Starting /dee2/code/volunteer_pipeline.sh SRR30542865
    current disk space = 1160585208
    free memory = 198535588 
SRR30542865 SRAfilesize
3f990f8f3bb5eb30fdea11a639c8eeb6  SRR30542865.sra
SRR30542865.sra file validated
SRR30542865 is single end
SRR30542865 is conventional basespace
SRR30542865 read1 length is 36 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR30542865_1.fastq
File type	Conventional base calls
Encoding	Sanger / Illumina 1.9
Total Sequences	4000
Sequences flagged as poor quality	0
Sequence length	36
%GC	53
>>END_MODULE
>>Per base sequence quality	pass
#Base	Mean	Median	Lower Quartile	Upper Quartile	10th Percentile	90th Percentile
1	33.6545	32.0	32.0	37.0	32.0	37.0
2	34.51325	37.0	32.0	37.0	32.0	37.0
3	36.0295	37.0	37.0	37.0	32.0	37.0
4	36.21725	37.0	37.0	37.0	32.0	37.0
5	36.47275	37.0	37.0	37.0	37.0	37.0
6	36.53425	37.0	37.0	37.0	37.0	37.0
7	36.53825	37.0	37.0	37.0	37.0	37.0
8	36.72425	37.0	37.0	37.0	37.0	37.0
9	36.64375	37.0	37.0	37.0	37.0	37.0
10	36.703	37.0	37.0	37.0	37.0	37.0
11	36.6985	37.0	37.0	37.0	37.0	37.0
12	36.589	37.0	37.0	37.0	37.0	37.0
13	36.53925	37.0	37.0	37.0	37.0	37.0
14	36.57275	37.0	37.0	37.0	37.0	37.0
15	36.681	37.0	37.0	37.0	37.0	37.0
16	36.6605	37.0	37.0	37.0	37.0	37.0
17	36.63225	37.0	37.0	37.0	37.0	37.0
18	36.544	37.0	37.0	37.0	37.0	37.0
19	36.7115	37.0	37.0	37.0	37.0	37.0
20	36.62	37.0	37.0	37.0	37.0	37.0
21	36.6565	37.0	37.0	37.0	37.0	37.0
22	36.66625	37.0	37.0	37.0	37.0	37.0
23	36.6135	37.0	37.0	37.0	37.0	37.0
24	36.5805	37.0	37.0	37.0	37.0	37.0
25	36.59025	37.0	37.0	37.0	37.0	37.0
26	36.53075	37.0	37.0	37.0	37.0	37.0
27	36.59025	37.0	37.0	37.0	37.0	37.0
28	36.59525	37.0	37.0	37.0	37.0	37.0
29	36.70725	37.0	37.0	37.0	37.0	37.0
30	36.59775	37.0	37.0	37.0	37.0	37.0
31	36.53925	37.0	37.0	37.0	37.0	37.0
32	36.61525	37.0	37.0	37.0	37.0	37.0
33	36.5565	37.0	37.0	37.0	37.0	37.0
34	36.61975	37.0	37.0	37.0	37.0	37.0
35	36.481	37.0	37.0	37.0	37.0	37.0
36	36.26975	37.0	37.0	37.0	37.0	37.0
>>END_MODULE
>>Per tile sequence quality	pass
#Tile	Base	Mean
11101	1	0.0
11101	2	0.0
11101	3	0.0
11101	4	0.0
11101	5	0.0
11101	6	0.0
11101	7	0.0
11101	8	0.0
11101	9	0.0
11101	10	0.0
11101	11	0.0
11101	12	0.0
11101	13	0.0
11101	14	0.0
11101	15	0.0
11101	16	0.0
11101	17	0.0
11101	18	0.0
11101	19	0.0
11101	20	0.0
11101	21	0.0
11101	22	0.0
11101	23	0.0
11101	24	0.0
11101	25	0.0
11101	26	0.0
11101	27	0.0
11101	28	0.0
11101	29	0.0
11101	30	0.0
11101	31	0.0
11101	32	0.0
11101	33	0.0
11101	34	0.0
11101	35	0.0
11101	36	0.0
>>END_MODULE
>>Per sequence quality scores	pass
#Quality	Count
21	2.0
22	3.0
23	3.0
24	5.0
25	5.0
26	7.0
27	7.0
28	8.0
29	10.0
30	23.0
31	29.0
32	25.0
33	41.0
34	62.0
35	148.0
36	2562.0
37	1060.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	13.15	32.675	22.325	31.85
2	75.275	8.674999999999999	7.675	8.375
3	12.475	43.25	5.55	38.725
4	44.074999999999996	8.6	36.05	11.275
5	25.0	33.5	9.45	32.05
6	40.075	6.3	20.875	32.75
