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 48.87
sample02 Completed successfully 3037 50.81
sample03 Completed successfully 3096 50.19
sample04 Completed successfully 3097 37.95
sample05 Completed successfully 3036 52.07
sample06 Completed successfully 3036 50.82
sample07 Completed successfully 3096 45.7
sample08 Completed successfully 3096 44.67
sample09 Completed successfully 3037 37.46
sample10 Completed successfully 3036 40.64
sample11 Completed successfully 3096 48.47
sample12 Completed successfully 3096 50.84

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. 1521 2352 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) 2415 2534 119 -
cat promoter snapgene 100.0% 100.0% promoter of the E. coli cat gene encoding chloramphenicol acetyltransferase 2630 2721 91 +
KanR snapgene 99.4% 100.0% aminoglycoside phosphotransferase; aph(3')-Ia; confers resistance to kanamycin in bacteria or G418 (Geneticin®) in eukaryotes 2721 501 816 +
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. 628 1310 682 +
T7 terminator snapgene 100.0% 100.0% transcription terminator for bacteriophage T7 RNA polymerase 1443 1491 48 -
kanMX snapgene 99.2% 57.9% yeast selectable marker conferring kanamycin resistance (Wach et al., 1994) 2751 501 786 +
tonB terminator snapgene 100.0% 100.0% bidirectional E. coli tonB-P14 transcription terminator 2598 2630 32 +
T3Te terminator snapgene 100.0% 100.0% phage T3 early transcription terminator 1316 1346 30 -
RNAI Rfam 100.0% 99.0% Accession: RF00106 - RNAI 626 729 103 -
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. 507 604 98 +
PDK intron snapgene 100.0% 5.1% pdk; modified pyruvate orthophosphate dikinase intron from Flaveria trinervia 3.0 2640 2722 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. 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 2282 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) 2282 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 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. 2178 2276 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. 2904 699 891 -
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) 762 881 119 -
cat promoter snapgene 100.0% 100.0% promoter of the E. coli cat gene encoding chloramphenicol acetyltransferase 977 1068 91 +
KanR snapgene 99.4% 100.0% aminoglycoside phosphotransferase; aph(3')-Ia; confers resistance to kanamycin in bacteria or G418 (Geneticin®) in eukaryotes 1068 1884 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. 2011 2693 682 +
T7 terminator snapgene 100.0% 100.0% transcription terminator for bacteriophage T7 RNA polymerase 2826 2874 48 -
kanMX snapgene 99.2% 57.9% yeast selectable marker conferring kanamycin resistance (Wach et al., 1994) 1098 1884 786 +
tonB terminator snapgene 100.0% 100.0% bidirectional E. coli tonB-P14 transcription terminator 945 977 32 +
T3Te terminator snapgene 100.0% 100.0% phage T3 early transcription terminator 2699 2729 30 -
RNAI Rfam 100.0% 99.0% Accession: RF00106 - RNAI 2009 2112 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. 1890 1987 98 +
PDK intron snapgene 100.0% 5.1% pdk; modified pyruvate orthophosphate dikinase intron from Flaveria trinervia 3.0 987 1069 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. 3000 794 891 -
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) 857 976 119 -
cat promoter snapgene 100.0% 100.0% promoter of the E. coli cat gene encoding chloramphenicol acetyltransferase 1072 1163 91 +
KanR snapgene 99.4% 100.0% aminoglycoside phosphotransferase; aph(3')-Ia; confers resistance to kanamycin in bacteria or G418 (Geneticin®) in eukaryotes 1163 1979 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. 2107 2789 682 +
T7 terminator snapgene 100.0% 100.0% transcription terminator for bacteriophage T7 RNA polymerase 2922 2970 48 -
kanMX snapgene 99.2% 57.9% yeast selectable marker conferring kanamycin resistance (Wach et al., 1994) 1193 1979 786 +
tonB terminator snapgene 100.0% 100.0% bidirectional E. coli tonB-P14 transcription terminator 1040 1072 32 +
T3Te terminator snapgene 100.0% 100.0% phage T3 early transcription terminator 2795 2825 30 -
RNAI Rfam 100.0% 99.0% Accession: RF00106 - RNAI 2105 2208 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. 1985 2083 98 +
PDK intron snapgene 100.0% 5.1% pdk; modified pyruvate orthophosphate dikinase intron from Flaveria trinervia 3.0 1082 1164 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. 2117 2948 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) 3011 94 119 -
cat promoter snapgene 100.0% 100.0% promoter of the E. coli cat gene encoding chloramphenicol acetyltransferase 190 281 91 +
KanR snapgene 99.4% 100.0% aminoglycoside phosphotransferase; aph(3')-Ia; confers resistance to kanamycin in bacteria or G418 (Geneticin®) in eukaryotes 281 1097 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. 1224 1906 682 +
T7 terminator snapgene 100.0% 100.0% transcription terminator for bacteriophage T7 RNA polymerase 2039 2087 48 -
kanMX snapgene 99.2% 57.9% yeast selectable marker conferring kanamycin resistance (Wach et al., 1994) 311 1097 786 +
tonB terminator snapgene 100.0% 100.0% bidirectional E. coli tonB-P14 transcription terminator 158 190 32 +
T3Te terminator snapgene 100.0% 100.0% phage T3 early transcription terminator 1912 1942 30 -
RNAI Rfam 100.0% 99.0% Accession: RF00106 - RNAI 1222 1325 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. 1103 1200 98 +
PDK intron snapgene 100.0% 5.1% pdk; modified pyruvate orthophosphate dikinase intron from Flaveria trinervia 3.0 200 282 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. 764 1595 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) 1658 1777 119 -
cat promoter snapgene 100.0% 100.0% promoter of the E. coli cat gene encoding chloramphenicol acetyltransferase 1873 1964 91 +
