Fur - UniProtKB: Q5F5Y9 regulon and binding site collection of Neisseria gonorrhoeae FA 1090


Sites are listed as curated.

GAGATCTTAAGAAACGTCTTT
TATAATAGAAGATTGCAATTT
TGCAAATCAATGCCG
TTCAGTATAATACGG
AAATAATCAATTCCC
TGAAATTATTTATCA
TGATAATTATTATCG
CTCTGAGTATTCTCA
TGATGCGCGCTCCAA
TAAGAATCGTTATCA
GGCAGATATGTTACC
TTATTTTGATAATTG
TGATAGTTATTATCA
TGATAAAGGTTATCA
CAATATCGGTTTTCC
TAAGTATTGTTTACA
TTAAAATAGAACCATTATC
TATAAAAAAGAGCATTGTT
TATTATATAAATTTTTAGC
TTAATTAACTTTTGTTTTA
TACACTAAGTATCTTATTT
TATAATAAAATCAATTCTT
TTTAAAAAAAATCAATTTT
TGAAAAAAGAATCCATATC
TAATATCAATATATTGATT
ACAAAGAAGTATACTTCTT
CCATACAACTATATTTTTT
AAGAAAAAAGATGATTTTC
TATAAAAAGAAAGTATTTT
TAAAAGAAAACTCATTCTC

Sites are listed after the alignment process. For alignment of variable-length binding sites, LASAGNA is used.

GAGATCTTAAGAAACGTCTTTTGT
GTTATAATAGAAGATTGCAATTTC
TTGTCGGCATTGATTTGCAGCTTC
TCCTGCCGTATTATACTGAAATTT
GTATGGGAATTGATTATTTGTTCA
TTGTTGATAAATAATTTCAATACC
TTTTCGATAATAATTATCATTACA
TGCCCTCTGAGTATTCTCAAAATC
CATTTTGGAGCGCGCATCAGGATG
GTTATGATAACGATTCTTATTTGA
TCGAGGGTAACATATCTGCCAATC
CTATTTATTTTGATAATTGTTTGT
ATAATGATAGTTATTATCATATAT
TTTCTGATAAAGGTTATCATTTGA
GCTACAATATCGGTTTTCCTTTAT
TAAATGTAAACAATACTTAATGCT
TAAATGATAATGGTTCTATTTTAA
AACGCAACAATGCTCTTTTTTATA
TTTGTGCTAAAAATTTATATAATA
ATTGATAAAACAAAAGTTAATTAA
AATACACTAAGTATCTTATTTAAA
CAGCAAAGAATTGATTTTATTATA
AAAAATTTAAAAAAAATCAATTTT
ACACCGATATGGATTCTTTTTTCA
TTGTAAATCAATATATTGATATTA
CTAAAAAGAAGTATACTTCTTTGT
CAACCCATACAACTATATTTTTTA
ACGACAAGAAAAAAGATGATTTTC
TGAATATAAAAAGAAAGTATTTTG
ACACAGAGAATGAGTTTTCTTTTA

For the selected transcription factor and species, the list of curated binding sites in the database are displayed below. Gene regulation diagrams show binding sites, positively-regulated genes, negatively-regulated genes, both positively and negatively regulated genes, genes with unspecified type of regulation.

