Sample status

This table gives the status of each sample, either completed successfully or the reason the workflow failed. If applicable the mean quality for the whole plasmid assembly has been provided, derived by Medaka from aligning the reads to the consensus.

The assembly was generated using Flye.
Sample pass/failed reason Length Mean Quality
sample01 Completed successfully 3036 51.7
sample02 Failed to assemble using Flye N/A N/A
sample03 Completed successfully 3097 43.32
sample04 Completed successfully 3097 45.09
sample05 Completed successfully 3036 50.68
sample06 Completed successfully 3037 38.25
sample07 Completed successfully 3096 46.65
sample08 Completed successfully 3096 46.72
sample09 Completed successfully 3036 50.36
sample10 Completed successfully 3036 46.09
sample11 Completed successfully 3096 44.3
sample12 Completed successfully 3096 42.35

Plannotate

The Plasmid annotation plot and feature table are produced using pLannotate

A pLannotate plot is shown for each assembly. A feature table provides descriptions of the annotated sequence. Unfilled features on the plannotate plots are incomplete features; the sequence match in the plasmid covers less than 95% of the full length of the feature in the database. These elements may be leftover fragments from earlier cloning steps used to create a plasmid. If they include only a small fraction of the feature, they likely do not still have the annotated function. However, even small feature fragments may affect plasmid function if they result in cryptic gene expression or are inadvertently combined with other elements during later cloning steps. The plannotate plot may have overlapping annotation labels, use the zoom and hover tools to decipher the labels.

