Note that the S_pombe_refTrans.fasta and samples_n_reads_described.txt won’t be used for de novo assembly
TrinityNatureProtocolTutorial
TrinityNatureProtocolTutorial.tgz
drwxrwxr-x 3 ubuntu ubuntu 4096 Mar 5 03:25 1M_READS_sample
-rw-rw-r– 1 ubuntu ubuntu 7830629 Feb 6 2013 S_pombe_refTrans.fasta
-rw-rw-r– 1 ubuntu ubuntu 422 Feb 6 2013 samples_n_reads_described.txt
-rw-rw-r– 1 ubuntu ubuntu 703222969 Mar 4 23:53 ALL.LEFT.fq
-rw-rw-r– 1 ubuntu ubuntu 703222969 Mar 4 23:54 ALL.RIGHT.fq
-rw-rw-r– 1 ubuntu ubuntu 175846179 Feb 6 2013 Sp.ds.1M.left.fq
-rw-rw-r– 1 ubuntu ubuntu 175846179 Feb 6 2013 Sp.ds.1M.right.fq
-rw-rw-r– 1 ubuntu ubuntu 175736042 Feb 6 2013 Sp.hs.1M.left.fq
-rw-rw-r– 1 ubuntu ubuntu 175736042 Feb 6 2013 Sp.hs.1M.right.fq
-rw-rw-r– 1 ubuntu ubuntu 175741215 Feb 6 2013 Sp.log.1M.left.fq
-rw-rw-r– 1 ubuntu ubuntu 175741215 Feb 6 2013 Sp.log.1M.right.fq
-rw-rw-r– 1 ubuntu ubuntu 175899533 Feb 6 2013 Sp.plat.1M.left.fq
-rw-rw-r– 1 ubuntu ubuntu 175899533 Feb 6 2013 Sp.plat.1M.right.fq
______ ____ ____ ____ ____ ______ __ __
| || \ | || \ | || || | |
| || D ) | | | _ | | | | || | |
|_| |_|| / | | | | | | | |_| |_|| ~ |
| | | \ | | | | | | | | | |___, |
| | | . \ | | | | | | | | | | |
|__| |__|\_||____||__|__||____| |__| |____/
Left read files: $VAR1 = [ ‘ALL.LEFT.fq’ ]; Right read files: $VAR1 = [ ‘ALL.RIGHT.fq’ ];
Trinity version: Trinity-v2.6.6
NOTE: Latest version of Trinity is Trinity-v2.8.4, and can be obtained at: https://github.com/trinityrnaseq/trinityrnaseq/releases
Sunday, March 24, 2019: 18:10:34 CMD: java -Xmx64m -XX:ParallelGCThreads=2 -jar /home/ubuntu/miniconda3/opt/trinity-2.6.6/util/support_scripts/ExitTester.jar 0
Sunday, March 24, 2019: 18:10:34 CMD: java -Xmx64m -XX:ParallelGCThreads=2 -jar /home/ubuntu/miniconda3/opt/trinity-2.6.6/util/support_scripts/ExitTester.jar 1
Sunday, March 24, 2019: 18:10:34 CMD: mkdir -p /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir
Sunday, March 24, 2019: 18:10:34 CMD: mkdir -p /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/chrysalis
| ————– Trinity Phase 1: Clustering of RNA-Seq Reads ——————— |
| ———— In silico Read Normalization ——————— |
| – (Removing Excess Reads Beyond 50 Coverage – |
running normalization on reads: $VAR1 = [ [ ‘/home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/ALL.LEFT.fq’ ], [ ‘/home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/ALL.RIGHT.fq’ ] ];
Sunday, March 24, 2019: 18:10:34 CMD: /home/ubuntu/miniconda3/opt/trinity-2.6.6/util/insilico_read_normalization.pl –seqType fq –JM 10G –max_cov 50 –min_cov 1 –CPU 4 –output /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/insilico_read_normalization –max_pct_stdev 10000 –SS_lib_type RF –left /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/ALL.LEFT.fq –right /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/ALL.RIGHT.fq –pairs_together –PARALLEL_STATS
Converting input files. (both directions in parallel)CMD: seqtk-trinity seq -r -A /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/ALL.LEFT.fq >> left.fa CMD: seqtk-trinity seq -A /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/ALL.RIGHT.fq >> right.fa
CMD finished (14 seconds) CMD finished (14 seconds) CMD: touch left.fa.ok CMD finished (0 seconds) CMD: touch right.fa.ok CMD finished (0 seconds)
Done converting input files.CMD: cat left.fa right.fa > both.fa
CMD finished (1 seconds) CMD: touch both.fa.ok CMD finished (0 seconds)
| ———– Jellyfish ——————– |
| – (building a k-mer catalog from reads) – |
CMD: jellyfish count -t 4 -m 25 -s 100000000 both.fa CMD finished (86 seconds) CMD: jellyfish histo -t 4 -o jellyfish.K25.min2.kmers.fa.histo mer_counts.jf CMD finished (4 seconds) CMD: jellyfish dump -L 2 mer_counts.jf > jellyfish.K25.min2.kmers.fa CMD finished (9 seconds) CMD: touch jellyfish.K25.min2.kmers.fa.success CMD finished (0 seconds)
CMD: /home/ubuntu/miniconda3/opt/trinity-2.6.6/util/..//Inchworm/bin/fastaToKmerCoverageStats –reads left.fa –kmers jellyfish.K25.min2.kmers.fa –kmer_size 25 –num_threads 2 > left.fa.K25.stats
CMD: /home/ubuntu/miniconda3/opt/trinity-2.6.6/util/..//Inchworm/bin/fastaToKmerCoverageStats –reads right.fa –kmers jellyfish.K25.min2.kmers.fa –kmer_size 25 –num_threads 2 > right.fa.K25.stats -reading Kmer occurrences… -reading Kmer occurrences…
done parsing 11516918 Kmers, 10858353 added, taking 40 seconds.
done parsing 11516918 Kmers, 10858353 added, taking 41 seconds.