    Genome TF TF conformation Site sequence Site location Experimental techniques Gene regulation Curations PMIDs
    NC_002946.2 Q5F5Y9 dimer GAGATCTTAAGAAACGTCTTT -[1797653:1797673] Experimental technique details EMSA (ECO:0001807) - Experimental technique details Multiple sequence alignment (MSA) (ECO:0005556) - Experimental technique details Site directed mutagenesis (ECO:0005667) secY (NGO1822) , infA (NGO18211) , rplO (NGO1823) , rpmD (NGO18231) , rpsE (NGO1824) , rplR (NGO18241) , rplF (NGO1825) , rpsH (NGO1826) , rpsN (NGO18261) , rplE (NGO1827) , rplX (NGO1828) , rplN (NGO1829)
    ... ... secY infA rplO rpmD rpsE rplR rplF rpsH rpsN rplE rplX rplN
    269 12081969
    NC_002946.2 Q5F5Y9 dimer TATAATAGAAGATTGCAATTT +[445479:445499] Experimental technique details EMSA (ECO:0001807) - Experimental technique details Multiple sequence alignment (MSA) (ECO:0005556) - Experimental technique details Site directed mutagenesis (ECO:0005667) NGO0449 , NGO0451
    ... ... NGO0449 NGO0451
    269 12081969
    NC_002946.2 Q5F5Y9 not specified TGCAAATCAATGCCG +[80214:80228] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) NGO0076 , NGO0073 , NGO0077
    ... ... NGO0076 NGO0073 NGO0077
    510 22287521
    NC_002946.2 Q5F5Y9 not specified TTCAGTATAATACGG -[234984:234998] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) NGO0233 , NGO0232 , apaH (NGO0231) , NGO0230 , NGO0229 , NGO0234 , NGO0235 , NGO0236
    ... ... NGO0233 NGO0232 apaH NGO0230 NGO0229 NGO0234 NGO0235 NGO0236
    510 22287521
    NC_002946.2 Q5F5Y9 not specified AAATAATCAATTCCC -[201742:201756] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) rho (NGO0199) , NGO0200 , NGO0201 , NGO0202 , NGO0203 , NGO0204
    ... ... rho NGO0200 NGO0201 NGO0202 NGO0203 NGO0204
    510 22287521
    NC_002946.2 Q5F5Y9 not specified TGAAATTATTTATCA +[710342:710356] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) NGO0711 , NGO0710
    ... ... NGO0711 NGO0710
    510 22287521
    NC_002946.2 Q5F5Y9 not specified TGATAATTATTATCG +[884288:884302] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) NGO0904 , NGO0903 , NGO0902 , NGO0901 , NGO0900 , NGO0905 , NGO0906 , NGO0907 , NGO0908
    ... ... NGO0904 NGO0903 NGO0902 NGO0901 NGO0900 NGO0905 NGO0906 NGO0907 NGO0908
    510 22287521
    NC_002946.2 Q5F5Y9 not specified CTCTGAGTATTCTCA +[1151336:1151350] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) NGO1205 , NGO1204 , trpD (NGO1203)
    ... ... NGO1205 NGO1204 trpD
    510 22287521
    NC_002946.2 Q5F5Y9 not specified TGATGCGCGCTCCAA -[1235242:1235256] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) NGO1282 , NGO1283 , NGO1284 , nusA (NGO1285) , infB (NGO1286)
    ... ... NGO1282 NGO1283 NGO1284 nusA infB
    510 22287521
    NC_002946.2 Q5F5Y9 not specified TAAGAATCGTTATCA -[1712427:1712441] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) NGO1751 , NGO1750 , NGO1749 , NGO1748 , NGO1747 , NGO1752 , NGO1753
    ... ... NGO1751 NGO1750 NGO1749 NGO1748 NGO1747 NGO1752 NGO1753
    510 22287521
    NC_002946.2 Q5F5Y9 not specified GGCAGATATGTTACC +[1274917:1274931] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) NGO1317 , NGO1315 , NGO1314 , NGO1318