KanR snapgene 99.4% 100.0% aminoglycoside phosphotransferase; aph(3')-Ia; confers resistance to kanamycin in bacteria or G418 (Geneticin®) in eukaryotes 1964 2780 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. 2907 553 682 +
T7 terminator snapgene 100.0% 100.0% transcription terminator for bacteriophage T7 RNA polymerase 686 734 48 -
kanMX snapgene 99.2% 57.9% yeast selectable marker conferring kanamycin resistance (Wach et al., 1994) 1994 2780 786 +
tonB terminator snapgene 100.0% 100.0% bidirectional E. coli tonB-P14 transcription terminator 1841 1873 32 +
T3Te terminator snapgene 100.0% 100.0% phage T3 early transcription terminator 559 589 30 -
RNAI Rfam 100.0% 99.0% Accession: RF00106 - RNAI 2905 3008 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. 2786 2883 98 +
PDK intron snapgene 100.0% 5.1% pdk; modified pyruvate orthophosphate dikinase intron from Flaveria trinervia 3.0 1883 1965 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. 2973 768 891 -
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) 831 950 119 -
cat promoter snapgene 100.0% 100.0% promoter of the E. coli cat gene encoding chloramphenicol acetyltransferase 1046 1137 91 +
KanR snapgene 99.4% 100.0% aminoglycoside phosphotransferase; aph(3')-Ia; confers resistance to kanamycin in bacteria or G418 (Geneticin®) in eukaryotes 1137 1953 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. 2080 2762 682 +
T7 terminator snapgene 100.0% 100.0% transcription terminator for bacteriophage T7 RNA polymerase 2895 2943 48 -
kanMX snapgene 99.2% 57.9% yeast selectable marker conferring kanamycin resistance (Wach et al., 1994) 1167 1953 786 +
tonB terminator snapgene 100.0% 100.0% bidirectional E. coli tonB-P14 transcription terminator 1014 1046 32 +
T3Te terminator snapgene 100.0% 100.0% phage T3 early transcription terminator 2768 2798 30 -
RNAI Rfam 100.0% 99.0% Accession: RF00106 - RNAI 2078 2181 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. 1959 2056 98 +
PDK intron snapgene 100.0% 5.1% pdk; modified pyruvate orthophosphate dikinase intron from Flaveria trinervia 3.0 1056 1138 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. 2974 769 891 -
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) 832 951 119 -
cat promoter snapgene 100.0% 100.0% promoter of the E. coli cat gene encoding chloramphenicol acetyltransferase 1047 1138 91 +
KanR snapgene 99.4% 100.0% aminoglycoside phosphotransferase; aph(3')-Ia; confers resistance to kanamycin in bacteria or G418 (Geneticin®) in eukaryotes 1138 1954 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. 2081 2763 682 +
T7 terminator snapgene 100.0% 100.0% transcription terminator for bacteriophage T7 RNA polymerase 2896 2944 48 -
kanMX snapgene 99.2% 57.9% yeast selectable marker conferring kanamycin resistance (Wach et al., 1994) 1168 1954 786 +
tonB terminator snapgene 100.0% 100.0% bidirectional E. coli tonB-P14 transcription terminator 1015 1047 32 +
T3Te terminator snapgene 100.0% 100.0% phage T3 early transcription terminator 2769 2799 30 -
RNAI Rfam 100.0% 99.0% Accession: RF00106 - RNAI 2079 2182 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. 1960 2057 98 +
PDK intron snapgene 100.0% 5.1% pdk; modified pyruvate orthophosphate dikinase intron from Flaveria trinervia 3.0 1057 1139 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
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
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. 2573 368 891 +
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) 2391 2510 119 +
cat promoter snapgene 100.0% 100.0% promoter of the E. coli cat gene encoding chloramphenicol acetyltransferase 2204 2295 91 -
KanR snapgene 99.4% 100.0% aminoglycoside phosphotransferase; aph(3')-Ia; confers resistance to kanamycin in bacteria or G418 (Geneticin®) in eukaryotes 1388 2204 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. 579 1261 682 -
T7 terminator snapgene 100.0% 100.0% transcription terminator for bacteriophage T7 RNA polymerase 398 446 48 +
kanMX snapgene 99.2% 57.9% yeast selectable marker conferring kanamycin resistance (Wach et al., 1994) 1388 2174 786 -
tonB terminator snapgene 100.0% 100.0% bidirectional E. coli tonB-P14 transcription terminator 2295 2327 32 -
T3Te terminator snapgene 100.0% 100.0% phage T3 early transcription terminator 543 573 30 +
RNAI Rfam 100.0% 99.0% Accession: RF00106 - RNAI 1158 1261 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. 1285 1382 98 -
PDK intron snapgene 100.0% 5.1% pdk; modified pyruvate orthophosphate dikinase intron from Flaveria trinervia 3.0 2203 2285 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. 2962 757 891 -
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) 820 939 119 -
cat promoter snapgene 100.0% 100.0% promoter of the E. coli cat gene encoding chloramphenicol acetyltransferase 1035 1126 91 +
KanR snapgene 99.4% 100.0% aminoglycoside phosphotransferase; aph(3')-Ia; confers resistance to kanamycin in bacteria or G418 (Geneticin®) in eukaryotes 1126 1942 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. 2069 2751 682 +
T7 terminator snapgene 100.0% 100.0% transcription terminator for bacteriophage T7 RNA polymerase 2884 2932 48 -
kanMX snapgene 99.2% 57.9% yeast selectable marker conferring kanamycin resistance (Wach et al., 1994) 1156 1942 786 +
tonB terminator snapgene 100.0% 100.0% bidirectional E. coli tonB-P14 transcription terminator 1003 1035 32 +
T3Te terminator snapgene 100.0% 100.0% phage T3 early transcription terminator 2757 2787 30 -
RNAI Rfam 100.0% 99.0% Accession: RF00106 - RNAI 2067 2170 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. 1948 2045 98 +
PDK intron snapgene 100.0% 5.1% pdk; modified pyruvate orthophosphate dikinase intron from Flaveria trinervia 3.0 1045 1127 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