STATS_GENERATION_TIME: 231 seconds. STATS_GENERATION_TIME: 231 seconds. CMD finished (273 seconds) CMD finished (274 seconds) CMD: touch left.fa.K25.stats.ok CMD finished (0 seconds) CMD: touch right.fa.K25.stats.ok CMD finished (0 seconds) -sorting each stats file by read name.
CMD: /usr/bin/sort –parallel=4 -k5,5 -T . -S 5G left.fa.K25.stats > left.fa.K25.stats.sort
CMD: /usr/bin/sort –parallel=4 -k5,5 -T . -S 5G right.fa.K25.stats > right.fa.K25.stats.sort
CMD finished (2 seconds) CMD finished (2 seconds) CMD: touch left.fa.K25.stats.sort.ok CMD finished (0 seconds) CMD: touch right.fa.K25.stats.sort.ok CMD finished (0 seconds)
CMD: /home/ubuntu/miniconda3/opt/trinity-2.6.6/util/..//util/support_scripts//nbkc_merge_left_right_stats.pl –left left.fa.K25.stats.sort –right right.fa.K25.stats.sort –sorted > pairs.K25.stats
-opening left.fa.K25.stats.sort -opening right.fa.K25.stats.sort -done opening files. CMD finished (20 seconds) CMD: touch pairs.K25.stats.ok CMD finished (0 seconds)
CMD: /home/ubuntu/miniconda3/opt/trinity-2.6.6/util/..//util/support_scripts//nbkc_normalize.pl –stats_file pairs.K25.stats –max_cov 50 –min_cov 1 –max_pct_stdev 10000 > pairs.K25.stats.C50.pctSD10000.accs 1964251 / 4000000 = 49.11% reads selected during normalization. 0 / 4000000 = 0.00% reads discarded as likely aberrant based on coverage profiles. 0 / 4000000 = 0.00% reads missing kmer coverage (N chars included?). 0 / 4000000 = 0.00% reads discarded as below minimum coverage threshold=1 CMD finished (5 seconds)
CMD: touch pairs.K25.stats.C50.pctSD10000.accs.ok CMD finished (0 seconds)
CMD: touch /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/insilico_read_normalization/ALL.LEFT.fq.normalized_K25_maxC50_minC1_pctSD10000.fq.ok CMD finished (0 seconds)
CMD: touch /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/insilico_read_normalization/ALL.RIGHT.fq.normalized_K25_maxC50_minC1_pctSD10000.fq.ok CMD finished (0 seconds)
CMD: ln -sf /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/insilico_read_normalization/ALL.LEFT.fq.normalized_K25_maxC50_minC1_pctSD10000.fq left.norm.fq CMD finished (0 seconds)
CMD: ln -sf /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/insilico_read_normalization/ALL.RIGHT.fq.normalized_K25_maxC50_minC1_pctSD10000.fq right.norm.fq CMD finished (0 seconds) -removing tmp dir /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/insilico_read_normalization/tmp_normalized_reads
Normalization complete. See outputs:
/home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/insilico_read_normalization/ALL.LEFT.fq.normalized_K25_maxC50_minC1_pctSD10000.fq
/home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/insilico_read_normalization/ALL.RIGHT.fq.normalized_K25_maxC50_minC1_pctSD10000.fq
Sunday, March 24, 2019: 18:18:19 CMD: touch /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/insilico_read_normalization/normalization.ok Converting input files. (in parallel)Sunday, March 24, 2019: 18:18:19 CMD: cat /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/insilico_read_normalization/left.norm.fq | seqtk-trinity seq -r -A - >> left.fa Sunday, March 24, 2019: 18:18:19 CMD: cat /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/insilico_read_normalization/right.norm.fq | seqtk-trinity seq -A - >> right.fa Sunday, March 24, 2019: 18:18:20 CMD: touch right.fa.ok Sunday, March 24, 2019: 18:18:21 CMD: touch left.fa.ok Sunday, March 24, 2019: 18:18:21 CMD: touch left.fa.ok right.fa.ok Sunday, March 24, 2019: 18:18:21 CMD: cat left.fa right.fa > /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/both.fa Sunday, March 24, 2019: 18:18:21 CMD: touch /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/both.fa.ok
| ———– Jellyfish ——————– |
| – (building a k-mer catalog from reads) – |
| ————— Inchworm ——————— |
| – (Linear contig construction from k-mers) – |
| ——————– Chrysalis ————————- |
