Running MakePangenome..
Information about input data:
 Number of genomes:	5
 Number of sequences:	5
 Number of sequences per genome:	1
 Total length of input (bp):	28833898
 Minimum genome length (bp):	5678205
 Median genome length (bp):	5705580
 Average genome length (bp):	5766779
 Maximum genome length (bp):	5942969

============================

[2021-Nov-15 12:47:28 UTC+03:00] BeginIteration 1, AnchorJoinerFast

Length of all major blocks of at least 2 fragments:	302741

Stable blocks (represented in all genomes once, but not minor):
 fragments:	45
 blocks:	9
 Block identity:
  min:	0.9487
  median:	0.9997
  avg:	0.9892
  max:	1

 Identity of joined blocks:	0.999658
 Nucleotides in blocks:	1044240
  The percentage of input length:	3.62%


============================

[2021-Nov-15 12:48:43 UTC+03:00] BeginIteration 2, AnchorJoinerFast

Length of all major blocks of at least 2 fragments:	3376098

Stable blocks (represented in all genomes once, but not minor):
 fragments:	950
 blocks:	190
 Block identity:
  min:	0.9455
  median:	0.9998
  avg:	0.9982
  max:	1

 Identity of joined blocks:	0.999648
 Nucleotides in blocks:	14797008
  The percentage of input length:	51.31%

Distance from previous pre-pangenome (bp):	13836715
 The percentage of input length:	47.99%
Distance is sufficient to carry on

============================

[2021-Nov-15 12:50:48 UTC+03:00] BeginIteration 3, AnchorJoinerFast

Length of all major blocks of at least 2 fragments:	4464094

Stable blocks (represented in all genomes once, but not minor):
 fragments:	1520
 blocks:	304
 Block identity:
  min:	0.9455
  median:	0.9998
  avg:	0.9986
  max:	1

 Identity of joined blocks:	0.999628
 Nucleotides in blocks:	19592110
  The percentage of input length:	67.94%

Distance from previous pre-pangenome (bp):	4762636
 The percentage of input length:	16.52%
Distance is sufficient to carry on

============================

[2021-Nov-15 12:52:55 UTC+03:00] BeginIteration 4, AnchorJoinerFast

Length of all major blocks of at least 2 fragments:	5144024

Stable blocks (represented in all genomes once, but not minor):
 fragments:	1700
 blocks:	340
 Block identity:
  min:	0.9128
  median:	0.9998
  avg:	0.9984
  max:	1

 Identity of joined blocks:	0.999645
 Nucleotides in blocks:	22842858
  The percentage of input length:	79.22%

Distance from previous pre-pangenome (bp):	2731211
 The percentage of input length:	9.47%
Distance is sufficient to carry on

============================

[2021-Nov-15 12:55:03 UTC+03:00] BeginIteration 5, AnchorJoiner

Length of all major blocks of at least 2 fragments:	5368190

Stable blocks (represented in all genomes once, but not minor):
 fragments:	1760
 blocks:	352
 Block identity:
  min:	0.9128
  median:	0.9998
  avg:	0.9984
  max:	1

 Identity of joined blocks:	0.999649
 Nucleotides in blocks:	23875419
  The percentage of input length:	82.8%

Distance from previous pre-pangenome (bp):	1444002
 The percentage of input length:	5.01%
Distance is sufficient to carry on

============================

[2021-Nov-15 12:59:51 UTC+03:00] BeginIteration 6, AnchorJoiner

Length of all major blocks of at least 2 fragments:	5366629

Stable blocks (represented in all genomes once, but not minor):
 fragments:	1755
 blocks:	351
 Block identity:
  min:	0.9128
  median:	0.9998
  avg:	0.9984
  max:	1

 Identity of joined blocks:	0.999649
 Nucleotides in blocks:	23874838
  The percentage of input length:	82.8%

Distance from previous pre-pangenome (bp):	13709
 The percentage of input length:	0.05%
Distance is too low => stopping this loop

============================

[2021-Nov-15 13:02:57 UTC+03:00] BeginIteration 7, AnchorBlastJoiner

Length of all major blocks of at least 2 fragments:	5364158

Stable blocks (represented in all genomes once, but not minor):
 fragments:	1800
 blocks:	360
 Block identity:
  min:	0.9128
  median:	0.9998
  avg:	0.9985
  max:	1

 Identity of joined blocks:	0.99965
 Nucleotides in blocks:	23858345
  The percentage of input length:	82.74%

Distance from previous pre-pangenome (bp):	1224110
 The percentage of input length:	4.25%
Distance is sufficient to carry on

============================

[2021-Nov-15 13:06:55 UTC+03:00] BeginIteration 8, AnchorBlastJoiner

Length of all major blocks of at least 2 fragments:	5365294

Stable blocks (represented in all genomes once, but not minor):
 fragments:	1805
 blocks:	361
 Block identity:
  min:	0.9128
  median:	0.9998
  avg:	0.9985
  max:	1

 Identity of joined blocks:	0.99965
 Nucleotides in blocks:	23858980
  The percentage of input length:	82.74%

Distance from previous pre-pangenome (bp):	4767
 The percentage of input length:	0.02%
Distance is too low => stopping this loop

============================
[2021-Nov-15 13:15:56 UTC+03:00] StopInfo The pangenome has been constructed.

