Mascot Database Maintenance: Edit Database Definitions
Help Window
Select
SwissProt
Ecoli-MetEng
S-cerevisiae-S288C
D-vulgaris-Hild
Beller-meta
A-niger-ATCC1015
High5
Pichia
B-subtilis-168
M-trichosporium
Ecoli-VIMSS
Strep-coelicolor
Strep-rapamycinicus
BELLER-BM5
SteveS-20140611
P-putida
Sphing-paucimobilis
Strep-virid
Strep-venezuelae
Y-lipoytica
Pseudo-rubra
Sebastian
1-steps
Rhodo-toruloides
A.tumefaciens
C.glutamicum
Ralstonia-eutropha
TAIR10
Switchgrass-JGI
micropeptides
R-toruloides-JGI
M-truncatula
P-chrysosporium
Pelosinus-sp-UFO1
Rice_IRGSPv1
Bacillus-cereus
Pseudo-stutzeri
Oryza-sativa
Pichia-pastoris
P_taiwanensis
P.fluorescens-F113
B-thetaiotaomicron
A_Pseudoterrus
Streptomyces-albus
D-vulgaris
P-putida-MT2
Xanthomonas_oryzae
Strep-lividans
Pichia-kudriavzevii
M-alcaliphilum
Strep-albireticuli
B_borstelensis
T-versicolor
Agaricus-bisporus
Singer-community
M-smegmatis
A-oryzae
Z-mays
GW460-LB6
GW460-TSB4
GW458-LB2
Enigma-mix-Oct2020
P-denitrificans
Strep-noursei
Neurospora-crassa
UW-syncom
Ecoli-PKS
P-putida-BP8
P-putida-DZF23
P-putida-W619
P-putida-BP6
P-putida-M2
Test
KrisHunt-SynCom
R.sphaeroides
Seaweed-digest
B-licheniformis
P-putida-PKS
Cglu-SCgG1
N-benthamiana
B-distachyon
Rice-peptide
K-marxianus
CHO
Name
Active
Inactive
Path
AA
NA
Mem map
Mem lock
Threads
Local ref file
Taxonomy
--- None ---
Obsolete
OWL REF
SwissProt FASTA
Obsolete
Swiss-prot DAT
MSDB REF (pre 20000621)
MSDB REF
NCBI nr FASTA using GI2TAXID
dbEST FASTA using GI2TAXID
EST_human FASTA with TaxID
EST_mouse FASTA with TaxID
UniRef Fasta
EMBL EST Fasta
Rule to parse accession string from Fasta file
:
Rule 1: ">owl[^ ]*|\([^ ]*\)"
Rule 2: ">owl[^ ]*|[^ ]*[ ]\(.*\)"
Rule 3: ">[A-Z][0-9];\([^ ]*\)"
Rule 4: ">\([^ ]*\)"
Rule 5: ">[^ ]* \(.*\)"
Rule 6: ">\(gi|[0-9]*\)"
Rule 7: ">[^ ]* \(.*\)"
Rule 8: "\*\(.*\)>"
Rule 9: "\*.*\(>[A-Z][0-9];.*\)"
Rule 10: "\(LOCUS .*\)ORIGIN "
Rule 11: "\(LOCUS .*\)"
Rule 12: ">\([^ ]*\)"
Rule 13: ">[^ ]* \(.*\)"
Rule 14: "<pre>\(.*\)</pre>"
Rule 15: "^ID \([^ ]*\)"
Rule 16: "\*.*\(ID [A-Z0-9]*_[A-Z0-9]* .*\)"
Rule 17: ">\([^ ]*\)"
Rule 18: ">[^ ]* \(.*\)"