7	39.15	18.224999999999998	12.1	30.525000000000002
8	20.905226306576644	32.23305826456614	36.03400850212553	10.827706926731683
9	11.825	35.25	18.05	34.875
10	40.81020255063766	45.136284071017755	5.826456614153538	8.227056764191047
11	47.699999999999996	37.3	6.925000000000001	8.075000000000001
12	44.574999999999996	36.25	10.100000000000001	9.075
13	13.075000000000001	11.125	43.075	32.725
14	13.975000000000001	35.175	19.825	31.025000000000002
15	25.174999999999997	32.800000000000004	9.9	32.125
16	32.15	39.300000000000004	21.6	6.950000000000001
17	21.45	39.175	9.275	30.099999999999998
18	35.725	9.65	22.525000000000002	32.1
19	44.625	11.4	36.55	7.425
20	21.7	13.100000000000001	35.025	30.175
21	38.925	11.774999999999999	43.75	5.55
22	58.325	13.750000000000002	21.425	6.5
23	11.95	49.3	9.125	29.625
24	42.925000000000004	42.75	7.225	7.1
25	14.549999999999999	42.25	12.525	30.675
26	10.274999999999999	13.8	41.125	34.8
27	13.125	9.675	11.625	65.575
28	24.0	13.125	4.025	58.85
29	46.325	40.45	3.5999999999999996	9.625
30	40.050000000000004	27.775	4.45	27.725
31	13.985489116837629	26.920190142606952	49.787340505379035	9.306980235176383
32	41.6	20.349999999999998	6.875000000000001	31.175000000000004
33	14.924999999999999	68.15	5.375	11.55
34	22.75	37.15	5.125	34.975
35	12.675	17.075000000000003	47.949999999999996	22.3
36	33.78378378378378	26.351351351351347	24.54954954954955	15.315315315315313
>>END_MODULE
>>Per sequence GC content	fail
#GC Content	Count
0	1.0
1	0.5
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	0.5
14	1.0
15	1.0
16	1.0
17	1.0
18	1.5
19	2.0
20	2.0
21	1.5
22	1.0
23	1.0
24	2.5
25	4.0
26	3.5
27	3.0
28	3.0
29	3.5
30	4.0
31	4.0
32	5.5
33	7.0
34	7.0
35	10.5
36	14.0
37	14.0
38	37.5
39	61.0
40	76.0
41	91.0
42	91.0
43	269.0
44	447.0
45	447.0
46	395.0
47	343.0
48	343.0
49	315.0
50	287.0
51	727.5
52	1168.0
53	1168.0
54	724.5
55	281.0
56	281.0
57	271.0
58	261.0
59	261.0
60	508.5
61	756.0
62	756.0
63	487.5
64	219.0
65	127.0
66	35.0
67	35.0
68	21.5
69	8.0
70	8.0
71	4.5
72	1.0
73	1.0
74	2.0
75	3.0
76	1.5
77	0.0
78	0.0
79	0.5
80	1.0
81	1.0
82	0.5
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	0.0
3	0.0
4	0.0
5	0.0
6	0.0
7	0.0
8	0.025
9	0.0
10	0.025
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	0.075
32	0.0
33	0.0
34	0.0
35	0.0
36	0.1
>>END_MODULE
>>Sequence Length Distribution	pass
#Length	Count
36	4000.0
>>END_MODULE
>>Sequence Duplication Levels	fail
#Total Deduplicated Percentage	31.65
#Duplication Level	Percentage of deduplicated	Percentage of total
1	84.4391785150079	26.724999999999998
2	5.924170616113744	3.75
3	2.6066350710900474	2.475
4	2.0537124802527646	2.6
5	0.8688783570300158	1.375
6	0.8688783570300158	1.6500000000000001
7	0.3949447077409162	0.8750000000000001
8	0.315955766192733	0.8
9	0.3949447077409162	1.125
>10	1.7377567140600316	14.075
>50	0.1579778830963665	2.85
>100	0.07898894154818326	3.7249999999999996
>500	0.1579778830963665	37.974999999999994