205

Completed successfully

Read count

4,830

Read count

583

Read count

205

Completed successfully

Read count

1,334

Read count

603

Read count

199

Completed successfully

Read count

1,334

Read count

541

Read count

207

Completed successfully

Read count

1,334

Read count

608

Read count

215

Completed successfully

Read count

1,334

Read count

521

Read count

217

Completed successfully

Read count

1,334

Read count

593

Read count

208

Completed successfully

Read count

1,334

Read count

671

Read count

202

Completed successfully

Read count

1,334

Read count

437

Read count

209

Completed successfully

Read count

1,334

Read count

416

Read count

214

Completed successfully

Read count

1,334

Read count

527

Read count

212

Completed successfully

Read count

1,334

Read count

697

Read count

198

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 1282 2411 pRham - 1129
sample02 371 1500 pRham + 1129
sample03 2665 758 pRham - 1189
sample04 2761 853 pRham - 1189
sample05 1878 3007 pRham - 1129
sample06 525 1654 pRham - 1129
sample07 2734 827 pRham - 1189
sample08 2735 828 pRham - 1189
sample09 1898 3027 pRham - 1129
sample10 526 1655 pRham - 1129
sample11 2514 607 pRham + 1189
sample12 2723 816 pRham - 1189

Multiple Sequence Alignment

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

Reference GGCCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTATAAGAAGGAGATATACATATGCAGCGTCTGTTTCTGCTG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTCGCGGTGGTGCTGCTGGCGGTTGTCTGACCGCACCGCCGAAAGAAGCGGCACGTCCGACCCTGATGCGTGCACAGTCT
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TATAAAGATCTGACCCATCTGCCGGCTCCGACGGGCAAAATTTTGTTAGCGTCTATAACATCCAGGACGAAACCGGTCAA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TTTAAACCGTACCCGGCGAGTAATTTCTCCACAGCCGTTCCGCAGAGTGCAACCGCTATGCTGGTCACGGCACTGAAAGA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TTCCGTTGGTTCATTCCGCTGGAACGCCAGGGCCTGCAAAACCCTGCTGAATGAACGTAAAATTATCCGCGCAGCTCAGG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AAAACAGTACCGTGGCCATTAACAATCGTATTCCGCTGCAAAGCCTGACCGCCGCAAACATCATGGTTGAAGGCTCTATC
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference ATCGGTTACAGATCAAACGTCAAATCGGGCGGTGTGGGCGCACGTTATTTTGGCATTGGTGCTGATACCCAGTACCAACT
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GGACCAGATCCTGGTATGCGCGTTCCAGTTATCAGGTAGGTGTTTAACCAAGAAAGTTGTCAGTGTCTTTGTGGTTTTCG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CATTTATCGTGAAACGCTTTCGCGTTTTCGTGCGCCGCTTCACTGGGAGTTCGCAGAGGATTTGTTTAGCTAAACACGCG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTTGCTCTTGAAGTGTGCGCCAAAGTCCGGCTACACTGGAAGGACAGATTTGGTTGCTGTGCTCTGCGAAAGCCAGTTAC
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CACGGTTAAGCAGTTCCCCAACTGACTTAACCTTCGATCAAACCACCTCCCCAGGTGGTTTTTTCGAAGGTTAAGTCAGT
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TGAGGAACTGCTTAACCTTCGATCAAACCACCTCCCCAGGTGGTTTTTTCGTTTACAGGGCAAAAGATTACGCGCAGAAA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AAAGGATCTCAAGAAGATCCTTTGATCGCTAGCTTAGAAAAACTCATCGAGCATCAAGTGAAACTGCAATTTATTCATAT
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CAGGATTATCAATACCATATTTTTGAAAAAGCCGTTTCTGTAATGAAGGAGAAAACTCACCGAGGCAGTTCCATAGGATG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GCAAGATCCTGGTATCGGTCTGCGATTCCGACTCGTCCAACATCAATACAACCTATTAATTTCCCCTCGTCAAAAATAAG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTTATCAAGTGAGAAATCACCATGAGTGACGACTGAATCCGGTGAGAATGGCAAAAGCTTATGCATTTCTTTCCAGACTT
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTTCAACAGGCCAGCCATTACGCTCGTCATCAAAATCACTCGCACCAACCAAACCGTTATTCATTCGTGATTGCGCCTGA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GCGAGACGAAATACGCGATCGCCGTTAAAAGGACAATTACAAACAGGAATCGAATGCAACCGGCGCAGGAACACTGCCAG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CGCATCAACAATATTTTCACCTGAATCAGGATATTCTTCTAATACCTGGAATGCTGTTTTCCCTGGGATCGCAGTGGTGA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTAACCATGCATCATCAGGAGTACGGATAAAATGCTTGATGGTCGGAAGAGGCATAAATTCCGTCAGCCAGTTTAGCCTG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference ACCATCTCATCTGTAACATCATTGGCAACGCTACCTTTGCCATGTTTCAGAAACAACTCTGGCGCATCGGGCTTCCCATA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CAATCGATAGATTGTCGCACCTGATTGCCCGACATTATCGCGAGCCCATTTATACCCATATAAATCAGCATCCATGTTGG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AATTTAATCGCGGCCTCGAGCAAGACGTTTCCCGTTGAATATGGCTCATAGCTCCTGAAAATCTCGATAACTCAAAAAAT
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference ACGCCCGGTAGTGATCTTATTTCATTATGGTGAAAGTTGGAACCTCTTACGTGCCGATCAAGTCAAAAGCCTCCGGTCGG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AGGCTTTTGACTTTCTGCTATGGAGGTCAGGTATGATTTAAATGGTCAGTATTGAGCGATATCTAGAGAATTCGTCCACC
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference ACAATTCAGCAAATTGTGAACATCATCACGTTCATCTTTCCCTGGTTGCCAATGGCCCATTTTCCTGTCAGTAACGAGAA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GGTCGCGAATTCAGGCGCTTTTTAGACTGGTCGTAGGGAGACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTA
sample01  ---------------------------------------GACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTA
sample02  ---------------------------------------GACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTA
sample03  ---------------------------------------GACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTA
sample04  ---------------------------------------GACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTA
sample05  ---------------------------------------GACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTA
sample06  ---------------------------------------GACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTA
sample07  ---------------------------------------GACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTA
sample08  ---------------------------------------GACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTA
sample09  ---------------------------------------GACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTA
sample10  ---------------------------------------GACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTA
sample11  ---------------------------------------GACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTA
sample12  ---------------------------------------GACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTA

Reference TAAGAAGGAGATATACATATG-CAGCGTCTGTTTCTGCTGGT--CGCGGTGAT-GCTGCTGA-GTGGTTGTCTGACCGCA
sample01  TAAGAAGGAGATATACATATG-CAGCGTCTGTTTCTGCTGGT--CGCGGTGAT-GCTGCTGA-GTGGTTGTCTGACCGCA
sample02  TAAGAAGGAGATATACATATG-CAGCGTCTGTTTCTGCTGGT--CGCGGTGAT-GCTGCTGA-GTGGTTGTCTGACCGCA
sample03  TAAGAAGGAGATATACATATGAGTGCGAAGGCTGCTGAAGGTTATGAACAAATCGAAGTTGATGTGGTTG-CTGTGTGGA
sample04  TAAGAAGGAGATATACATATGAGTGCGAAGGCTGCTGAAGGTTATGAACAAATCGAAGTTGATGTGGTTG-CTGTGTGGA
sample05  TAAGAAGGAGATATACATATG-CAGCGTCTGTTTCTGCTGGT--CGCGGTGAT-GCTGCTGA-GTGGTTGTCTGACCGCA
sample06  TAAGAAGGAGATATACATATG-CAGCGTCTGTTTCTGCTGGT--CGCGGTGAT-GCTGCTGA-GTGGTTGTCTGACCGCA
sample07  TAAGAAGGAGATATACATATGAGTGCGAAGGCTGCTGAAGGTTATGAACAAATCGAAGTTGATGTGGTTG-CTGTGTGGA
sample08  TAAGAAGGAGATATACATATGAGTGCGAAGGCTGCTGAAGGTTATGAACAAATCGAAGTTGATGTGGTTG-CTGTGTGGA
sample09  TAAGAAGGAGATATACATATG-CAGCGTCTGTTTCTGCTGGT--CGCGGTGAT-GCTGCTGA-GTGGTTGTCTGACCGCA
sample10  TAAGAAGGAGATATACATATG-CAGCGTCTGTTTCTGCTGGT--CGCGGTGAT-GCTGCTGA-GTGGTTGTCTGACCGCA
sample11  TAAGAAGGAGATATACATATGAGTGCGAAGGCTGCTGAAGGTTATGAACAAATCGAAGTTGATGTGGTTG-CTGTGTGGA
sample12  TAAGAAGGAGATATACATATGAGTGCGAAGGCTGCTGAAGGTTATGAACAAATCGAAGTTGATGTGGTTG-CTGTGTGGA