Feature Database Identity Match Length Description Start Location End Location Length Strand
csgG swissprot 100.0% 100.0% CSGG_ECO57 - Experimental evidence at protein level: Swiss-Prot protein existence level 1. May be involved in the biogenesis of curli organelles. From Escherichia coli O157:H7. 430 1261 831 +
rhaB promoter snapgene 100.0% 100.0% promoter of the E. coli rhaBAD operon, conferring tight induction with L-rhamnose and repression with D-glucose in the presence of RhaR and RhaS (Giacalone et al., 2006) 248 367 119 +
cat promoter snapgene 100.0% 100.0% promoter of the E. coli cat gene encoding chloramphenicol acetyltransferase 61 152 91 -
KanR snapgene 99.4% 100.0% aminoglycoside phosphotransferase; aph(3')-Ia; confers resistance to kanamycin in bacteria or G418 (Geneticin®) in eukaryotes 2281 61 816 -
CloDF13 ori snapgene 100.0% 92.3% Plasmids containing the CloDF13 (CDF) origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins. 1472 2154 682 -
T7 terminator snapgene 100.0% 100.0% transcription terminator for bacteriophage T7 RNA polymerase 1291 1339 48 +
kanMX snapgene 99.2% 57.9% yeast selectable marker conferring kanamycin resistance (Wach et al., 1994) 2281 31 786 -
tonB terminator snapgene 100.0% 100.0% bidirectional E. coli tonB-P14 transcription terminator 152 184 32 -
T3Te terminator snapgene 100.0% 100.0% phage T3 early transcription terminator 1436 1466 30 +
RNAI Rfam 100.0% 99.0% Accession: RF00106 - RNAI 2051 2154 103 +
CloDF13 ori snapgene 99.0% 13.3% Plasmids containing the CloDF13 (CDF) origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins. 2178 2275 98 -
PDK intron snapgene 100.0% 5.1% pdk; modified pyruvate orthophosphate dikinase intron from Flaveria trinervia 3.0 60 142 82 -
Feature Database Identity Match Length Description Start Location End Location Length Strand
TXL_EISFE swissprot 100.0% 100.0% Experimental evidence at protein level: Swiss-Prot protein existence level 1. Pore-forming toxin that defensively acts against parasitic microorganisms by forming pores in sphingomyelin-containing membranes. Has hemolytic activity and is also cytotoxic to spermatozoa of some species of invertebrates and many species of vertebrates and to amphibian larvae, guinea pig polymorphonuclear leukocytes, chicken fibroblasts, normal spleen cells and various tumor cells. Is lethal for various species of reptiles, amphibian, birds and mammals. Induces smooth muscle contraction. It binds sphingomyelin and induces hemolysis in the same manner as lysenin-related protein 2, and is 10-fold more effective than lysenin-related protein 1. 1698 2589 891 -
rhaB promoter snapgene 100.0% 100.0% promoter of the E. coli rhaBAD operon, conferring tight induction with L-rhamnose and repression with D-glucose in the presence of RhaR and RhaS (Giacalone et al., 2006) 2652 2771 119 -
cat promoter snapgene 100.0% 100.0% promoter of the E. coli cat gene encoding chloramphenicol acetyltransferase 2867 2958 91 +
KanR snapgene 99.4% 100.0% aminoglycoside phosphotransferase; aph(3')-Ia; confers resistance to kanamycin in bacteria or G418 (Geneticin®) in eukaryotes 2958 677 816 +
CloDF13 ori snapgene 100.0% 92.3% Plasmids containing the CloDF13 (CDF) origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins. 805 1487 682 +
T7 terminator snapgene 100.0% 100.0% transcription terminator for bacteriophage T7 RNA polymerase 1620 1668 48 -
kanMX snapgene 99.2% 57.9% yeast selectable marker conferring kanamycin resistance (Wach et al., 1994) 2988 677 786 +
tonB terminator snapgene 100.0% 100.0% bidirectional E. coli tonB-P14 transcription terminator 2835 2867 32 +
T3Te terminator snapgene 100.0% 100.0% phage T3 early transcription terminator 1493 1523 30 -
RNAI Rfam 100.0% 99.0% Accession: RF00106 - RNAI 803 906 103 -
CloDF13 ori snapgene 100.0% 13.3% Plasmids containing the CloDF13 (CDF) origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins. 683 781 98 +
PDK intron snapgene 100.0% 5.1% pdk; modified pyruvate orthophosphate dikinase intron from Flaveria trinervia 3.0 2877 2959 82 +
Feature Database Identity Match Length Description Start Location End Location Length Strand
TXL_EISFE swissprot 100.0% 100.0% Experimental evidence at protein level: Swiss-Prot protein existence level 1. Pore-forming toxin that defensively acts against parasitic microorganisms by forming pores in sphingomyelin-containing membranes. Has hemolytic activity and is also cytotoxic to spermatozoa of some species of invertebrates and many species of vertebrates and to amphibian larvae, guinea pig polymorphonuclear leukocytes, chicken fibroblasts, normal spleen cells and various tumor cells. Is lethal for various species of reptiles, amphibian, birds and mammals. Induces smooth muscle contraction. It binds sphingomyelin and induces hemolysis in the same manner as lysenin-related protein 2, and is 10-fold more effective than lysenin-related protein 1. 1819 2710 891 -
rhaB promoter snapgene 100.0% 100.0% promoter of the E. coli rhaBAD operon, conferring tight induction with L-rhamnose and repression with D-glucose in the presence of RhaR and RhaS (Giacalone et al., 2006) 2773 2892 119 -
cat promoter snapgene 100.0% 100.0% promoter of the E. coli cat gene encoding chloramphenicol acetyltransferase 2988 3079 91 +
KanR snapgene 99.4% 100.0% aminoglycoside phosphotransferase; aph(3')-Ia; confers resistance to kanamycin in bacteria or G418 (Geneticin®) in eukaryotes 3079 798 816 +
CloDF13 ori snapgene 100.0% 92.3% Plasmids containing the CloDF13 (CDF) origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins. 926 1608 682 +
T7 terminator snapgene 100.0% 100.0% transcription terminator for bacteriophage T7 RNA polymerase 1741 1789 48 -
kanMX snapgene 99.2% 57.9% yeast selectable marker conferring kanamycin resistance (Wach et al., 1994) 12 798 786 +
tonB terminator snapgene 100.0% 100.0% bidirectional E. coli tonB-P14 transcription terminator 2956 2988 32 +
T3Te terminator snapgene 100.0% 100.0% phage T3 early transcription terminator 1614 1644 30 -
RNAI Rfam 100.0% 99.0% Accession: RF00106 - RNAI 924 1027 103 -
CloDF13 ori snapgene 100.0% 13.3% Plasmids containing the CloDF13 (CDF) origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins. 804 902 98 +
PDK intron snapgene 100.0% 5.1% pdk; modified pyruvate orthophosphate dikinase intron from Flaveria trinervia 3.0 2998 3080 82 +
Feature Database Identity Match Length Description Start Location End Location Length Strand
csgG swissprot 100.0% 100.0% CSGG_ECO57 - Experimental evidence at protein level: Swiss-Prot protein existence level 1. May be involved in the biogenesis of curli organelles. From Escherichia coli O157:H7. 765 1596 831 -
rhaB promoter snapgene 100.0% 100.0% promoter of the E. coli rhaBAD operon, conferring tight induction with L-rhamnose and repression with D-glucose in the presence of RhaR and RhaS (Giacalone et al., 2006) 1659 1778 119 -
cat promoter snapgene 100.0% 100.0% promoter of the E. coli cat gene encoding chloramphenicol acetyltransferase 1874 1965 91 +
KanR snapgene 99.4% 100.0% aminoglycoside phosphotransferase; aph(3')-Ia; confers resistance to kanamycin in bacteria or G418 (Geneticin®) in eukaryotes 1965 2781 816 +
CloDF13 ori snapgene 100.0% 92.3% Plasmids containing the CloDF13 (CDF) origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins. 2908 554 682 +
T7 terminator snapgene 100.0% 100.0% transcription terminator for bacteriophage T7 RNA polymerase 687 735 48 -
kanMX snapgene 99.2% 57.9% yeast selectable marker conferring kanamycin resistance (Wach et al., 1994) 1995 2781 786 +
tonB terminator snapgene 100.0% 100.0% bidirectional E. coli tonB-P14 transcription terminator 1842 1874 32 +
T3Te terminator snapgene 100.0% 100.0% phage T3 early transcription terminator 560 590 30 -
RNAI Rfam 100.0% 99.0% Accession: RF00106 - RNAI 2906 3009 103 -
CloDF13 ori snapgene 99.0% 13.3% Plasmids containing the CloDF13 (CDF) origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins. 2787 2884 98 +
PDK intron snapgene 100.0% 5.1% pdk; modified pyruvate orthophosphate dikinase intron from Flaveria trinervia 3.0 1884 1966 82 +
Feature Database Identity Match Length Description Start Location End Location Length Strand
csgG swissprot 100.0% 100.0% CSGG_ECO57 - Experimental evidence at protein level: Swiss-Prot protein existence level 1. May be involved in the biogenesis of curli organelles. From Escherichia coli O157:H7. 2137 2968 831 -
rhaB promoter snapgene 100.0% 100.0% promoter of the E. coli rhaBAD operon, conferring tight induction with L-rhamnose and repression with D-glucose in the presence of RhaR and RhaS (Giacalone et al., 2006) 3031 113 119 -
cat promoter snapgene 100.0% 100.0% promoter of the E. coli cat gene encoding chloramphenicol acetyltransferase 209 300 91 +
KanR snapgene 99.4% 100.0% aminoglycoside phosphotransferase; aph(3')-Ia; confers resistance to kanamycin in bacteria or G418 (Geneticin®) in eukaryotes 300 1116 816 +
CloDF13 ori snapgene 100.0% 92.3% Plasmids containing the CloDF13 (CDF) origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins. 1244 1926 682 +
T7 terminator snapgene 100.0% 100.0% transcription terminator for bacteriophage T7 RNA polymerase 2059 2107 48 -
kanMX snapgene 99.2% 57.9% yeast selectable marker conferring kanamycin resistance (Wach et al., 1994) 330 1116 786 +
tonB terminator snapgene 100.0% 100.0% bidirectional E. coli tonB-P14 transcription terminator 177 209 32 +
T3Te terminator snapgene 100.0% 100.0% phage T3 early transcription terminator 1932 1962 30 -
RNAI Rfam 100.0% 99.0% Accession: RF00106 - RNAI 1242 1345 103 -
CloDF13 ori snapgene 100.0% 13.3% Plasmids containing the CloDF13 (CDF) origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins. 1122 1220 98 +
PDK intron snapgene 100.0% 5.1% pdk; modified pyruvate orthophosphate dikinase intron from Flaveria trinervia 3.0 219 301 82 +
Feature Database Identity Match Length Description Start Location End Location Length Strand
TXL_EISFE swissprot 100.0% 100.0% Experimental evidence at protein level: Swiss-Prot protein existence level 1. Pore-forming toxin that defensively acts against parasitic microorganisms by forming pores in sphingomyelin-containing membranes. Has hemolytic activity and is also cytotoxic to spermatozoa of some species of invertebrates and many species of vertebrates and to amphibian larvae, guinea pig polymorphonuclear leukocytes, chicken fibroblasts, normal spleen cells and various tumor cells. Is lethal for various species of reptiles, amphibian, birds and mammals. Induces smooth muscle contraction. It binds sphingomyelin and induces hemolysis in the same manner as lysenin-related protein 2, and is 10-fold more effective than lysenin-related protein 1. 2971 766 891 -
rhaB promoter snapgene 100.0% 100.0% promoter of the E. coli rhaBAD operon, conferring tight induction with L-rhamnose and repression with D-glucose in the presence of RhaR and RhaS (Giacalone et al., 2006) 829 948 119 -
cat promoter snapgene 100.0% 100.0% promoter of the E. coli cat gene encoding chloramphenicol acetyltransferase 1044 1135 91 +
KanR snapgene 99.4% 100.0% aminoglycoside phosphotransferase; aph(3')-Ia; confers resistance to kanamycin in bacteria or G418 (Geneticin®) in eukaryotes 1135 1951 816 +
CloDF13 ori snapgene 100.0% 92.3% Plasmids containing the CloDF13 (CDF) origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins. 2078 2760 682 +
T7 terminator snapgene 100.0% 100.0% transcription terminator for bacteriophage T7 RNA polymerase 2893 2941 48 -
kanMX snapgene 99.2% 57.9% yeast selectable marker conferring kanamycin resistance (Wach et al., 1994) 1165 1951 786 +
tonB terminator snapgene 100.0% 100.0% bidirectional E. coli tonB-P14 transcription terminator 1012 1044 32 +
T3Te terminator snapgene 100.0% 100.0% phage T3 early transcription terminator 2766 2796 30 -
RNAI Rfam 100.0% 99.0% Accession: RF00106 - RNAI 2076 2179 103 -
CloDF13 ori snapgene 99.0% 13.3% Plasmids containing the CloDF13 (CDF) origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins. 1957 2054 98 +
PDK intron snapgene 100.0% 5.1% pdk; modified pyruvate orthophosphate dikinase intron from Flaveria trinervia 3.0 1054 1136 82 +
Feature Database Identity Match Length Description Start Location End Location Length Strand
TXL_EISFE swissprot 100.0% 100.0% Experimental evidence at protein level: Swiss-Prot protein existence level 1. Pore-forming toxin that defensively acts against parasitic microorganisms by forming pores in sphingomyelin-containing membranes. Has hemolytic activity and is also cytotoxic to spermatozoa of some species of invertebrates and many species of vertebrates and to amphibian larvae, guinea pig polymorphonuclear leukocytes, chicken fibroblasts, normal spleen cells and various tumor cells. Is lethal for various species of reptiles, amphibian, birds and mammals. Induces smooth muscle contraction. It binds sphingomyelin and induces hemolysis in the same manner as lysenin-related protein 2, and is 10-fold more effective than lysenin-related protein 1. 765 1656 891 -
rhaB promoter snapgene 100.0% 100.0% promoter of the E. coli rhaBAD operon, conferring tight induction with L-rhamnose and repression with D-glucose in the presence of RhaR and RhaS (Giacalone et al., 2006) 1719 1838 119 -
cat promoter snapgene 100.0% 100.0% promoter of the E. coli cat gene encoding chloramphenicol acetyltransferase 1934 2025 91 +
KanR snapgene 99.4% 100.0% aminoglycoside phosphotransferase; aph(3')-Ia; confers resistance to kanamycin in bacteria or G418 (Geneticin®) in eukaryotes 2025 2841 816 +
CloDF13 ori snapgene 100.0% 92.3% Plasmids containing the CloDF13 (CDF) origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins. 2968 554 682 +
T7 terminator snapgene 100.0% 100.0% transcription terminator for bacteriophage T7 RNA polymerase 687 735 48 -
kanMX snapgene 99.2% 57.9% yeast selectable marker conferring kanamycin resistance (Wach et al., 1994) 2055 2841 786 +
tonB terminator snapgene 100.0% 100.0% bidirectional E. coli tonB-P14 transcription terminator 1902 1934 32 +
T3Te terminator snapgene 100.0% 100.0% phage T3 early transcription terminator 560 590 30 -
RNAI Rfam 100.0% 99.0% Accession: RF00106 - RNAI 2966 3069 103 -
CloDF13 ori snapgene 99.0% 13.3% Plasmids containing the CloDF13 (CDF) origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins. 2847 2944 98 +
PDK intron snapgene 100.0% 5.1% pdk; modified pyruvate orthophosphate dikinase intron from Flaveria trinervia 3.0 1944 2026 82 +
Feature Database Identity Match Length Description Start Location End Location Length Strand
csgG swissprot 100.0% 100.0% CSGG_ECO57 - Experimental evidence at protein level: Swiss-Prot protein existence level 1. May be involved in the biogenesis of curli organelles. From Escherichia coli O157:H7. 302 1133 831 +
rhaB promoter snapgene 100.0% 100.0% promoter of the E. coli rhaBAD operon, conferring tight induction with L-rhamnose and repression with D-glucose in the presence of RhaR and RhaS (Giacalone et al., 2006) 120 239 119 +
cat promoter snapgene 100.0% 100.0% promoter of the E. coli cat gene encoding chloramphenicol acetyltransferase 2969 24 91 -
KanR snapgene 99.4% 100.0% aminoglycoside phosphotransferase; aph(3')-Ia; confers resistance to kanamycin in bacteria or G418 (Geneticin®) in eukaryotes 2153 2969 816 -
CloDF13 ori snapgene 100.0% 92.3% Plasmids containing the CloDF13 (CDF) origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins. 1344 2026 682 -
T7 terminator snapgene 100.0% 100.0% transcription terminator for bacteriophage T7 RNA polymerase 1163 1211 48 +
kanMX snapgene 99.2% 57.9% yeast selectable marker conferring kanamycin resistance (Wach et al., 1994) 2153 2939 786 -
tonB terminator snapgene 100.0% 100.0% bidirectional E. coli tonB-P14 transcription terminator 24 56 32 -
T3Te terminator snapgene 100.0% 100.0% phage T3 early transcription terminator 1308 1338 30 +
RNAI Rfam 100.0% 99.0% Accession: RF00106 - RNAI 1923 2026 103 +
CloDF13 ori snapgene 99.0% 13.3% Plasmids containing the CloDF13 (CDF) origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins. 2050 2147 98 -
PDK intron snapgene 100.0% 5.1% pdk; modified pyruvate orthophosphate dikinase intron from Flaveria trinervia 3.0 2968 14 82 -
Feature Database Identity Match Length Description Start Location End Location Length Strand
csgG swissprot 100.0% 100.0% CSGG_ECO57 - Experimental evidence at protein level: Swiss-Prot protein existence level 1. May be involved in the biogenesis of curli organelles. From Escherichia coli O157:H7. 2137 2968 831 -
rhaB promoter snapgene 100.0% 100.0% promoter of the E. coli rhaBAD operon, conferring tight induction with L-rhamnose and repression with D-glucose in the presence of RhaR and RhaS (Giacalone et al., 2006) 3031 114 119 -
cat promoter snapgene 100.0% 100.0% promoter of the E. coli cat gene encoding chloramphenicol acetyltransferase 210 301 91 +
KanR snapgene 99.4% 100.0% aminoglycoside phosphotransferase; aph(3')-Ia; confers resistance to kanamycin in bacteria or G418 (Geneticin®) in eukaryotes 301 1117 816 +
CloDF13 ori snapgene 100.0% 92.3% Plasmids containing the CloDF13 (CDF) origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins. 1244 1926 682 +
T7 terminator snapgene 100.0% 100.0% transcription terminator for bacteriophage T7 RNA polymerase 2059 2107 48 -
kanMX snapgene 99.2% 57.9% yeast selectable marker conferring kanamycin resistance (Wach et al., 1994) 331 1117 786 +
tonB terminator snapgene 100.0% 100.0% bidirectional E. coli tonB-P14 transcription terminator 178 210 32 +
T3Te terminator snapgene 100.0% 100.0% phage T3 early transcription terminator 1932 1962 30 -
RNAI Rfam 100.0% 99.0% Accession: RF00106 - RNAI 1242 1345 103 -
CloDF13 ori snapgene 99.0% 13.3% Plasmids containing the CloDF13 (CDF) origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins. 1123 1220 98 +
PDK intron snapgene 100.0% 5.1% pdk; modified pyruvate orthophosphate dikinase intron from Flaveria trinervia 3.0 220 302 82 +
Feature Database Identity Match Length Description Start Location End Location Length Strand
TXL_EISFE swissprot 100.0% 100.0% Experimental evidence at protein level: Swiss-Prot protein existence level 1. Pore-forming toxin that defensively acts against parasitic microorganisms by forming pores in sphingomyelin-containing membranes. Has hemolytic activity and is also cytotoxic to spermatozoa of some species of invertebrates and many species of vertebrates and to amphibian larvae, guinea pig polymorphonuclear leukocytes, chicken fibroblasts, normal spleen cells and various tumor cells. Is lethal for various species of reptiles, amphibian, birds and mammals. Induces smooth muscle contraction. It binds sphingomyelin and induces hemolysis in the same manner as lysenin-related protein 2, and is 10-fold more effective than lysenin-related protein 1. 2976 771 891 -
rhaB promoter snapgene 100.0% 100.0% promoter of the E. coli rhaBAD operon, conferring tight induction with L-rhamnose and repression with D-glucose in the presence of RhaR and RhaS (Giacalone et al., 2006) 834 953 119 -
cat promoter snapgene 100.0% 100.0% promoter of the E. coli cat gene encoding chloramphenicol acetyltransferase 1049 1140 91 +
KanR snapgene 99.4% 100.0% aminoglycoside phosphotransferase; aph(3')-Ia; confers resistance to kanamycin in bacteria or G418 (Geneticin®) in eukaryotes 1140 1956 816 +
CloDF13 ori snapgene 100.0% 92.3% Plasmids containing the CloDF13 (CDF) origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins. 2083 2765 682 +
T7 terminator snapgene 100.0% 100.0% transcription terminator for bacteriophage T7 RNA polymerase 2898 2946 48 -
kanMX snapgene 99.2% 57.9% yeast selectable marker conferring kanamycin resistance (Wach et al., 1994) 1170 1956 786 +
tonB terminator snapgene 100.0% 100.0% bidirectional E. coli tonB-P14 transcription terminator 1017 1049 32 +
T3Te terminator snapgene 100.0% 100.0% phage T3 early transcription terminator 2771 2801 30 -
RNAI Rfam 100.0% 99.0% Accession: RF00106 - RNAI 2081 2184 103 -
CloDF13 ori snapgene 99.0% 13.3% Plasmids containing the CloDF13 (CDF) origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins. 1962 2059 98 +
PDK intron snapgene 100.0% 5.1% pdk; modified pyruvate orthophosphate dikinase intron from Flaveria trinervia 3.0 1059 1141 82 +
Feature Database Identity Match Length Description Start Location End Location Length Strand
TXL_EISFE swissprot 100.0% 100.0% Experimental evidence at protein level: Swiss-Prot protein existence level 1. Pore-forming toxin that defensively acts against parasitic microorganisms by forming pores in sphingomyelin-containing membranes. Has hemolytic activity and is also cytotoxic to spermatozoa of some species of invertebrates and many species of vertebrates and to amphibian larvae, guinea pig polymorphonuclear leukocytes, chicken fibroblasts, normal spleen cells and various tumor cells. Is lethal for various species of reptiles, amphibian, birds and mammals. Induces smooth muscle contraction. It binds sphingomyelin and induces hemolysis in the same manner as lysenin-related protein 2, and is 10-fold more effective than lysenin-related protein 1. 2567 362 891 +
rhaB promoter snapgene 100.0% 100.0% promoter of the E. coli rhaBAD operon, conferring tight induction with L-rhamnose and repression with D-glucose in the presence of RhaR and RhaS (Giacalone et al., 2006) 2385 2504 119 +
cat promoter snapgene 100.0% 100.0% promoter of the E. coli cat gene encoding chloramphenicol acetyltransferase 2198 2289 91 -
KanR snapgene 99.4% 100.0% aminoglycoside phosphotransferase; aph(3')-Ia; confers resistance to kanamycin in bacteria or G418 (Geneticin®) in eukaryotes 1382 2198 816 -
CloDF13 ori snapgene 100.0% 92.3% Plasmids containing the CloDF13 (CDF) origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins. 573 1255 682 -
T7 terminator snapgene 100.0% 100.0% transcription terminator for bacteriophage T7 RNA polymerase 392 440 48 +
kanMX snapgene 99.2% 57.9% yeast selectable marker conferring kanamycin resistance (Wach et al., 1994) 1382 2168 786 -
tonB terminator snapgene 100.0% 100.0% bidirectional E. coli tonB-P14 transcription terminator 2289 2321 32 -
T3Te terminator snapgene 100.0% 100.0% phage T3 early transcription terminator 537 567 30 +
RNAI Rfam 100.0% 99.0% Accession: RF00106 - RNAI 1152 1255 103 +
CloDF13 ori snapgene 99.0% 13.3% Plasmids containing the CloDF13 (CDF) origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins. 1279 1376 98 -
PDK intron snapgene 100.0% 5.1% pdk; modified pyruvate orthophosphate dikinase intron from Flaveria trinervia 3.0 2197 2279 82 -