| – (Contig Clustering & de Bruijn Graph Construction) – |
inchworm_target: /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/both.fa
bowite_reads_fa: /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/both.fa
chrysalis_reads_fa: /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/both.fa
Running CMD: /home/ubuntu/miniconda3/opt/trinity-2.6.6/util/support_scripts/filter_iworm_by_min_length_or_cov.pl /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/inchworm.K25.L25.fa 100 10 > /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/chrysalis/inchworm.K25.L25.fa.min100
Running CMD: /home/ubuntu/miniconda3/bin/bowtie2-build –threads 4 -o 3 /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/chrysalis/inchworm.K25.L25.fa.min100 /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/chrysalis/inchworm.K25.L25.fa.min100 1>/dev/null
Running CMD: bash -c " set -o pipefail;/home/ubuntu/miniconda3/bin/bowtie2 –local -k 2 –no-unal –threads 4 -f –score-min G,20,4 -x /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/chrysalis/inchworm.K25.L25.fa.min100 /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/both.fa | samtools view -@ 4 -F4 -Sb - | samtools sort -m 1342177280 -@ 4 -no - - > /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/chrysalis/iworm.bowtie.nameSorted.bam"
Running CMD: /home/ubuntu/miniconda3/opt/trinity-2.6.6/util/support_scripts/scaffold_iworm_contigs.pl /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/chrysalis/iworm.bowtie.nameSorted.bam /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/inchworm.K25.L25.fa > /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/chrysalis/iworm_scaffolds.txt
Running CMD: /home/ubuntu/miniconda3/opt/trinity-2.6.6/Chrysalis/GraphFromFasta -i /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/inchworm.K25.L25.fa -r /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/both.fa -min_contig_length 200 -min_glue 2 -glue_factor 0.05 -min_iso_ratio 0.05 -t 4 -k 24 -kk 48 -strand -scaffolding /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/chrysalis/iworm_scaffolds.txt > /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/chrysalis/iworm_cluster_welds_graph.txt
Running CMD: /home/ubuntu/miniconda3/opt/trinity-2.6.6/Chrysalis/BubbleUpClustering -i /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/inchworm.K25.L25.fa -weld_graph /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/chrysalis/iworm_cluster_welds_graph.txt -min_contig_length 200 > /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/chrysalis/GraphFromIwormFasta.out
Running CMD: /home/ubuntu/miniconda3/opt/trinity-2.6.6/Chrysalis/CreateIwormFastaBundle -i /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/chrysalis/GraphFromIwormFasta.out -o /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/chrysalis/bundled_iworm_contigs.fasta -min 200
Running CMD: /home/ubuntu/miniconda3/opt/trinity-2.6.6/Chrysalis/ReadsToTranscripts -i /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/both.fa -f /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/chrysalis/bundled_iworm_contigs.fasta -o /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/chrysalis/readsToComponents.out -t 4 -max_mem_reads 50000000 -strand
Running CMD: /usr/bin/sort –parallel=4 -T . -S 10G -k 1,1n /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/chrysalis/readsToComponents.out > /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/chrysalis/readsToComponents.out.sort
Sunday, March 24, 2019: 18:29:13 CMD: mkdir -p /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/read_partitions/Fb_0/CBin_0
Sunday, March 24, 2019: 18:29:13 CMD: mkdir -p /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/read_partitions/Fb_0/CBin_1
Sunday, March 24, 2019: 18:29:14 CMD: mkdir -p /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/read_partitions/Fb_0/CBin_2
