	37.0
12	36.2935	37.0	37.0	37.0	37.0	37.0
13	36.202	37.0	37.0	37.0	37.0	37.0
14	36.3375	37.0	37.0	37.0	37.0	37.0
15	36.30175	37.0	37.0	37.0	37.0	37.0
16	36.294	37.0	37.0	37.0	37.0	37.0
17	36.43775	37.0	37.0	37.0	37.0	37.0
18	36.30275	37.0	37.0	37.0	37.0	37.0
19	36.51125	37.0	37.0	37.0	37.0	37.0
20	36.5075	37.0	37.0	37.0	37.0	37.0
21	36.44875	37.0	37.0	37.0	37.0	37.0
22	36.18775	37.0	37.0	37.0	37.0	37.0
23	36.405	37.0	37.0	37.0	37.0	37.0
24	36.538	37.0	37.0	37.0	37.0	37.0
25	36.432	37.0	37.0	37.0	37.0	37.0
26	36.2335	37.0	37.0	37.0	37.0	37.0
27	36.17875	37.0	37.0	37.0	37.0	37.0
28	36.2915	37.0	37.0	37.0	37.0	37.0
29	36.2325	37.0	37.0	37.0	37.0	37.0
30	36.283	37.0	37.0	37.0	37.0	37.0
31	36.37725	37.0	37.0	37.0	37.0	37.0
32	36.39525	37.0	37.0	37.0	37.0	37.0
33	36.44725	37.0	37.0	37.0	37.0	37.0
34	36.35	37.0	37.0	37.0	37.0	37.0
35	36.42725	37.0	37.0	37.0	37.0	37.0
36	36.31025	37.0	37.0	37.0	37.0	37.0
37	36.2475	37.0	37.0	37.0	37.0	37.0
38	35.64225	37.0	37.0	37.0	37.0	37.0
39	35.90125	37.0	37.0	37.0	37.0	37.0
40	35.988	37.0	37.0	37.0	37.0	37.0
41	35.8655	37.0	37.0	37.0	37.0	37.0
42	36.245	37.0	37.0	37.0	37.0	37.0
43	36.33075	37.0	37.0	37.0	37.0	37.0
44	36.417	37.0	37.0	37.0	37.0	37.0
45	36.1365	37.0	37.0	37.0	37.0	37.0
46	36.2755	37.0	37.0	37.0	37.0	37.0
47	36.26225	37.0	37.0	37.0	37.0	37.0
48	36.33075	37.0	37.0	37.0	37.0	37.0
49	36.08275	37.0	37.0	37.0	37.0	37.0
50	36.11775	37.0	37.0	37.0	37.0	37.0
51	36.289	37.0	37.0	37.0	37.0	37.0
>>END_MODULE
>>Per tile sequence quality	pass
#Tile	Base	Mean
1101	1	0.0
1101	2	0.0
1101	3	0.0
1101	4	0.0
1101	5	0.0
1101	6	0.0
1101	7	0.0
1101	8	0.0
1101	9	0.0
1101	10	0.0
1101	11	0.0
1101	12	0.0
1101	13	0.0
1101	14	0.0
1101	15	0.0
1101	16	0.0
1101	17	0.0
1101	18	0.0
1101	19	0.0
1101	20	0.0
1101	21	0.0
1101	22	0.0
1101	23	0.0
1101	24	0.0
1101	25	0.0
1101	26	0.0
1101	27	0.0
1101	28	0.0
1101	29	0.0
1101	30	0.0
1101	31	0.0
1101	32	0.0
1101	33	0.0
1101	34	0.0
1101	35	0.0
1101	36	0.0
1101	37	0.0
1101	38	0.0
1101	39	0.0
1101	40	0.0
1101	41	0.0
1101	42	0.0
1101	43	0.0
1101	44	0.0
1101	45	0.0
1101	46	0.0
1101	47	0.0
1101	48	0.0
1101	49	0.0
1101	50	0.0
1101	51	0.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
18	1.0
19	0.0
20	3.0
21	6.0
22	21.0
23	9.0
24	8.0
25	8.0
26	6.0
27	3.0
28	9.0
29	10.0
30	22.0
31	24.0
32	48.0
33	68.0
34	147.0
35	398.0
36	1598.0
37	1611.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	2.9499999999999997	17.7	71.875	7.475
2	25.70635721493441	19.62663975782038	14.228052472250251	40.43895055499496
3	12.575	36.3	25.224999999999998	25.900000000000002
4	26.174999999999997	23.825	17.724999999999998	32.275
5	25.4	38.725	25.6	10.274999999999999
6	46.375	13.875000000000002	26.0	13.750000000000002
7	18.525	30.099999999999998	26.6	24.775
8	38.375	22.925	21.375	17.325
9	14.475	32.05	44.7	8.774999999999999
10	11.95	47.15	15.65	25.25
11	28.999999999999996	5.75	23.3	41.949999999999996
12	19.575	12.8	18.85	48.775
13	26.224999999999998	16.2	41.05	16.525000000000002
14	34.300000000000004	31.225	22.175	12.3
15	38.375	26.200000000000003	24.0	11.425
16	9.125	18.925	25.5	46.45
17	15.65	19.975	50.425	13.950000000000001
18	27.275	10.925	30.0	31.8
19	29.7	16.900000000000002	42.675000000000004	10.725
20	35.15	18.3	33.275	13.275
21	16.175	12.775	55.875	15.174999999999999
22	27.55	14.649999999999999	53.300000000000004	4.5
23	30.475	14.475	48.1	6.950000000000001
