Starting /dee2/code/volunteer_pipeline.sh SRR30542861
    current disk space = 1199637292
    free memory = 199767384 
SRR30542861 SRAfilesize
cabd161ef3b3e75c5036484fa3731fe6  SRR30542861.sra
SRR30542861.sra file validated
SRR30542861 is single end
SRR30542861 is conventional basespace
SRR30542861 read1 length is 36 nt
##FastQC	0.11.5
>>Basic Statistics	pass
#Measure	Value
Filename	SRR30542861_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	32.915	32.0	32.0	32.0	32.0	37.0
2	34.0835	32.0	32.0	37.0	32.0	37.0
3	35.85825	37.0	37.0	37.0	32.0	37.0
4	36.03325	37.0	37.0	37.0	32.0	37.0
5	36.3665	37.0	37.0	37.0	37.0	37.0
6	36.61875	37.0	37.0	37.0	37.0	37.0
7	36.57575	37.0	37.0	37.0	37.0	37.0
8	36.713	37.0	37.0	37.0	37.0	37.0
9	36.71125	37.0	37.0	37.0	37.0	37.0
10	36.6575	37.0	37.0	37.0	37.0	37.0
11	36.73225	37.0	37.0	37.0	37.0	37.0
12	36.638	37.0	37.0	37.0	37.0	37.0
13	36.68325	37.0	37.0	37.0	37.0	37.0
14	36.72425	37.0	37.0	37.0	37.0	37.0
15	36.689	37.0	37.0	37.0	37.0	37.0
16	36.723	37.0	37.0	37.0	37.0	37.0
17	36.667	37.0	37.0	37.0	37.0	37.0
18	36.67425	37.0	37.0	37.0	37.0	37.0
19	36.70025	37.0	37.0	37.0	37.0	37.0
20	36.71575	37.0	37.0	37.0	37.0	37.0
21	36.7295	37.0	37.0	37.0	37.0	37.0
22	36.66325	37.0	37.0	37.0	37.0	37.0
23	36.5665	37.0	37.0	37.0	37.0	37.0
24	36.6575	37.0	37.0	37.0	37.0	37.0
25	36.524	37.0	37.0	37.0	37.0	37.0
26	36.6005	37.0	37.0	37.0	37.0	37.0
27	36.68	37.0	37.0	37.0	37.0	37.0
28	36.6885	37.0	37.0	37.0	37.0	37.0
29	36.72325	37.0	37.0	37.0	37.0	37.0
30	36.6355	37.0	37.0	37.0	37.0	37.0
31	36.5175	37.0	37.0	37.0	37.0	37.0
32	36.67675	37.0	37.0	37.0	37.0	37.0
33	36.58225	37.0	37.0	37.0	37.0	37.0
34	36.5665	37.0	37.0	37.0	37.0	37.0
35	36.53025	37.0	37.0	37.0	37.0	37.0
36	36.36425	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
23	4.0
24	5.0
25	6.0
26	2.0
27	4.0
28	10.0
29	15.0
30	20.0
31	20.0
32	28.0
33	42.0
34	63.0
35	155.0
36	3034.0
37	592.0
>>END_MODULE
>>Per base sequence content	fail
#Base	G	A	T	C
1	17.349999999999998	17.45	27.175	38.025
2	66.925	10.075000000000001	10.875	12.125
3	15.049999999999999	31.025000000000002	9.1	44.824999999999996
4	55.800000000000004	10.65	21.375	12.174999999999999
5	28.175	42.1	13.225000000000001	16.5
6	24.15	8.175	27.500000000000004	40.175
7	27.1	21.625	15.725	35.55
8	26.35	17.4	46.425	9.825000000000001
9	14.174999999999999	24.349999999999998	23.45	38.025
10	30.740370185092548	52.80140070035018	8.404202101050526	8.054027013506754
11	58.62500000000001	19.2	11.675	10.5
12	30.475	42.95	14.85	11.725
13	14.35	12.975	53.574999999999996	19.1
14	15.9	24.2	24.349999999999998	35.55
15	36.05	38.074999999999996	10.375	15.5
16	38.175	22.7	30.975	8.15
17	27.875	45.550000000000004	12.3	14.274999999999999
18	25.35	11.3	24.55	38.800000000000004
19	48.85	16.85	26.025	8.275
20	27.650000000000002	17.325	41.525	13.5
21	46.6	15.325	30.625000000000004	7.449999999999999
22	47.63690922730683	19.679919979995	25.406351587896975	7.276819204801201
23	16.5	38.550000000000004	10.45	34.5
24	51.05	30.0	10.475	8.475000000000001
25	19.0	50.025	15.5	15.475
