Add more telomeric repeats to clades.

tolkit · May 3, 2022 · f61b19d · f61b19d
1 parent 8110b3d
commit f61b19d
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Showing 2 changed files with 143 additions and 127 deletions.
diff --git a/clades/clades.txt b/clades/clades.txt
@@ -57,6 +57,7 @@
         "Hymenoptera",
         "Hypnales",
         "Isochrysidales",
+        "Isopoda",
         "Lamiales",
         "Lepidoptera",
         "Liliales",
@@ -172,12 +173,12 @@
 
         "Araneae" => TelomereSeq {
             clade: "Araneae",
-            seq: Seq(Box::new(&["AATAT",
-			"ACTAT",
+            seq: Seq(Box::new(&["AACTTGT",
 			"AACAT",
-			"AAAGC",
+			"AATAT",
 			"ACATG",
-			"AACTTGT"])),
+			"AAAGC",
+			"ACTAT"])),
             length: 6,
         },
 
@@ -191,8 +192,8 @@
 
         "Asparagales" => TelomereSeq {
             clade: "Asparagales",
-            seq: Seq(Box::new(&["AACCGAGCCCAT",
-			"AACCCT"])),
+            seq: Seq(Box::new(&["AACCCT",
+			"AACCGAGCCCAT"])),
             length: 2,
         },
 
@@ -297,9 +298,9 @@
 
         "Cheilostomatida" => TelomereSeq {
             clade: "Cheilostomatida",
-            seq: Seq(Box::new(&["AAACCCC",
+            seq: Seq(Box::new(&["AAGTCT",
 			"ACAGT",
-			"AAGTCT"])),
+			"AAACCCC"])),
             length: 3,
         },
 
@@ -320,34 +321,34 @@
 
         "Chlamydomonadales" => TelomereSeq {
             clade: "Chlamydomonadales",
-            seq: Seq(Box::new(&["AAGGATGGAC",
-			"AACCCT"])),
+            seq: Seq(Box::new(&["AACCCT",
+			"AAGGATGGAC"])),
             length: 2,
         },
 
 
         "Coleoptera" => TelomereSeq {
             clade: "Coleoptera",
-            seq: Seq(Box::new(&["AGATATAT",
-			"AAAAATTC",
-			"AAGTC",
-			"AAGTCG",
-			"AAAAATAC",
-			"AAAGGTCACC",
-			"AAAGGAC",
+            seq: Seq(Box::new(&["AAAAATTC",
+			"ACCTG",
+			"AACCT",
 			"AACAGACCCG",
-			"AAATAACT",
 			"ACAGACTG",
+			"AAATAACT",
 			"AACAT",
-			"AACTCC",
-			"ACTATG",
-			"ACCTG",
 			"AAATAATT",
-			"AACCT",
-			"ACTCTG",
-			"AAGACAGAC",
+			"AGATATAT",
+			"AAGTC",
+			"AAAAATAC",
 			"AAGTAATC",
-			"AACCC"])),
+			"AACTCC",
+			"AAGACAGAC",
+			"ACTCTG",
+			"AAGTCG",
+			"AACCC",
+			"AAAGGAC",
+			"ACTATG",
+			"AAAGGTCACC"])),
             length: 20,
         },
 
@@ -361,9 +362,9 @@
 
         "Crassiclitellata" => TelomereSeq {
             clade: "Crassiclitellata",
-            seq: Seq(Box::new(&["AAGGAC",
-			"AACTC",
-			"AACCCT"])),
+            seq: Seq(Box::new(&["AACCCT",
+			"AAGGAC",
+			"AACTC"])),
             length: 3,
         },
 
@@ -406,16 +407,16 @@
         "Ericales" => TelomereSeq {
             clade: "Ericales",
             seq: Seq(Box::new(&["AAGCATT",
-			"AAACCCT",
-			"AAGCATC"])),
+			"AAGCATC",
+			"AAACCCT"])),
             length: 3,
         },
 
 
         "Eucoccidiorida" => TelomereSeq {
             clade: "Eucoccidiorida",
-            seq: Seq(Box::new(&["AAACCCT",
-			"AAGGAGGAGACAAT"])),
+            seq: Seq(Box::new(&["AAGGAGGAGACAAT",
+			"AAACCCT"])),
             length: 2,
         },
 
@@ -458,8 +459,8 @@
 
         "Fucales" => TelomereSeq {
             clade: "Fucales",
-            seq: Seq(Box::new(&["ACACT",
-			"AACCCT"])),
+            seq: Seq(Box::new(&["AACCCT",
+			"ACACT"])),
             length: 2,
         },
 