24	61.475	10.475	26.05	2.0
25	56.45	29.299999999999997	12.075	2.175
26	25.674999999999997	60.275	11.125	2.9250000000000003
27	9.25	55.45	30.65	4.65
28	4.475	24.525	63.275000000000006	7.725
29	4.25	8.025	61.975	25.75
30	5.775	2.4250000000000003	48.05	43.75
31	10.775	1.25	46.375	41.6
32	32.125	1.2	21.75	44.925
33	67.27499999999999	1.175	10.4	21.15
34	81.025	1.425	8.15	9.4
35	67.925	2.1999999999999997	24.2	5.675
36	49.65	3.175	37.875	9.3
37	47.325	5.125	18.85	28.7
38	22.575	9.625	7.074999999999999	60.724999999999994
39	11.475	30.225	2.5	55.800000000000004
40	10.424999999999999	62.6	1.4500000000000002	25.525
41	29.475	59.150000000000006	1.55	9.825000000000001
42	60.6	32.85	2.25	4.3
43	56.25	36.525	1.675	5.55
44	25.224999999999998	63.0	3.0	8.774999999999999
45	9.125	57.225	6.175	27.474999999999998
46	3.8249999999999997	26.325	23.724999999999998	46.125
47	2.75	10.925	38.85	47.475
48	4.075	8.924999999999999	19.125	67.875
49	6.65	25.4	8.924999999999999	59.025000000000006
50	23.575	40.150000000000006	7.375	28.9
51	38.3	22.775000000000002	23.7	15.225
>>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	0.5
20	1.0
21	0.5
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	1.0
33	2.0
34	1.5
35	1.0
36	1.5
37	2.0
38	4.0
39	6.0
40	9.0
41	12.0
42	23.5
43	35.0
44	284.5
45	534.0
46	477.0
47	420.0
48	550.5
49	681.0
50	861.5
51	1042.0
52	842.0
53	642.0
54	460.5
55	279.0
56	213.0
57	147.0
58	126.5
59	106.0
60	69.5
61	33.0
62	22.0
63	11.0
64	19.0
65	27.0
66	22.0
67	17.0
68	9.0
69	1.0
70	1.0
71	1.0
72	0.5
73	0.0
74	0.0
75	0.0
76	0.0
77	0.0
78	0.0
79	0.0
80	0.0
81	0.0
82	0.0
83	0.0
84	0.0
85	0.0
86	0.0
87	0.0
88	0.0
89	0.0
90	0.0
91	0.0
92	0.0
93	0.0
94	0.0
95	0.0
96	0.0
97	0.0
98	0.0
99	0.0
100	0.0
>>END_MODULE
>>Per base N content	pass
#Base	N-Count
1	0.0
2	0.8999999999999999
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
51	0.0
>>END_MODULE
>>Sequence Length Distribution	pass
#Length	Count
51	4000.0
>>END_MODULE
>>Sequence Duplication Levels	fail
#Total Deduplicated Percentage	31.6
#Duplication Level	Percentage of deduplicated	Percentage of total
1	73.65506329113924	23.275000000000002
2	10.601265822784809	6.7
3	3.79746835443038	3.5999999999999996
4	2.689873417721519	3.4000000000000004
5	1.5822784810126582	2.5
6	1.1075949367088607	2.1
7	0.7911392405063291	1.7500000000000002
8	0.39556962025316456	1.0
9	0.7120253164556962	2.025
>10	3.79746835443038	23.25
>50	0.5537974683544303	12.6
>100	0.31645569620253167	17.8
>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
TCACAGTGAACCGGTCTCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	244	6.1	RNA PCR Primer, Index 1 (100% over 30bp)
TCTTTGGTTATCTAGCTGTATGATGGAATTCTCGGGTGCCAAGGAACTCCA	200	5.0	RNA PCR Primer, Index 1 (100% over 28bp)
TCACAGTGAACCGGTCTCTTTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	152	3.8	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTAACTTGTGATGGAATTCTCGGGTGCCAAGGAACTCCAG	116	2.9000000000000004	RNA PCR Primer, Index 1 (100% over 29bp)
TCTTTGGTTATCTAGCTGTATTGGAATTCTCGGGTGCCAAGGAACTCCAGT	94	2.35	RNA PCR Primer, Index 1 (100% over 30bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	93	2.325	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGTTTGTACAGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	73	1.825	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGATTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	73	1.825	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGGTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	59	1.4749999999999999	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGGTTGTATGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	56	1.4000000000000001	RNA PCR Primer, Index 1 (100% over 29bp)
TCTTTGGTTATCTAGCTGTATGTGGAATTCTCGGGTGCCAAGGAACTCCAG	56	1.4000000000000001	RNA PCR Primer, Index 1 (100% over 29bp)
TAGCACCATCTGAAATCGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	44	1.0999999999999999	RNA PCR Primer, Index 1 (100% over 30bp)
TTTGAACCATCACTCGACTCCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	42	1.05	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCTACACTCTCAGCTTGGAATTCTCGGGTGCCAAGGAACTCC	39	0.975	RNA PCR Primer, Index 1 (100% over 27bp)
TAAGGCACGCGGTGAATGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA	39	0.975	RNA PCR Primer, Index 1 (100% over 32bp)
AACCCGTAGATCCGATCTTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	32	0.8	RNA PCR Primer, Index 1 (100% over 30bp)
TAGCACCATCTGAAATCGGTTATGGAATTCTCGGGTGCCAAGGAACTCCAG	32	0.8	RNA PCR Primer, Index 1 (100% over 29bp)
TCGGATCCGTCTGAGCTTGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	31	0.775	RNA PCR Primer, Index 1 (100% over 29bp)
ACTAATCCTAGCCCTAGCCCTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	29	0.7250000000000001	RNA PCR Primer, Index 1 (100% over 30bp)
TGTAAACATCCTACACTCTCAGCTGGAATTCTCGGGTGCCAAGGAACTCCA	29	0.7250000000000001	RNA PCR Primer, Index 1 (100% over 28bp)
TCCCTGAGACCCTAACTTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	28	0.7000000000000001	RNA PCR Primer, Index 1 (100% over 31bp)
TAACAGTCTACAGCCATGGTCGTGGAATTCTCGGGTGCCAAGGAACTCCAG	28	0.7000000000000001	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTAACTTGTGAATGGAATTCTCGGGTGCCAAGGAACTCCA	25	0.625	RNA PCR Primer, Index 1 (100% over 28bp)
AACATTCAACGCTGTCGGTGAGTTGGAATTCTCGGGTGCCAAGGAACTCCA	24	0.6	RNA PCR Primer, Index 1 (100% over 28bp)
TCTTTGGTTATCTAGCTGTATGTTGGAATTCTCGGGTGCCAAGGAACTCCA	21	0.525	RNA PCR Primer, Index 1 (100% over 28bp)
TCCCTGAGACCCTAACTTGTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT	21	0.525	RNA PCR Primer, Index 1 (100% over 30bp)
TGAGGTAGTAGTTTGTGCTGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	21	0.525	RNA PCR Primer, Index 1 (100% over 29bp)
TTCACAGTGGCTAAGTTCTGCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	21	0.525	RNA PCR Primer, Index 1 (100% over 30bp)
TCGGATCCGTCTGAGCTTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	21	0.525	RNA PCR Primer, Index 1 (100% over 31bp)
AGAGGTAGTAGGTTGCATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	20	0.5	RNA PCR Primer, Index 1 (100% over 29bp)
TTCAAGTAATCCAGGATAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	20	0.5	RNA PCR Primer, Index 1 (100% over 30bp)
TCACAGTGAACCGGTCTCTTTATGGAATTCTCGGGTGCCAAGGAACTCCAG	20	0.5	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCCCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTCC	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 27bp)
TGAGGTAGTAGGTTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 30bp)
AGCAGCATTGTACAGGGCTATGATGGAATTCTCGGGTGCCAAGGAACTCCA	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 28bp)
TGAGGTAGTAGATTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 30bp)
AAGCTGCCAGTTGAAGAACTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	17	0.42500000000000004	RNA PCR Primer, Index 1 (100% over 29bp)
TTAAGGCACGCGGTGAATGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	16	0.4	RNA PCR Primer, Index 1 (100% over 31bp)
TGTAAACATCCTTGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTCC	15	0.375	RNA PCR Primer, Index 1 (100% over 27bp)
TGAGGTAGGAGGTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	14	0.35000000000000003	RNA PCR Primer, Index 1 (100% over 29bp)
TCCTCCCGGGGCTACGCCTGTCTGAGCGTCGCTTGGAATTCTCGGGTGCCA	13	0.325	No Hit
TGTAAACATCCTCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTCC	13	0.325	RNA PCR Primer, Index 1 (100% over 27bp)
TCACAGTGAACCGGTCTCTTTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	12	0.3	RNA PCR Primer, Index 1 (100% over 28bp)
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGTGCCAAGGAACTCCAG	12	0.3	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGTTTGTACAGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	12	0.3	RNA PCR Primer, Index 1 (100% over 30bp)
CGCGACCTCAGATCAGATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACA	12	0.3	RNA PCR Primer, Index 1 (100% over 34bp)
CTTTGGTTATCTAGCTGTATGATGGAATTCTCGGGTGCCAAGGAACTCCAG	12	0.3	RNA PCR Primer, Index 1 (100% over 29bp)
CACCCGTAGAACCGACCTTGCGTGGAATTCTCGGGTGCCAAGGAACTCCAG	12	0.3	RNA PCR Primer, Index 1 (100% over 29bp)
CAACGGAATCCCAAAAGCAGCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 29bp)
ACTAATCCTAGCCCTAGCCCTACATGGAATTCTCGGGTGCCAAGGAACTCC	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 27bp)
TTTGAACCATCACTCGACTCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 30bp)
ACTAATCCTAGCCCTAGCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 31bp)
AGCTACATTGTCTGCTGGGTTTCTGGAATTCTCGGGTGCCAAGGAACTCCA	11	0.27499999999999997	RNA PCR Primer, Index 1 (100% over 28bp)
TGCGGGGCTAGGGCTAACAGCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	10	0.25	RNA PCR Primer, Index 1 (100% over 30bp)
TCTACAGTGCACGTGTCTCCAGTTGGAATTCTCGGGTGCCAAGGAACTCCA	10	0.25	RNA PCR Primer, Index 1 (100% over 28bp)
TCCCTGAGACCCTTTAACCTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	10	0.25	RNA PCR Primer, Index 1 (100% over 29bp)
TAAGGCACGCGGTGAATGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	10	0.25	RNA PCR Primer, Index 1 (100% over 31bp)
TCACAGTGAACCGGTCTCTTTCTGGAATTCTCGGGTGCCAAGGAACTCCAG	10	0.25	RNA PCR Primer, Index 1 (100% over 29bp)
TCGGATCCGTCTGAGCTTGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	10	0.25	RNA PCR Primer, Index 1 (100% over 30bp)
ACTAATCCTAGCCCTAGCCCTACACTGGAATTCTCGGGTGCCAAGGAACTC	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 26bp)
ACTAATCCTAGCCCTAGCCCTATGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
AACCCGTAGATCCGATCTTGTGTGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
ATAAAGCTAGATAACCGAAAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
AACCCGTAGATCCGAACTTGTGTGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
AGCTACATTGTCTGCTGGGTTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 29bp)
TCGAGGAGCTCACAGTCTAGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 30bp)
CTTTTTGCGGTCTGGGCTTGCTGGAATTCTCGGGTGCCAAGGAACTCCAGT	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 30bp)
AACATTCAACGCTGTCGGTGATGGAATTCTCGGGTGCCAAGGAACTCCAGT	9	0.22499999999999998	RNA PCR Primer, Index 1 (100% over 30bp)
AACATTCAACGCTGTCGGTGAGTTTTGGAATTCTCGGGTGCCAAGGAACTC	8	0.2	RNA PCR Primer, Index 1 (100% over 26bp)
AAGCCCTTACCCCAAAAAGCATTGGAATTCTCGGGTGCCAAGGAACTCCAG	8	0.2	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGGTTGTATGGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	8	0.2	RNA PCR Primer, Index 1 (100% over 30bp)
TGTAAACATCCCCGACTGGAAGCTGGAATTCTCGGGTGCCAAGGAACTCCA	8	0.2	RNA PCR Primer, Index 1 (100% over 28bp)
TCACAGTGAACCGGTCTCTTTTATGGAATTCTCGGGTGCCAAGGAACTCCA	8	0.2	RNA PCR Primer, Index 1 (100% over 28bp)
AACCCGTAGATCCGAACTTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 30bp)
TGAGGTAGTAGGTTGTGTGGTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 28bp)
ATCATGATGGGCTCCTCGGTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
TCAGTGCATCACAGAACTTTGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGGTTGTGTGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGAGACCCTTTAACCTGTGATGGAATTCTCGGGTGCCAAGGAACTCC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 27bp)
CTATACGACCTGCTGCCTTTCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
TCACAGTGAACCGGTCTCTTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 31bp)
GCCTGCTGGGGTGGAACCTGGTTGGAATTCTCGGGTGCCAAGGAACTCCAG	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 29bp)
ACTAATCCTAGCCCTAGCCCTACTGGAATTCTCGGGTGCCAAGGAACTCCA	7	0.17500000000000002	RNA PCR Primer, Index 1 (100% over 28bp)
TGGAAGACTAGTGATTTTGTTGTTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCCCGACTGGAATGGAATTCTCGGGTGCCAAGGAACTCCAGT	6	0.15	RNA PCR Primer, Index 1 (100% over 30bp)
TGAGATGAAGCACTGTAGCTCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGGTTGTATAGTTATGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
TAAGGCACGCGGTGAATGCCATGGAATTCTCGGGTGCCAAGGAACTCCAGT	6	0.15	RNA PCR Primer, Index 1 (100% over 30bp)
CTAGCACCATCTGAAATCGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG	6	0.15	RNA PCR Primer, Index 1 (100% over 29bp)
AGAGGTAGTAGGTTGCATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	6	0.15	RNA PCR Primer, Index 1 (100% over 30bp)
ATCACATTGCCAGGGATTACCACTTGGAATTCTCGGGTGCCAAGGAACTCC	6	0.15	RNA PCR Primer, Index 1 (100% over 27bp)
ACCTTGGCTCTAGACTGCTTACTTGGAATTCTCGGGTGCCAAGGAACTCCA	6	0.15	RNA PCR Primer, Index 1 (100% over 28bp)
AATATAACACAGATGGCCTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	6	0.15	RNA PCR Primer, Index 1 (100% over 30bp)
AACATTCAACGCTGTCGGTGAGTTTGGAATTCTCGGGTGCCAAGGAACTCC	6	0.15	RNA PCR Primer, Index 1 (100% over 27bp)
TGGCTCAGTTCAGCAGGAACTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	6	0.15	RNA PCR Primer, Index 1 (100% over 31bp)
TGAGGTAGTAGTTTGTGCTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT	6	0.15	RNA PCR Primer, Index 1 (100% over 30bp)
AAGCTGCCAGTTGAAGAACTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	6	0.15	RNA PCR Primer, Index 1 (100% over 31bp)
TAGCACCATCTGAAATCGGTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	5	0.125	RNA PCR Primer, Index 1 (100% over 31bp)
AACATTCATTGCTGTCGGTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGT	5	0.125	RNA PCR Primer, Index 1 (100% over 30bp)
TGAGGTAGTAGTTTGTGCTGTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TTCAAGTAATCCAGGATAGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTC	5	0.125	RNA PCR Primer, Index 1 (100% over 31bp)
CGCACGGGGTCGGCGGCGATGTCGGCTGGAATTCTCGGGTGCCAAGGAACT	5	0.125	RNA PCR Primer, Index 1 (100% over 25bp)
TTCAAGTAATCCAGGATAGGCTTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCTACACTCAGCTTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
GAAGTTGTTCGTGGTGGATTCGTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGTTTGTACAGTTTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TGAGGTAGTAGTTTGTACAGTTATGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
TATGCAAGGGCAAGCTCTCTTCTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCCCGACTGGAAGTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
ACCGTGGCTTTCGATTGTTACTTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TACAGTACTGTGATAACTGAAGTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TACAGTACTGTGATAACTGAATTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TTATCAGAATCTCCAGGGGTACTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCTCGACTGGAAGTGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
CTGGCCCTCTCTGCCCTTCCGTTTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
GTACAGTACTGTGATAACTGAATGGAATTCTCGGGTGCCAAGGAACTCCAG	5	0.125	RNA PCR Primer, Index 1 (100% over 29bp)
CAACGGAATCCCAAAAGCAGCTGTGGAATTCTCGGGTGCCAAGGAACTCCA	5	0.125	RNA PCR Primer, Index 1 (100% over 28bp)
>>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	0.0	0.0	0.0	0.0	0.0
3	0.0	0.025	0.0	0.0	0.0
4	0.0	0.025	0.0	0.0	0.0
5	0.0	0.025	0.0	0.0	0.0
6	0.0	0.025	0.0	0.0	0.0
7	0.0	0.025	0.0	0.0	0.0
8	0.0	0.025	0.0	0.0	0.0
9	0.0	0.025	0.0	0.0	0.0
10	0.0	0.025	0.0	0.0	0.0
11	0.0	0.05	0.0	0.0	0.0
12	0.0	0.05	0.0	0.0	0.0
13	0.0	0.175	0.0	0.0	0.0
14	0.0	0.25	0.0	0.0	0.0
15	0.0	0.475	0.0	0.0	0.0
16	0.0	0.675	0.0	0.0	0.0
17	0.0	1.225	0.0	0.0	0.0
18	0.0	2.225	0.0	0.0	0.0
19	0.0	3.35	0.0	0.0	0.0
20	0.0	5.7	0.0	0.0	0.0
21	0.0	11.075	0.0	0.0	0.0
22	0.0	33.375	0.0	0.0	0.0
23	0.0	70.125	0.0	0.0	0.0
24	0.0	87.675	0.0	0.0	0.0
25	0.0	93.95	0.0	0.0	0.0
26	0.0	95.325	0.0	0.0	0.0
27	0.0	95.85	0.0	0.0	0.0
28	0.0	96.075	0.0	0.0	0.0
29	0.0	96.4	0.0	0.0	0.0
30	0.0	96.475	0.0	0.0	0.0
31	0.0	96.55	0.0	0.0	0.0
32	0.0	96.65	0.0	0.0	0.0
33	0.0	96.875	0.0	0.0	0.0
34	0.0	97.25	0.0	0.0	0.0
35	0.0	97.325	0.0	0.0	0.0
36	0.0	97.4	0.0	0.0	0.0
37	0.0	97.5	0.0	0.0	0.0
38	0.0	97.55	0.0	0.0	0.0
39	0.0	97.575	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	fail
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
TGAGGTA	45	2.2009772E-10	45.000004	1
ACAGTGA	25	3.236105E-5	45.0	3
ACCGGTC	25	3.236105E-5	45.0	10
GAGGTAG	50	1.0913936E-11	45.0	2
GGTTGTA	25	3.236105E-5	45.0	11
AAGTAAT	25	3.236105E-5	45.0	4
TCAAGTA	25	3.236105E-5	45.0	2
AACCGGT	25	3.236105E-5	45.0	9
AATCCAG	25	3.236105E-5	45.0	8
TAAACAT	20	6.222983E-4	45.0	3
ATCCAGG	25	3.236105E-5	45.0	9
TTGTATA	20	6.222983E-4	45.0	13
AAACATC	20	6.222983E-4	45.0	4
TTCAAGT	25	3.236105E-5	45.0	1
AGGATAG	25	3.236105E-5	45.0	13
GGTCTCT	25	3.236105E-5	45.0	13
CTCTTTT	25	3.236105E-5	45.0	16
ATAGGCT	25	3.236105E-5	45.0	16
GTATTGG	20	6.222983E-4	45.0	18
TCCAGGA	25	3.236105E-5	45.0	10
>>END_MODULE
Read 2751083 spots for SRR34296809.sra
Written 2751083 spots for SRR34296809.sra
Read 2751083 spots for SRR34296809.sra
Written 2751083 spots for SRR34296809.sra
Read 2751083 spots for SRR34296809.sra
Written 2751083 spots for SRR34296809.sra
Read 2751083 spots for SRR34296809.sra
Written 2751083 spots for SRR34296809.sra
Read 2751083 spots for SRR34296809.sra
Written 2751083 spots for SRR34296809.sra
Read 2751083 spots for SRR34296809.sra
Written 2751083 spots for SRR34296809.sra
Read 2751089 spots for SRR34296809.sra
Written 2751089 spots for SRR34296809.sra
Read 2751083 spots for SRR34296809.sra
Written 2751083 spots for SRR34296809.sra
SRR ids: ['SRR34296809.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_ouaxhpoh
SRR34296809.sra spots: 22008670
blocks: [[1, 2751083], [2751084, 5502166], [5502167, 8253249], [8253250, 11004332], [11004333, 13755415], [13755416, 16506498], [16506499, 19257581], [19257582, 22008670]]
SRR34296809 file size 3804448
SRR34296809 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 SRR34296809 SRR34296809_1.fastq
Input file:	SRR34296809_1.fastq
trimmed:	SRR34296809-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):	8
Thu Feb 19 09:23:51 2026 >> started

Thu Feb 19 09:23:57 2026 >> done (5.855s)
22008670 reads processed; of these:
       0 ( 0.00%) short reads filtered out after trimming by size control
     191 ( 0.00%) empty reads filtered out after trimming by size control
22008479 (100.00%) reads available; of these:
     470 ( 0.00%) trimmed reads available after processing
22008009 (100.00%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 50	     470	  0.00%
 51	22008009	100.00%
22008479 reads passed initial QC


criterion=sequence-density
sequence-density=97.70
sequence-density-rank=1
fanout-score=16.59
fanout-score-rank=1
prefix-density=97.95
prefix-fanout=16.6
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGACGCATCTGGGG


criterion=fanout-score
sequence-density=97.70
sequence-density-rank=1
fanout-score=16.59
fanout-score-rank=1
prefix-density=97.95
prefix-fanout=16.6
sequence=TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGACGCATCTGGGG
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:
    1 (100.00%) aligned 0 times
    0 (0.00%) aligned exactly 1 time
    0 (0.00%) aligned >1 times
0.00% overall alignment rate
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 TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGACGCATCTGGGG -o SRR34296809 -
Input file:	STDIN
trimmed:	SRR34296809-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGACGCATCTGGGG
-- 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 
-- minimum overlap length for adapter detection (-k):	3
-- number of concurrent threads (-t):	8
Thu Feb 19 09:24:15 2026 >> started

Thu Feb 19 09:24:29 2026 >> done (13.766s)
21559326 reads processed; of these:
  518742 ( 2.41%) short reads filtered out after trimming by size control
     401 ( 0.00%) empty reads filtered out after trimming by size control
21040183 (97.59%) reads available; of these:
20856392 (99.13%) trimmed reads available after processing
  183791 ( 0.87%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  221683	  1.05%
 19	  593437	  2.82%
 20	 1282667	  6.10%
 21	 4949383	 23.52%
 22	 7717248	 36.68%
 23	 4007317	 19.05%
 24	 1302471	  6.19%
 25	  315122	  1.50%
 26	  110008	  0.52%
 27	   71336	  0.34%
 28	   52247	  0.25%
 29	   27647	  0.13%
 30	   19873	  0.09%
 31	   23787	  0.11%
 32	   30978	  0.15%
 33	   44196	  0.21%
 34	   14716	  0.07%
 35	    9432	  0.04%
 36	    8422	  0.04%
 37	    9368	  0.04%
 38	    5469	  0.03%
 39	    4538	  0.02%
 40	    5767	  0.03%
 41	    4457	  0.02%
 42	    3884	  0.02%
 43	    3726	  0.02%
 44	    3984	  0.02%
 45	    7814	  0.04%
 46	    1383	  0.01%
 47	    1202	  0.01%
 48	    2830	  0.01%
 49	       0	  0.00%
