======== Trimmomatic ==========
COMMAND: ['trimmomatic', 'SE', '-threads', '12', '20080115s_1_1.fastq', 'Trimmomatic2/20080115s_1_1_S.fastq', 'ILLUMINACLIP:/mnt/4tb_raid1/workspace/frist/Bbraunii/genome/reads.vetted/Illumina_2009-02-02/Delivery_2008.01.15/adapters.fa:2:30:10:2:false', 'SLIDINGWINDOW:8:10', 'MINLEN:50']
Start time: 2021-06-10 15:17:37.751801

TrimmomaticSE: Started with arguments:
 -threads 12 20080115s_1_1.fastq Trimmomatic2/20080115s_1_1_S.fastq ILLUMINACLIP:/mnt/4tb_raid1/workspace/frist/Bbraunii/genome/reads.vetted/Illumina_2009-02-02/Delivery_2008.01.15/adapters.fa:2:30:10:2:false SLIDINGWINDOW:8:10 MINLEN:50
Using Medium Clipping Sequence: 'AGATCGGAAGAGCGTCGTGT'
Using Medium Clipping Sequence: 'AGATCGGAAGAGCGGTTCAG'
ILLUMINACLIP: Using 0 prefix pairs, 2 forward/reverse sequences, 0 forward only sequences, 0 reverse only sequences
Quality encoding detected as phred33
Input Reads: 5702980 Surviving: 5327748 (93.42%) Dropped: 375232 (6.58%)
TrimmomaticSE: Completed successfully

Finish time: 2021-06-10 15:17:52.736133
Elapsed time: 0:00:14.984332
======== Trimmomatic ==========
COMMAND: ['trimmomatic', 'SE', '-threads', '12', '20080115s_2_1.fastq', 'Trimmomatic2/20080115s_2_1_S.fastq', 'ILLUMINACLIP:/mnt/4tb_raid1/workspace/frist/Bbraunii/genome/reads.vetted/Illumina_2009-02-02/Delivery_2008.01.15/adapters.fa:2:30:10:2:false', 'SLIDINGWINDOW:8:10', 'MINLEN:50']
Start time: 2021-06-10 15:17:52.736344

TrimmomaticSE: Started with arguments:
 -threads 12 20080115s_2_1.fastq Trimmomatic2/20080115s_2_1_S.fastq ILLUMINACLIP:/mnt/4tb_raid1/workspace/frist/Bbraunii/genome/reads.vetted/Illumina_2009-02-02/Delivery_2008.01.15/adapters.fa:2:30:10:2:false SLIDINGWINDOW:8:10 MINLEN:50
Using Medium Clipping Sequence: 'AGATCGGAAGAGCGTCGTGT'
Using Medium Clipping Sequence: 'AGATCGGAAGAGCGGTTCAG'
ILLUMINACLIP: Using 0 prefix pairs, 2 forward/reverse sequences, 0 forward only sequences, 0 reverse only sequences
Quality encoding detected as phred33
Input Reads: 6359249 Surviving: 5922041 (93.12%) Dropped: 437208 (6.88%)
TrimmomaticSE: Completed successfully

Finish time: 2021-06-10 15:18:06.389612
Elapsed time: 0:00:13.653268
======== Trimmomatic ==========
COMMAND: ['trimmomatic', 'SE', '-threads', '12', '20080115s_3_1.fastq', 'Trimmomatic2/20080115s_3_1_S.fastq', 'ILLUMINACLIP:/mnt/4tb_raid1/workspace/frist/Bbraunii/genome/reads.vetted/Illumina_2009-02-02/Delivery_2008.01.15/adapters.fa:2:30:10:2:false', 'SLIDINGWINDOW:8:10', 'MINLEN:50']
Start time: 2021-06-10 15:18:06.389893

TrimmomaticSE: Started with arguments:
 -threads 12 20080115s_3_1.fastq Trimmomatic2/20080115s_3_1_S.fastq ILLUMINACLIP:/mnt/4tb_raid1/workspace/frist/Bbraunii/genome/reads.vetted/Illumina_2009-02-02/Delivery_2008.01.15/adapters.fa:2:30:10:2:false SLIDINGWINDOW:8:10 MINLEN:50
Using Medium Clipping Sequence: 'AGATCGGAAGAGCGTCGTGT'
Using Medium Clipping Sequence: 'AGATCGGAAGAGCGGTTCAG'
ILLUMINACLIP: Using 0 prefix pairs, 2 forward/reverse sequences, 0 forward only sequences, 0 reverse only sequences
Quality encoding detected as phred33
Input Reads: 6298597 Surviving: 5804437 (92.15%) Dropped: 494160 (7.85%)
TrimmomaticSE: Completed successfully

Finish time: 2021-06-10 15:18:21.292187
Elapsed time: 0:00:14.902294
======== Trimmomatic ==========
COMMAND: ['trimmomatic', 'SE', '-threads', '12', '20080115s_4_1.fastq', 'Trimmomatic2/20080115s_4_1_S.fastq', 'ILLUMINACLIP:/mnt/4tb_raid1/workspace/frist/Bbraunii/genome/reads.vetted/Illumina_2009-02-02/Delivery_2008.01.15/adapters.fa:2:30:10:2:false', 'SLIDINGWINDOW:8:10', 'MINLEN:50']
Start time: 2021-06-10 15:18:21.292542

TrimmomaticSE: Started with arguments:
 -threads 12 20080115s_4_1.fastq Trimmomatic2/20080115s_4_1_S.fastq ILLUMINACLIP:/mnt/4tb_raid1/workspace/frist/Bbraunii/genome/reads.vetted/Illumina_2009-02-02/Delivery_2008.01.15/adapters.fa:2:30:10:2:false SLIDINGWINDOW:8:10 MINLEN:50
Using Medium Clipping Sequence: 'AGATCGGAAGAGCGTCGTGT'
Using Medium Clipping Sequence: 'AGATCGGAAGAGCGGTTCAG'
ILLUMINACLIP: Using 0 prefix pairs, 2 forward/reverse sequences, 0 forward only sequences, 0 reverse only sequences
Quality encoding detected as phred33
Input Reads: 6391457 Surviving: 5974218 (93.47%) Dropped: 417239 (6.53%)
TrimmomaticSE: Completed successfully

Finish time: 2021-06-10 15:18:43.433794
Elapsed time: 0:00:22.141252