@@ -502,19 +503,19 @@
 
         "Hemiptera" => TelomereSeq {
             clade: "Hemiptera",
-            seq: Seq(Box::new(&["ACAGAGAGGC",
-			"ACCGAG",
-			"AACCT",
+            seq: Seq(Box::new(&["AAACCACCCT",
 			"AATATAG",
-			"AATAC",
 			"AACACTCCCT",
-			"AAACCTATCC",
-			"AACCTACCT",
-			"AAAATTGTTGATGGAGATCATAC",
+			"ACAGAGAGGC",
+			"AATAC",
 			"AACCATCCCT",
-			"AAACCACCCT",
+			"AAGAATATAGAAT",
+			"AACCT",
+			"AAAATTGTTGATGGAGATCATAC",
+			"ACCGAG",
+			"AACCTACCT",
 			"AAGAAT",
-			"AAGAATATAGAAT"])),
+			"AAACCTATCC"])),
             length: 13,
         },
 
@@ -535,38 +536,39 @@
 
         "Hymenoptera" => TelomereSeq {
             clade: "Hymenoptera",
-            seq: Seq(Box::new(&["ACGATG",
-			"AATAT",
-			"AACGAGTCG",
-			"AAACGAGTC",
-			"AGAGAT",
-			"AAAACG",
-			"AACCCGAACCT",
-			"AACCCAGACCT",
+            seq: Seq(Box::new(&["AAACGAGTC",
+			"ACCTG",
+			"AACCT",
 			"AACGTAT",
-			"AAACAC",
-			"AGGGATATC",
+			"AACGAGTCG",
 			"ACAGAG",
-			"AAAAAC",
 			"AACGAC",
-			"ACCTG",
 			"AACCCAGACCC",
-			"AACCCAGACGC",
-			"AACCCTGACGC",
+			"AAAAAC",
+			"AGAGAT",
 			"ACTCT",
-			"AACCT",
+			"ACGATG",
 			"AACCCCAACCT",
 			"ACATCGT",
+			"AACCCTGACGC",
 			"AACCCT",
-			"AACCC"])),
-            length: 24,
+			"AAAGGC",
+			"AACCCAGACGC",
+			"AACCCAGACCT",
+			"AATAT",
+			"AACCCGAACCT",
+			"AAACAC",
+			"AACCC",
+			"AAAACG",
+			"AGGGATATC"])),
+            length: 25,
         },
 
 
         "Hypnales" => TelomereSeq {
             clade: "Hypnales",
-            seq: Seq(Box::new(&["AAACCCT",
-			"AACAG"])),
+            seq: Seq(Box::new(&["AACAG",
+			"AAACCCT"])),
             length: 2,
         },
 
@@ -578,6 +580,13 @@
         },
 
 
+        "Isopoda" => TelomereSeq {
+            clade: "Isopoda",
+            seq: Seq(Box::new(&["AGGATG"])),
+            length: 1,
+        },
+
+
         "Lamiales" => TelomereSeq {
             clade: "Lamiales",
             seq: Seq(Box::new(&["AAACCCT",
@@ -588,13 +597,13 @@
 
         "Lepidoptera" => TelomereSeq {
             clade: "Lepidoptera",
-            seq: Seq(Box::new(&["ACTCTG",
+            seq: Seq(Box::new(&["ACATC",
+			"AACGTGAT",
+			"ACTCTG",
+			"AACCATCCCT",
 			"AACCT",
 			"AACTCG",
-			"ACATC",
-			"AACCATCCCT",
-			"AAGACGGTAAGTGTGTATGTATGT",
-			"AACGTGAT"])),
+			"AAGACGGTAAGTGTGTATGTATGT"])),
             length: 7,
         },
 
@@ -673,16 +682,15 @@
 
         "Nudibranchia" => TelomereSeq {
             clade: "Nudibranchia",
-            seq: Seq(Box::new(&["ACAGTAGC",
-			"AAACAC"])),
-            length: 2,
+            seq: Seq(Box::new(&["AAACAC"])),
+            length: 1,
         },
 
 
         "Odonata" => TelomereSeq {
             clade: "Odonata",
-            seq: Seq(Box::new(&["AGATC",
-			"AGCCATCGCCAT",
+            seq: Seq(Box::new(&["AGCCATCGCCAT",
+			"AGATC",
 			"AACCC"])),
             length: 3,
         },
@@ -796,9 +804,9 @@
         "Ranunculales" => TelomereSeq {
             clade: "Ranunculales",
             seq: Seq(Box::new(&["AAACCCT",
-			"AACCCTG",
 			"AACCCCG",
-			"AAACCG"])),
+			"AAACCG",
+			"AACCCTG"])),
             length: 4,
         },