Reference CCGCCG---A-----AAGAA----GCG---GCACGTCC---GACCCTG--ATGCCGCGTGCAC---AGTCTTATAAAGAT
sample01  CCGCCG---A-----AAGAA----GCG---GCACGTCC---GACCCTG--ATGCCGCGTGCAC---AGTCTTATAAAGAT
sample02  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  AGGAAGGTTATGTGTATGAAAATCGTGGTAGTACCTCCGTGGATCAAAAAATTAC-CAT-CACGAAAGGC--ATGAAGAA
sample08  AGGAAGGTTATGTGTATGAAAATCGTGGTAGTACCTCCGTGGATCAAAAAATTAC-CAT-CACGAAAGGC--ATGAAGAA
sample09  CCGCCG---A-----AAGAA----GCG---GCACGTCC---GACCCTG--ATGCCGCGTGCAC---AGTCTTATAAAGAT
sample10  CCGCCG---A-----AAGAA----GCG---GCACGTCC---GACCCTG--ATGCCGCGTGCAC---AGTCTTATAAAGAT
sample11  AGGAAGGTTATGTGTATGAAAATCGTGGTAGTACCTCCGTGGATCAAAAAATTAC-CAT-CACGAAAGGC--ATGAAGAA
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
sample02  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  CGTTAATAGCGAAACCCGTACGGTCACCG-CGACGCA----TTCTATTGGCAGTACCATCTCCACGGGTGACGCCTTTGA
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  CGTTAATAGCGAAACCCGTACGGTCACCG-CGACGCA----TTCTATTGGCAGTACCATCTCCACGGGTGACGCCTTTGA
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---
sample02  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  AATCGGCTCCGTGGAAGTTTCATATTCGCATAGCCACGAAGAATCACAAGTTTCGATGACCGAAACGGAAGTCTACGAAT
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  AATCGGCTCCGTGGAAGTTTCATATTCGCATAGCCACGAAGAATCACAAGTTTCGATGACCGAAACGGAAGTCTACGAAT
sample12  AATCGGCTCCGTGGAAGTTTCATATTCGCATAGCCACGAAGAATCACAAGTTTCGATGACCGAAACGGAAGTCTACGAAT

Reference C-AGAGTG---CAAC-CGCTATGCTGGTCACGGC-A-CTGAAAGATTC-C-CGTTGGTTCATTCCGCTGGAACGCCAG-G
sample01  C-AGAGTG---CAAC-CGCTATGCTGGTCACGGC-A-CTGAAAGATTC-C-CGTTGGTTCATTCCGCTGGAACGCCAG-G
sample02  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  CAAAAGTGATTGAACACACCATTACGATCCCGCCGACCTCGAAG-TTCACGCGCTGG--CA----GCT-GAACG-CAGAT
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  CAAAAGTGATTGAACACACCATTACGATCCCGCCGACCTCGAAG-TTCACGCGCTGG--CA----GCT-GAACG-CAGAT
sample12  CAAAAGTGATTGAACACACCATTACGATCCCGCCGACCTCGAAG-TTCACGCGCTGG--CA----GCT-GAACG-CAGAT

Reference GCCTGCAAAACCTGCTGA-A-TGAACGTAAAATTATCCGCGCAGCTCAGGAAAACGGTA--CCG-TGGCCATTAACAATC
sample01  GCCTGCAAAACCTGCTGA-A-TGAACGTAAAATTATCCGCGCAGCTCAGGAAAACGGTA--CCG-TGGCCATTAACAATC
sample02  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  GTCGGC----GGTGCTGACATTGAA--TATATGTA-CC-TG-ATC-GATGAA---GTTACCCCGATTGGCGGTACGCAGA
sample08  GTCGGC----GGTGCTGACATTGAA--TATATGTA-CC-TG-ATC-GATGAA---GTTACCCCGATTGGCGGTACGCAGA
sample09  GCCTGCAAAACCTGCTGA-A-TGAACGTAAAATTATCCGCGCAGCTCAGGAAAACGGTA--CCG-TGGCCATTAACAATC
sample10  GCCTGCAAAACCTGCTGA-A-TGAACGTAAAATTATCCGCGCAGCTCAGGAAAACGGTA--CCG-TGGCCATTAACAATC
sample11  GTCGGC----GGTGCTGACATTGAA--TATATGTA-CC-TG-ATC-GATGAA---GTTACCCCGATTGGCGGTACGCAGA
sample12  GTCGGC----GGTGCTGACATTGAA--TATATGTA-CC-TG-ATC-GATGAA---GTTACCCCGATTGGCGGTACGCAGA