    ... ... NGO1317 NGO1315 NGO1314 NGO1318
    510 22287521
    NC_002946.2 Q5F5Y9 not specified TTATTTTGATAATTG +[784551:784565] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) NGO0794 , NGO0793 , lipB (NGO0792) , NGO0791 , NGO0790 , NGO0789 , NGO0788 , NGO0787 , NGO0786 , NGO0785 , NGO0795 , NGO0796 , NGO0797 , NGO0798 , NGO0799 , NGO0800 , NGO0801 , NGO_t14 , NGO_t15 , NGO0802 , NGO0803 , NGO0804 , NGO0805
    ... ... NGO0794 NGO0793 lipB NGO0791 NGO0790 NGO0789 NGO0788 NGO0787 NGO0786 NGO0785 NGO0795 NGO0796 NGO0797 NGO0798 NGO0799 NGO0800 NGO0801 NGO_t14 NGO_t15 NGO0802 NGO0803 NGO0804 NGO0805
    510 22287521
    NC_002946.2 Q5F5Y9 not specified TGATAGTTATTATCA -[1228480:1228494] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) NGO1275 , NGO1274 , NGO1273 , NGO1276
    ... ... NGO1275 NGO1274 NGO1273 NGO1276
    510 22287521
    NC_002946.2 Q5F5Y9 not specified TGATAAAGGTTATCA +[2102757:2102771] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) NGO2116 , NGO2113 , NGO2112 , NGO2111 , NGO2117 , NGO2118 , NGO2119 , NGO2120 , NGO2121 , NGO2122 , NGO2123 , NGO2124 , NGO2125 , rpmE (NGO2126)
    ... ... NGO2116 NGO2113 NGO2112 NGO2111 NGO2117 NGO2118 NGO2119 NGO2120 NGO2121 NGO2122 NGO2123 NGO2124 NGO2125 rpmE
    510 22287521
    NC_002946.2 Q5F5Y9 not specified CAATATCGGTTTTCC +[1154980:1154994] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) uvrA (NGO1207) , NGO1206 , NGO1208 , NGO1209 , NGO1210 , NGO1211 , pyrG (NGO1212) , NGO1213 , mnmA (NGO1214) , NGO1215 , NGO1216
    ... ... uvrA NGO1206 NGO1208 NGO1209 NGO1210 NGO1211 pyrG NGO1213 mnmA NGO1215 NGO1216
    510 22287521
    NC_002946.2 Q5F5Y9 not specified TAAGTATTGTTTACA -[1823726:1823740] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) rpoB (NGO1851) , rplL (NGO1852) , rplJ (NGO1853)
    ... ... rpoB rplL rplJ
    510 22287521
    NC_002946.2 Q5F5Y9 dimer TTAAAATAGAACCATTATC +[79590:79608] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Interferometric Reflectance Imaging Sensor (ECO:0005645) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) NGO0073 , NGO0076 , NGO0077
    ... ... NGO0073 NGO0076 NGO0077
    650 24811061
    NC_002946.2 Q5F5Y9 dimer TATAAAAAAGAGCATTGTT +[111968:111986] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Interferometric Reflectance Imaging Sensor (ECO:0005645) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) engB (NGO0100) , NGO0101
    ... ... engB NGO0101
    650 24811061
    NC_002946.2 Q5F5Y9 dimer TATTATATAAATTTTTAGC -[162703:162721] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Interferometric Reflectance Imaging Sensor (ECO:0005645) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) NGO0155 , NGO0156
    ... ... NGO0155 NGO0156
    650 24811061
    NC_002946.2 Q5F5Y9 dimer TTAATTAACTTTTGTTTTA -[303186:303204] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Interferometric Reflectance Imaging Sensor (ECO:0005645) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) pheT (NGO0304) , ihfA (NGO0305) , NGO0306
    ... ... pheT ihfA NGO0306
    650 24811061
    NC_002946.2 Q5F5Y9 dimer TACACTAAGTATCTTATTT -[429354:429372] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Interferometric Reflectance Imaging Sensor (ECO:0005645) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) panB (NGO0436) , NGO0435 , NGO0434 , NGO_t09 , panC (NGO0437)