26	14.124999999999998	16.975	29.225	39.675
27	18.2	11.924999999999999	15.2	54.675
28	32.125	15.8	4.6	47.475
29	59.099999999999994	27.425	4.75	8.725
30	28.625	35.85	4.25	31.275
31	17.71771771771772	37.187187187187185	35.33533533533533	9.75975975975976
32	51.15	25.174999999999997	7.5	16.175
33	22.025	59.8	6.0249999999999995	12.15
34	28.499999999999996	44.1	5.050000000000001	22.35
35	17.25	28.249999999999996	26.525	27.975
36	14.117647058823529	33.516896120150186	30.888610763454317	21.476846057571965
>>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	0.5
8	1.0
9	1.0
10	0.5
11	0.0
12	0.0
13	1.0
14	2.0
15	1.5
16	1.0
17	1.0
18	3.0
19	5.0
20	5.0
21	4.0
22	3.0
23	3.0
24	2.0
25	1.0
26	3.0
27	5.0
28	5.0
29	6.5
30	8.0
31	8.0
32	10.0
33	12.0
34	12.0
35	14.0
36	16.0
37	16.0
38	76.5
39	137.0
40	129.5
41	122.0
42	122.0
43	293.0
44	464.0
45	464.0
46	475.0
47	486.0
48	486.0
49	521.5
50	557.0
51	434.5
52	312.0
53	312.0
54	355.5
55	399.0
56	399.0
57	365.0
58	331.0
59	331.0
60	577.0
61	823.0
62	823.0
63	537.0
64	251.0
65	150.0
66	49.0
67	49.0
68	31.0
69	13.0
70	13.0
71	6.5
72	0.0
73	0.0
74	0.5
75	1.0
76	1.0
77	1.0
78	1.0
79	0.5
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	0.0
3	0.0
4	0.0
5	0.0
6	0.0
7	0.0
8	0.0
9	0.0
10	0.05
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	0.025
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	0.1
32	0.0
33	0.0
34	0.0
35	0.0
36	0.125
>>END_MODULE
>>Sequence Length Distribution	pass
#Length	Count
36	4000.0
>>END_MODULE
>>Sequence Duplication Levels	fail
#Total Deduplicated Percentage	36.8
#Duplication Level	Percentage of deduplicated	Percentage of total
1	83.0163043478261	30.55
2	7.4728260869565215	5.5
3	2.5135869565217392	2.775
4	1.970108695652174	2.9000000000000004
5	1.0869565217391304	2.0
6	0.4755434782608696	1.05
7	0.33967391304347827	0.8750000000000001
8	0.2717391304347826	0.8
9	0.1358695652173913	0.44999999999999996
>10	1.970108695652174	13.675
>50	0.5434782608695652	14.75
>100	0.1358695652173913	8.9
>500	0.06793478260869565	15.775
>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
CGCGACCTCAGATCAGACGTGGCGACCCGCTGAATT	631	15.775	No Hit
AGATCGGAAGAGCACACGTCTGAACTCCAGTCACAT	250	6.25	TruSeq Adapter, Index 1 (100% over 35bp)
TGAGGTAGTAGGTTGTATGGTTAGATCGGAAGAGCA	106	2.65	No Hit
TGAGGTAGTAGTTTGTGCTGTTAGATCGGAAGAGCA	98	2.45	No Hit
CGCGACCTCAGATCAGACGTGGCGACCCGCTGAAAG	92	2.3	No Hit
GTTTCCGTAGTGTAGTGGTTATCAGATCGGAAGAGC	88	2.1999999999999997	No Hit
TGAGGTAGTAGATTGTATAGTTAGATCGGAAGAGCA	86	2.15	No Hit
TGGAATGTAAGGAAGTGTGTGGAGATCGGAAGAGCA	61	1.525	No Hit
CGCGACCTCAGATCAGACGTAGATCGGAAGAGCACA	57	1.425	No Hit
GGCTGGTCCGAAGGTAGTGAGTTATCTCAATTAGAT	56	1.4000000000000001	No Hit
CGCGACCTCAGATCAGACGTGGCGACCCGCTGAATA	52	1.3	No Hit
TGAGGTAGTAGGTTGTGTGGTTAGATCGGAAGAGCA	43	1.075	No Hit
CGCGACCTCAGATCAGACGTGGCAGATCGGAAGAGC	40	1.0	No Hit
TGAGGTAGTAGGTTGTATAGTTAGATCGGAAGAGCA	39	0.975	No Hit
CTAGACTGAGGCTCCTTGAGGAGATCGGAAGAGCAC	35	0.8750000000000001	No Hit
GGGGATGTAGCTCAGTGGTAGATCGGAAGAGCACAC	34	0.8500000000000001	No Hit