Reference GTATTCCGC---TGCAAAGCCTGACCGCCGCAAACATCATGGTTGAAGGCTCTATCATC--GGTTACGAATCAAACGTCA
sample01  GTATTCCGC---TGCAAAGCCTGACCGCCGCAAACATCATGGTTGAAGGCTCTATCATC--GGTTACGAATCAAACGTCA
sample02  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
sample02  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
sample02  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-
sample02  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
sample02  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
sample02  -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
sample02  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
sample02  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
sample02  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---------------------------------------------------------------
sample02  ACATACAAAGTTACCCA---------------------------------------------------------------
sample03  ACATACAAAGTTACCCA---------------------------------------------------------------
sample04  ACATACAAAGTTACCCA---------------------------------------------------------------
sample05  ACATACAAAGTTACCCA---------------------------------------------------------------
sample06  ACATACAAAGTTACCCA---------------------------------------------------------------
sample07  ACATACAAAGTTACCCA---------------------------------------------------------------
sample08  ACATACAAAGTTACCCA---------------------------------------------------------------
sample09  ACATACAAAGTTACCCA---------------------------------------------------------------
sample10  ACATACAAAGTTACCCA---------------------------------------------------------------
sample11  ACATACAAAGTTACCCA---------------------------------------------------------------
sample12  ACATACAAAGTTACCCA---------------------------------------------------------------