Read Counts

Number of reads per sample.

Read stats

For each assembly, read length statistics and plots of quality before and after downsampling, and after host filtering if a host reference was provided.

Completed successfully

Read count

4,830

Read count

578

Read count

202

Failed to assemble using Flye

Read count

4,830

Read count

583

Read count

207

Completed successfully

Read count

1,334

Read count

603

Read count

199

Completed successfully

Read count

1,334

Read count

541

Read count

203

Completed successfully

Read count

1,334

Read count

608

Read count

222

Completed successfully

Read count

1,334

Read count

521

Read count

221

Completed successfully

Read count

1,334

Read count

593

Read count

213

Completed successfully

Read count

1,334

Read count

671

Read count

210

Completed successfully

Read count

1,334

Read count

437

Read count

209

Completed successfully

Read count

1,334

Read count

416

Read count

216

Completed successfully

Read count

1,334

Read count

527

Read count

212

Completed successfully

Read count

1,334

Read count

697

Read count

201

Insert sequences

This table shows which primers were found in the consensus sequence of each sample and where the inserts were found.

Sample start end primer strand Insert length
sample01 371 1500 pRham + 1129
sample03 1459 2648 pRham - 1189
sample04 1580 2769 pRham - 1189
sample05 526 1655 pRham - 1129
sample06 1898 3027 pRham - 1129
sample07 2732 825 pRham - 1189
sample08 526 1715 pRham - 1189
sample09 243 1372 pRham + 1129
sample10 1898 3027 pRham - 1129
sample11 2737 830 pRham - 1189
sample12 2508 601 pRham + 1189

Multiple Sequence Alignment

This section shows the inserts aligned with each other or a reference sequence if provided. 

Reference GGCCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTATAAGAAGGAGATATACATATGCAGCGTCTGTTTCTGCTG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTCGCGGTGGTGCTGCTGGCGGTTGTCTGACCGCACCGCCGAAAGAAGCGGCACGTCCGACCCTGATGCGTGCACAGTCT
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TATAAAGATCTGACCCATCTGCCGGCTCCGACGGGCAAAATTTTGTTAGCGTCTATAACATCCAGGACGAAACCGGTCAA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TTTAAACCGTACCCGGCGAGTAATTTCTCCACAGCCGTTCCGCAGAGTGCAACCGCTATGCTGGTCACGGCACTGAAAGA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TTCCGTTGGTTCATTCCGCTGGAACGCCAGGGCCTGCAAAACCCTGCTGAATGAACGTAAAATTATCCGCGCAGCTCAGG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AAAACAGTACCGTGGCCATTAACAATCGTATTCCGCTGCAAAGCCTGACCGCCGCAAACATCATGGTTGAAGGCTCTATC
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference ATCGGTTACAGATCAAACGTCAAATCGGGCGGTGTGGGCGCACGTTATTTTGGCATTGGTGCTGATACCCAGTACCAACT
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GGACCAGATCCTGGTATGCGCGTTCCAGTTATCAGGTAGGTGTTTAACCAAGAAAGTTGTCAGTGTCTTTGTGGTTTTCG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CATTTATCGTGAAACGCTTTCGCGTTTTCGTGCGCCGCTTCACTGGGAGTTCGCAGAGGATTTGTTTAGCTAAACACGCG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTTGCTCTTGAAGTGTGCGCCAAAGTCCGGCTACACTGGAAGGACAGATTTGGTTGCTGTGCTCTGCGAAAGCCAGTTAC
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CACGGTTAAGCAGTTCCCCAACTGACTTAACCTTCGATCAAACCACCTCCCCAGGTGGTTTTTTCGAAGGTTAAGTCAGT
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TGAGGAACTGCTTAACCTTCGATCAAACCACCTCCCCAGGTGGTTTTTTCGTTTACAGGGCAAAAGATTACGCGCAGAAA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AAAGGATCTCAAGAAGATCCTTTGATCGCTAGCTTAGAAAAACTCATCGAGCATCAAGTGAAACTGCAATTTATTCATAT
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CAGGATTATCAATACCATATTTTTGAAAAAGCCGTTTCTGTAATGAAGGAGAAAACTCACCGAGGCAGTTCCATAGGATG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GCAAGATCCTGGTATCGGTCTGCGATTCCGACTCGTCCAACATCAATACAACCTATTAATTTCCCCTCGTCAAAAATAAG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTTATCAAGTGAGAAATCACCATGAGTGACGACTGAATCCGGTGAGAATGGCAAAAGCTTATGCATTTCTTTCCAGACTT
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTTCAACAGGCCAGCCATTACGCTCGTCATCAAAATCACTCGCACCAACCAAACCGTTATTCATTCGTGATTGCGCCTGA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GCGAGACGAAATACGCGATCGCCGTTAAAAGGACAATTACAAACAGGAATCGAATGCAACCGGCGCAGGAACACTGCCAG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CGCATCAACAATATTTTCACCTGAATCAGGATATTCTTCTAATACCTGGAATGCTGTTTTCCCTGGGATCGCAGTGGTGA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTAACCATGCATCATCAGGAGTACGGATAAAATGCTTGATGGTCGGAAGAGGCATAAATTCCGTCAGCCAGTTTAGCCTG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference ACCATCTCATCTGTAACATCATTGGCAACGCTACCTTTGCCATGTTTCAGAAACAACTCTGGCGCATCGGGCTTCCCATA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CAATCGATAGATTGTCGCACCTGATTGCCCGACATTATCGCGAGCCCATTTATACCCATATAAATCAGCATCCATGTTGG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AATTTAATCGCGGCCTCGAGCAAGACGTTTCCCGTTGAATATGGCTCATAGCTCCTGAAAATCTCGATAACTCAAAAAAT
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference ACGCCCGGTAGTGATCTTATTTCATTATGGTGAAAGTTGGAACCTCTTACGTGCCGATCAAGTCAAAAGCCTCCGGTCGG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AGGCTTTTGACTTTCTGCTATGGAGGTCAGGTATGATTTAAATGGTCAGTATTGAGCGATATCTAGAGAATTCGTCCACC
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference ACAATTCAGCAAATTGTGAACATCATCACGTTCATCTTTCCCTGGTTGCCAATGGCCCATTTTCCTGTCAGTAACGAGAA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GGTCGCGAATTCAGGCGCTTTTTAGACTGGTCGTAGGGAGACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTA
sample01  ---------------------------------------GACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTA
sample03  ---------------------------------------GACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTA
sample04  ---------------------------------------GACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTA
sample05  ---------------------------------------GACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTA
sample06  ---------------------------------------GACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTA
sample07  --------------------------------------------------------------------------------
sample08  ---------------------------------------GACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTA
sample09  ---------------------------------------GACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTA
sample10  ---------------------------------------GACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTA
sample11  --------------------------------------------------------------------------------
sample12  ---------------------------------------GACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTA

Reference TAAGAAGGAGATATACATATG-CAGCGTCTGTTTCTGCTGGT--CGCGGTGAT-GCTGCTGA-GTGGTTGTCTGACCGCA
sample01  TAAGAAGGAGATATACATATG-CAGCGTCTGTTTCTGCTGGT--CGCGGTGAT-GCTGCTGA-GTGGTTGTCTGACCGCA
sample03  TAAGAAGGAGATATACATATGAGTGCGAAGGCTGCTGAAGGTTATGAACAAATCGAAGTTGATGTGGTTG-CTGTGTGGA
sample04  TAAGAAGGAGATATACATATGAGTGCGAAGGCTGCTGAAGGTTATGAACAAATCGAAGTTGATGTGGTTG-CTGTGTGGA
sample05  TAAGAAGGAGATATACATATG-CAGCGTCTGTTTCTGCTGGT--CGCGGTGAT-GCTGCTGA-GTGGTTGTCTGACCGCA
sample06  TAAGAAGGAGATATACATATG-CAGCGTCTGTTTCTGCTGGT--CGCGGTGAT-GCTGCTGA-GTGGTTGTCTGACCGCA
sample07  --------------------------------------------------------------------------------
sample08  TAAGAAGGAGATATACATATGAGTGCGAAGGCTGCTGAAGGTTATGAACAAATCGAAGTTGATGTGGTTG-CTGTGTGGA
sample09  TAAGAAGGAGATATACATATG-CAGCGTCTGTTTCTGCTGGT--CGCGGTGAT-GCTGCTGA-GTGGTTGTCTGACCGCA
sample10  TAAGAAGGAGATATACATATG-CAGCGTCTGTTTCTGCTGGT--CGCGGTGAT-GCTGCTGA-GTGGTTGTCTGACCGCA
sample11  --------------------------------------------------------------------------------
sample12  TAAGAAGGAGATATACATATGAGTGCGAAGGCTGCTGAAGGTTATGAACAAATCGAAGTTGATGTGGTTG-CTGTGTGGA

Reference CCGCCG---A-----AAGAA----GCG---GCACGTCC---GACCCTG--ATGCCGCGTGCAC---AGTCTTATAAAGAT
sample01  CCGCCG---A-----AAGAA----GCG---GCACGTCC---GACCCTG--ATGCCGCGTGCAC---AGTCTTATAAAGAT
sample03  AGGAAGGTTATGTGTATGAAAATCGTGGTAGTACCTCCGTGGATCAAAAAATTAC-CAT-CACGAAAGGC--ATGAAGAA
sample04  AGGAAGGTTATGTGTATGAAAATCGTGGTAGTACCTCCGTGGATCAAAAAATTAC-CAT-CACGAAAGGC--ATGAAGAA
sample05  CCGCCG---A-----AAGAA----GCG---GCACGTCC---GACCCTG--ATGCCGCGTGCAC---AGTCTTATAAAGAT
sample06  CCGCCG---A-----AAGAA----GCG---GCACGTCC---GACCCTG--ATGCCGCGTGCAC---AGTCTTATAAAGAT
sample07  --------------------------------------------------------------------------------
sample08  AGGAAGGTTATGTGTATGAAAATCGTGGTAGTACCTCCGTGGATCAAAAAATTAC-CAT-CACGAAAGGC--ATGAAGAA
sample09  CCGCCG---A-----AAGAA----GCG---GCACGTCC---GACCCTG--ATGCCGCGTGCAC---AGTCTTATAAAGAT
sample10  CCGCCG---A-----AAGAA----GCG---GCACGTCC---GACCCTG--ATGCCGCGTGCAC---AGTCTTATAAAGAT
sample11  --------------------------------------------------------------------------------
sample12  AGGAAGGTTATGTGTATGAAAATCGTGGTAGTACCTCCGTGGATCAAAAAATTAC-CAT-CACGAAAGGC--ATGAAGAA

Reference C-TGA----C-CCATCTG-CCGG-CTCCGACG-GGCAAAATTTTTGTTAGC-GT-CTATAACATCCAG-GAC------GA
sample01  C-TGA----C-CCATCTG-CCGG-CTCCGACG-GGCAAAATTTTTGTTAGC-GT-CTATAACATCCAG-GAC------GA
sample03  CGTTAATAGCGAAACCCGTACGGTCACCG-CGACGCA----TTCTATTGGCAGTACCATCTCCACGGGTGACGCCTTTGA
sample04  CGTTAATAGCGAAACCCGTACGGTCACCG-CGACGCA----TTCTATTGGCAGTACCATCTCCACGGGTGACGCCTTTGA
sample05  C-TGA----C-CCATCTG-CCGG-CTCCGACG-GGCAAAATTTTTGTTAGC-GT-CTATAACATCCAG-GAC------GA
sample06  C-TGA----C-CCATCTG-CCGG-CTCCGACG-GGCAAAATTTTTGTTAGC-GT-CTATAACATCCAG-GAC------GA
sample07  --------------------------------------------------------------------------------
sample08  CGTTAATAGCGAAACCCGTACGGTCACCG-CGACGCA----TTCTATTGGCAGTACCATCTCCACGGGTGACGCCTTTGA
sample09  C-TGA----C-CCATCTG-CCGG-CTCCGACG-GGCAAAATTTTTGTTAGC-GT-CTATAACATCCAG-GAC------GA
sample10  C-TGA----C-CCATCTG-CCGG-CTCCGACG-GGCAAAATTTTTGTTAGC-GT-CTATAACATCCAG-GAC------GA
sample11  --------------------------------------------------------------------------------
sample12  CGTTAATAGCGAAACCCGTACGGTCACCG-CGACGCA----TTCTATTGGCAGTACCATCTCCACGGGTGACGCCTTTGA

Reference AACCGG-TC-----AA-TTT-AAA--C-CGTA-CC-CGGCGAGT---AA-TTTC--T--CC---ACGGCCGT-TCCG---
sample01  AACCGG-TC-----AA-TTT-AAA--C-CGTA-CC-CGGCGAGT---AA-TTTC--T--CC---ACGGCCGT-TCCG---
sample03  AATCGGCTCCGTGGAAGTTTCATATTCGCATAGCCACGAAGAATCACAAGTTTCGATGACCGAAACGGAAGTCTACGAAT
sample04  AATCGGCTCCGTGGAAGTTTCATATTCGCATAGCCACGAAGAATCACAAGTTTCGATGACCGAAACGGAAGTCTACGAAT
sample05  AACCGG-TC-----AA-TTT-AAA--C-CGTA-CC-CGGCGAGT---AA-TTTC--T--CC---ACGGCCGT-TCCG---
sample06  AACCGG-TC-----AA-TTT-AAA--C-CGTA-CC-CGGCGAGT---AA-TTTC--T--CC---ACGGCCGT-TCCG---
sample07  --------------------------------------------------------------------------------
sample08  AATCGGCTCCGTGGAAGTTTCATATTCGCATAGCCACGAAGAATCACAAGTTTCGATGACCGAAACGGAAGTCTACGAAT
sample09  AACCGG-TC-----AA-TTT-AAA--C-CGTA-CC-CGGCGAGT---AA-TTTC--T--CC---ACGGCCGT-TCCG---
sample10  AACCGG-TC-----AA-TTT-AAA--C-CGTA-CC-CGGCGAGT---AA-TTTC--T--CC---ACGGCCGT-TCCG---
sample11  --------------------------------------------------------------------------------
sample12  AATCGGCTCCGTGGAAGTTTCATATTCGCATAGCCACGAAGAATCACAAGTTTCGATGACCGAAACGGAAGTCTACGAAT

Reference C-AGAGTG---CAAC-CGCTATGCTGGTCACGGC-A-CTGAAAGATTC-C-CGTTGGTTCATTCCGCTGGAACGCCAG-G
sample01  C-AGAGTG---CAAC-CGCTATGCTGGTCACGGC-A-CTGAAAGATTC-C-CGTTGGTTCATTCCGCTGGAACGCCAG-G
sample03  CAAAAGTGATTGAACACACCATTACGATCCCGCCGACCTCGAAG-TTCACGCGCTGG--CA----GCT-GAACG-CAGAT
sample04  CAAAAGTGATTGAACACACCATTACGATCCCGCCGACCTCGAAG-TTCACGCGCTGG--CA----GCT-GAACG-CAGAT
sample05  C-AGAGTG---CAAC-CGCTATGCTGGTCACGGC-A-CTGAAAGATTC-C-CGTTGGTTCATTCCGCTGGAACGCCAG-G
sample06  C-AGAGTG---CAAC-CGCTATGCTGGTCACGGC-A-CTGAAAGATTC-C-CGTTGGTTCATTCCGCTGGAACGCCAG-G
sample07  --------------------------------------------------------------------------------
sample08  CAAAAGTGATTGAACACACCATTACGATCCCGCCGACCTCGAAG-TTCACGCGCTGG--CA----GCT-GAACG-CAGAT
sample09  C-AGAGTG---CAAC-CGCTATGCTGGTCACGGC-A-CTGAAAGATTC-C-CGTTGGTTCATTCCGCTGGAACGCCAG-G
sample10  C-AGAGTG---CAAC-CGCTATGCTGGTCACGGC-A-CTGAAAGATTC-C-CGTTGGTTCATTCCGCTGGAACGCCAG-G
sample11  --------------------------------------------------------------------------------
sample12  CAAAAGTGATTGAACACACCATTACGATCCCGCCGACCTCGAAG-TTCACGCGCTGG--CA----GCT-GAACG-CAGAT

Reference GCCTGCAAAACCTGCTGA-A-TGAACGTAAAATTATCCGCGCAGCTCAGGAAAACGGTA--CCG-TGGCCATTAACAATC
sample01  GCCTGCAAAACCTGCTGA-A-TGAACGTAAAATTATCCGCGCAGCTCAGGAAAACGGTA--CCG-TGGCCATTAACAATC
sample03  GTCGGC----GGTGCTGACATTGAA--TATATGTA-CC-TG-ATC-GATGAA---GTTACCCCGATTGGCGGTACGCAGA
sample04  GTCGGC----GGTGCTGACATTGAA--TATATGTA-CC-TG-ATC-GATGAA---GTTACCCCGATTGGCGGTACGCAGA
sample05  GCCTGCAAAACCTGCTGA-A-TGAACGTAAAATTATCCGCGCAGCTCAGGAAAACGGTA--CCG-TGGCCATTAACAATC
sample06  GCCTGCAAAACCTGCTGA-A-TGAACGTAAAATTATCCGCGCAGCTCAGGAAAACGGTA--CCG-TGGCCATTAACAATC
sample07  -------------------------------------------------GAA---GTTACCCCGATTGGCGGTACGCAGA
sample08  GTCGGC----GGTGCTGACATTGAA--TATATGTA-CC-TG-ATC-GATGAA---GTTACCCCGATTGGCGGTACGCAGA
sample09  GCCTGCAAAACCTGCTGA-A-TGAACGTAAAATTATCCGCGCAGCTCAGGAAAACGGTA--CCG-TGGCCATTAACAATC
sample10  GCCTGCAAAACCTGCTGA-A-TGAACGTAAAATTATCCGCGCAGCTCAGGAAAACGGTA--CCG-TGGCCATTAACAATC
sample11  --------------------------------------------------------------CGATTGGCGGTACGCAGA
sample12  GTCGGC----GGTGCTGACATTGAA--TATATGTA-CC-TG-ATC-GATGAA---GTTACCCCGATTGGCGGTACGCAGA

Reference GTATTCCGC---TGCAAAGCCTGACCGCCGCAAACATCATGGTTGAAGGCTCTATCATC--GGTTACGAATCAAACGTCA
sample01  GTATTCCGC---TGCAAAGCCTGACCGCCGCAAACATCATGGTTGAAGGCTCTATCATC--GGTTACGAATCAAACGTCA
sample03  GTATTCCGCAAGTG-ATCACCT-CCCG-TGCAAAAATTATCGTTGGTCGCCAGATTATCCTGGGCAAG-ACCGAAATTCG
sample04  GTATTCCGCAAGTG-ATCACCT-CCCG-TGCAAAAATTATCGTTGGTCGCCAGATTATCCTGGGCAAG-ACCGAAATTCG
sample05  GTATTCCGC---TGCAAAGCCTGACCGCCGCAAACATCATGGTTGAAGGCTCTATCATC--GGTTACGAATCAAACGTCA
sample06  GTATTCCGC---TGCAAAGCCTGACCGCCGCAAACATCATGGTTGAAGGCTCTATCATC--GGTTACGAATCAAACGTCA
sample07  GTATTCCGCAAGTG-ATCACCT-CCCG-TGCAAAAATTATCGTTGGTCGCCAGATTATCCTGGGCAAG-ACCGAAATTCG
sample08  GTATTCCGCAAGTG-ATCACCT-CCCG-TGCAAAAATTATCGTTGGTCGCCAGATTATCCTGGGCAAG-ACCGAAATTCG
sample09  GTATTCCGC---TGCAAAGCCTGACCGCCGCAAACATCATGGTTGAAGGCTCTATCATC--GGTTACGAATCAAACGTCA
sample10  GTATTCCGC---TGCAAAGCCTGACCGCCGCAAACATCATGGTTGAAGGCTCTATCATC--GGTTACGAATCAAACGTCA
sample11  GTATTCCGCAAGTG-ATCACCT-CCCG-TGCAAAAATTATCGTTGGTCGCCAGATTATCCTGGGCAAG-ACCGAAATTCG
sample12  GTATTCCGCAAGTG-ATCACCT-CCCG-TGCAAAAATTATCGTTGGTCGCCAGATTATCCTGGGCAAG-ACCGAAATTCG

Reference AATCGGGCGGTG-TGGGCGCACGTTAT-TTTGGCATTGGT--GCTG-ATACCCAGTACCAACTG-GAC-C-AGATCGCAG
sample01  AATCGGGCGGTG-TGGGCGCACGTTAT-TTTGGCATTGGT--GCTG-ATACCCAGTACCAACTG-GAC-C-AGATCGCAG
sample03  TATCAAAC-ATGCTGAACGCAAGGAATATATGACCGTGGTTAGCCGTAAATCTTG-GCCGGCGGCCACGCTGGGTCACAG
sample04  TATCAAAC-ATGCTGAACGCAAGGAATATATGACCGTGGTTAGCCGTAAATCTTG-GCCGGCGGCCACGCTGGGTCACAG
sample05  AATCGGGCGGTG-TGGGCGCACGTTAT-TTTGGCATTGGT--GCTG-ATACCCAGTACCAACTG-GAC-C-AGATCGCAG
sample06  AATCGGGCGGTG-TGGGCGCACGTTAT-TTTGGCATTGGT--GCTG-ATACCCAGTACCAACTG-GAC-C-AGATCGCAG
sample07  TATCAAAC-ATGCTGAACGCAAGGAATATATGACCGTGGTTAGCCGTAAATCTTG-GCCGGCGGCCACGCTGGGTCACAG
sample08  TATCAAAC-ATGCTGAACGCAAGGAATATATGACCGTGGTTAGCCGTAAATCTTG-GCCGGCGGCCACGCTGGGTCACAG
sample09  AATCGGGCGGTG-TGGGCGCACGTTAT-TTTGGCATTGGT--GCTG-ATACCCAGTACCAACTG-GAC-C-AGATCGCAG
sample10  AATCGGGCGGTG-TGGGCGCACGTTAT-TTTGGCATTGGT--GCTG-ATACCCAGTACCAACTG-GAC-C-AGATCGCAG
sample11  TATCAAAC-ATGCTGAACGCAAGGAATATATGACCGTGGTTAGCCGTAAATCTTG-GCCGGCGGCCACGCTGGGTCACAG
sample12  TATCAAAC-ATGCTGAACGCAAGGAATATATGACCGTGGTTAGCCGTAAATCTTG-GCCGGCGGCCACGCTGGGTCACAG

Reference TTAACCTGCGCGTGGTTAATGTCAGCACCG-GCGAA-ATTCTGAGCTCTGTGAATACCAGCAAAACGATCCTGTCTTACG
sample01  TTAACCTGCGCGTGGTTAATGTCAGCACCG-GCGAA-ATTCTGAGCTCTGTGAATACCAGCAAAACGATCCTGTCTTACG
sample03  TAAAC-------TGTTTAA-GTTCGTGCTGTACGAAGATT-GGGGCGGTTT---TCGCATCAAAAC---CCTG-AATACG
sample04  TAAAC-------TGTTTAA-GTTCGTGCTGTACGAAGATT-GGGGCGGTTT---TCGCATCAAAAC---CCTG-AATACG
sample05  TTAACCTGCGCGTGGTTAATGTCAGCACCG-GCGAA-ATTCTGAGCTCTGTGAATACCAGCAAAACGATCCTGTCTTACG
sample06  TTAACCTGCGCGTGGTTAATGTCAGCACCG-GCGAA-ATTCTGAGCTCTGTGAATACCAGCAAAACGATCCTGTCTTACG
sample07  TAAAC-------TGTTTAA-GTTCGTGCTGTACGAAGATT-GGGGCGGTTT---TCGCATCAAAAC---CCTG-AATACG
sample08  TAAAC-------TGTTTAA-GTTCGTGCTGTACGAAGATT-GGGGCGGTTT---TCGCATCAAAAC---CCTG-AATACG
sample09  TTAACCTGCGCGTGGTTAATGTCAGCACCG-GCGAA-ATTCTGAGCTCTGTGAATACCAGCAAAACGATCCTGTCTTACG
sample10  TTAACCTGCGCGTGGTTAATGTCAGCACCG-GCGAA-ATTCTGAGCTCTGTGAATACCAGCAAAACGATCCTGTCTTACG
sample11  TAAAC-------TGTTTAA-GTTCGTGCTGTACGAAGATT-GGGGCGGTTT---TCGCATCAAAAC---CCTG-AATACG
sample12  TAAAC-------TGTTTAA-GTTCGTGCTGTACGAAGATT-GGGGCGGTTT---TCGCATCAAAAC---CCTG-AATACG

Reference AAGTGCAGGCTGGTGTTT--TTCGTTTCATTGAT-TATCAACGCCTGCTGGAAGGCGAAGTCGGTTA---CACC-TCAA-
sample01  AAGTGCAGGCTGGTGTTT--TTCGTTTCATTGAT-TATCAACGCCTGCTGGAAGGCGAAGTCGGTTA---CACC-TCAA-
sample03  A--TGTATTCTGGTTATGAATACGCGT-ATAGCTCTGACCAGG---GC-GGTA-TCTACTTCGATCAAGGCACCGACAAC
sample04  A--TGTATTCTGGTTATGAATACGCGT-ATAGCTCTGACCAGG---GC-GGTA-TCTACTTCGATCAAGGCACCGACAAC
sample05  AAGTGCAGGCTGGTGTTT--TTCGTTTCATTGAT-TATCAACGCCTGCTGGAAGGCGAAGTCGGTTA---CACC-TCAA-
sample06  AAGTGCAGGCTGGTGTTT--TTCGTTTCATTGAT-TATCAACGCCTGCTGGAAGGCGAAGTCGGTTA---CACC-TCAA-
sample07  A--TGTATTCTGGTTATGAATACGCGT-ATAGCTCTGACCAGG---GC-GGTA-TCTACTTCGATCAAGGCACCGACAAC
sample08  A--TGTATTCTGGTTATGAATACGCGT-ATAGCTCTGACCAGG---GC-GGTA-TCTACTTCGATCAAGGCACCGACAAC
sample09  AAGTGCAGGCTGGTGTTT--TTCGTTTCATTGAT-TATCAACGCCTGCTGGAAGGCGAAGTCGGTTA---CACC-TCAA-
sample10  AAGTGCAGGCTGGTGTTT--TTCGTTTCATTGAT-TATCAACGCCTGCTGGAAGGCGAAGTCGGTTA---CACC-TCAA-
sample11  A--TGTATTCTGGTTATGAATACGCGT-ATAGCTCTGACCAGG---GC-GGTA-TCTACTTCGATCAAGGCACCGACAAC
sample12  A--TGTATTCTGGTTATGAATACGCGT-ATAGCTCTGACCAGG---GC-GGTA-TCTACTTCGATCAAGGCACCGACAAC

Reference ACGAACCGGTGATG---C-TGTGTCTGATGTC-GGCGAT-TGAAACGG-G-TGT--T-ATTTTCCTGATCAATGATGGCA
sample01  ACGAACCGGTGATG---C-TGTGTCTGATGTC-GGCGAT-TGAAACGG-G-TGT--T-ATTTTCCTGATCAATGATGGCA
sample03  CCGAAACAGCGTTGGGCCATTAATAAGA-GCCTGCCGCTGCGCCATGGTGATGTCGTGACCTTTATGAACAAATACTTCA
sample04  CCGAAACAGCGTTGGGCCATTAATAAGA-GCCTGCCGCTGCGCCATGGTGATGTCGTGACCTTTATGAACAAATACTTCA
sample05  ACGAACCGGTGATG---C-TGTGTCTGATGTC-GGCGAT-TGAAACGG-G-TGT--T-ATTTTCCTGATCAATGATGGCA
sample06  ACGAACCGGTGATG---C-TGTGTCTGATGTC-GGCGAT-TGAAACGG-G-TGT--T-ATTTTCCTGATCAATGATGGCA
sample07  CCGAAACAGCGTTGGGCCATTAATAAGA-GCCTGCCGCTGCGCCATGGTGATGTCGTGACCTTTATGAACAAATACTTCA
sample08  CCGAAACAGCGTTGGGCCATTAATAAGA-GCCTGCCGCTGCGCCATGGTGATGTCGTGACCTTTATGAACAAATACTTCA
sample09  ACGAACCGGTGATG---C-TGTGTCTGATGTC-GGCGAT-TGAAACGG-G-TGT--T-ATTTTCCTGATCAATGATGGCA
sample10  ACGAACCGGTGATG---C-TGTGTCTGATGTC-GGCGAT-TGAAACGG-G-TGT--T-ATTTTCCTGATCAATGATGGCA
sample11  CCGAAACAGCGTTGGGCCATTAATAAGA-GCCTGCCGCTGCGCCATGGTGATGTCGTGACCTTTATGAACAAATACTTCA
sample12  CCGAAACAGCGTTGGGCCATTAATAAGA-GCCTGCCGCTGCGCCATGGTGATGTCGTGACCTTTATGAACAAATACTTCA

Reference -TCGACCGTGGTCTGTGGGATCTGCAGAACAAAGCCGAACG-TCAAAATG-ACATTCTGGTGAAATACCGCCACATGAGT
sample01  -TCGACCGTGGTCTGTGGGATCTGCAGAACAAAGCCGAACG-TCAAAATG-ACATTCTGGTGAAATACCGCCACATGAGT
sample03  CGCGTTC-TGGTCTGTGCTAT-----GATGACGGCCCGGCGACCAATGTGTATTGTCTGGATAAACGCGAAGACAAGTGG
sample04  CGCGTTC-TGGTCTGTGCTAT-----GATGACGGCCCGGCGACCAATGTGTATTGTCTGGATAAACGCGAAGACAAGTGG
sample05  -TCGACCGTGGTCTGTGGGATCTGCAGAACAAAGCCGAACG-TCAAAATG-ACATTCTGGTGAAATACCGCCACATGAGT
sample06  -TCGACCGTGGTCTGTGGGATCTGCAGAACAAAGCCGAACG-TCAAAATG-ACATTCTGGTGAAATACCGCCACATGAGT
sample07  CGCGTTC-TGGTCTGTGCTAT-----GATGACGGCCCGGCGACCAATGTGTATTGTCTGGATAAACGCGAAGACAAGTGG
sample08  CGCGTTC-TGGTCTGTGCTAT-----GATGACGGCCCGGCGACCAATGTGTATTGTCTGGATAAACGCGAAGACAAGTGG
sample09  -TCGACCGTGGTCTGTGGGATCTGCAGAACAAAGCCGAACG-TCAAAATG-ACATTCTGGTGAAATACCGCCACATGAGT
sample10  -TCGACCGTGGTCTGTGGGATCTGCAGAACAAAGCCGAACG-TCAAAATG-ACATTCTGGTGAAATACCGCCACATGAGT
sample11  CGCGTTC-TGGTCTGTGCTAT-----GATGACGGCCCGGCGACCAATGTGTATTGTCTGGATAAACGCGAAGACAAGTGG
sample12  CGCGTTC-TGGTCTGTGCTAT-----GATGACGGCCCGGCGACCAATGTGTATTGTCTGGATAAACGCGAAGACAAGTGG

Reference GTTCCACCAG-AATC--CTAATGAGCAGCAGCCACCGCTGAGCAATAACTAGCATAACCCCTTGGGGCCTCTAAACGGGT
sample01  GTTCCACCAG-AATC--CTAATGAGCAGCAGCCACCGCTGAGCAATAACTAGCATAACCCCTTGGGGCCTCTAAACGGGT
sample03  ATTCTGGAAGTTGTCGGATAATGAGCAGCAGCCACCGCTGAGCAATAACTAGCATAACCCCTTGGGGCCTCTAAACGGGT
sample04  ATTCTGGAAGTTGTCGGATAATGAGCAGCAGCCACCGCTGAGCAATAACTAGCATAACCCCTTGGGGCCTCTAAACGGGT
sample05  GTTCCACCAG-AATC--CTAATGAGCAGCAGCCACCGCTGAGCAATAACTAGCATAACCCCTTGGGGCCTCTAAACGGGT
sample06  GTTCCACCAG-AATC--CTAATGAGCAGCAGCCACCGCTGAGCAATAACTAGCATAACCCCTTGGGGCCTCTAAACGGGT
sample07  ATTCTGGAAGTTGTCGGATAATGAGCAGCAGCCACCGCTGAGCAATAACTAGCATAACCCCTTGGGGCCTCTAAACGGGT
sample08  ATTCTGGAAGTTGTCGGATAATGAGCAGCAGCCACCGCTGAGCAATAACTAGCATAACCCCTTGGGGCCTCTAAACGGGT
sample09  GTTCCACCAG-AATC--CTAATGAGCAGCAGCCACCGCTGAGCAATAACTAGCATAACCCCTTGGGGCCTCTAAACGGGT
sample10  GTTCCACCAG-AATC--CTAATGAGCAGCAGCCACCGCTGAGCAATAACTAGCATAACCCCTTGGGGCCTCTAAACGGGT
sample11  ATTCTGGAAGTTGTCGGATAATGAGCAGCAGCCACCGCTGAGCAATAACTAGCATAACCCCTTGGGGCCTCTAAACGGGT
sample12  ATTCTGGAAGTTGTCGGATAATGAGCAGCAGCCACCGCTGAGCAATAACTAGCATAACCCCTTGGGGCCTCTAAACGGGT

Reference CTTGAGGGGTTTTTTGCTGAAAGGAGGAACTATATCCGGGTAACGAATTCAAGCTTGATATCATTCAGGACGAGCCTCAG
sample01  CTTGAGGGGTTTTTTGCTGAAAGGAGGAACTATATCCGGGTAACGAATTCAAGCTTGATATCATTCAGGACGAGCCTCAG
sample03  CTTGAGGGGTTTTTTGCTGAAAGGAGGAACTATATCCGGGTAACGAATTCAAGCTTGATATCATTCAGGACGAGCCTCAG
sample04  CTTGAGGGGTTTTTTGCTGAAAGGAGGAACTATATCCGGGTAACGAATTCAAGCTTGATATCATTCAGGACGAGCCTCAG
sample05  CTTGAGGGGTTTTTTGCTGAAAGGAGGAACTATATCCGGGTAACGAATTCAAGCTTGATATCATTCAGGACGAGCCTCAG
sample06  CTTGAGGGGTTTTTTGCTGAAAGGAGGAACTATATCCGGGTAACGAATTCAAGCTTGATATCATTCAGGACGAGCCTCAG
sample07  CTTGAGGGGTTTTTTGCTGAAAGGAGGAACTATATCCGGGTAACGAATTCAAGCTTGATATCATTCAGGACGAGCCTCAG
sample08  CTTGAGGGGTTTTTTGCTGAAAGGAGGAACTATATCCGGGTAACGAATTCAAGCTTGATATCATTCAGGACGAGCCTCAG
sample09  CTTGAGGGGTTTTTTGCTGAAAGGAGGAACTATATCCGGGTAACGAATTCAAGCTTGATATCATTCAGGACGAGCCTCAG
sample10  CTTGAGGGGTTTTTTGCTGAAAGGAGGAACTATATCCGGGTAACGAATTCAAGCTTGATATCATTCAGGACGAGCCTCAG
sample11  CTTGAGGGGTTTTTTGCTGAAAGGAGGAACTATATCCGGGTAACGAATTCAAGCTTGATATCATTCAGGACGAGCCTCAG
sample12  CTTGAGGGGTTTTTTGCTGAAAGGAGGAACTATATCCGGGTAACGAATTCAAGCTTGATATCATTCAGGACGAGCCTCAG

Reference ACTCCAGCGTAACTGGACTGCAATCAACTCACTGGCTCACCTTCACGGGTGGGCCTTTCTTCGGGATCCGCGCTGCGGAC
sample01  ACTCCAGCGTAACTGGACTGCAATCAACTCACTGGCTCACCTTCACGGGTGGGCCTTTCTTCGGGATCCGCGCTGCGGAC
sample03  ACTCCAGCGTAACTGGACTGCAATCAACTCACTGGCTCACCTTCACGGGTGGGCCTTTCTTCGGGATCCGCGCTGCGGAC
sample04  ACTCCAGCGTAACTGGACTGCAATCAACTCACTGGCTCACCTTCACGGGTGGGCCTTTCTTCGGGATCCGCGCTGCGGAC
sample05  ACTCCAGCGTAACTGGACTGCAATCAACTCACTGGCTCACCTTCACGGGTGGGCCTTTCTTCGGGATCCGCGCTGCGGAC
sample06  ACTCCAGCGTAACTGGACTGCAATCAACTCACTGGCTCACCTTCACGGGTGGGCCTTTCTTCGGGATCCGCGCTGCGGAC
sample07  ACTCCAGCGTAACTGGACTGCAATCAACTCACTGGCTCACCTTCACGGGTGGGCCTTTCTTCGGGATCCGCGCTGCGGAC
sample08  ACTCCAGCGTAACTGGACTGCAATCAACTCACTGGCTCACCTTCACGGGTGGGCCTTTCTTCGGGATCCGCGCTGCGGAC
sample09  ACTCCAGCGTAACTGGACTGCAATCAACTCACTGGCTCACCTTCACGGGTGGGCCTTTCTTCGGGATCCGCGCTGCGGAC
sample10  ACTCCAGCGTAACTGGACTGCAATCAACTCACTGGCTCACCTTCACGGGTGGGCCTTTCTTCGGGATCCGCGCTGCGGAC
sample11  ACTCCAGCGTAACTGGACTGCAATCAACTCACTGGCTCACCTTCACGGGTGGGCCTTTCTTCGGGATCCGCGCTGCGGAC
sample12  ACTCCAGCGTAACTGGACTGCAATCAACTCACTGGCTCACCTTCACGGGTGGGCCTTTCTTCGGGATCCGCGCTGCGGAC