Sunday, March 24, 2019: 18:29:14 CMD: mkdir -p /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/read_partitions/Fb_0/CBin_3
Sunday, March 24, 2019: 18:29:14 CMD: mkdir -p /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/read_partitions/Fb_0/CBin_4
Sunday, March 24, 2019: 18:29:14 CMD: mkdir -p /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/read_partitions/Fb_0/CBin_5
…………………. ………………….
Sunday, March 24, 2019: 18:29:24 CMD: mkdir -p /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/read_partitions/Fb_0/CBin_61
Sunday, March 24, 2019: 18:29:24 CMD: touch /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/partitioned_reads.files.list.ok
Sunday, March 24, 2019: 18:29:24 CMD: /home/ubuntu/miniconda3/opt/trinity-2.6.6/util/support_scripts/write_partitioned_trinity_cmds.pl –reads_list_file /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/partitioned_reads.files.list –CPU 1 –max_memory 1G –run_as_paired –SS_lib_type F –seqType fa –trinity_complete –full_cleanup > recursive_trinity.cmds Sunday, March 24, 2019: 18:29:24 CMD: touch recursive_trinity.cmds.ok Sunday, March 24, 2019: 18:29:24 CMD: touch recursive_trinity.cmds.ok
| ———— Trinity Phase 2: Assembling Clusters of Reads ——————— |
Sunday, March 24, 2019: 18:29:24 CMD: ParaFly -c recursive_trinity.cmds -CPU 4 -v -shuffle
Number of Commands: 6168
………………… ………………..
All commands completed successfully. :-)
** Harvesting all assembled transcripts into a single multi-fasta file…
Sunday, March 24, 2019: 21:09:42 CMD: find /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/read_partitions/ -name ’*inity.fasta’ | /home/ubuntu/miniconda3/opt/trinity-2.6.6/util/support_scripts/partitioned_trinity_aggregator.pl TRINITY_DN > /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/Trinity.fasta.tmp -relocating /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/Trinity.fasta.tmp to /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/Trinity.fasta
Sunday, March 24, 2019: 21:09:42 CMD: mv /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/Trinity.fasta.tmp /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/Trinity.fasta
Trinity assemblies are written to /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/Trinity.fasta ###################################################################
Sunday, March 24, 2019: 21:09:42 CMD: /home/ubuntu/miniconda3/opt/trinity-2.6.6/util/support_scripts/get_Trinity_gene_to_trans_map.pl /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/Trinity.fasta > /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/Trinity.fasta.gene_trans_map
-rw-rw-r– 1 ubuntu ubuntu 9882912 Mar 24 21:09 Trinity.fasta
-rw-rw-r– 1 ubuntu ubuntu 414104 Mar 24 21:09 Trinity.fasta.gene_trans_map
-rw-rw-r– 1 ubuntu ubuntu 656 Mar 24 21:09 Trinity.timing
-rw-rw-r– 1 ubuntu ubuntu 411748816 Mar 24 18:18 both.fa
-rw-rw-r– 1 ubuntu ubuntu 0 Mar 24 18:18 both.fa.ok
-rw-rw-r– 1 ubuntu ubuntu 8 Mar 24 18:18 both.fa.read_count
drwxrwxr-x 2 ubuntu ubuntu 4096 Mar 24 18:29 chrysalis
-rw-rw-r– 1 ubuntu ubuntu 15101793 Mar 24 18:23 inchworm.K25.L25.fa
-rw-rw-r– 1 ubuntu ubuntu 0 Mar 24 18:23 inchworm.K25.L25.fa.finished
-rw-rw-r– 1 ubuntu ubuntu 9 Mar 24 18:20 inchworm.kmer_count
drwxrwxr-x 2 ubuntu ubuntu 4096 Mar 24 18:18 insilico_read_normalization
-rw-rw-r– 1 ubuntu ubuntu 971810373 Mar 24 18:19 jellyfish.kmers.fa
-rw-rw-r– 1 ubuntu ubuntu 1863 Mar 24 18:19 jellyfish.kmers.fa.histo
-rw-rw-r– 1 ubuntu ubuntu 0 Mar 24 18:18 left.fa.ok
-rw-rw-r– 1 ubuntu ubuntu 830570 Mar 24 18:29 partitioned_reads.files.list
-rw-rw-r– 1 ubuntu ubuntu 0 Mar 24 18:29 partitioned_reads.files.list.ok
-rw-rw-r– 1 ubuntu ubuntu 2134 Mar 24 18:29 pipeliner.10579.cmds
-rw-rw-r– 1 ubuntu ubuntu 2134 Mar 24 20:54 pipeliner.16726.cmds
drwxrwxr-x 3 ubuntu ubuntu 4096 Mar 24 18:29 read_partitions
-rw-rw-r– 1 ubuntu ubuntu 2944084 Mar 24 18:29 recursive_trinity.cmds