Rule 19: ">[A-Z][0-9];\([^ ]*\)[ ]*"
Rule 20: ">\(.*\)"
Rule 21: ">IPI:\([^| .]*\)"
Rule 22: "\*.*\(ID IPI[0-9]* .*\)"
Rule 23: "\(.*\)"
Rule 24: "\*.*\(ID [-A-Z0-9_].*\)"
Rule 25: ">[^(]*.\([^)]*\)"
Rule 26: "^AC \([^ ;]*\)"
Rule 27: "\*.*\(AC \S.*\)"
Rule 28: "^ID \([^ .]*\)"
Rule 29: "\*.*\(ID IPI[0-9.]* .*\)"
Rule 30: ">UniRef100_\([^ ]*\)"
Rule 31: ">[^|]*|\([^ ]*\)"
Rule 32: ">\([^|]*\)"
Rule 33: ">..|[^|]*|\([^ ]*\)"
Rule 34: ">..|\([^|]*\)"
Rule 35: ">sp|\([^|]*\)"
Rule 36: ">IPI:CON_\([^|]*\)"
Rule 37: ">MSIPI:s*p*|*\([^| .]*\)"
Rule 38: ">EM_EST:\([A-Z0-9]*\);"
Rule 39: ">EM_ENV:\([A-Z0-9]*\);"
Rule to parse description string from Fasta file
:
Rule 1: ">owl[^ ]*|\([^ ]*\)"
Rule 2: ">owl[^ ]*|[^ ]*[ ]\(.*\)"
Rule 3: ">[A-Z][0-9];\([^ ]*\)"
Rule 4: ">\([^ ]*\)"
Rule 5: ">[^ ]* \(.*\)"
Rule 6: ">\(gi|[0-9]*\)"
Rule 7: ">[^ ]* \(.*\)"
Rule 8: "\*\(.*\)>"
Rule 9: "\*.*\(>[A-Z][0-9];.*\)"
Rule 10: "\(LOCUS .*\)ORIGIN "
Rule 11: "\(LOCUS .*\)"
Rule 12: ">\([^ ]*\)"
Rule 13: ">[^ ]* \(.*\)"
Rule 14: "<pre>\(.*\)</pre>"
Rule 15: "^ID \([^ ]*\)"
Rule 16: "\*.*\(ID [A-Z0-9]*_[A-Z0-9]* .*\)"
Rule 17: ">\([^ ]*\)"
Rule 18: ">[^ ]* \(.*\)"
Rule 19: ">[A-Z][0-9];\([^ ]*\)[ ]*"
Rule 20: ">\(.*\)"
Rule 21: ">IPI:\([^| .]*\)"
Rule 22: "\*.*\(ID IPI[0-9]* .*\)"
Rule 23: "\(.*\)"
Rule 24: "\*.*\(ID [-A-Z0-9_].*\)"
Rule 25: ">[^(]*.\([^)]*\)"
Rule 26: "^AC \([^ ;]*\)"
Rule 27: "\*.*\(AC \S.*\)"
Rule 28: "^ID \([^ .]*\)"
Rule 29: "\*.*\(ID IPI[0-9.]* .*\)"
Rule 30: ">UniRef100_\([^ ]*\)"
Rule 31: ">[^|]*|\([^ ]*\)"
Rule 32: ">\([^|]*\)"
Rule 33: ">..|[^|]*|\([^ ]*\)"
Rule 34: ">..|\([^|]*\)"
Rule 35: ">sp|\([^|]*\)"
Rule 36: ">IPI:CON_\([^|]*\)"
Rule 37: ">MSIPI:s*p*|*\([^| .]*\)"
Rule 38: ">EM_EST:\([A-Z0-9]*\);"
Rule 39: ">EM_ENV:\([A-Z0-9]*\);"
Rule to parse accession string from local reference file
:
--- no local reference file ---
Rule 1: ">owl[^ ]*|\([^ ]*\)"
Rule 2: ">owl[^ ]*|[^ ]*[ ]\(.*\)"
Rule 3: ">[A-Z][0-9];\([^ ]*\)"
Rule 4: ">\([^ ]*\)"
Rule 5: ">[^ ]* \(.*\)"
Rule 6: ">\(gi|[0-9]*\)"
Rule 7: ">[^ ]* \(.*\)"
Rule 8: "\*\(.*\)>"
Rule 9: "\*.*\(>[A-Z][0-9];.*\)"