Reference GTTTTTCCATAGGCTCCGCCCTCCTGCCAGAGTTCACATAAACAGACGCTTTTCCGGTGCATCTGTGGGAGCCGTGAGGC
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TCAACCATGAATCTGACAGTACGGGCGAAACCCGACAGGACTTAAAGATCCCCACCGTTTCCGGCGGGTCGCTCCCTCTT
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GCGCTCTCCTGTTCCGACCCTGCCGTTTACCGGATACCTGTTCCGCCTTTCTCCCTTACGGGAAGTGTGGCGCTTTCTCA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TAGCTCACACACTGGTATCTCGGCTCGGTGTAGGTCGTTCGCTCCAAGCTGGGCTGTAAGCAAGAACTCCCCGTTCAGCC
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CGACTGCTGCGCCTTATCCGGTAACTGTTCACTTGAGTCCAACCCGGAAAAGCACGGTAAAACGCCACTGGCAGCAGCCA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TTGGTAACTGGGAGTTCGCAGAGGATTTGTTTAGCTAAACACGCGGTTGCTCTTGAAGTGTGCGCCAAAGTCCGGCTACA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CTGGAAGGACAGATTTGGTTGCTGTGCTCTGCGAAAGCCAGTTACCACGGTTAAGCAGTTCCCCAACTGACTTAACCTTC
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GATCAAACCACCTCCCCAGGTGGTTTTTTCGAAGGTTAAGTCAGTTGGGGAACTGCTTAACCTTCGATCAAACCACCTCC
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CCAGGTGGTTTTTTCGTTTACAGGGCAAAAGATTACGCGCAGAAAAAAGGATCTCAAGAAGATCCTTTGATCGCTAGCTT
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AGAAAAACTCATCGAGCATCAAGTGAAACTGCAATTTATTCATATCAGGATTATCAATACCATATTTTTGAAAAAGCCGT
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TTCTGTAATGAAGGAGAAAACTCACCGAGGCAGTTCCATAGGATGGCAAGATCCTGGTATCGGTCTGCGATTCCGACTCG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TCCAACATCAATACAACCTATTAATTTCCCCTCGTCAAAAATAAGGTTATCAAGTGAGAAATCACCATGAGTGACGACTG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AATCCGGTGAGAATGGCAAAAGCTTATGCATTTCTTTCCAGACTTGTTCAACAGGCCAGCCATTACGCTCGTCATCAAAA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TCACTCGCACCAACCAAACCGTTATTCATTCGTGATTGCGCCTGAGCGAGACGAAATACGCGATCGCCGTTAAAAGGACA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference ATTACAAACAGGAATCGAATGCAACCGGCGCAGGAACACTGCCAGCGCATCAACAATATTTTCACCTGAATCAGGATATT
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CTTCTAATACCTGGAATGCTGTTTTCCCTGGGATCGCAGTGGTGAGTAACCATGCATCATCAGGAGTACGGATAAAATGC
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TTGATGGTCGGAAGAGGCATAAATTCCGTCAGCCAGTTTAGCCTGACCATCTCATCTGTAACATCATTGGCAACGCTACC
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TTTGCCATGTTTCAGAAACAACTCTGGCGCATCGGGCTTCCCATACAATCGATAGATTGTCGCACCTGATTGCCCGACAT
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TATCGCGAGCCCATTTATACCCATATAAATCAGCATCCATGTTGGAATTTAATCGCGGCCTCGAGCAAGACGTTTCCCGT
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TGAATATGGCTCATAGCTCCTGAAAATCTCGATAACTCAAAAAATACGCCCGGTAGTGATCTTATTTCATTATGGTGAAA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTTGGAACCTCTTACGTGCCGATCAAGTCAAAAGCCTCCGGTCGGAGGCTTTTGACTTTCTGCTATGGAGGTCAGGTATG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference ATTTAAATGGTCAGTATTGAGCGATATCTAGAGAATTCGTCCACCACAATTCAGCAAATTGTGAACATCATCACGTTCAT
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CTTTCCCTGGTTGCCAATGGCCCATTTTCCTGTCAGTAACGAGAAGGTCGCGAATTCAGGCGCTTTTTAGACTGGTCGTA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GGGAGACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTATAAGAAGGAGATATACATATGCAGCGTCTGTTTCT
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GCTGGTCGCGGTGATGCTGCTGAGTGGTTGTCTGACCGCACCGCCGAAAGAAGCGGCACGTCCGACCCTGATGCCGCGTG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CACAGTCTTATAAAGATCTGACCCATCTGCCGGCTCCGACGGGCAAAATTTTTGTTAGCGTCTATAACATCCAGGACGAA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference ACCGGTCAATTTAAACCGTACCCGGCGAGTAATTTCTCCACGGCCGTTCCGCAGAGTGCAACCGCTATGCTGGTCACGGC
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference ACTGAAAGATTCCCGTTGGTTCATTCCGCTGGAACGCCAGGGCCTGCAAAACCTGCTGAATGAACGTAAAATTATCCGCG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CAGCTCAGGAAAACGGTACCGTGGCCATTAACAATCGTATTCCGCTGCAAAGCCTGACCGCCGCAAACATCATGGTTGAA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GGCTCTATCATCGGTTACGAATCAAACGTCAAATCGGGCGGTGTGGGCGCACGTTATTTTGGCATTGGTGCTGATACCCA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTACCAACTGGACCAGATCGCAGTTAACCTGCGCGTGGTTAATGTCAGCACCGGCGAAATTCTGAGCTCTGTGAATACCA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GCAAAACGATCCTGTCTTACGAAGTGCAGGCTGGTGTTTTTCGTTTCATTGATTATCAACGCCTGCTGGAAGGCGAAGTC