Blocks' lengths:	5521290
 major:	5504780
 minor:	16510

============================
All major blocks of at least 2 fragments:
 fragments:	12630
 blocks:	1271
 fragments / blocks:	9.937
 Block identity:
  min:	0.8586
  median:	0.9881
  avg:	0.9681
  max:	1

 Identity of joined blocks:	0.997221
 Block sizes:
  min:	2
  median:	6
  avg:	9.94
  max:	73

 Fragment lengths:
  min:	97
  median:	198
  avg:	2261.86
  max:	117811

 Fragment length spreading ((max - min) / avg) inside block:
  min:	0
  median:	0
  avg:	0.0017
  max:	0.1122

 GC content:
  min:	0.2678
  median:	0.5018
  avg:	0.4965
  max:	0.7066

 Nucleotides in blocks:	28567233
  The percentage of input length:	99.07%
 Total length of blocks:	5368282
  The percentage of total blocks' length:	97.22%

============================
Stable blocks (represented in all genomes once, but not minor):
 fragments:	1770
 blocks:	354
 fragments / blocks:	5
 Block identity:
  min:	0.9128
  median:	0.9998
  avg:	0.9984
  max:	1

 Identity of joined blocks:	0.999607
 Block sizes:  	5

 Fragment lengths:
  min:	100
  median:	2496
  avg:	13480.80
  max:	117811

 Fragment length spreading ((max - min) / avg) inside block:
  min:	0
  median:	0
  avg:	0.0002
  max:	0.0095

 GC content:
  min:	0.283
  median:	0.4996
  avg:	0.4822
  max:	0.6346

 Nucleotides in blocks:	23861022
  The percentage of input length:	82.75%
 Total length of blocks:	4772645
  The percentage of total blocks' length:	86.44%


============================
Partial blocks (represented once in subset of genomes):
 fragments:	505
 blocks:	188
 fragments / blocks:	2.6861
 Block identity:
  min:	0.9177
  median:	1
  avg:	0.9948
  max:	1

 Identity of joined blocks:	0.996418
 Block sizes:
  min:	2
  median:	2
  avg:	2.69
  max:	4

 Fragment lengths:
  min:	100
  median:	405
  avg:	1482.89
  max:	19266

 Fragment length spreading ((max - min) / avg) inside block:
  min:	0
  median:	0
  avg:	0.0001
  max:	0.0065

 GC content:
  min:	0.2765
  median:	0.465
  avg:	0.466
  max:	0.6792

 Nucleotides in blocks:	748857
  The percentage of input length:	2.59%
 Total length of blocks:	269359
  The percentage of total blocks' length:	4.87%

============================
Blocks with repeats (at least two copies in at least one genome):
 fragments:	10355
 blocks:	729
 fragments / blocks:	14.2043
 Block identity:
  min:	0.8586
  median:	0.9423
  avg:	0.9466
  max:	1

 Identity of joined blocks:	0.96298
 Block sizes:
  min:	2
  median:	10
  avg:	14.20
  max:	73

 Fragment lengths:
  min:	97
  median:	173
  avg:	382.17
  max:	17057

 Fragment length spreading ((max - min) / avg) inside block:
  min:	0
  median:	0
  avg:	0.0029
  max:	0.1122

 GC content:
  min:	0.2678
  median:	0.5138
  avg:	0.5114
  max:	0.7066

 Nucleotides in blocks:	3957354
  The percentage of input length:	13.72%
 Total length of blocks:	326278
  The percentage of total blocks' length:	5.9%

============================
Unique (blocks of 1 fragment but not minor):
 fragments:	91
 blocks:	91
 Fragment lengths:
  min:	100
  median:	432
  avg:	1499.98
  max:	23656

 GC content:
  min:	0.3597
  median:	0.4603
  avg:	0.4724
  max:	0.6944

 Nucleotides in blocks:	136498
  The percentage of input length:	0.47%
 Total length of blocks:	136498
  The percentage of total blocks' length:	2.47%

============================
Minor blocks (too short to say smth about):
 fragments:	4310
 blocks:	552
 fragments / blocks:	7.8079
 Block identity:
  min:	0
  median:	1
  avg:	0.783
  max:	1

 Identity of joined blocks:	0.902766
 Block sizes:
  min:	1
  median:	5
  avg:	7.81
  max:	55

 Fragment lengths:
  min:	1
  median:	19
  avg:	30.20
  max:	99

 Fragment length spreading ((max - min) / avg) inside block:
  min:	0
  median:	0
  avg:	0.0181
  max:	2.3333

 GC content:
  min:	0
  median:	0.5
  avg:	0.5063
  max:	1

 Nucleotides in blocks:	130167
  The percentage of input length:	0.45%
 Total length of blocks:	16510
  The percentage of total blocks' length:	0.29%

The pangenome has been prepared for the next step: PostProcessing
.. done