>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
AGATCGGAAGAGCACACGTCTGAACTCCAGTCACTG	904	22.6	TruSeq Adapter, Index 2 (97% over 35bp)
CGCGACCTCAGATCAGACGTGGCGACCCGCTGAATT	615	15.375	No Hit
TGAGGTAGTAGGTTGTATGGTTAGATCGGAAGAGCA	149	3.7249999999999996	No Hit
TGAGGTAGTAGTTTGTGCTGTTAGATCGGAAGAGCA	60	1.5	No Hit
GGCTGGTCCGAAGGTAGTGAGTTATCTCAATTAGAT	54	1.35	No Hit
CGCGACCTCAGATCAGACGTGGCGACCCGCTGAAAG	49	1.225	No Hit
TGAGGTAGTAGGTTGTGTGGTTAGATCGGAAGAGCA	47	1.175	No Hit
CGCGACCTCAGATCAGACGTAGATCGGAAGAGCACA	46	1.15	No Hit
GGCTGGTCCGAAGGTAGTGAGTTATCTCAATAGATC	46	1.15	No Hit
TGGAATGTAAGGAAGTGTGTGGAGATCGGAAGAGCA	43	1.075	No Hit
GTCTACGGCCATACCACCCTGAACGCGCCCGATCTC	33	0.8250000000000001	No Hit
TAGCTTATCAGACTGATGTTGACAGATCGGAAGAGC	31	0.775	No Hit
CCGCGACCTCAGATCAGACGTGGCGACCCGCTGAAT	31	0.775	No Hit
GGAAGAGCACACGTCTGAACTCCAGTCACTGACCAA	25	0.625	TruSeq Adapter, Index 4 (100% over 36bp)
CGCGACCTCAGATCAGACGTGGCAGATCGGAAGAGC	25	0.625	No Hit
CGCGACCTCAGATCAGACGTGGCGACCCGCTGAATA	25	0.625	No Hit
GTTTCCGTAGTGTAGTGGTTATCAGATCGGAAGAGC	21	0.525	No Hit
TGAGGTAGTAGGTTGTATAGTTAGATCGGAAGAGCA	20	0.5	No Hit
CGCGACCTCAGATCAGAAGATCGGAAGAGCACACGT	17	0.42500000000000004	No Hit
TGAGGTAGTAGATTGTATAGTTAGATCGGAAGAGCA	17	0.42500000000000004	No Hit
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGCTCTC	16	0.4	No Hit
CGCGACCTCAGATCAGATCGGAAGAGCACACGTCTG	14	0.35000000000000003	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
AACCCGTAGATCCGATCTTGTAGATCGGAAGAGCAC	12	0.3	No Hit
TTCAAGTAATCCAGGATAGGCTAGATCGGAAGAGCA	12	0.3	No Hit
CGCGACCTCAGATCAGACAGATCGGAAGAGCACACG	12	0.3	No Hit
TCCCTGTGGTCTAGTGGTTAGGATTCGGCGCTAGAT	11	0.27499999999999997	No Hit
CGCGACCTCAGATCAGACGAGATCGGAAGAGCACAC	10	0.25	No Hit
TGGAAGACTAGTGATTTTGTTGTTAGATCGGAAGAG	9	0.22499999999999998	No Hit
GACTCTTAGCGGTGGATCACTCGGCTCAGATCGGAA	9	0.22499999999999998	No Hit
GGGGATGTAGCTCAGTGGTAGATCGGAAGAGCACAC	9	0.22499999999999998	No Hit
TGAGGTAGTAGGTTGTATGGTCAGATCGGAAGAGCA	9	0.22499999999999998	No Hit
TGAGGTAGTAGGTTGTGTGGTCAGATCGGAAGAGCA	9	0.22499999999999998	No Hit
TGAGGTAGTAGGTTGTGTGGTAGATCGGAAGAGCAC	8	0.2	No Hit
GTAGTCGTGGCCGAGTGGTTAGATCGGAAGAGCACA	8	0.2	No Hit
GGCTGGTCCGAAGGTAGTGAGTTATCTCAAGATCGG	8	0.2	No Hit
AGAGGTAGTAGGTTGCATAGTTAGATCGGAAGAGCA	8	0.2	No Hit
CGCGACCTCAGATCAGACGTGGCGACCCGCTGAGAT	7	0.17500000000000002	No Hit
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGCTAGA	7	0.17500000000000002	No Hit
CTCGCTGCGATCTATTGAAAGTCAGCCCTCGACACA	7	0.17500000000000002	No Hit
TGAGATGAAGCACTGTAGCTCAGATCGGAAGAGCAC	7	0.17500000000000002	No Hit
TAGCTTATCAGACTGATGTTGACTAGATCGGAAGAG	7	0.17500000000000002	No Hit
TGAGGTAGTAGGTTGTATGGTAGATCGGAAGAGCAC	6	0.15	No Hit
GGCTGGTCCGAAGGTAGTGAGTTATCTCAATTGATT	6	0.15	No Hit
AGATCGGAAGAGCACACGTCTGAACTCAGTCACTGA	6	0.15	Illumina Multiplexing PCR Primer 2.01 (96% over 27bp)
CGCGACCTCAGATCAGACGTGGCGACCCGCTGAAGA	6	0.15	No Hit
CGCGACCCCAGATCAGACGTGGCGACCCGCTGAATT	6	0.15	No Hit
TAGCTTATCAGACTGATGTTGACAAGATCGGAAGAG	6	0.15	No Hit