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GGTTACACCTCAAACGAACCGGTGATGCTGTGTCTGATGTCGGCGATTGAAACGGGTGTTATTTTCCTGATCAATGATGG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CATCGACCGTGGTCTGTGGGATCTGCAGAACAAAGCCGAACGTCAAAATGACATTCTGGTGAAATACCGCCACATGAGTG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TTCCACCAGAATCCTAATGAGCAGCAGCCACCGCTGAGCAATAACTAGCATAACCCCTTGGGGCCTCTAAACGGGTCTTG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AGGGGTTTTTTGCTGAAAGGAGGAACTATATCCGGGTAACGAATTCAAGCTTGATATCATTCAGGACGAGCCTCAGACTC
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CAGCGTAACTGGACTGCAATCAACTCACTGGCTCACCTTCACGGGTGGGCCTTTCTTCGGGATCCGCGCTGCGGACACAT
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference ACAAAGTTACCCACAGATTCCGTGGATAAGCAGGGGACTAACATGTGAGGCAAAACAGCAGGGCCGCGCCGGTGGCGTTT
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TTCCATAGGCTCCGCCCTCCTGCCAGAGTTCACATAAACAGACGCTTTTCCGGTGCATCTGTGGGAGCCGTGAGGCTCAA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CCATGAATCTGACAGTACGGGCGAAACCCGACAGGACTTAAAGATCCCCACCGTTTCCGGCGGGTCGCTCCCTCTTGCGC
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TCTCCTGTTCCGACCCTGCCGTTTACCGGATACCTGTTCCGCCTTTCTCCCTTACGGGAAGTGTGGCGCTTTCTCATAGC
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TCACACACTGGTATCTCGGCTCGGTGTAGGTCGTTCGCTCCAAGCTGGGCTGTAAGCAAGAACTCCCCGTTCAGCTTGAC
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TGCTGCGCCTTATCCGGTAACTGTTCACTTGAGTCCAACCCGGAAAAGCACGGTAAAACGCCACTGGCAGCAGCCATTGG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TAACTGGGAGTTCGCAGAGGATTTGTTTAGCTAAACACGCGGTTGCTCTTGAAGTGTGCGCCAAAGTCCGGCTACACTGG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AAGGACAGATTTGGTTGCTGTGCTCTGCGAAAGCCAGTTACCACGGTTAAGCAGTTCCCCAACTGACTTAACCTTCGATC
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AAACCACCTCCCCAGGTGGTTTTTTCGAAGGTTAAGTCAGTTGGGGAACTGCTTAACCTTCGATCAAACCACCTCCCCAG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTGGTTTTTTCGTTTACAGGGCAAAAGATTACGCGCAGAAAAAAGGATCTCAAGAAGATCCTTTGATCGCTAGCTTAGAA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AAACTCATCGAGCATCAAGTGAAACTGCAATTTATTCATATCAGGATTATCAATACCATATTTTTGAAAAAGCCGTTTCT
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTAATGAAGGAGAAAACTCACCGAGGCAGTTCCATAGGATGGCAAGATCCTGGTATCGGTCTGCGATTCCGACTCGTCCA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference ACATCAATACAACCTATTAATTTCCCCTCGTCAAAAATAAGGTTATCAAGTGAGAAATCACCATGAGTGACGACTGAATC
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CGGTGAGAATGGCAAAAGCTTATGCATTTCTTTCCAGACTTGTTCAACAGGCCAGCCATTACGCTCGTCATCAAAATCAC
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TCGCACCAACCAAACCGTTATTCATTCGTGATTGCGCCTGAGCGAGACGAAATACGCGATCGCCGTTAAAAGGACAATTA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CAAACAGGAATCGAATGCAACCGGCGCAGGAACACTGCCAGCGCATCAACAATATTTTCACCTGAATCAGGATATTCTTC
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TAATACCTGGAATGCTGTTTTCCCTGGGATCGCAGTGGTGAGTAACCATGCATCATCAGGAGTACGGATAAAATGCTTGA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TGGTCGGAAGAGGCATAAATTCCGTCAGCCAGTTTAGCCTGACCATCTCATCTGTAACATCATTGGCAACGCTACCTTTG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CCATGTTTCAGAAACAACTCTGGCGCATCGGGCTTCCCATACAATCGATAGATTGTCGCACCTGATTGCCCGACATTATC
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GCGAGCCCATTTATACCCATATAAATCAGCATCCATGTTGGAATTTAATCGCGGCCTCGAGCAAGACGTTTCCCGTTGAA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TATGGCTCATAGCTCCTGAAAATCTCGATAACTCAAAAAATACGCCCGGTAGTGATCTTATTTCATTATGGTGAAAGTTG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GAACCTCTTACGTGCCGATCAAGTCAAAAGCCTCCGGTCGGAGGCTTTTGACTTTCTGCTATGGAGGTCAGGTATGATTT
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AAATGGTCAGTATTGAGCGATATCTAGAGAATTCGTCCACCACAATTCAGCAAATTGTGAACATCATCACGTTCATCTTT