TAGCTTATCAGACTGATGTTGACAGATCGGAAGAGC	29	0.7250000000000001	No Hit
GGCTGGTCCGAAGGTAGTGAGTTATCTCAATAGATC	28	0.7000000000000001	No Hit
CCGCGACCTCAGATCAGACGTGGCGACCCGCTGAAT	22	0.5499999999999999	No Hit
CGCGACCTCAGATCAGACGTGAGATCGGAAGAGCAC	21	0.525	No Hit
CGCGACCTCAGATCAGATCGGAAGAGCACACGTCTG	18	0.44999999999999996	Illumina Multiplexing PCR Primer 2.01 (100% over 22bp)
CGCGACCTCAGATCAGACAGATCGGAAGAGCACACG	18	0.44999999999999996	No Hit
GTCTACGGCCATACCACCCTGAACGCGCCCGATCTC	17	0.42500000000000004	No Hit
GGCTTTTTAAGTCGGATGTGAGATCGGAAGAGCACA	16	0.4	No Hit
CGACTCTTAGCGGTGGATCACTCGGCTCGTGAGATC	16	0.4	No Hit
AACCCGTAGATCCGATCTTGTAGATCGGAAGAGCAC	14	0.35000000000000003	No Hit
GCCGGTACAGTGAAACTAGATCGGAAGAGCACACGT	14	0.35000000000000003	No Hit
ACTGGACTTGGAGTCAGAAGGCAGATCGGAAGAGCA	14	0.35000000000000003	No Hit
TGGAATGTAAGGAAGTGTGTGAGATCGGAAGAGCAC	12	0.3	No Hit
CACCCGTAGAACCGACCTTGCGAGATCGGAAGAGCA	12	0.3	No Hit
TGAGATGAAGCACTGTAGCTCAGATCGGAAGAGCAC	12	0.3	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCAGATC	11	0.27499999999999997	No Hit
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGCTAGA	11	0.27499999999999997	No Hit
CTCGCTGCGATCTATTGAAAGTCAGCCCTCGACACA	11	0.27499999999999997	No Hit
CGCGACCTCAGATCAGACGTGGCGACCCGCTGAAGA	10	0.25	No Hit
CGACTCTTAGCGGTGGATCACTCGGCTCAGATCGGA	10	0.25	No Hit
TTCAAGTAATCCAGGATAGGCTAGATCGGAAGAGCA	10	0.25	No Hit
GACTCTTAGCGGTGGATCACTCGGCTCGTGCGTCGA	10	0.25	No Hit
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGCTCTC	10	0.25	No Hit
CGCGACCTCAGATCAGACGTGGCGACCCGCAGATCG	10	0.25	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCAGATCGGA	9	0.22499999999999998	No Hit
TCTCTGTGCTGATTGTCATGTTCTGATCAGATCGGA	9	0.22499999999999998	No Hit
CGCGACCTCAGATCGGAAGAGCACACGTCTGAACTC	8	0.2	Illumina Multiplexing PCR Primer 2.01 (100% over 27bp)
TGAGGTAGTAGGTTGTATGGTAGATCGGAAGAGCAC	8	0.2	No Hit
CGCGACCTCAGATCAGACGGAGATCGGAAGAGCACA	8	0.2	No Hit
GGAAGAGCACACGTCTGAACTCCAGTCACATCACGA	8	0.2	TruSeq Adapter, Index 1 (100% over 36bp)
TCGATGTGGTGCTGCCGCGTTCTCTTCGGGCCGGGG	7	0.17500000000000002	No Hit
TCCCTGTGGTCTAGTGGTTAGGATTCGGCGCTCTCA	7	0.17500000000000002	No Hit
CGCGACCTCAGATCAGGCGTGGCGACCCGCTGAATT	7	0.17500000000000002	No Hit
TGAGGTAGTAGTTTGTGCTGTGAGATCGGAAGAGCA	7	0.17500000000000002	No Hit
TGAGGTAGTAGATTGTATAGTAGATCGGAAGAGCAC	7	0.17500000000000002	No Hit
GGCTGGTCCGAAGGTAGTGAGTTATCTCAATTGATT	6	0.15	No Hit
CGCGACCTCAGATCAGAAGATCGGAAGAGCACACGT	6	0.15	No Hit
TGAGGTAGTAGTTTGTGCTGTAGATCGGAAGAGCAC	6	0.15	No Hit
GACTCTTAGCGGTGGATCACTCGGCTCGTGCGAGAT	6	0.15	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGCCA	6	0.15	No Hit
TGTAAACATCCCCGACTGGAAGCAGATCGGAAGAGC	6	0.15	No Hit
TAAGGCCGAGAGCTGATGACGAGTTACAGATCGGAA	6	0.15	No Hit
CGCGACCTCAGATCAGACGTGGCGACCCGCTAGATC	5	0.125	No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTAGAT	5	0.125	No Hit
GACTCTTAGCGGTGGATCACTCGGCTCGTGAGATCG	5	0.125	No Hit
TGAGGTAGTAGTTTGTGCTGTTAAGATCGGAAGAGC	5	0.125	No Hit
GGCCGGTACAGTGAAACTAGATCGGAAGAGCACACG	5	0.125	No Hit
TGAGGTAGTAGGTTGTATGGTGAGATCGGAAGAGCA	5	0.125	No Hit
CGCGACCTCAGATCAGACGAGATCGGAAGAGCACAC	5	0.125	No Hit