AGATCGGAAGAGCACACGTTGAACTCCAGTCACTGA	6	0.15	No Hit
CGACTCTTAGCGGTGGATCACTCGGCTCAGATCGGA	6	0.15	No Hit
GATCGGAAGAGCACACGTCTGAACTCCAGTCACTGA	6	0.15	TruSeq Adapter, Index 2 (97% over 36bp)
TGTAAACATCCCCGACTGGAAGCAGATCGGAAGAGC	6	0.15	No Hit
CGCGACCTCAGATCAGACGTGGCGACCCGCAGATCG	6	0.15	No Hit
TGGAATGTAAGGAAGTGTGTAGATCGGAAGAGCACA	5	0.125	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCAGATCGGA	5	0.125	No Hit
TGAGGTAGTAGGTTGTGTGGTTTAGATCGGAAGAGC	5	0.125	No Hit
GGCTGGTCCGAAGGTAGTGAGTTATCTCAAAGATCG	5	0.125	No Hit
CGCGACCTCAGATCAGACGTGGCGACCCGCTGAACA	5	0.125	No Hit
TGAGGTAGTAGGTTGTATGGTTAAGATCGGAAGAGC	5	0.125	No Hit
AAGATCGGAAGAGCACACGTCTGAACTCCAGTCACT	5	0.125	Illumina Multiplexing PCR Primer 2.01 (100% over 34bp)
CTAGACTGAGGCTCCTTGAGGAGATCGGAAGAGCAC	5	0.125	No Hit
CACCCGTAGAACCGACCTTGCGAGATCGGAAGAGCA	5	0.125	No Hit
CGCGACCTCAGATCAGACGCAGATCGGAAGAGCACA	5	0.125	No Hit
TACCTGGTTGATCCTGCCAGATCGGAAGAGCACACG	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	24.325	0.0	0.0	0.0	0.0
2	24.625	0.0	0.0	0.0	0.0
3	24.7	0.0	0.0	0.0	0.0
4	24.75	0.0	0.0	0.0	0.0
5	24.775	0.0	0.0	0.0	0.0
6	24.775	0.0	0.0	0.0	0.0
7	24.85	0.0	0.0	0.0	0.0
8	24.875	0.0	0.0	0.0	0.0
9	25.0	0.0	0.0	0.0	0.0
10	25.25	0.0	0.0	0.0	0.0
11	25.475	0.0	0.0	0.0	0.0
12	25.65	0.0	0.0	0.0	0.0
13	26.0	0.0	0.0	0.0	0.0
14	26.375	0.0	0.0	0.0	0.0
15	27.425	0.0	0.0	0.0	0.0
16	28.2	0.0	0.0	0.0	0.0
17	29.025	0.0	0.0	0.0	0.0
18	30.3	0.0	0.0	0.0	0.0
19	32.25	0.0	0.0	0.0	0.0
20	33.725	0.0	0.0	0.0	0.0
21	36.6	0.0	0.0	0.0	0.0
22	39.9	0.0	0.0	0.0	0.0
23	52.95	0.0	0.0	0.0	0.0
24	57.325	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	fail
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
GAGGTAG	55	6.366463E-11	30.000002	2
GGTTGTA	30	2.707939E-5	30.000002	11
AGTAGGT	45	1.1683369E-8	30.000002	7
CTGAATT	55	6.366463E-11	30.000002	30
TAGTAGG	45	1.1683369E-8	30.000002	6
GGTAGTA	55	6.366463E-11	30.000002	4
AGGTTGT	45	1.1683369E-8	30.000002	10
GTAGGTT	45	1.1683369E-8	30.000002	8
AGGTAGT	55	6.366463E-11	30.000002	3
GTAGTAG	55	6.366463E-11	30.000002	5
GTTGTAT	30	2.707939E-5	30.000002	12
TAGGTTG	45	1.1683369E-8	30.000002	9
GTATGGT	25	3.5274107E-4	30.0	15
TTGTATG	25	3.5274107E-4	30.0	13
TGAGGTA	50	8.6583896E-10	30.0	1
TGTATGG	25	3.5274107E-4	30.0	14
ATGGTTA	20	0.00456452	29.999998	17
TATGGTT	20	0.00456452	29.999998	16
AGACGTG	75	0.0	28.0	15
GACGTGG	75	0.0	28.0	16
>>END_MODULE
Read 46167 spots for SRR30542865.sra
Written 46167 spots for SRR30542865.sra
Read 46167 spots for SRR30542865.sra
Written 46167 spots for SRR30542865.sra
Read 46167 spots for SRR30542865.sra
Written 46167 spots for SRR30542865.sra
Read 46167 spots for SRR30542865.sra
Written 46167 spots for SRR30542865.sra
Read 46167 spots for SRR30542865.sra
Written 46167 spots for SRR30542865.sra
Read 46167 spots for SRR30542865.sra
Written 46167 spots for SRR30542865.sra
Read 46167 spots for SRR30542865.sra
Written 46167 spots for SRR30542865.sra
Read 46173 spots for SRR30542865.sra