Reference ACATACAAAGTTACCCACAGATTCCGTGGATAAGCAGGGGACTAACATGTGAGGCAAAACAGCAGGGCCGCGCCGGTGGC
sample01  ACATACAAAGTTACCCA---------------------------------------------------------------
sample03  ACATACAAAGTTACCCA---------------------------------------------------------------
sample04  ACATACAAAGTTACCCA---------------------------------------------------------------
sample05  ACATACAAAGTTACCCA---------------------------------------------------------------
sample06  ACATACAAAGTTACCCA---------------------------------------------------------------
sample07  ACATACAAAGTTACCCACAGATTCCGTGGATAAGCAGGGGACTAACATGTGAGGCAAAACAGCAGGGCCGCGCCGGTGGC
sample08  ACATACAAAGTTACCCA---------------------------------------------------------------
sample09  ACATACAAAGTTACCCA---------------------------------------------------------------
sample10  ACATACAAAGTTACCCA---------------------------------------------------------------
sample11  ACATACAAAGTTACCCACAGATTCCGTGGATAAGCAGGGGACTAACATGTGAGGCAAAACAGCAGGGCCGCGCCGGTGGC
sample12  ACATACAAAGTTACCCA---------------------------------------------------------------

Reference GTTTTTCCATAGGCTCCGCCCTCCTGCCAGAGTTCACATAAACAGACGCTTTTCCGGTGCATCTGTGGGAGCCGTGAGGC
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  GTTTTTCCATAGGCTCCGCCCTCCTGCCAGAGTTCACATAAACAGACGCTTTTCCGGTGCATCTGTGGGAGCCGTGAGGC
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  GTTTTTCCATAGGCTCCGCCCTCCTGCCAGAGTTCACATAAACAGACGCTTTTCCGGTGCATCTGTGGGAGCCGTGAGGC
sample12  --------------------------------------------------------------------------------

Reference TCAACCATGAATCTGACAGTACGGGCGAAACCCGACAGGACTTAAAGATCCCCACCGTTTCCGGCGGGTCGCTCCCTCTT
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  TCAACCATGAATCTGACAGTACGGGCGAAACCCGACAGGACTTAAAGATCCCCACCGTTTCCGGCGGGTCGCTCCCTCTT
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  TCAACCATGAATCTGACAGTACGGGCGAAACCCGACAGGACTTAAAGATCCCCACCGTTTCCGGCGGGTCGCTCCCTCTT
sample12  --------------------------------------------------------------------------------

Reference GCGCTCTCCTGTTCCGACCCTGCCGTTTACCGGATACCTGTTCCGCCTTTCTCCCTTACGGGAAGTGTGGCGCTTTCTCA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  GCGCTCTCCTGTTCCGACCCTGCCGTTTACCGGATACCTGTTCCGCCTTTCTCCCTTACGGGAAGTGTGGCGCTTTCTCA
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  GCGCTCTCCTGTTCCGACCCTGCCGTTTACCGGATACCTGTTCCGCCTTTCTCCCTTACGGGAAGTGTGGCGCTTTCTCA
sample12  --------------------------------------------------------------------------------

Reference TAGCTCACACACTGGTATCTCGGCTCGGTGTAGGTCGTTCGCTCCAAGCTGGGCTGTAAGCAAGAACTCCCCGTTCAGCC
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  TAGCTCACACACTGGTATCTCGGCTCGGTGTAGGTCGTTCGCTCCAAGCTGGGCTGTAAGCAAGAACTCCCCGTTCAGCC
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  TAGCTCACACACTGGTATCTCGGCTCGGTGTAGGTCGTTCGCTCCAAGCTGGGCTGTAAGCAAGAACTCCCCGTTCAGCC
sample12  --------------------------------------------------------------------------------

Reference CGACTGCTGCGCCTTATCCGGTAACTGTTCACTTGAGTCCAACCCGGAAAAGCACGGTAAAACGCCACTGGCAGCAGCCA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  CGACTGCTGCGCCTTATCCGGTAACTGTTCACTTGAGTCCAACCCGGAAAAGCACGGTAAAACGCCACTGGCAGCAGC--
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  CGACTGCTGCGCCTTATCCGGTAACTGTTCACTTGAGTCCAACCCGGAAAAGCACGGTAAAACGCCACTGGCAGCAGCCA
sample12  --------------------------------------------------------------------------------

Reference TTGGTAACTGGGAGTTCGCAGAGGATTTGTTTAGCTAAACACGCGGTTGCTCTTGAAGTGTGCGCCAAAGTCCGGCTACA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  TTGGTAAC------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CTGGAAGGACAGATTTGGTTGCTGTGCTCTGCGAAAGCCAGTTACCACGGTTAAGCAGTTCCCCAACTGACTTAACCTTC
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GATCAAACCACCTCCCCAGGTGGTTTTTTCGAAGGTTAAGTCAGTTGGGGAACTGCTTAACCTTCGATCAAACCACCTCC
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CCAGGTGGTTTTTTCGTTTACAGGGCAAAAGATTACGCGCAGAAAAAAGGATCTCAAGAAGATCCTTTGATCGCTAGCTT
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AGAAAAACTCATCGAGCATCAAGTGAAACTGCAATTTATTCATATCAGGATTATCAATACCATATTTTTGAAAAAGCCGT
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TTCTGTAATGAAGGAGAAAACTCACCGAGGCAGTTCCATAGGATGGCAAGATCCTGGTATCGGTCTGCGATTCCGACTCG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TCCAACATCAATACAACCTATTAATTTCCCCTCGTCAAAAATAAGGTTATCAAGTGAGAAATCACCATGAGTGACGACTG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AATCCGGTGAGAATGGCAAAAGCTTATGCATTTCTTTCCAGACTTGTTCAACAGGCCAGCCATTACGCTCGTCATCAAAA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TCACTCGCACCAACCAAACCGTTATTCATTCGTGATTGCGCCTGAGCGAGACGAAATACGCGATCGCCGTTAAAAGGACA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference ATTACAAACAGGAATCGAATGCAACCGGCGCAGGAACACTGCCAGCGCATCAACAATATTTTCACCTGAATCAGGATATT
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CTTCTAATACCTGGAATGCTGTTTTCCCTGGGATCGCAGTGGTGAGTAACCATGCATCATCAGGAGTACGGATAAAATGC
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TTGATGGTCGGAAGAGGCATAAATTCCGTCAGCCAGTTTAGCCTGACCATCTCATCTGTAACATCATTGGCAACGCTACC
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TTTGCCATGTTTCAGAAACAACTCTGGCGCATCGGGCTTCCCATACAATCGATAGATTGTCGCACCTGATTGCCCGACAT
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TATCGCGAGCCCATTTATACCCATATAAATCAGCATCCATGTTGGAATTTAATCGCGGCCTCGAGCAAGACGTTTCCCGT
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TGAATATGGCTCATAGCTCCTGAAAATCTCGATAACTCAAAAAATACGCCCGGTAGTGATCTTATTTCATTATGGTGAAA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTTGGAACCTCTTACGTGCCGATCAAGTCAAAAGCCTCCGGTCGGAGGCTTTTGACTTTCTGCTATGGAGGTCAGGTATG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference ATTTAAATGGTCAGTATTGAGCGATATCTAGAGAATTCGTCCACCACAATTCAGCAAATTGTGAACATCATCACGTTCAT
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CTTTCCCTGGTTGCCAATGGCCCATTTTCCTGTCAGTAACGAGAAGGTCGCGAATTCAGGCGCTTTTTAGACTGGTCGTA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GGGAGACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTATAAGAAGGAGATATACATATGCAGCGTCTGTTTCT
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GCTGGTCGCGGTGATGCTGCTGAGTGGTTGTCTGACCGCACCGCCGAAAGAAGCGGCACGTCCGACCCTGATGCCGCGTG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CACAGTCTTATAAAGATCTGACCCATCTGCCGGCTCCGACGGGCAAAATTTTTGTTAGCGTCTATAACATCCAGGACGAA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference ACCGGTCAATTTAAACCGTACCCGGCGAGTAATTTCTCCACGGCCGTTCCGCAGAGTGCAACCGCTATGCTGGTCACGGC
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference ACTGAAAGATTCCCGTTGGTTCATTCCGCTGGAACGCCAGGGCCTGCAAAACCTGCTGAATGAACGTAAAATTATCCGCG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CAGCTCAGGAAAACGGTACCGTGGCCATTAACAATCGTATTCCGCTGCAAAGCCTGACCGCCGCAAACATCATGGTTGAA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GGCTCTATCATCGGTTACGAATCAAACGTCAAATCGGGCGGTGTGGGCGCACGTTATTTTGGCATTGGTGCTGATACCCA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTACCAACTGGACCAGATCGCAGTTAACCTGCGCGTGGTTAATGTCAGCACCGGCGAAATTCTGAGCTCTGTGAATACCA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GCAAAACGATCCTGTCTTACGAAGTGCAGGCTGGTGTTTTTCGTTTCATTGATTATCAACGCCTGCTGGAAGGCGAAGTC
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GGTTACACCTCAAACGAACCGGTGATGCTGTGTCTGATGTCGGCGATTGAAACGGGTGTTATTTTCCTGATCAATGATGG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CATCGACCGTGGTCTGTGGGATCTGCAGAACAAAGCCGAACGTCAAAATGACATTCTGGTGAAATACCGCCACATGAGTG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TTCCACCAGAATCCTAATGAGCAGCAGCCACCGCTGAGCAATAACTAGCATAACCCCTTGGGGCCTCTAAACGGGTCTTG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AGGGGTTTTTTGCTGAAAGGAGGAACTATATCCGGGTAACGAATTCAAGCTTGATATCATTCAGGACGAGCCTCAGACTC
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CAGCGTAACTGGACTGCAATCAACTCACTGGCTCACCTTCACGGGTGGGCCTTTCTTCGGGATCCGCGCTGCGGACACAT
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference ACAAAGTTACCCACAGATTCCGTGGATAAGCAGGGGACTAACATGTGAGGCAAAACAGCAGGGCCGCGCCGGTGGCGTTT
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TTCCATAGGCTCCGCCCTCCTGCCAGAGTTCACATAAACAGACGCTTTTCCGGTGCATCTGTGGGAGCCGTGAGGCTCAA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CCATGAATCTGACAGTACGGGCGAAACCCGACAGGACTTAAAGATCCCCACCGTTTCCGGCGGGTCGCTCCCTCTTGCGC
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TCTCCTGTTCCGACCCTGCCGTTTACCGGATACCTGTTCCGCCTTTCTCCCTTACGGGAAGTGTGGCGCTTTCTCATAGC
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TCACACACTGGTATCTCGGCTCGGTGTAGGTCGTTCGCTCCAAGCTGGGCTGTAAGCAAGAACTCCCCGTTCAGCTTGAC
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TGCTGCGCCTTATCCGGTAACTGTTCACTTGAGTCCAACCCGGAAAAGCACGGTAAAACGCCACTGGCAGCAGCCATTGG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TAACTGGGAGTTCGCAGAGGATTTGTTTAGCTAAACACGCGGTTGCTCTTGAAGTGTGCGCCAAAGTCCGGCTACACTGG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AAGGACAGATTTGGTTGCTGTGCTCTGCGAAAGCCAGTTACCACGGTTAAGCAGTTCCCCAACTGACTTAACCTTCGATC
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AAACCACCTCCCCAGGTGGTTTTTTCGAAGGTTAAGTCAGTTGGGGAACTGCTTAACCTTCGATCAAACCACCTCCCCAG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTGGTTTTTTCGTTTACAGGGCAAAAGATTACGCGCAGAAAAAAGGATCTCAAGAAGATCCTTTGATCGCTAGCTTAGAA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AAACTCATCGAGCATCAAGTGAAACTGCAATTTATTCATATCAGGATTATCAATACCATATTTTTGAAAAAGCCGTTTCT
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTAATGAAGGAGAAAACTCACCGAGGCAGTTCCATAGGATGGCAAGATCCTGGTATCGGTCTGCGATTCCGACTCGTCCA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference ACATCAATACAACCTATTAATTTCCCCTCGTCAAAAATAAGGTTATCAAGTGAGAAATCACCATGAGTGACGACTGAATC
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CGGTGAGAATGGCAAAAGCTTATGCATTTCTTTCCAGACTTGTTCAACAGGCCAGCCATTACGCTCGTCATCAAAATCAC
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TCGCACCAACCAAACCGTTATTCATTCGTGATTGCGCCTGAGCGAGACGAAATACGCGATCGCCGTTAAAAGGACAATTA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CAAACAGGAATCGAATGCAACCGGCGCAGGAACACTGCCAGCGCATCAACAATATTTTCACCTGAATCAGGATATTCTTC
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TAATACCTGGAATGCTGTTTTCCCTGGGATCGCAGTGGTGAGTAACCATGCATCATCAGGAGTACGGATAAAATGCTTGA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TGGTCGGAAGAGGCATAAATTCCGTCAGCCAGTTTAGCCTGACCATCTCATCTGTAACATCATTGGCAACGCTACCTTTG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CCATGTTTCAGAAACAACTCTGGCGCATCGGGCTTCCCATACAATCGATAGATTGTCGCACCTGATTGCCCGACATTATC
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GCGAGCCCATTTATACCCATATAAATCAGCATCCATGTTGGAATTTAATCGCGGCCTCGAGCAAGACGTTTCCCGTTGAA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TATGGCTCATAGCTCCTGAAAATCTCGATAACTCAAAAAATACGCCCGGTAGTGATCTTATTTCATTATGGTGAAAGTTG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GAACCTCTTACGTGCCGATCAAGTCAAAAGCCTCCGGTCGGAGGCTTTTGACTTTCTGCTATGGAGGTCAGGTATGATTT
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AAATGGTCAGTATTGAGCGATATCTAGAGAATTCGTCCACCACAATTCAGCAAATTGTGAACATCATCACGTTCATCTTT
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CCCTGGTTGCCAATGGCCCATTTTCCTGTCAGTAACGAGAAGGTCGCGAATTCAGGCGCTTTTTAGACTGGTCGTAGGGA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTATAAGAAGGAGATATACATATGCAGCGTCTGTTTCTGCTG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTCGCGGTGATGCTGCTGAGTGGTTGTCTGACCGCACCGCCGAAAGAAGCGGCACGTCCGACCCTGATGCCGCGTGCACA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTCTTATAAAGATCTGACCCATCTGCCGGCTCCGACGGGCAAAATTTTTGTTAGCGTCTATAACATCCAGGACGAAACCG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTCAATTTAAACCGTACCCGGCGAGTAATTTCTCCACGGCCGTTCCGCAGAGTGCAACCGCTATGCTGGTCACGGCACTG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AAAGATTCCCGTTGGTTCATTCCGCTGGAACGCCAGGGCCTGCAAAACCTGCTGAATGAACGTAAAATTATCCGCGCAGC
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TCAGGAAAACGGTACCGTGGCCATTAACAATCGTATTCCGCTGCAAAGCCTGACCGCCGCAAACATCATGGTTGAAGGCT
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CTATCATCGGTTACGAATCAAACGTCAAATCGGGCGGTGTGGGCGCACGTTATTTTGGCATTGGTGCTGATACCCAGTAC
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CAACTGGACCAGATCGCAGTTAACCTGCGCGTGGTTAATGTCAGCACCGGCGAAATTCTGAGCTCTGTGAATACCAGCAA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AACGATCCTGTCTTACGAAGTGCAGGCTGGTGTTTTTCGTTTCATTGATTATCAACGCCTGCTGGAAGGCGAAGTCGGTT
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference ACACCTCAAACGAACCGGTGATGCTGTGTCTGATGTCGGCGATTGAAACGGGTGTTATTTTCCTGATCAATGATGGCATC
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GACCGTGGTCTGTGGGATCTGCAGAACAAAGCCGAACGTCAAAATGACATTCTGGTGAAATACCGCCACATGAGTGTTCC
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference ACCAGAATCCTAATGAGCAGCAGCCACCGCTGAGCAATAACTAGCATAACCCCTTGGGGCCTCTAAACGGGTCTTGAGGG
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTTTTTTGCTGAAAGGAGGAACTATATCCGGGTAACGAATTCAAGCTTGATATCATTCAGGACGAGCCTCAGACTCCAGC
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTAACTGGACTGCAATCAACTCACTGGCTCACCTTCACGGGTGGGCCTTTCTTCGGGATCCGCGCTGCGGACACATACAA
sample01  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AGTTACCCA
sample01  ---------
sample03  ---------
sample04  ---------
sample05  ---------
sample06  ---------
sample07  ---------
sample08  ---------
sample09  ---------
sample10  ---------
sample11  ---------
sample12  ---------