-rw-rw-r– 1 ubuntu ubuntu 2944084 Mar 24 21:09 recursive_trinity.cmds.completed
-rw-rw-r– 1 ubuntu ubuntu 0 Mar 24 18:29 recursive_trinity.cmds.ok
-rw-rw-r– 1 ubuntu ubuntu 0 Mar 24 18:18 right.fa.ok
-rw-rw-r– 1 ubuntu ubuntu 1042464724 Mar 24 18:26 scaffolding_entries.sam
-rw-rw-r– 1 ubuntu ubuntu 11709350 Mar 24 18:26 GraphFromIwormFasta.out
-rw-rw-r– 1 ubuntu ubuntu 0 Mar 24 18:26 GraphFromIwormFasta.out.ok
-rw-rw-r– 1 ubuntu ubuntu 9779774 Mar 24 18:26 bundled_iworm_contigs.fasta
-rw-rw-r– 1 ubuntu ubuntu 0 Mar 24 18:26 bundled_iworm_contigs.fasta.ok
-rw-rw-r– 1 ubuntu ubuntu 11215382 Mar 24 18:23 inchworm.K25.L25.fa.min100
-rw-rw-r– 1 ubuntu ubuntu 8815987 Mar 24 18:23 inchworm.K25.L25.fa.min100.1.bt2
-rw-rw-r– 1 ubuntu ubuntu 5018856 Mar 24 18:23 inchworm.K25.L25.fa.min100.2.bt2
-rw-rw-r– 1 ubuntu ubuntu 164285 Mar 24 18:23 inchworm.K25.L25.fa.min100.3.bt2
-rw-rw-r– 1 ubuntu ubuntu 2509425 Mar 24 18:23 inchworm.K25.L25.fa.min100.4.bt2
-rw-rw-r– 1 ubuntu ubuntu 0 Mar 24 18:23 inchworm.K25.L25.fa.min100.bowtie2-build.ok
-rw-rw-r– 1 ubuntu ubuntu 0 Mar 24 18:23 inchworm.K25.L25.fa.min100.ok
-rw-rw-r– 1 ubuntu ubuntu 8815987 Mar 24 18:23 inchworm.K25.L25.fa.min100.rev.1.bt2
-rw-rw-r– 1 ubuntu ubuntu 5018856 Mar 24 18:23 inchworm.K25.L25.fa.min100.rev.2.bt2
-rw-rw-r– 1 ubuntu ubuntu 169011748 Mar 24 18:25 iworm.bowtie.nameSorted.bam
-rw-rw-r– 1 ubuntu ubuntu 0 Mar 24 18:25 iworm.bowtie.nameSorted.bam.ok
-rw-rw-r– 1 ubuntu ubuntu 281954 Mar 24 18:26 iworm_cluster_welds_graph.txt
-rw-rw-r– 1 ubuntu ubuntu 0 Mar 24 18:26 iworm_cluster_welds_graph.txt.ok
-rw-rw-r– 1 ubuntu ubuntu 561543 Mar 24 18:26 iworm_scaffolds.txt
-rw-rw-r– 1 ubuntu ubuntu 0 Mar 24 18:26 iworm_scaffolds.txt.ok
-rw-rw-r– 1 ubuntu ubuntu 408262320 Mar 24 18:29 readsToComponents.out
-rw-rw-r– 1 ubuntu ubuntu 0 Mar 24 18:29 readsToComponents.out.ok
-rw-rw-r– 1 ubuntu ubuntu 8 Mar 24 18:29 readsToComponents.out.rcts.out
-rw-rw-r– 1 ubuntu ubuntu 408262320 Mar 24 18:29 readsToComponents.out.sort
-rw-rw-r– 1 ubuntu ubuntu 0 Mar 24 18:29 readsToComponents.out.sort.ok
-rw-rw-r– 1 ubuntu ubuntu 345336229 Mar 24 18:18 ALL.LEFT.fq.normalized_K25_maxC50_minC1_pctSD10000.fq
-rw-rw-r– 1 ubuntu ubuntu 0 Mar 24 18:18 ALL.LEFT.fq.normalized_K25_maxC50_minC1_pctSD10000.fq.ok
-rw-rw-r– 1 ubuntu ubuntu 345336229 Mar 24 18:18 ALL.RIGHT.fq.normalized_K25_maxC50_minC1_pctSD10000.fq
-rw-rw-r– 1 ubuntu ubuntu 0 Mar 24 18:18 ALL.RIGHT.fq.normalized_K25_maxC50_minC1_pctSD10000.fq.ok
lrwxrwxrwx 1 ubuntu ubuntu 164 Mar 24 18:18 left.norm.fq [0m -> /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/insilico_read_normalization/ALL.LEFT.fq.normalized_K25_maxC50_minC1_pctSD10000.fq
-rw-rw-r– 1 ubuntu ubuntu 0 Mar 24 18:18 normalization.ok
lrwxrwxrwx 1 ubuntu ubuntu 165 Mar 24 18:18 right.norm.fq [0m -> /home/ubuntu/trinity/TrinityNatureProtocolTutorial/1M_READS_sample/trinity_out_dir/insilico_read_normalization/ALL.RIGHT.fq.normalized_K25_maxC50_minC1_pctSD10000.fq
drwxrwxr-x 2 ubuntu ubuntu 12288 Mar 24 21:09 CBin_0
drwxrwxr-x 2 ubuntu ubuntu 12288 Mar 24 21:07 CBin_1
drwxrwxr-x 2 ubuntu ubuntu 12288 Mar 24 21:09 CBin_10
drwxrwxr-x 2 ubuntu ubuntu 12288 Mar 24 21:07 CBin_11
drwxrwxr-x 2 ubuntu ubuntu 12288 Mar 24 21:06 CBin_12
drwxrwxr-x 2 ubuntu ubuntu 12288 Mar 24 21:09 CBin_13
drwxrwxr-x 2 ubuntu ubuntu 12288 Mar 24 21:08 CBin_14
drwxrwxr-x 2 ubuntu ubuntu 12288 Mar 24 21:08 CBin_15
drwxrwxr-x 3 ubuntu ubuntu 12288 Mar 24 21:08 CBin_16
drwxrwxr-x 2 ubuntu ubuntu 12288 Mar 24 21:09 CBin_17
drwxrwxr-x 2 ubuntu ubuntu 12288 Mar 24 21:09 CBin_18
drwxrwxr-x 2 ubuntu ubuntu 12288 Mar 24 21:09 CBin_19
drwxrwxr-x 2 ubuntu ubuntu 12288 Mar 24 21:09 CBin_2
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:09 CBin_20
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:08 CBin_21
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:07 CBin_22
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:08 CBin_23