Rule 10: "\(LOCUS .*\)ORIGIN "
Rule 11: "\(LOCUS .*\)"
Rule 12: ">\([^ ]*\)"
Rule 13: ">[^ ]* \(.*\)"
Rule 14: "<pre>\(.*\)</pre>"
Rule 15: "^ID \([^ ]*\)"
Rule 16: "\*.*\(ID [A-Z0-9]*_[A-Z0-9]* .*\)"
Rule 17: ">\([^ ]*\)"
Rule 18: ">[^ ]* \(.*\)"
Rule 19: ">[A-Z][0-9];\([^ ]*\)[ ]*"
Rule 20: ">\(.*\)"
Rule 21: ">IPI:\([^| .]*\)"
Rule 22: "\*.*\(ID IPI[0-9]* .*\)"
Rule 23: "\(.*\)"
Rule 24: "\*.*\(ID [-A-Z0-9_].*\)"
Rule 25: ">[^(]*.\([^)]*\)"
Rule 26: "^AC \([^ ;]*\)"
Rule 27: "\*.*\(AC \S.*\)"
Rule 28: "^ID \([^ .]*\)"
Rule 29: "\*.*\(ID IPI[0-9.]* .*\)"
Rule 30: ">UniRef100_\([^ ]*\)"
Rule 31: ">[^|]*|\([^ ]*\)"
Rule 32: ">\([^|]*\)"
Rule 33: ">..|[^|]*|\([^ ]*\)"
Rule 34: ">..|\([^|]*\)"
Rule 35: ">sp|\([^|]*\)"
Rule 36: ">IPI:CON_\([^|]*\)"
Rule 37: ">MSIPI:s*p*|*\([^| .]*\)"
Rule 38: ">EM_EST:\([A-Z0-9]*\);"
Rule 39: ">EM_ENV:\([A-Z0-9]*\);"
Source and parse rule for full text report (optional)
:
Host
Port
Path
--- no full text report ---
Rule 1: ">owl[^ ]*|\([^ ]*\)"
Rule 2: ">owl[^ ]*|[^ ]*[ ]\(.*\)"
Rule 3: ">[A-Z][0-9];\([^ ]*\)"
Rule 4: ">\([^ ]*\)"
Rule 5: ">[^ ]* \(.*\)"
Rule 6: ">\(gi|[0-9]*\)"
Rule 7: ">[^ ]* \(.*\)"
Rule 8: "\*\(.*\)>"
Rule 9: "\*.*\(>[A-Z][0-9];.*\)"
Rule 10: "\(LOCUS .*\)ORIGIN "
Rule 11: "\(LOCUS .*\)"
Rule 12: ">\([^ ]*\)"
Rule 13: ">[^ ]* \(.*\)"
Rule 14: "<pre>\(.*\)</pre>"
Rule 15: "^ID \([^ ]*\)"
Rule 16: "\*.*\(ID [A-Z0-9]*_[A-Z0-9]* .*\)"
Rule 17: ">\([^ ]*\)"
Rule 18: ">[^ ]* \(.*\)"
Rule 19: ">[A-Z][0-9];\([^ ]*\)[ ]*"
Rule 20: ">\(.*\)"
Rule 21: ">IPI:\([^| .]*\)"
Rule 22: "\*.*\(ID IPI[0-9]* .*\)"
Rule 23: "\(.*\)"
Rule 24: "\*.*\(ID [-A-Z0-9_].*\)"
Rule 25: ">[^(]*.\([^)]*\)"
Rule 26: "^AC \([^ ;]*\)"
Rule 27: "\*.*\(AC \S.*\)"
Rule 28: "^ID \([^ .]*\)"
Rule 29: "\*.*\(ID IPI[0-9.]* .*\)"
Rule 30: ">UniRef100_\([^ ]*\)"
Rule 31: ">[^|]*|\([^ ]*\)"
Rule 32: ">\([^|]*\)"
Rule 33: ">..|[^|]*|\([^ ]*\)"
Rule 34: ">..|\([^|]*\)"
Rule 35: ">sp|\([^|]*\)"
Rule 36: ">IPI:CON_\([^|]*\)"
Rule 37: ">MSIPI:s*p*|*\([^| .]*\)"
Rule 38: ">EM_EST:\([A-Z0-9]*\);"
Rule 39: ">EM_ENV:\([A-Z0-9]*\);"
No changes are written to mascot.dat until you choose: