#NEXUS [!This data set was downloaded from TreeBASE, a relational database of phylogenetic knowledge. TreeBASE has been supported by the NSF, Harvard University, Yale University, SDSC and UC Davis. Please do not remove this acknowledgment from the Nexus file. Generated on May 25, 2024; 22:31 GMT TreeBASE (cc) 1994-2008 Study reference: Kroken S., & Taylor J. 2000. Phylogenetic species, reproductive mode and specificity of Trebouxia forming lichens with the fungal genus Letharia. The Bryologist, 103(4): 645-660. TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S686] BEGIN TAXA; TITLE Trebouxia_jamesii_actin_I_intron_738; DIMENSIONS NTAX=43; TAXLABELS Trebouxia_from_AP1_Letharia_lupina Trebouxia_from_AV2_Letharia_vulpina Trebouxia_from_AV3_Letharia_vulpina Trebouxia_from_B1_Letharia_gracilis Trebouxia_from_CL1_Letharia_lupina Trebouxia_from_CL1_Letharia_rugosa Trebouxia_from_CL2_Letharia_barbata Trebouxia_from_CL3_Letharia_lucida Trebouxia_from_CP1_Letharia_rugosa Trebouxia_from_CP2_Letharia_rugosa Trebouxia_from_D1_Letharia_lupina Trebouxia_from_D2_Letharia_lucida Trebouxia_from_EP1_Letharia_lucida Trebouxia_from_IT1_Letharia_vulpina Trebouxia_from_IT2_Letharia_vulpina Trebouxia_from_K141_Letharia_gracilis Trebouxia_from_K148_Letharia_gracilis Trebouxia_from_K2_Letharia_gracilis Trebouxia_from_K2_Letharia_lupina Trebouxia_from_L20a_Letharia_lucida Trebouxia_from_L22b_Letharia_lupina Trebouxia_from_LP1_Letharia_barbata Trebouxia_from_MV1_Letharia_lupina Trebouxia_from_OC1_Letharia_barbata Trebouxia_from_Pseudevernia_cladonia Trebouxia_from_Pseudevernia_consocians Trebouxia_from_Pseudevernia_furfuracea Trebouxia_from_SG1_Letharia_lucida Trebouxia_from_SG1_Letharia_lupina Trebouxia_from_SH1_Letharia_lupina Trebouxia_from_ST1_Letharia_barbata Trebouxia_from_ST1_Letharia_lucida Trebouxia_from_ST2_Letharia_lupina Trebouxia_from_T23a_Letharia_lupina Trebouxia_from_T23b_Letharia_lupina Trebouxia_from_T3_Letharia_lucida Trebouxia_from_T4_Letharia_lupina Trebouxia_from_TB1_Letharia_barbata Trebouxia_from_TB1_Letharia_lupina Trebouxia_from_TB2_Letharia_barbata Trebouxia_from_TC1_Letharia_barbata Trebouxia_from_TC1_Letharia_lupina Trebouxia_from_V1_Letharia_rugosa ; END; BEGIN CHARACTERS; [! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M2595] TITLE Trebouxia_jamesii_ITS_and_actin; LINK TAXA = Trebouxia_jamesii_actin_I_intron_738; DIMENSIONS NCHAR=360; FORMAT DATATYPE=DNA SYMBOLS= "A C G T" MISSING=n GAP= -; MATRIX [ 10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220 230 240 250 260 270 280 290 300 310 320 330 340 350 360] [ . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .] Trebouxia_from_AP1_Letharia_lupina GATGGACAGGTGGATAA-TCCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTATG-T-AGGCA-CA-GCAGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTCCC---AGG--GAA-TTTATCC--AG---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CC-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_AV2_Letharia_vulpina GATGGCCAGGT--A-AA-TTT---GCATGCCTGCCATGT-CTCATGTCA-GATT-GTCACA-G-T-GG-CTGCA-CCTG-CTAG-TATT-CTGCC-----CACAT-CA-T--C-TGTGC-TGGTGTGAT-AG-T-TACGTTGTAG-CAACTCACAAGCAT--GTGCCA-GTGGTTTTCAAT---GGCTC-ATGAG-A-TT-TTT--CCGCAGAT-CTGATGCGACAG-G-TTGATGTTCTG--G-TCCTA-TGACA-C-CGCCA-GG-TGCAGCTG-TATTTA----CA--T---GG-------------------CTTTATT-TTGCTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_AV3_Letharia_vulpina GATGGCCAGGT--A-AA-TTT---GCATGCCTGCCATGT-CTCATGTCA-GATT-GTCACA-G-T-GG-CTGCA-CCTG-CTAG-TATT-CTGCC-----CACAT-CA-T--C-TGTGC-TGGTGTGAT-AG-T-TACGTTGTAG-CAACTCACAAGCAT--GTGCCA-GTGGTTTTCAAT---GGCTC-ATGAG-A-TT-TTT--CCGCAGAT-CTGATGCGACAG-G-TTGATGTTCTG--G-TCCTA-TGACA-C-CGCCA-GG-TGCAGCTG-TATTTA----CA--T---GG-------------------CTTTATT-TTGCTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_B1_Letharia_gracilis GATGGACAGGTGGATAA-TCCTCTCC---CC----ATGA-CAC-TGT-TTG-CT-GTAGTATG-T-AGGCA-CA-GCAGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTCCC---AGC--GAA-TTTATCC--AG---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CC-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_CL1_Letharia_lupina GATGGACAGGTGGATAA-TnCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTATG-T-AGGCA-CA-GCAGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTCCC---AGG--GAA-TTTATCC--AG---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CC-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_CL1_Letharia_rugosa GATGGACAGGTGGATAA-TCCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTATG-T-AGGCA-CA-GCAGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTCCC---AGG--GAA-TTTATCC--AG---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CC-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_CL2_Letharia_barbata GATGGACAGGTGGATAA-TCCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTATG-T-AGGCA-CA-GCAGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTCCC---AGG--GAA-TTTATCC--AG---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CC-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_CL3_Letharia_lucida GATGGACAGGTGGATAA-TCCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTATG-T-AGGCA-CA-GCAGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTCCC---AGG--GAA-TTTATCC--AG---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CC-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_CP1_Letharia_rugosa GATGGACAGGTGGATAA-TCCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTATG-T-AGGCA-CA-GCTGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTTCC---AGC-TGGA-TAAATCC---G---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CC-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_CP2_Letharia_rugosa GATGGACAGGTGGATAA-TCCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTATG-T-AGGCA-CA-GCTGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTTCC---AGC-TGGA-TAAATCC---G---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CC-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_D1_Letharia_lupina GATGGACAGGTGGATAA-TCCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTATG-T-AGGCA-CA-GCAGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTCCC---AGG--GAA-TTTATCC--AG---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CC-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_D2_Letharia_lucida GATGGACAGGTGAATAA-TCCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTGTG-T-AGGTA-CA-GCAGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTCCC---AGC--GGA-TTCATCC--AG---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CG-TGTGCAT-TTGCAGGTCATCACCATCGGCAGTGAAAGGTTC Trebouxia_from_EP1_Letharia_lucida GATGGACAGGTGAGTAA-TCCCCTCC---CC----ATGA-CAC-TGT--T-A----TAGTATG-T-AGGCA-CA-GCAGGC-AA-TGTTG-TGTC-----C-CTTTCATT--C-TCTG--TGA-GT-AACAGGGCTG-TTTG----CAAGTC--AAGG---------------TTTT-------GTCCC---AGC--AGA-TTCATCC--AG---CTG--GC--TA-TG----AT-ACCACCTG-------TG--TGC--AC------CCCATCTG-T-GTA-T-GTCAACTCC-G--------------------CG-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_IT1_Letharia_vulpina GATGGCCAGGT--A-AA-TTT---GCATGCCTGCCATGT-CTCATGTCA-GATT-GTCACA-G-T-GG-CTGCA-CCTG-CTAG-TATT-CTGCC-----CACAT-CA-T--C-TGTGC-TGGTGTGAT-AG-T-TACGTTGTAG-CAACTCACAAGCAT--GTGCCA-GTGGTTTTCAAT---GGCTC-ATGAG-A-TT-TTT--CCGCAGAT-CTGATGCGACAG-G-TTGATGTTCTG--G-TCCTA-TGACA-C-CGCCA-GG-TGCAGCTG-TATTTA----CA--T---GG-------------------CTTTATT-TTGCTGCAGGCTATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_IT2_Letharia_vulpina GACGGCCAGGT--G-AA-TTT---GCCTGCCTGCCATGT-C-------A-GATT-GTCACA-G-T-GG-CTGCA-CCTG-CTAG-TATT-CTGCC-----CACAC-CA-C--C-TGTGC-TGGTGTGAT-AG-T-TATTTTGTAG-CAAATCACAAGCAT--GTGCCA-GTGGTGTTCAAT---GGCTCT-TGA--C-TTTCTC-TCCACAGAC-CTGATGCGACAG-G-TGGATGTTTTG--G-TCCTA-TGACAGCAC----TGGGCACAGCTG-TATTGA----CA--T---GG-------------------CTTTGTT-TTGCTGCAGGTCATTACCATTGGCAGTGAAAGGTTC Trebouxia_from_K141_Letharia_gracilis GATGGACAGGTGGATCA-TCCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTATG-T-AGGCA-CA-GCTGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTCCC---AGC--GGA-TTCATCT--AG---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CG-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_K148_Letharia_gracilis GATGGACAGGTGGATCA-TCCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTATG-T-AGGCA-CA-GCTGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTCCC---AGC--GGA-TTCATCT--AG---CTG--GC--CA-TG----nT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CG-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_K2_Letharia_gracilis GATGGACAGGTGGATAA-TCCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTATG-T-AGGCA-CA-GCAGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTCCC---AGG--GAA-TTTATCC--AG---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CC-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_K2_Letharia_lupina GATGGACAGGTGGATAA-TCCTCTCC---CC----ATGA-CAC-TGT-TTG-CT-GTAGTATG-T-AGGCA-CA-GCAGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTCCC---AGC--GAA-TTTATCC--AG---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CC-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_L20a_Letharia_lucida GATGGACAGGTGAATAA-TCCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTGTG-T-AGGTA-CA-GCAGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTCCC---AGC--GGA-TTCATCC--AG---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CG-TGTGCAT-TTGCAGGTCATCACCATCGGCAGTGAAAGGTTC Trebouxia_from_L22b_Letharia_lupina GATGGACAGGTGGATAA-TCCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTATG-T-AGGCA-CA-GCAGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTCCC---AGG--GAA-TTTATCC--AG---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CC-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_LP1_Letharia_barbata GATGGACAGGTGAATAA-TTCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTATG-T-AGGCA-CA-GCAGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCACGTCTGC--C-CA--AAATTT--AAGC---------------TTTT-------GTCTC---AGG--AGA-TTCATCC--AG---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-C-ATCAACTCCA---------------------CG-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_MV1_Letharia_lupina GATGGACAGGTGGATAA-TCCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTATG-T-AGGCA-CA-GCAGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTCCC---AGG--GAA-TTTATCC--AG---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CC-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_OC1_Letharia_barbata