CGCGACCTCAGACCAGACGTGGCGACCCGCTGAATT	5	0.125	No Hit
TGAGGTAGTAGGTTGTATGGTTTAGATCGGAAGAGC	5	0.125	No Hit
TGAGATGAAGCACTGTAGCTCTAGATCGGAAGAGCA	5	0.125	No Hit
GACTCTTAGCGGTGGATCACTCGGCTCAGATCGGAA	5	0.125	No Hit
TGCACTGATGAAACTAGAAATAGGAAGTGCCGTCCG	5	0.125	No Hit
CGCGACCTCAGATCGGACGTGGCGACCCGCTGAATT	5	0.125	No Hit
TTCACAGTGGCTAAGTTCTGCAGATCGGAAGAGCAC	5	0.125	No Hit
CGCGACCTCAGATCAGACGTGGCGACCCGCTGAATC	5	0.125	No Hit
CGCGACCTCAGATCAGACGTGGAGATCGGAAGAGCA	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	6.725	0.0	0.0	0.0	0.0
2	6.8	0.0	0.0	0.0	0.0
3	6.8	0.0	0.0	0.0	0.0
4	6.85	0.0	0.0	0.0	0.0
5	6.85	0.0	0.0	0.0	0.0
6	6.85	0.0	0.0	0.0	0.0
7	6.85	0.0	0.0	0.0	0.0
8	6.85	0.0	0.0	0.0	0.0
9	6.925	0.0	0.0	0.0	0.0
10	7.15	0.0	0.0	0.0	0.0
11	7.275	0.0	0.0	0.0	0.0
12	7.475	0.0	0.0	0.0	0.0
13	7.8	0.0	0.0	0.0	0.0
14	8.3	0.0	0.0	0.0	0.0
15	9.325	0.0	0.0	0.0	0.0
16	10.025	0.0	0.0	0.0	0.0
17	10.9	0.0	0.0	0.0	0.0
18	12.55	0.0	0.0	0.0	0.0
19	14.425	0.0	0.0	0.0	0.0
20	17.05	0.0	0.0	0.0	0.0
21	21.125	0.0	0.0	0.0	0.0
22	26.725	0.0	0.0	0.0	0.0
23	43.675	0.0	0.0	0.0	0.0
24	50.6	0.0	0.0	0.0	0.0
>>END_MODULE
>>Kmer Content	warn
#Sequence	Count	PValue	Obs/Exp Max	Max Obs/Exp Position
GTTTGTG	30	2.707939E-5	30.000002	11
AGTAGTT	30	2.707939E-5	30.000002	7
AGTAGGT	30	2.707939E-5	30.000002	7
TAGTTTG	30	2.707939E-5	30.000002	9
TAGTAGT	30	2.707939E-5	30.000002	6
TAGTAGG	30	2.707939E-5	30.000002	6
AGACGTG	90	0.0	30.000002	15
GACGTGG	90	0.0	30.000002	16
AGGTTGT	30	2.707939E-5	30.000002	10
GTAGGTT	30	2.707939E-5	30.000002	8
TTGTGCT	30	2.707939E-5	30.000002	13
AGTTTGT	30	2.707939E-5	30.000002	10
CGACCTC	110	0.0	30.000002	3
GTAGTTT	30	2.707939E-5	30.000002	8
TTTGTGC	30	2.707939E-5	30.000002	12
ACGTGGC	90	0.0	30.000002	17
TAGGTTG	30	2.707939E-5	30.000002	9
GTGCTGT	30	2.707939E-5	30.000002	15
CGCGACC	105	0.0	30.0	1
CGCTGAA	85	0.0	30.0	28
>>END_MODULE
Read 47777 spots for SRR30542861.sra
Written 47777 spots for SRR30542861.sra
Read 47777 spots for SRR30542861.sra
Written 47777 spots for SRR30542861.sra
Read 47777 spots for SRR30542861.sra
Written 47777 spots for SRR30542861.sra
Read 47777 spots for SRR30542861.sra
Written 47777 spots for SRR30542861.sra
Read 47777 spots for SRR30542861.sra
Written 47777 spots for SRR30542861.sra
Read 47777 spots for SRR30542861.sra
Written 47777 spots for SRR30542861.sra
Read 47777 spots for SRR30542861.sra
Written 47777 spots for SRR30542861.sra
Read 47777 spots for SRR30542861.sra
Written 47777 spots for SRR30542861.sra
SRR ids: ['SRR30542861.sra']
extra args: ['--split-files', '--defline-qual', '+']
tempdir: /tmp/pfd_01wflmpt
SRR30542861.sra spots: 382216
blocks: [[1, 47777], [47778, 95554], [95555, 143331], [143332, 191108], [191109, 238885], [238886, 286662], [286663, 334439], [334440, 382216]]
SRR30542861 file size 54464
SRR30542861 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 SRR30542861 SRR30542861_1.fastq
Input file:	SRR30542861_1.fastq
trimmed:	SRR30542861-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 06:37:55 2025 >> started

