Summary

./analyse_probe_search_results : Wed Jun 28 15:06:34 2006

Connected to host: host, as user: user
Database       : southern_blot_designs

Fetched probe design: ProbeDesign118
  assembly      : NCBIM36
  bias          : 5prime
  chromosome    : 7
  id            : 112
  strand        : 1
  -------------

Design window length: 5001bp

All jobs for probe design are successful - total: 87
Fetched conf : Exonerate mouse_NCBIM36 (id: 2)
  Genome file(s) at: /blastdb/Mouse/NCBIM36/genome/softmasked_dusted
Fetched 1729 putative probes to analyse

Selection criteria to rank probes:
  Minimum score ratio             : 10
  (i.e. self-hit must score at least 10 times higher than the next best hit)
  Maximum percent repetitive bases: 5
  Favour probes to the 5prime end of design window
  ------------------------

Putative probes without hits                    : 0
Putative probes with single_self_hit            : 1729/1729
Putative probes that are unique                 : 420/1729
Putative probes exceeding selection criteria    : 541/1729 (both unique and not unique)
Putative probes with successfully-picked primers: 494/541

Identified 51 'redundant' probes exceeding selection criteria
(but wholly contained by other probes, and higher repetitive DNA content)

Image

Unique (yellow), passed (green) and failed putative probes in the design window

Unique putative probes

Putative probes

Overall score = score_ratio - 2 * repetitive DNA content

Redundant probes

Overall score = score_ratio - 2 * repetitive DNA content