GATGGACAGGTGAATAA-TTCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTATG-T-AGGCA-CA-GCAGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCACGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTCTC---AGG--AGA-TTCATCC--AG---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-C-ATCAACTCCA---------------------CG-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_Pseudevernia_cladonia GATGGCCAGGT--ATCCCTTTTTAGC-TGC-----AAGAGCACAT--CA-------TAGCATG-T-AG-CAGC-TGCAG-CAAACTGC-GCAGCATA-TGC-C-T--AGTAACCTGTTT-TGGTGGGATCTGAT--G-G-TGCTGGCTGATCA-AAGC-----T--CACTTGG---CCA--TA---C---AGAGCACTGA---AA--CAAA--TACTG-TGCAGCA-TGCTT-ATGA--AG--G-TACAAGTG-CTGTACGC-ATG--TGTAACAG-TTG--CT---CA--TACAG--------------------CT-TATG-ATATTGCAGGTCATCACCATTGGCAGCGAAAGGTTC Trebouxia_from_Pseudevernia_consocians GATGGCCAGGT--ATCCCTTTTTAGC-TGC-----AAGAGCACAT--CA-------TAGCATG-T-AG-CAGC-TGCAG-CAAACTGC-GCAGCATA-TGC-C-T--AGTAACCTGTTT-TGGTGGGATCTGAT--G-G-TGCTGGCTGATCA-AAGC-----T--CACTTGG---CCA--TA---C---AGAGCACTGA---AA--CAAA--TACTG-TGCAGCA-TGCTT-ATGA--AG--G-TACAAGTG-CTGTACGC-ATG--TGTAACAG-TTG--CT---CA--TACAG--------------------CT-TATG-ATATTGCAGGTCATCACCATTGGCAGCGAAAGGTTC Trebouxia_from_Pseudevernia_furfuracea GATGGCCAGGT--G-AA-TTT---GCTTGCCTGGCATGT-CGCA----A--AAT-GTCACAGGATTGG-CGGGATAC-G--AAG-T-CCGCACCC---------T-CAGG--C--GATCATGGCAGG--CAGTTGTACAAT-CAGTCTGCCCACAT-CAACAGTGCTG-GTG-TTAG-AATTATGT-T--ATGAC-AGAT-AAAA--AGCATATGCC-----AGTGGTGCT-GAAGTGCTGTTGATCCTTGT--CTACATACC-TGA-TGCAACAGGTAAAGCGA--CACCTCCAGGTGCAGCTGTAATTACATGGCTTTGTT-TTGCTGCGAGTCATTACCATTGGCAGTGAAAGGTTC Trebouxia_from_SG1_Letharia_lucida GATGGACAGGTGGATAA-TCCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTATG-T-AGGCA-CA-GCTGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTTCC---AGC-TGGA-TAAATCC---G---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CC-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_SG1_Letharia_lupina GATGGACAGGTGGATAA-TCCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTATG-T-AGGCA-CA-GCTGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTTCC---AGC-TGGA-TAAATCC---G---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CC-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_SH1_Letharia_lupina GATGGACAGGTGGATAA-TCCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTATG-T-AGGCA-CA-GCAGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTCCC---AGG--GAA-TTTATCC--AG---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CC-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_ST1_Letharia_barbata GATGGACAGGTGAGTAA-TCCCCTCC---CC----ATGA-CAC-TGT--T-A----TAGTATG-T-AGGCA-CA-GCAGGC-AA-TGTTG-TGTC-----C-CTTTCATT--C-TCTG--TGA-GT-AACAGGGCTG-TTTG----CAAGTC--AAGG---------------TTTT-------GTCCA---AGC--AGA-TTCATCC--AG---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGC--AC------CCCATCTG-T-GTA-T-GTCAACTCC-G--------------------CG-TGTGCATT-TGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_ST1_Letharia_lucida GATGGACAGGTGAGTAA-TCCCCTCC---CC----ATGA-CAC-TGT--T-A----TAGTATG-T-AGGCA-CA-GCAGGC-AA-TGTTG-TGTC-----C-CTTTCATT--C-TCTG--TGA-GT-AACAGGGCTG-TTTG----CAAGTC--AAGG---------------TTTT-------GTCCC---AGC--AGA-TTCATCC--AG---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGC--AC------CCCATCTG-T-GTA-T-GTGAACTCC-G--------------------CG-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_ST2_Letharia_lupina GATGGACAGGTGGATAA-TCCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTATG-T-AGGCA-CA-GCAGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTCCC---AGG--GAA-TTTATCC--AG---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CC-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_T23a_Letharia_lupina