;;;      ---  Parse Results for Brachypodium distachyon  ---
;;;
;;; This report summarizes the findings of the PathoLogic parser for
;;; the annotation files for all new genetic elements.  Through
;;; inspection of this report, the user can tell whether features of major 
;;; importance were not recognized, possibly due to syntax errors or other
;;; problems in the annotation files.
;;;
;;; If you want to change annotation file(s) to improve their parsability, 
;;; update the files, reinitialize the KB, and re-run the Build.  If you want
;;; to avoid having to reinitialize in the future, use the Trial Parse 
;;; command until you are satisfied with the parse results, and only then
;;; Build.


;;; -----------------------------------------------------------

;;; Parsing results for annotation file:
;;;        /Users/liya/liya/gramene/pathway/ptools/ptools-local/pgdbs/user/brachycyc/1.0/input/chr_5.pf

;;;
;;; The annotation file used by the parser is:
;;; /Users/liya/liya/gramene/pathway/ptools/ptools-local/pgdbs/user/brachycyc/1.0/input/chr_5.pf
gene-IDs :                      2549
gene-name :                     2549
gene-startbase :                2549
gene-endbase :                  2549
gene-product-type :             2549
  gene-Proteins :                 2549
  gene-tRNAs :                       0
  gene-rRNAs :                       0
  gene-snRNAs :                      0
  gene-miscRNAs :                    0
product-IDs :                      0 [cannot be supplied in Genbank files]
product-names :                 2549
product-synonyms :                 0 [cannot be supplied in Genbank files]
total EC numbers :               871
  genes with 1 EC number :         583
  genes with >1 EC numbers :       165
total GO terms linked to reactions :     673
  genes with 1 GO term linked to reactions :     409
  genes with >1 GO terms linked to reactions :     158
gene-products:
  hypothetical :                     0
  predicted :                        0
  putative :                         0
genes with synonyms :              0

;;; -----------------------------------------------------------

;;; Parsing results for annotation file:
;;;        /Users/liya/liya/gramene/pathway/ptools/ptools-local/pgdbs/user/brachycyc/1.0/input/chr_4.pf

;;;
;;; The annotation file used by the parser is:
;;; /Users/liya/liya/gramene/pathway/ptools/ptools-local/pgdbs/user/brachycyc/1.0/input/chr_4.pf
gene-IDs :                      4368
gene-name :                     4368
gene-startbase :                4368
gene-endbase :                  4368
gene-product-type :             4368
  gene-Proteins :                 4368
  gene-tRNAs :                       0
  gene-rRNAs :                       0
  gene-snRNAs :                      0
  gene-miscRNAs :                    0
product-IDs :                      0 [cannot be supplied in Genbank files]
product-names :                 4368
product-synonyms :                 0 [cannot be supplied in Genbank files]
total EC numbers :              1298
  genes with 1 EC number :         918
  genes with >1 EC numbers :       227
total GO terms linked to reactions :    1127
  genes with 1 GO term linked to reactions :     663
  genes with >1 GO terms linked to reactions :     267
gene-products:
  hypothetical :                     0
  predicted :                        0
  putative :                         0
genes with synonyms :              0

;;; -----------------------------------------------------------

;;; Parsing results for annotation file:
;;;        /Users/liya/liya/gramene/pathway/ptools/ptools-local/pgdbs/user/brachycyc/1.0/input/chr_3.pf

;;;
;;; The annotation file used by the parser is:
;;; /Users/liya/liya/gramene/pathway/ptools/ptools-local/pgdbs/user/brachycyc/1.0/input/chr_3.pf
gene-IDs :                      5884
gene-name :                     5884
gene-startbase :                5884
gene-endbase :                  5884
gene-product-type :             5884
  gene-Proteins :                 5884
  gene-tRNAs :                       0
  gene-rRNAs :                       0
  gene-snRNAs :                      0
  gene-miscRNAs :                    0
product-IDs :                      0 [cannot be supplied in Genbank files]
product-names :                 5884
product-synonyms :                 0 [cannot be supplied in Genbank files]
total EC numbers :              1891
  genes with 1 EC number :        1341
  genes with >1 EC numbers :       333
total GO terms linked to reactions :    1405
  genes with 1 GO term linked to reactions :     866
  genes with >1 GO terms linked to reactions :     327
gene-products:
  hypothetical :                     0
  predicted :                        0
  putative :                         0
genes with synonyms :              0

;;; -----------------------------------------------------------

;;; Parsing results for annotation file:
;;;        /Users/liya/liya/gramene/pathway/ptools/ptools-local/pgdbs/user/brachycyc/1.0/input/chr_2.pf

;;;
;;; The annotation file used by the parser is:
;;; /Users/liya/liya/gramene/pathway/ptools/ptools-local/pgdbs/user/brachycyc/1.0/input/chr_2.pf
gene-IDs :                      5990
gene-name :                     5990
gene-startbase :                5990
gene-endbase :                  5990
gene-product-type :             5990
  gene-Proteins :                 5990
  gene-tRNAs :                       0
  gene-rRNAs :                       0
  gene-snRNAs :                      0
  gene-miscRNAs :                    0
product-IDs :                      0 [cannot be supplied in Genbank files]
product-names :                 5990
product-synonyms :                 0 [cannot be supplied in Genbank files]
total EC numbers :              1974
  genes with 1 EC number :        1354
  genes with >1 EC numbers :       366
total GO terms linked to reactions :    1542
  genes with 1 GO term linked to reactions :     948
  genes with >1 GO terms linked to reactions :     347
gene-products:
  hypothetical :                     0
  predicted :                        0
  putative :                         0
genes with synonyms :              0

;;; -----------------------------------------------------------

;;; Parsing results for annotation file:
;;;        /Users/liya/liya/gramene/pathway/ptools/ptools-local/pgdbs/user/brachycyc/1.0/input/chr_1.pf

;;;
;;; The annotation file used by the parser is:
;;; /Users/liya/liya/gramene/pathway/ptools/ptools-local/pgdbs/user/brachycyc/1.0/input/chr_1.pf
gene-IDs :                      7732
gene-name :                     7732
gene-startbase :                7732
gene-endbase :                  7732
gene-product-type :             7732
  gene-Proteins :                 7732
  gene-tRNAs :                       0
  gene-rRNAs :                       0
  gene-snRNAs :                      0
  gene-miscRNAs :                    0
product-IDs :                      0 [cannot be supplied in Genbank files]
product-names :                 7732
product-synonyms :                 0 [cannot be supplied in Genbank files]
total EC numbers :              2456
  genes with 1 EC number :        1739
  genes with >1 EC numbers :       428
total GO terms linked to reactions :    2022
  genes with 1 GO term linked to reactions :    1227
  genes with >1 GO terms linked to reactions :     464
gene-products:
  hypothetical :                     0
  predicted :                        0
  putative :                         0
genes with synonyms :              0