1:chr22	1	11330000	1	N	11330000	short_arm	no
	NOTE: assuming AGP version 1.1 since linkage evidence (column 9) is empty
2:chr22	11330001	13570000	2	N	2240000	centromere	no
	WARNING: two consequtive gap lines (e.g. a gap at the end of a scaffold, two non scaffold-breaking gaps, ...)

1304:chr22	18718881	18718887	1304	N	7	contig	no
	NOTE: gap shorter than 10 bp

2178:chr22	22290994	22291002	2178	N	9	contig	no
	NOTE: gap shorter than 10 bp

8082:chr22	46284893	46284901	8082	N	9	contig	no
	NOTE: gap shorter than 10 bp

8171:scaffold1.1|size2787216	1	509	1	W	Contig_1	1	509	+
	ERROR: invalid use of "|" character in object_id (column 1)

8180:gnl|AAJN|scaffold_1	1	256777	1	W	AAJN01000001	1	256777	+
	WARNING: "gnl|" prefix in object_id (column 1) is deprecated inside AGP files (no "prefix|" is best)

8183:gnl|AAJN|scaffold_1|gb|CH476594	1	256777	1	W	AAJN02000001	1	256777	+
	WARNING: "gnl|" prefix in object_id (column 1) is deprecated inside AGP files (no "prefix|" is best)

8186:gnl|AAJN|scaffold_1|gb|CH476594|extra	1	256777	1	W	AAJN03000001	1	256777	+
	WARNING: "gnl|" prefix in object_id (column 1) is deprecated inside AGP files (no "prefix|" is best)

8187:gnl|AAJN|scaffold_1|gb	1	256777	1	W	AAJN04000001	1	256777	+
	WARNING: "gnl|" prefix in object_id (column 1) is deprecated inside AGP files (no "prefix|" is best)

8189:
	ERROR, line skipped: empty line

2 errors, 5 warnings, 4 notes.
  Count Code  Description
      1  e03  empty line
      1  e25  invalid use of "|" character
      1  w33  two consequtive gap lines (e.g. a gap at the end of a scaffold, two non scaffold-breaking gaps, ...)
      3  w52  gap shorter than 10 bp
         (Use -show w52 to print lines with short gaps.)
      1  w58  assuming AGP version X
      4  w66  "gnl|" prefix in X is deprecated inside AGP files (no "prefix|" is best)

NOTE: 1 invalid lines were skipped (not subjected to all the checks, not included in most of the counts below).


Objects                :    7
- with single component:    3

Scaffolds              :  355
- with single component:   57

Components                   : 4096 (W:4095, F:1)
  orientation +              : 2675
  orientation -              : 1421
  orientation ? (formerly 0) :    0
  orientation na             :    0

Gaps                   : 4092 (N)
- do not break scaffold: 3741
  clone   , linkage yes:    4
  fragment, linkage yes: 3737 (943 or 25.2% of N gaps have length=10)
- break it, linkage no :  351
	contig         :  348 (136 or 39.1% of N gaps have length=100)
	centromere     :    1
	short_arm      :    1
	telomere       :    1

Most frequent N gap_length (23.1% or 944 lines):   10

Object names                           :  7
  scaffold1.1|size2787216              :  1
  gnl|AAJN|scaffold_1|gb|CH476594|extra:  1
  gnl|AAJN|scaffold_1|gb|CH476594      :  1
  gnl|AAJN|scaffold_1|gb               :  1
  gnl|AAJN|scaffold_1                  :  1
  chr22                                :  1
  10                                   :  1

Component names                      :  4096
--------------- Nucleotide accessions:     7
  AAJN[01000001..04000001]           :     6
  CU633885.4                         :     1
--------------- OTHER identifiers    :  4089
  ABGA[01001503..01404031].[1,111111]:  4055 (some local or misspelled)
  ABGA[01409238..01410146].1.1       :    26 (local or misspelled)
  Contig_[1..4]                      :     4 (local or misspelled)
  AAA[00027,28].1                    :     2 (some look like protein accessions)
  Contig_5|test5                     :     1 (local or misspelled)
  .1                                 :     1 (local or misspelled)
Use -g or "-show all" to print lines with suspicious accessions.