Written 46173 spots for SRR30542865.sra
SRR ids: ['SRR30542865.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_3j9cod9y
SRR30542865.sra spots: 369342
blocks: [[1, 46167], [46168, 92334], [92335, 138501], [138502, 184668], [184669, 230835], [230836, 277002], [277003, 323169], [323170, 369342]]
SRR30542865 file size 52624
SRR30542865 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 SRR30542865 SRR30542865_1.fastq
Input file:	SRR30542865_1.fastq
trimmed:	SRR30542865-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 Nov  6 05:36:28 2025 >> started

Thu Nov  6 05:36:28 2025 >> done (0.220s)
369342 reads processed; of these:
  1330 ( 0.36%) short reads filtered out after trimming by size control
 89170 (24.14%) empty reads filtered out after trimming by size control
278842 (75.50%) reads available; of these:
    23 ( 0.01%) trimmed reads available after processing
278819 (99.99%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 35	    23	  0.01%
 36	278819	 99.99%
278842 reads passed initial QC


criterion=sequence-density
sequence-density=44.48
sequence-density-rank=1
fanout-score=14.35
fanout-score-rank=2
prefix-density=49.28
prefix-fanout=13.0
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACTGACCAA


criterion=fanout-score
sequence-density=1.83
sequence-density-rank=8
fanout-score=15.09
fanout-score-rank=1
prefix-density=27.31
prefix-fanout=1.0
sequence=GACCCGCTGAAAG
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 AGATCGGAAGAGCACACGTCTGAACTCCAGTCACTGACCAA -o SRR30542865 -
Input file:	STDIN
trimmed:	SRR30542865-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	AGATCGGAAGAGCACACGTCTGAACTCCAGTCACTGACCAA
-- 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 Nov  6 05:36:30 2025 >> started

Thu Nov  6 05:36:30 2025 >> done (0.181s)
266449 reads processed; of these:
 20374 ( 7.65%) short reads filtered out after trimming by size control
   506 ( 0.19%) empty reads filtered out after trimming by size control
245569 (92.16%) reads available; of these:
147954 (60.25%) trimmed reads available after processing
 97615 (39.75%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  6306	  2.57%
 19	  5134	  2.09%
 20	 10129	  4.12%
 21	 12624	  5.14%
 22	 47811	 19.47%
 23	 16106	  6.56%
 24	  5967	  2.43%
 25	  3726	  1.52%
 26	  2885	  1.17%
 27	  3937	  1.60%
 28	  4472	  1.82%
 29	  2741	  1.12%
 30	  3557	  1.45%
 31	  9008	  3.67%
 32	  9381	  3.82%
 33	  4170	  1.70%
 34	     0	  0.00%
 35	    15	  0.01%
 36	 97600	 39.74%


criterion=sequence-density
sequence-density=10.97
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=7
prefix-density=0.00
prefix-fanout=1.0
sequence=TGAGGTAGTAGGTTGTATGGTTAGATCGGA


criterion=fanout-score
sequence-density=0.32
sequence-density-rank=26
fanout-score=36.04
fanout-score-rank=1
prefix-density=11.53
prefix-fanout=1.0
sequence=GTAGTAGGTTGCATAGTT
                                 Started job on |	Nov 06 05:36:39