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:09 CBin_24
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:09 CBin_25
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:09 CBin_26
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:09 CBin_27
drwxrwxr-x 2 ubuntu ubuntu 12288 Mar 24 21:05 CBin_28
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:08 CBin_29
drwxrwxr-x 3 ubuntu ubuntu 12288 Mar 24 21:09 CBin_3
drwxrwxr-x 2 ubuntu ubuntu 12288 Mar 24 21:08 CBin_30
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:08 CBin_31
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:09 CBin_32
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:08 CBin_33
drwxrwxr-x 2 ubuntu ubuntu 12288 Mar 24 21:08 CBin_34
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:07 CBin_35
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:09 CBin_36
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:08 CBin_37
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:06 CBin_38
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:08 CBin_39
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:09 CBin_4
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:09 CBin_40
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:08 CBin_41
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:09 CBin_42
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:06 CBin_43
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:06 CBin_44
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:08 CBin_45
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:07 CBin_46
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:09 CBin_47
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:07 CBin_48
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:08 CBin_49
drwxrwxr-x 2 ubuntu ubuntu 12288 Mar 24 21:07 CBin_5
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:09 CBin_50
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:09 CBin_51
drwxrwxr-x 2 ubuntu ubuntu 12288 Mar 24 21:09 CBin_52
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:08 CBin_53
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:07 CBin_54
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:09 CBin_55
drwxrwxr-x 3 ubuntu ubuntu 16384 Mar 24 21:09 CBin_56
drwxrwxr-x 3 ubuntu ubuntu 16384 Mar 24 21:08 CBin_57
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:09 CBin_58
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:09 CBin_59
drwxrwxr-x 2 ubuntu ubuntu 12288 Mar 24 21:04 CBin_6
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:09 CBin_60
drwxrwxr-x 2 ubuntu ubuntu 12288 Mar 24 21:09 CBin_61
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:09 CBin_7
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:08 CBin_8
drwxrwxr-x 2 ubuntu ubuntu 16384 Mar 24 21:09 CBin_9
Total trinity ‘genes’: 8666
Total trinity transcripts: 9249
Percent GC: 38.08
Contig N10: 3139
Contig N20: 2571
Contig N30: 2157
Contig N40: 1846
Contig N50: 1592
Median contig length: 732
Average contig: 1015.35
Total assembled bases: 9390975
Contig N10: 3170
Contig N20: 2589
Contig N30: 2166
Contig N40: 1862
Contig N50: 1595
Median contig length: 718
Average contig: 1009.77
Total assembled bases: 8750698
TRINITY_DN4108_c0_g1_i1 len=1465 path=[0:0-1464] CCATTATATTTAATTTAAATAAAACCCTTACATCGGGGAGAAAACATGTCAGAACATACAAGAAAATCATTCTCTGATTTAGGAATATCGCCATGGCTTATCGATACGCTAAAAGCACTTGCAATATATGAACCTACAGATATTCAGGAAGGAGTAATTGCTCAGATTTTAGAAGGACGTAATTGTATTGGAGGTGCTAAAACAGGTTCTGGTAAAACTGCTGCTTTTGCTTTGCCTATTATTGAAAAATGGTCTAAGGATCCATCAGGAATATTTGCTCTTATTTTGACACCAACCAGAGAACTTGCAATACAGATTGATGAACAATTTGCTGCTTTAGGTGCTAATCTTAATTTAAAGCATGCGCTCATCGTTGGAGGCATGGATATGATACGACAATCTATTGATTTATCGAAACGGCCCCATGTTGTTGTAGCTACTCCTGGTCGCCTAGCTGACTTGATTAGAAGTAATGGTGAAGAAACGATAGCCGGACTACGTCGAATAAAATTTTTGGTAATGGACGAAGCCGACCGTTTGTTGTCTCCTACCTTTGCTGATGACTTGGATGATTGCTTTTCTGTTCTTCCAGCCTCTGAAGATCGTCAAACGCTTTTGTTTACTGCAACTGTTACTGATGCTATTCGTCAGCTCAAATATCAGCCACAGAAAAATAATAAGCCTCCCCTTTGGTTATACGAAGTTGAAACTGATAACATTTCCGTACCTTCTACTTTGCAGCAAAGTTACATATTTGTTTCCTCACAAGTACGAGAAGCTTATTTGGTGCATTTGTTAACGATTCCTGAGAACGCTAAAAAGTCTGCAATTATCTTTGTAAATCGGACTCGCACTGCTGAATTGATATATTCTATTCTTCGATTGCTCGAGCTTCGTGTCACCGAACTTCATTCAGAAATGGTACAACGTGAAAGGATCAATTCACTTGGACGGTTTCGTGCGGAAGCTGCAAAAATTTTGGTAGCCACTGACGTTGCAAGCAGAGGTTTGGATATTCCTTCTGTGCAACTAGTAATTAACTTCGACCTTCCTCGTGACCCAGACGACTATATTCACCGAGTAGGTCGTACAGCTCGTGCTGGACGCAGTGGCGAGTCCATTTCCATTGTAACGGAGAGAGATGTTGATTTAGTCCATGCTATTGAGGATCGAGTAGGAACTAAGCTTTCTGAATATGAACACGTGTCAGAGAATAAGATGCTTGAATACATCAAGGAAGTTACGGACGCTAAACGCCAGGCTTCTCTTGAGATGATCGATAGGGGATTTGGTGAAAGGAGACAGAAGCGAAACGAGAAAAGGCTGATGGCCAATGGTATTTCTAATAAATTAAAAAATTCTGGACGCAAAAAGAAAGCGAAGAATACTTTATCTACGGAAAAGTAGTATAAAAGTTTTGAAGTTCAAGGTTGTTTTAGTGGTTTAAGGTATATATATATACGGA
TRINITY_DN4127_c0_g1_i1 len=1610 path=[0:0-1609] CAAAAAACCAAAGTGTTTGGAGCGGCGGAATTAAAAAGAAAATATATTATTGATAATGCCCAAGGCTCCAAAAACTAAACTGCATCATGCTCCTCTTTATAAGGACATTGCAGAATCTTCAGAAAGTGGTGTCTTGAGACAGAAACCTAGCAAACAGAAAAAGTCGAAAGAAAGCAACACCGGAAACGGCTTCTTGGATGCCAAGACTTCTAAAAAAATTTTACAATTAGCAAGGGAACAAAAAGAGGAGTTGGATGAAGAAGAAAATGGAAAACCTTCACAGATCAGTGCTTTTATTAGTAATGGACATCAAAAAGACACTTTAGAAAATCCGGCAATTGAATCAAGCTATGAAGAATCAGAGCATGCTAGAAATGTATCCGATAGTGAAAGCATTACTTCTCAAGAAGAAGAAGAGTATGAGGAGCTTGAGATAGATGATGCTGACCGAGATTTATTCGATCGATTCCTCCCAACCGTGTCAGGCGAGGAAGGAGATCTAACAGAGGAAAAAACCACCTCACTATCCGATTTGATCATGCAAAAAATCAACGAGGCTGAAGCTCGCGCTCGTGGTGAATATATCCCTTCTGCAGAAGAGGAGGAAAATGCCTTACCTCCCTTGCCTCCCAAGGTAATAGAGGTCTATTCAAAGGTTGGGGTTTTACTTAGTAAATACCGCTCAGGAAAAATTCCTAAAGCTTTCAAAATTATCCCTACGTTGTCTAATTGGGAAGACATACTTTATCTCACTCGACCTGACATGTGGACACCTCATGCTTGTTATGAAGCTACTCGTATTTTTATTTCCAACTTAAAACCTGTACAAGCTCAACACTTCCTCACAGTCATTATTTTGGAAAGAGTTCGTGATGACATTCGTGAAAATAAAAAATTAAATTACCATTTATATATGGCTTTGAAAAAGGCATTATACAAACCGTCTTCTTGGTTTAAGGGTTTCTTGTTTCCTCTAGTTCAAGAGAATTGCACTTTGCGCGAAGCCGCAATCATCGGTAGTATCCTTCAAAAAGTTTCTGTGCCGGTTCTGCATTCTGCAGCCGCGTTATTACGTTTAACTGAGTTTGACTTGAGTGGTGCTACTTCCGTATTTATTAGGATATTACTCGACAAAAAATATGCTCTACCGTATAAGGTGCTTGATTCTTTGGTTTTTTATTTTATGCGATGGAAATCATTGGAACGTCCACTTGCTGTATTAGAACATCAATCGATGTTGGTCTTTGCTCAACGGTACAAATTTGATATTACACCCGAACAAAAGGATGCACTCTTAGAAGTTGTTCGCCTGAAAGGACATTATTCTATTGGTCCAGAAATTAGACGTGAGCTGCTTAACAGTGCTAGTCGTGGTGAAGAAATTCCTGTGGAAATGGAATATTAATTGAATGGTTTTGGTTTTCTTGGGTTCACTTGGCATTTGTTTCTTTTGTAAAAAAAATTGAATAAAAAGACTTCGGATTAGCCGCTGTTTTTCAATGTTGGGAATATTTTTACTTAAATTGTGGGTTTTATGTTCACCAATTAATAGGATTATTGAGGTCTATAGATTTGTTAATTAATTTTTATTAAACAGACTTAAATATAAT
TRINITY_DN4193_c0_g1_i1 len=1271 path=[0:0-1270] GTTCCTTAGCATCTGCCACCTCCACTATATTGTTTATTTTGAAATATTATATTTTGAGGCGTGTTCTCAAATTATTTAGACCAGAAAATTTTTAACTTCAACCAAAGTTATTAATTTGCTTGAAAAGATTGTTCTACCACCCAACTTACATCAAATAACGAAAAACTGAGATTGACTTCTGGTGAAATATCTTGTTTCAGAAACATCAAATAAGGCTGGTCTTCGTATTTTAGAAACATAATTGAGGTGCTACCAATACTTTTTGACTGTAGGTTAGCTGCAATCAGGCTTTTCATTCATTGACTAAATTTATTCCTTGGTTTACGAGTCCAAAAATTTAGTCGCAACTTTAAATTTCTCTTTTTTCCCTTTCAAGATGCACATTAACGAAGAAACAGATTGGATCGATTTGGTCAAACCAGCGTTAGCAAAGAAGCCCAAAAAGATCGTTGACAATTCTGACAAGTTCCCTACGCCTCGAGGATTTCAACAGAAGTCGTTGGTTTCCAAAAACATTCATTCAGGAAATTCAGCTTCCTCAACTTCCATATTTGCTAAACGAGAGGAAGAATTACAAAAGGATCTCTTACTAAAGAAAGCATGGGAGCTTGCATATTCCCCCCTTAAACAAATTCCTATGAACGCTATTTTAGCATACATGTCTGGTAATTCACTACAAATTTTCAGTATTATGACGACTCTTATGTTGCTTGTAAATCCACTGAAAGCAATAACATCTACAGGATCTGCCTTCACCCCATTTAAAGGCACCCACCCAGGAACCCTTTGGCCCGCTATGGGTGCTTATATTTTATTCCAATTATTGCTTATGGGGATTGGAGTCTATAAGCTGCAAAGAATGGGATTATTGCCAACGACTACCAGCGATTGGCTTGCCTGGGAAGTCTCGAAGGTCTTTATGGATCGATCTTATGGTCCTAGTAAAACTGTTTTGTAAGAATTTCATTTACTCCAAAATTTTAAAGATATACGAGTGAAATCGTTAAATTATAGTACCTCCTAATGCCATTGCTTCTAGCTGACCTAGAAAATAATAAATTCATATAAAGAAGGAATGCTTGGAGTTCGGAAACATATTGTCTTCTGGATTAATAATTTATCCTCCATTATGCGGCATTAAACGTTCAATGCCTTTAATCGATATCATGCACGCCATAAACGAACCTCGAAAATACTTGATTATCCAGTTCTTTTTACCCATCCATAGTTTTCGAGAGCATGAAATTTTTGATAGAATACTTTCTTTTACG