    ... ... panB NGO0435 NGO0434 NGO_t09 panC
    650 24811061
    NC_002946.2 Q5F5Y9 dimer TATAATAAAATCAATTCTT +[632416:632434] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Interferometric Reflectance Imaging Sensor (ECO:0005645) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) NGO0641 , NGO0640
    ... ... NGO0641 NGO0640
    650 24811061
    NC_002946.2 Q5F5Y9 dimer TTTAAAAAAAATCAATTTT +[879024:879042] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Interferometric Reflectance Imaging Sensor (ECO:0005645) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) greA (NGO0899) , NGO0900
    ... ... greA NGO0900
    650 24811061
    NC_002946.2 Q5F5Y9 dimer TGAAAAAAGAATCCATATC -[1133820:1133838] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Interferometric Reflectance Imaging Sensor (ECO:0005645) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) hslO (NGO1189) , NGO1190 , NGO1191 , NGO1192 , NGO1193 , argJ (NGO1194) , NGO1195
    ... ... hslO NGO1190 NGO1191 NGO1192 NGO1193 argJ NGO1195
    650 24811061
    NC_002946.2 Q5F5Y9 dimer TAATATCAATATATTGATT +[1236266:1236284] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Interferometric Reflectance Imaging Sensor (ECO:0005645) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) NGO1283 , NGO1282 , NGO1284 , nusA (NGO1285) , infB (NGO1286)
    ... ... NGO1283 NGO1282 NGO1284 nusA infB
    650 24811061
    NC_002946.2 Q5F5Y9 dimer ACAAAGAAGTATACTTCTT +[1383000:1383018] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Interferometric Reflectance Imaging Sensor (ECO:0005645) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) NGO1419
    ... ... NGO1419
    650 24811061
    NC_002946.2 Q5F5Y9 dimer CCATACAACTATATTTTTT -[1698395:1698413] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Interferometric Reflectance Imaging Sensor (ECO:0005645) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) NGO1738 , NGO1737 , NGO1736
    ... ... NGO1738 NGO1737 NGO1736
    650 24811061
    NC_002946.2 Q5F5Y9 dimer AAGAAAAAAGATGATTTTC +[1812138:1812156] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Interferometric Reflectance Imaging Sensor (ECO:0005645) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) rpsL (NGO1845) , NGO1844 , NGO1843 , NGO1842 , rpsJ (NGO1841)
    ... ... rpsL NGO1844 NGO1843 NGO1842 rpsJ
    650 24811061
    NC_002946.2 Q5F5Y9 dimer TATAAAAAGAAAGTATTTT +[1922014:1922032] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Interferometric Reflectance Imaging Sensor (ECO:0005645) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) NGO1948 , NGO1947 , NGO1946 , NGO1945 , NGO1944 , NGO1943 , NGO1949 , prfB (NGO1951)
    ... ... NGO1948 NGO1947 NGO1946 NGO1945 NGO1944 NGO1943 NGO1949 prfB
    650 24811061
    NC_002946.2 Q5F5Y9 dimer TAAAAGAAAACTCATTCTC -[1933744:1933762] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Interferometric Reflectance Imaging Sensor (ECO:0005645) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) NGO1957 , NGO1956 , NGO1955
    ... ... NGO1957 NGO1956 NGO1955
    650 24811061