                             Started mapping on |	Nov 06 05:36:39
                                    Finished on |	Nov 06 05:36:45
       Mapping speed, Million of reads per hour |	154.78

                          Number of input reads |	257962
                      Average input read length |	29
                                    UNIQUE READS:
                   Uniquely mapped reads number |	54138
                        Uniquely mapped reads % |	20.99%
                          Average mapped length |	23.16
                       Number of splices: Total |	552
            Number of splices: Annotated (sjdb) |	169
                       Number of splices: GT/AG |	513
                       Number of splices: GC/AG |	17
                       Number of splices: AT/AC |	0
               Number of splices: Non-canonical |	22
                      Mismatch rate per base, % |	0.35%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.33
                        Insertion rate per base |	0.00%
                       Insertion average length |	0.00
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	87173
             % of reads mapped to multiple loci |	33.79%
        Number of reads mapped to too many loci |	94557
             % of reads mapped to too many loci |	36.66%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	7.97%
                     % of reads unmapped: other |	0.60%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	116651	116651	116651
N_multimapping	87173	87173	87173
N_noFeature	8487	11312	51228
N_ambiguous	594	509	0
UnstrandedReadsAssigned:45057 PositiveStrandReadsAssigned:42317 NegativeStrandReadsAssigned:2910
Dataset is classified positive stranded
MeadianReadLen=31 20thPercentileLength=22 echo kmer=19
SRR30542865 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: 31,715
[index] number of k-mers: 49,362,984
[index] number of equivalence classes: 166,181
[quant] running in single-end mode
[quant] will process file 1: SRR30542865-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 257,962 reads, 4,399 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 572 rounds

  31716 SRR30542865.ke.tsv
  32883 SRR30542865.se.tsv
  64599 total
==> SRR30542865.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
ENSRNOT00000047550.4	955	856	1	241.015
ENSRNOT00000040993.4	1039	940	22	4828.5
ENSRNOT00000050156.3	1545	1446	45	6420.39
ENSRNOT00000043693.3	684	585	9	3173.98
ENSRNOT00000046201.3	204	105	6	11789.1
ENSRNOT00000046108.3	681	582	13	4608.27
ENSRNOT00000049683.3	784	685	8	2409.44
ENSRNOT00000041241.3	348	249	0	0
ENSRNOT00000044582.3	297	198	12	12503.6

==> SRR30542865.se.tsv <==
ENSRNOG00000046319	0
ENSRNOG00000047964	0
ENSRNOG00000050370	0
ENSRNOG00000032365	0
ENSRNOG00000040300	0
ENSRNOG00000058808	0
ENSRNOG00000061316	0
ENSRNOG00000050129	0
ENSRNOG00000040316	0
ENSRNOG00000023659	0
SRR30542865 completed mapping pipeline successfully