TRINITY_DN4104_c0_g1_i1 len=605 path=[0:0-604] TCACAACCTCATTTTCCAAGTATGTTCTCTGACTCTTACTCAAGGTGAAATCTTTGTGGATCGTAGACAAAATGTAGCTTAAGAAAATCTGGTGATTTCTGCAGTCTTATTTATGTGAATAATTTTGTTCGCCTACTCCGGTTTATTCAAACCAAAAAAACTCTGTCAAAAAAAGGCATCATTTTTTGCTTGCTTTAAATCATTTGCATTATCGTTGAATATACCAATAGAAAAACCTAAGCGTTGTTAAATGAATAAAACGACACTTCTGTATGAAAGCTTCGTTGCTTCCTATATTACCATGTTTCAAGGAGATTCGTTGATATACATGGATCAAATTTAGGAATTGCCGGATAAAGCTATGTTCATTTATCCTATTGAGAATGCAAAGGTCCTGATAGTAAATTTTTTTTTTCACCTGAAATTACCGTTTTTCAATTACCTGAACGAATCATGCTTTAATGCTCTCCATTAAGCATCAGTGCTGGATATTAGTTTTGGGAGTACTTCCGCAAAAACGGATCGAAATCCATGTTTCCGTCTGTGTGCTAGTCGTCAATCGCCCTGATACCGATCAACTACTCCAATAGTTAGTTGCTTTTCCC
TRINITY_DN4130_c0_g1_i1 len=2777 path=[0:0-2776] CATAGGCCCAAAATTGTAAACAATGAGCCAGTATGTATCGTCCATGATTAAATATGCCCAAAGCGGTGATAGTTTTAATATTTTAATAAAAGATAATGCCAAAAAAATTACAGAGAAACAGTTCTCTCTCGCGTACGTAGAATGTCCGCGTTTTCGTCGTGAAGGTGATGAACCATTTGCCTTTGAAGCCCAAGAATTTTCTAGGCGACTCGTTGTTGGACGTCCTGCTTCAGTTTCTACTTTGTACGTGATTCCTACGTCGAAACGCGAGTATGGACGTATCCGTACTTCTGAATTTGACTTGGCTGAATCGTTATTGCGCGAAGGCCTTGCAAAATTAAGACCTGAGGCTACCCGTAATGAGGGTACTTCTGAGAACTCCTATTTTGTTTCTCTAGAAGAAGCGCAAGATCATGCCCAGCAGTACAAATTAGGAATATGGGGCCCTTCTGACGATGTTGTTGTAACTGAGAAAGCCAACCCAGCAAACCCAGCTAAGTTTTTAAAGGCCCATAAAGGTAAAAAACTGAACGGTATCGTTGAAACCATCCGCAATGGAGACCAAGTTCGTGTTCGACTATTTTTGAGCCCCAAGCAACATCAACTGGTTACAATCAGTCTTGCTGGAGTTAGATGCCCTCGTTCTACTTTCACTGCTACTTCACCTGAGCAGACTAGCTCAGAGCAAGAACCTTGTGGTGATGAAGCTAAGCAGTTTGTTGTCACTCGTCTCCTTCAAAGAAACGTGGTAATTGAACTTCTCGATTTAGCTCCAAACGGTGTCTCGTTTTTGGGTAATGTTTTACATCCTGCAGGAAATATCGCAACTTTCTTGTTAAGCTCTGGATTGGGACGTGTTGCTGACAACCACATATCTGCTTTGGGACCTGAGACTATGCAAAGTTTACGGACCATTGAACGTAAAGCTAAGATTTCTCGTTTAGGAATTTGGAAAAATATTTCTGTCTCTATCCCTGATATCAATTCTCTCTCGTTAAAGGATTATTCTGCAGTTGTATCCAGGGTCATTTCCACCGATACTCTCGAAGTTCGCAAAGATAATGGCGTGGAGTGTAGAATTCAGCTTAGCAGCATCCGTCATCCCAGACCTTCAAATGAAAAGGAAGCCCCTTACCAATTGGAAGCTCGCGAGTTTCTTCGCAAGAAAATTATTGGGAAGCGTGTTCAGGTCTCGCTAGACTTCATCCGACCTGGTCAAAATGACCTTCCTGCTATTAACAACTGTACTGTCAAGCTTTCTGATGGTACAAATGTTGCTTTAATGGTCGTAAAGAGTGGATACGCTACAGTTATAAGATATCGAATGGATAGCGTTGATCGTTCACCCATTTATGATTTTCTTATAGAAGCTGAAAAGGCCGCTCAAGAAGGACGCAAGGGTATGTGGTCTGGTAAAAAACCCGCTTACGAGAATATCGTTAATGCTTCTGAATCTTCTTTACGCTCTCGGCAATACCTTTCCTCTTTGCAAAGGACCCGTAAGCTTTCTGTCATCATCGAAAACGTAATTAGTGGGTCTCGTTTCCGTTGCTTTTGCCCTAAAGAAAACTGCTATTTTATGTTTGCATGTGCAGGTATTCGAACTCCTCGCACTGCTCGTAACGATCAGGAAAAAGGTGAACCTTTTGCAGAAGAATCTCTTTCTTTAGCAAAGTCCTTGTTGCAGCATGATGCTCAAGTTGAGATTTTGTCTGTTGATAATAATGGGTGCTTTTTAGGTGATATTTATGTCAATCATGATACTAACTTTGCTTTGAAATTGCTCAGTCAAGGTCTTGCTTGGTGCCAAGGTTATGCCAGTCAATCAAACGTACAATACTCGCAATATCATGATACCGAAGCTGCTGCTAAGGAGCAAAAGGTTGGCATGTGGCACGATTACGTTCCCCCTGAAAAGAAAGCTGCTAGTACCGAGAAGGAAAGTGAAAATACCGTTAAAGAGCCTATCTATCTCGATATTGTACTAAGCGATATTGCAGAAGACGGGAAGTTTTCATTCCAAATTATTGGTACTGGTATTCAACAATTAGAAACTTTAATGTCTGATTTAGGTTCTTTAAAGAAGTCCTTTAAACCATCCGAGAAAATTAATGTTGGAATGAACGTTGCAGCAATATCTGCTCTTGACAACGCTATGTATCGAGGCCGGGTGTTGCGTTGTGACCGAGAAAACCAGGCCGCTGATGTTTTGCTTTATGATTATGGTAGTGTAGAGCAAATTCCTTTCAAAAACATATCCTCTTTACCAGATACCTATACTAAATTGAAGCCTCAAGCGCAACTTGCTCGTCTCAGTTACGTTCAATTACCTCCTCCCAGCTCTGATTACTATGAAGACGCAAGACTCGTTTTCAGGGAGCTAGCCATGAATAAAGGTCTAGTGGCTAAAGTCGATGGACACGAAGGAAACGTGTATTCTGTAACTTTGTATAATCCTAGTGATGGTTCAGATTTTTCTGACTGTATTAATGCCCAACTGGTTGCGCTCGGCATGGCTAGTGTTATTCCCAAGAAAAAAACATCTCACTTTGAAAAAGATACCGCATCCCTCAATATTCTAGAAGAGCATCAGCAAGAAGCACGTCTAAATCATATCGGTTTCTGGGTATATGGTGATCCCCTAGAATATGAGGACTAAAAATATTTTACTTCTAGTATAGTAACATTGATCATATTCGCTAGTACTTTTTGCCTACAATATATCTAGTTATTCACTTTAAAATATTGTTAACGTATATATTTTAAAAAAATCTTAT
TRINITY_DN4108_c0_g1 TRINITY_DN4108_c0_g1_i1 TRINITY_DN4127_c0_g1 TRINITY_DN4127_c0_g1_i1 TRINITY_DN4193_c0_g1 TRINITY_DN4193_c0_g1_i1 TRINITY_DN4104_c0_g1 TRINITY_DN4104_c0_g1_i1 TRINITY_DN4130_c0_g1 TRINITY_DN4130_c0_g1_i1 TRINITY_DN4196_c0_g1 TRINITY_DN4196_c0_g1_i1 TRINITY_DN4185_c0_g1 TRINITY_DN4185_c0_g1_i1 TRINITY_DN4175_c0_g1 TRINITY_DN4175_c0_g1_i1 TRINITY_DN4184_c0_g1 TRINITY_DN4184_c0_g1_i1 TRINITY_DN4160_c0_g1 TRINITY_DN4160_c0_g1_i1