 50	       3	  0.00%
 51	  183788	  0.87%


criterion=sequence-density
sequence-density=9.76
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=9
prefix-density=0.00
prefix-fanout=1.0
sequence=TCTTTGGTTATCTAGCTGTATGAAA


criterion=fanout-score
sequence-density=0.70
sequence-density-rank=21
fanout-score=8.57
fanout-score-rank=1
prefix-density=5.89
prefix-fanout=1.0
sequence=GTAGTAGGTTGCATAGTTT
                                 Started job on |	Feb 19 09:24:43
                             Started mapping on |	Feb 19 09:24:43
                                    Finished on |	Feb 19 09:26:08
       Mapping speed, Million of reads per hour |	910.14

                          Number of input reads |	21489336
                      Average input read length |	22
                                    UNIQUE READS:
                   Uniquely mapped reads number |	9982432
                        Uniquely mapped reads % |	46.45%
                          Average mapped length |	22.11
                       Number of splices: Total |	12672
            Number of splices: Annotated (sjdb) |	5852
                       Number of splices: GT/AG |	12483
                       Number of splices: GC/AG |	126
                       Number of splices: AT/AC |	3
               Number of splices: Non-canonical |	60
                      Mismatch rate per base, % |	0.12%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.64
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.15
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	10668322
             % of reads mapped to multiple loci |	49.64%
        Number of reads mapped to too many loci |	83231
             % of reads mapped to too many loci |	0.39%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	3.07%
                     % of reads unmapped: other |	0.45%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	838582	838582	838582
N_multimapping	10668322	10668322	10668322
N_noFeature	287654	309434	8106310
N_ambiguous	3618009	2045423	35601
UnstrandedReadsAssigned:6076769 PositiveStrandReadsAssigned:7627575 NegativeStrandReadsAssigned:1840521
Dataset is classified unstranded
MeadianReadLen=22 20thPercentileLength=21 echo kmer=19
SRR34296809 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: 109,282
[index] number of k-mers: 92,755,666
[index] number of equivalence classes: 769,752
[quant] running in single-end mode
[quant] will process file 1: SRR34296809-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 21,489,336 reads, 2,384,915 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 788 rounds

 109283 SRR34296809.ke.tsv
  52636 SRR34296809.se.tsv
 161919 total
==> SRR34296809.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
ENSMUST00000177564.1	16	4.59059	0	0
ENSMUST00000196221.1	9	3.70903	0	0
ENSMUST00000179664.1	11	4.02702	0	0
ENSMUST00000178537.1	12	4.16231	0	0
ENSMUST00000178862.1	14	4.39563	0	0
ENSMUST00000179520.1	11	4.02702	0	0
ENSMUST00000179883.1	16	4.59059	0	0
ENSMUST00000195858.1	10	3.87667	0	0
ENSMUST00000179932.1	12	4.16231	0	0

==> SRR34296809.se.tsv <==
ENSMUSG00000102693	0
ENSMUSG00000064842	0
ENSMUSG00000051951	17
ENSMUSG00000102851	0
ENSMUSG00000103377	0
ENSMUSG00000104017	1
ENSMUSG00000103025	0
ENSMUSG00000089699	0
ENSMUSG00000103201	0
ENSMUSG00000103147	0
SRR34296809 completed mapping pipeline successfully