GATGGACAGGTGGATCA-TCCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTATG-T-AGGCA-CA-GCTGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTCCC---AGC--GGA-TTCATCT--AG---CTG--GC--CA-TG----TT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CG-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_T23b_Letharia_lupina GATGGACAGGTGGATCA-TCCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTATG-T-AGGCA-CA-GCTGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTCCC---AGC--GGA-TTCATCT--AG---CTG--GC--CA-TG----TT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CG-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_T3_Letharia_lucida GATGGACAGGTGAATAA-TCCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTGTG-T-AGGTA-CA-GCAGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTCCC---AGC--GGA-TTCATCC--AG---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CG-TGTGCAT-TTGCAGGTCATCACCATCGGCAGTGAAAGGTTC Trebouxia_from_T4_Letharia_lupina GATGGACAGGTGGATAA-TCCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTATG-T-AGGCA-CA-GCAGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTCCC---AGG--GAA-TTTATCC--AG---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CC-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_TB1_Letharia_barbata GATGGACAGGTGGATAA-TCCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTATG-T-AGGCA-CA-GCTGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTTCC---AGC-TGGA-TAAATCC---G---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CC-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_TB1_Letharia_lupina GATGGACAGGTGGATAA-TCCTCTCC---CC----ATGA-CAC-TGT-TTG-CT-GTAGTATG-T-AGGCA-CA-GCAGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--T-CA--CAATTT--AAGC---------------TTTT-------GTCCC---AGC--GAA-TTTATCC--AG---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CC-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_TB2_Letharia_barbata GATGGACAGGTGGATAA-TCCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTATG-T-AGGCA-CA-GCTGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTTCC---AGC-TGGA-TAAATCC---G---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CC-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_TC1_Letharia_barbata GATGGACAGGTGGATCA-TCCTCTCC---CC----ATGA-CAC-TGT-ATG-CT-GTAGTATG-T-AGGCA-CA-GCTGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTCCC---AGC--GGA-TTTATCC--AG---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTC-T--TA-T-ATCAACTCC-------------------------TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_TC1_Letharia_lupina GATGGGCAGGTGGATAA-TCCTCTCC---CC----ATGA-CAC-TGT-TTG-CT-GTAGTATG-T-AGGCA-CA-GCAGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTCCC---AGC--GAA-TTTATCC--AG---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CC-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC Trebouxia_from_V1_Letharia_rugosa GATGGACAGGTGGATAA-TCCTCTCC---CC----ATGA-CAC-TGT-TTG-CT-GTAGTATG-T-AGGCA-CA-GCAGGC-AA-TGTTG-TGTCTAGTCC-CTTTCATT--C-TCTG--TGA-GT-ACCAGGTCTGC--C-CA--CAATTT--AAGC---------------TTTT-------GTCCC---AGC--GAA-TTTATCC--AG---CTG--GC--CA-TG----AT-ACCACCTG-------TG--TGT--AC------CTCATCTG-T-GTA-T-ATCAACTCCA---------------------CC-TGTGCAT-TTGCAGGTCATCACCATTGGCAGTGAAAGGTTC ; END; BEGIN CODONS; CODONPOSSET * CodonPositions (CHARACTERS = Trebouxia_jamesii_ITS_and_actin) = N: 1-360; CODONPOSSET CodonPositions (CHARACTERS = Trebouxia_jamesii_ITS_and_actin) = N: 1-360; END;