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CCCTGGTTGCCAATGGCCCATTTTCCTGTCAGTAACGAGAAGGTCGCGAATTCAGGCGCTTTTTAGACTGGTCGTAGGGA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GACCACAACGGTTTCCCTCTAGAAATAATTTTGTTTAACTATAAGAAGGAGATATACATATGCAGCGTCTGTTTCTGCTG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTCGCGGTGATGCTGCTGAGTGGTTGTCTGACCGCACCGCCGAAAGAAGCGGCACGTCCGACCCTGATGCCGCGTGCACA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTCTTATAAAGATCTGACCCATCTGCCGGCTCCGACGGGCAAAATTTTTGTTAGCGTCTATAACATCCAGGACGAAACCG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTCAATTTAAACCGTACCCGGCGAGTAATTTCTCCACGGCCGTTCCGCAGAGTGCAACCGCTATGCTGGTCACGGCACTG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AAAGATTCCCGTTGGTTCATTCCGCTGGAACGCCAGGGCCTGCAAAACCTGCTGAATGAACGTAAAATTATCCGCGCAGC
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference TCAGGAAAACGGTACCGTGGCCATTAACAATCGTATTCCGCTGCAAAGCCTGACCGCCGCAAACATCATGGTTGAAGGCT
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CTATCATCGGTTACGAATCAAACGTCAAATCGGGCGGTGTGGGCGCACGTTATTTTGGCATTGGTGCTGATACCCAGTAC
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference CAACTGGACCAGATCGCAGTTAACCTGCGCGTGGTTAATGTCAGCACCGGCGAAATTCTGAGCTCTGTGAATACCAGCAA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AACGATCCTGTCTTACGAAGTGCAGGCTGGTGTTTTTCGTTTCATTGATTATCAACGCCTGCTGGAAGGCGAAGTCGGTT
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference ACACCTCAAACGAACCGGTGATGCTGTGTCTGATGTCGGCGATTGAAACGGGTGTTATTTTCCTGATCAATGATGGCATC
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GACCGTGGTCTGTGGGATCTGCAGAACAAAGCCGAACGTCAAAATGACATTCTGGTGAAATACCGCCACATGAGTGTTCC
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference ACCAGAATCCTAATGAGCAGCAGCCACCGCTGAGCAATAACTAGCATAACCCCTTGGGGCCTCTAAACGGGTCTTGAGGG
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTTTTTTGCTGAAAGGAGGAACTATATCCGGGTAACGAATTCAAGCTTGATATCATTCAGGACGAGCCTCAGACTCCAGC
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference GTAACTGGACTGCAATCAACTCACTGGCTCACCTTCACGGGTGGGCCTTTCTTCGGGATCCGCGCTGCGGACACATACAA
sample01  --------------------------------------------------------------------------------
sample02  --------------------------------------------------------------------------------
sample03  --------------------------------------------------------------------------------
sample04  --------------------------------------------------------------------------------
sample05  --------------------------------------------------------------------------------
sample06  --------------------------------------------------------------------------------
sample07  --------------------------------------------------------------------------------
sample08  --------------------------------------------------------------------------------
sample09  --------------------------------------------------------------------------------
sample10  --------------------------------------------------------------------------------
sample11  --------------------------------------------------------------------------------
sample12  --------------------------------------------------------------------------------

Reference AGTTACCCA
sample01  ---------
sample02  ---------
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
sample02.insert.stats sample02.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
sample02.insert.stats sample02.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 2.0.0
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 0.18.6
rasusa 0.7.1
spoa 0.0.10
pandas 1.3.5
plannotate 1.2.0
bokeh 3.1.1

Workflow parameters

Key Value
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
analyse_unclassified False
override_basecaller_cfg dna_r10.4.1_e8.2_400bps_hac@v4.2.0
medaka_model_path None
flye_quality nano-hq
non_uniform_coverage False
large_construct False
full_reference None
cutsite_mismatch 1
primer_mismatch 2
assembly_tool flye
canu_fast False
client_fields None
store_dir wf-clone-validation/store_dir