    All binding sites in split view are combined and a sequence logo is generated. Note that it may contain binding site sequences from different transcription factors and different species. To see individiual sequence logos and curation details go to split view.


    Sites are listed as curated.

    GAGATCTTAAGAAACGTCTTT
    TATAATAGAAGATTGCAATTT
    TGCAAATCAATGCCG
    TTCAGTATAATACGG
    AAATAATCAATTCCC
    TGAAATTATTTATCA
    TGATAATTATTATCG
    CTCTGAGTATTCTCA
    TGATGCGCGCTCCAA
    TAAGAATCGTTATCA
    GGCAGATATGTTACC
    TTATTTTGATAATTG
    TGATAGTTATTATCA
    TGATAAAGGTTATCA
    CAATATCGGTTTTCC
    TAAGTATTGTTTACA
    TTAAAATAGAACCATTATC
    TATAAAAAAGAGCATTGTT
    TATTATATAAATTTTTAGC
    TTAATTAACTTTTGTTTTA
    TACACTAAGTATCTTATTT
    TATAATAAAATCAATTCTT
    TTTAAAAAAAATCAATTTT
    TGAAAAAAGAATCCATATC
    TAATATCAATATATTGATT
    ACAAAGAAGTATACTTCTT
    CCATACAACTATATTTTTT
    AAGAAAAAAGATGATTTTC
    TATAAAAAGAAAGTATTTT
    TAAAAGAAAACTCATTCTC
    TTAAAATAGAACCATTATC
    ATAATGGTAACGATTATT
    ATATTGATTATCATT
    ATAAATGCAAATAATTATT
    AAAAATAGGAACAATTATC
    CTTATTGATATTAATTCTT
    ATATTAATAATAATTA
    AATTAAAACTCATTATCA
    GAAAATTACTTTTATTATC
    AATAAGAATTATTTTCA
    TGTAATGATAATTATTATC
    TGATAATAACTATCATTAT
    TGATAATAACTATCATTAT
    TGATAATCATTA
    ATAAACGAAATTTATTATC
    ATAAATAATAATTATTATC
    AAGAATGATAAGGATTATT
    AAATAAGAATCGTTATCA
    GCGAACGATAATCATACGC
    GCTAATAATAATAATTATC
    ATAAATGATAATCTATATC
    AAAAATAATAATAATTATT
    AAATGATAACCTTTATCA

    Sites are listed after the alignment process. For alignment of variable-length binding sites, LASAGNA is used.

    GAGATCTTAAGAAACGTCTTTTGT
    GTTATAATAGAAGATTGCAATTTC
    TTGTCGGCATTGATTTGCAGCTTC
    TCCTGCCGTATTATACTGAAATTT
    GTATGGGAATTGATTATTTGTTCA
    TTGTTGATAAATAATTTCAATACC
    TTTTCGATAATAATTATCATTACA
    TGCCCTCTGAGTATTCTCAAAATC
    CATTTTGGAGCGCGCATCAGGATG
    GTTATGATAACGATTCTTATTTGA
    TCGAGGGTAACATATCTGCCAATC
    CTATTTATTTTGATAATTGTTTGT
    ATAATGATAGTTATTATCATATAT
    TTTCTGATAAAGGTTATCATTTGA
    GCTACAATATCGGTTTTCCTTTAT
    TAAATGTAAACAATACTTAATGCT
    TAAATGATAATGGTTCTATTTTAA
    AACGCAACAATGCTCTTTTTTATA
    TTTGTGCTAAAAATTTATATAATA
    ATTGATAAAACAAAAGTTAATTAA
    AATACACTAAGTATCTTATTTAAA
    CAGCAAAGAATTGATTTTATTATA
    AAAAATTTAAAAAAAATCAATTTT
    ACACCGATATGGATTCTTTTTTCA
    TTGTAAATCAATATATTGATATTA
    CTAAAAAGAAGTATACTTCTTTGT
    CAACCCATACAACTATATTTTTTA
    ACGACAAGAAAAAAGATGATTTTC
    TGAATATAAAAAGAAAGTATTTTG
    ACACAGAGAATGAGTTTTCTTTTA
    Download data in FASTA format.
    Download data in TSV (tab-separated-value) format. For each binding site, all sources of evidence (i.e. experimental techniques and publication information) are combined into one record.
    Download raw data in TSV format. All reported sites are exported individually.
    Download data in Attribute-Relation File Format (ARFF).
    Download Position-Specific-Frequency-Matrix of the motif in TRANSFAC format.
    Download Position-Specific-Frequency-Matrix of the motif in JASPAR format.
    Download Position-Specific-Frequency-Matrix of the motif in raw FASTA format. The matrix consists of four columns in the order A C G T.