Thu Nov  6 06:37:55 2025 >> done (0.122s)
382216 reads processed; of these:
   195 ( 0.05%) short reads filtered out after trimming by size control
 24712 ( 6.47%) empty reads filtered out after trimming by size control
357309 (93.48%) reads available; of these:
    42 ( 0.01%) trimmed reads available after processing
357267 (99.99%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 35	    42	  0.01%
 36	357267	 99.99%
357309 reads passed initial QC


criterion=sequence-density
sequence-density=46.93
sequence-density-rank=1
fanout-score=15.12
fanout-score-rank=1
prefix-density=51.89
prefix-fanout=13.7
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACATCACGA


criterion=fanout-score
sequence-density=46.93
sequence-density-rank=1
fanout-score=15.12
fanout-score-rank=1
prefix-density=51.89
prefix-fanout=13.7
sequence=AGATCGGAAGAGCACACGTCTGAACTCCAGTCACATCACGA
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 AGATCGGAAGAGCACACGTCTGAACTCCAGTCACATCACGA -o SRR30542861 -
Input file:	STDIN
trimmed:	SRR30542861-trimmed.fastq

Parameters used:
-- 3' end adapter sequence (-x):	AGATCGGAAGAGCACACGTCTGAACTCCAGTCACATCACGA
-- 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 06:37:56 2025 >> started

Thu Nov  6 06:37:56 2025 >> done (0.113s)
342104 reads processed; of these:
 21122 ( 6.17%) short reads filtered out after trimming by size control
   118 ( 0.03%) empty reads filtered out after trimming by size control
320864 (93.79%) reads available; of these:
203349 (63.38%) trimmed reads available after processing
117515 (36.62%) untrimmed reads available after processing