Insert variants

The following tables and figures are output from bcftools from finding any variants between the consensus insert and the provided reference insert.

Variant counts per sample. See output bcf file for info on individual variants.

filename id MNPs SNPs indels multiallelic SNP sites multiallelic sites no-ALTs others records
sample01.insert.stats sample01.insert.stats 0 0 0 0 0 0 0 0
sample03.insert.stats sample03.insert.stats 0 0 0 0 0 0 0 0
sample04.insert.stats sample04.insert.stats 0 0 0 0 0 0 0 0
sample05.insert.stats sample05.insert.stats 0 0 0 0 0 0 0 0
sample06.insert.stats sample06.insert.stats 0 0 0 0 0 0 0 0
sample07.insert.stats sample07.insert.stats 0 0 0 0 0 0 0 0
sample08.insert.stats sample08.insert.stats 0 0 0 0 0 0 0 0
sample09.insert.stats sample09.insert.stats 0 0 0 0 0 0 0 0
sample10.insert.stats sample10.insert.stats 0 0 0 0 0 0 0 0
sample11.insert.stats sample11.insert.stats 0 0 0 0 0 0 0 0
sample12.insert.stats sample12.insert.stats 0 0 0 0 0 0 0 0

Trans counts per sample. See output bcf file for info on individual transitions.

filename id ts tv ts/tv ts (1st ALT) tv (1st ALT) ts/tv (1st ALT)
sample01.insert.stats sample01.insert.stats 0 0 0.0 0 0 0.0
sample03.insert.stats sample03.insert.stats 0 0 0.0 0 0 0.0
sample04.insert.stats sample04.insert.stats 0 0 0.0 0 0 0.0
sample05.insert.stats sample05.insert.stats 0 0 0.0 0 0 0.0
sample06.insert.stats sample06.insert.stats 0 0 0.0 0 0 0.0
sample07.insert.stats sample07.insert.stats 0 0 0.0 0 0 0.0
sample08.insert.stats sample08.insert.stats 0 0 0.0 0 0 0.0
sample09.insert.stats sample09.insert.stats 0 0 0.0 0 0 0.0
sample10.insert.stats sample10.insert.stats 0 0 0.0 0 0 0.0
sample11.insert.stats sample11.insert.stats 0 0 0.0 0 0 0.0
sample12.insert.stats sample12.insert.stats 0 0 0.0 0 0 0.0

Dot plots

These dot plots have been created by aligning the assembly to itself to reveal any repeats or repetitive regions. Black is for repeats found in the forward strand and red for repeats found in the reverse complement. This was done using last

Software versions

Name Version
medaka 1.12.0
flye 2.9.4-b1799
minimap2 2.28-r1209
samtools 1.19.2
seqkit v2.4.0
Trycycler v0.5.5
bedtools v2.31.0
fastcat 0.14.1
rasusa 0.7.1
spoa 0.0.10
pandas 1.3.5
plannotate 1.2.0
bokeh 3.1.1

Workflow parameters

Key Value
help False
version False
out_dir wf-clone-validation
fastq wf-clone-validation/data/clone_val_test/fastq
bam None
db_directory None
threads 4
host_reference wf-clone-validation/data/clone_val_test/host_reference.fa.gz
regions_bedfile wf-clone-validation/data/clone_val_test/reference.bed
approx_size 7000
assm_coverage 60
trim_length 150
prefix None
primers wf-clone-validation/data/clone_val_test/primers.tsv
insert_reference wf-clone-validation/data/clone_val_test/insert_reference.fasta
sample None
sample_sheet wf-clone-validation/data/clone_val_test/sample_sheet.csv
disable_ping False
analyse_unclassified False
basecaller_cfg dna_r10.4.1_e8.2_400bps_hac@v4.2.0
flye_quality nano-hq
non_uniform_coverage False
large_construct False
full_reference None
cutsite_mismatch 1
assembly_tool flye
canu_fast False
client_fields None
monochrome_logs False
validate_params True
show_hidden_params False
schema_ignore_params show_hidden_params,validate_params,monochrome_logs,aws_queue,aws_image_prefix,wf
wf {'example_cmd': ['--fastq wf-clone-validation-demo/test', '--primers wf-clone-validation-demo/primers.tsv'], 'container_sha': 'sha8c7a56f99c014f24646a5afc2ce155680f455243', 'container_sha_medaka': 'sha3486abaab0d3b90351617eb8622acf2028edb154', 'common_sha': 'sha8b5843d549bb210558cbb676fe537a153ce771d6', 'container_sha_canu': 'shabbdea3813f6fb436ea0cbaa19958ad772db9154c', 'plannotate_sha': 'shaf7f37f751dd0bc529121b765fb63322502288a03', 'agent': 'cw-ci'}
store_dir wf-clone-validation/store_dir