-------------- starting Sat Feb 08 15:45:37 GMT-06:00 2020 --------------------
The alignment will use up to 16 CPUs.
To change this, restart SyMAP using the '-p' parameter

Aligning demo_seq and demo_seq2
Concatenating demo_seq sequences for use as query
Writing demo_seq2 sequence groups

Running PROMER: 2 alignments to perform, using up to 16 threads

Loading anchors for demo_seq and demo_seq2
Load demo_seq2 annotation:
   gene 21558
Load demo_seq annotation:
   gene 10112
Scanning files to create clusters:
	1 data/pseudo_pseudo/demo_seq_to_demo_seq2/anchors/pseudo_pseudo/demo_seq.pp1.fasta.demo_seq2.pp1.fasta.mum 14055 scanned 
	2 data/pseudo_pseudo/demo_seq_to_demo_seq2/anchors/pseudo_pseudo/demo_seq.pp1.fasta.demo_seq2.pp2.fasta.mum 20001 scanned 
Scanning files to load hits:
	1 data/pseudo_pseudo/demo_seq_to_demo_seq2/anchors/pseudo_pseudo/demo_seq.pp1.fasta.demo_seq2.pp1.fasta.mum 6857 clustered hits
	2 data/pseudo_pseudo/demo_seq_to_demo_seq2/anchors/pseudo_pseudo/demo_seq.pp1.fasta.demo_seq2.pp2.fasta.mum 10894 clustered hits
Query side filter accept: 8217
Target side filter accept: 6951
6150 total hits to load
5000 loaded
Scan hits for demo_seq2 annotation overlaps 
5000 checked
demo_seq2 annotation overlaps
   Gene 5763
Scan hits for demo_seq annotation overlaps 
5000 checked
demo_seq annotation overlaps
   Gene 5570
Done:  6 sec


Finding synteny for demo_seq and demo_seq2
Total hits: 6150
4 grp/grp pairs to analyze
3 pairs remaining
2 pairs remaining
1 pairs remaining
0 pairs remaining
Label adjacent gene anchors
Done:  49 sec

>> Summary

Demo-Seq:2 chromosomes
Demo-Seq2:2 chromosomes
6150 hits
20 synteny blocks
5917 gene hits
3945 synteny hits

Finished in 9 min 56 sec


-------------- done Sat Feb 08 15:55:34 GMT-06:00 2020 --------------------