Length distribution of reads after trimming:
length	count	percentage
 18	  7390	  2.30%
 19	  9774	  3.05%
 20	 14352	  4.47%
 21	 19840	  6.18%
 22	 62389	 19.44%
 23	 26080	  8.13%
 24	  8160	  2.54%
 25	  5032	  1.57%
 26	  3425	  1.07%
 27	  4969	  1.55%
 28	  6181	  1.93%
 29	  4194	  1.31%
 30	  5403	  1.68%
 31	 10167	  3.17%
 32	 11115	  3.46%
 33	  4878	  1.52%
 34	     0	  0.00%
 35	     9	  0.00%
 36	117506	 36.62%


criterion=sequence-density
sequence-density=7.53
sequence-density-rank=1
fanout-score=0.00
fanout-score-rank=8
prefix-density=0.00
prefix-fanout=1.0
sequence=TGAGGTAGTAGGTTGTATGGTTAGATCGGA


criterion=fanout-score
sequence-density=0.34
sequence-density-rank=26
fanout-score=24.14
fanout-score-rank=1
prefix-density=8.02
prefix-fanout=1.0
sequence=GTAGTAGGTTGCATAGTT
                                 Started job on |	Nov 06 06:38:04
                             Started mapping on |	Nov 06 06:38:04
                                    Finished on |	Nov 06 06:38:11
       Mapping speed, Million of reads per hour |	172.84

                          Number of input reads |	336069
                      Average input read length |	28
                                    UNIQUE READS:
                   Uniquely mapped reads number |	78459
                        Uniquely mapped reads % |	23.35%
                          Average mapped length |	23.51
                       Number of splices: Total |	758
            Number of splices: Annotated (sjdb) |	189
                       Number of splices: GT/AG |	703
                       Number of splices: GC/AG |	27
                       Number of splices: AT/AC |	0
               Number of splices: Non-canonical |	28
                      Mismatch rate per base, % |	0.34%
                         Deletion rate per base |	0.00%
                        Deletion average length |	1.85
                        Insertion rate per base |	0.00%
                       Insertion average length |	1.80
                             MULTI-MAPPING READS:
        Number of reads mapped to multiple loci |	109535
             % of reads mapped to multiple loci |	32.59%
        Number of reads mapped to too many loci |	119949
             % of reads mapped to too many loci |	35.69%
                                  UNMAPPED READS:
       % of reads unmapped: too many mismatches |	0.00%
                 % of reads unmapped: too short |	6.83%
                     % of reads unmapped: other |	1.54%
                                  CHIMERIC READS:
                       Number of chimeric reads |	0
                            % of chimeric reads |	0.00%
N_unmapped	148075	148075	148075
N_multimapping	109535	109535	109535
N_noFeature	12985	19365	71959
N_ambiguous	1725	1602	3
UnstrandedReadsAssigned:63749 PositiveStrandReadsAssigned:57492 NegativeStrandReadsAssigned:6497
Dataset is classified positive stranded
MeadianReadLen=29 20thPercentileLength=22 echo kmer=19
SRR30542861 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: SRR30542861-trimmed.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 336,069 reads, 6,911 reads pseudoaligned
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 553 rounds

  31716 SRR30542861.ke.tsv
  32883 SRR30542861.se.tsv
  64599 total
==> SRR30542861.ke.tsv <==
target_id	length	eff_length	est_counts	tpm
ENSRNOT00000047550.4	955	856	5	749.809
ENSRNOT00000040993.4	1039	940	10	1365.61
ENSRNOT00000050156.3	1545	1446	74	6569.28
ENSRNOT00000043693.3	684	585	12	2633.18
ENSRNOT00000046201.3	204	105	3	3667.64
ENSRNOT00000046108.3	681	582	12	2646.75
ENSRNOT00000049683.3	784	685	24	4497.54
ENSRNOT00000041241.3	348	249	0	0
ENSRNOT00000044582.3	297	198	3	1944.96

==> SRR30542861.se.tsv <==
ENSRNOG00000046319	0
ENSRNOG00000047964	0
ENSRNOG00000050370	0
ENSRNOG00000032365	0
ENSRNOG00000040300	0
ENSRNOG00000058808	0
ENSRNOG00000061316	0
ENSRNOG00000050129	0
ENSRNOG00000040316	0
ENSRNOG00000023659	0
SRR30542861 completed mapping pipeline successfully
