# HG changeset patch
# User cpt
# Date 1652418359 0
# Node ID 4c72b6accdeebfa71d95e61fa46d98ecfdb5f783
Uploaded
diff -r 000000000000 -r 4c72b6accdee cpt_intersect_adj/cpt-macros.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/cpt_intersect_adj/cpt-macros.xml Fri May 13 05:05:59 2022 +0000
@@ -0,0 +1,115 @@
+
+
+
+
+ python
+ biopython
+ requests
+
+
+
+
+
+
+
+ 10.1371/journal.pcbi.1008214
+ @unpublished{galaxyTools,
+ author = {E. Mijalis, H. Rasche},
+ title = {CPT Galaxy Tools},
+ year = {2013-2017},
+ note = {https://github.com/tamu-cpt/galaxy-tools/}
+ }
+
+
+
+
+ 10.1371/journal.pcbi.1008214
+
+ @unpublished{galaxyTools,
+ author = {E. Mijalis, H. Rasche},
+ title = {CPT Galaxy Tools},
+ year = {2013-2017},
+ note = {https://github.com/tamu-cpt/galaxy-tools/}
+ }
+
+
+
+
+
+
+ 10.1371/journal.pcbi.1008214
+
+ @unpublished{galaxyTools,
+ author = {C. Ross},
+ title = {CPT Galaxy Tools},
+ year = {2020-},
+ note = {https://github.com/tamu-cpt/galaxy-tools/}
+ }
+
+
+
+
+
+
+ 10.1371/journal.pcbi.1008214
+
+ @unpublished{galaxyTools,
+ author = {E. Mijalis, H. Rasche},
+ title = {CPT Galaxy Tools},
+ year = {2013-2017},
+ note = {https://github.com/tamu-cpt/galaxy-tools/}
+ }
+
+
+ @unpublished{galaxyTools,
+ author = {A. Criscione},
+ title = {CPT Galaxy Tools},
+ year = {2019-2021},
+ note = {https://github.com/tamu-cpt/galaxy-tools/}
+ }
+
+
+
+
+
+
+ 10.1371/journal.pcbi.1008214
+
+ @unpublished{galaxyTools,
+ author = {A. Criscione},
+ title = {CPT Galaxy Tools},
+ year = {2019-2021},
+ note = {https://github.com/tamu-cpt/galaxy-tools/}
+ }
+
+
+
+
+
+
+ 10.1371/journal.pcbi.1008214
+
+ @unpublished{galaxyTools,
+ author = {C. Maughmer},
+ title = {CPT Galaxy Tools},
+ year = {2017-2020},
+ note = {https://github.com/tamu-cpt/galaxy-tools/}
+ }
+
+
+
+
+
+
+ @unpublished{galaxyTools,
+ author = {C. Maughmer},
+ title = {CPT Galaxy Tools},
+ year = {2017-2020},
+ note = {https://github.com/tamu-cpt/galaxy-tools/}
+ }
+
+
+
+
diff -r 000000000000 -r 4c72b6accdee cpt_intersect_adj/intersect_and_adjacent.py
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/cpt_intersect_adj/intersect_and_adjacent.py Fri May 13 05:05:59 2022 +0000
@@ -0,0 +1,242 @@
+#!/usr/bin/env python
+import logging
+import argparse
+from intervaltree import IntervalTree, Interval
+from CPT_GFFParser import gffParse, gffWrite
+from Bio.SeqRecord import SeqRecord
+from Bio.Seq import Seq
+
+logging.basicConfig(level=logging.INFO)
+log = logging.getLogger(__name__)
+
+def validFeat(rec):
+ for feat in rec.features:
+ if feat.type != 'remark' and feat.type != 'annotation':
+ return True
+ return False
+
+def treeFeatures(features, window):
+ for feat in features:
+ # Interval(begin, end, data)
+ yield Interval(
+ int(feat.location.start) - int(window),
+ int(feat.location.end) + int(window),
+ feat.id,
+ )
+def treeFeatures_noRem(features, window):
+ for feat in features:
+ if feat.type == 'remark' or feat.type == 'annotation':
+ continue
+ # Interval(begin, end, data)
+ yield Interval(
+ int(feat.location.start) - int(window),
+ int(feat.location.end) + int(window),
+ feat.id,
+ )
+
+
+def intersect(a, b, window, stranding):
+ rec_a = list(gffParse(a))
+ rec_b = list(gffParse(b))
+ rec_a_out = []
+ rec_b_out = []
+ maxLen = min(len(rec_a), len(rec_b))
+ iterate = 0
+
+
+ if maxLen > 0:
+ while iterate < maxLen:
+ rec_a_i = rec_a[iterate]
+ rec_b_i = rec_b[iterate]
+
+ if (not validFeat(rec_a_i)) or (not validFeat(rec_b_i)):
+ rec_a_out.append(SeqRecord(rec_a[iterate].seq, rec_a[iterate].id, rec_a[iterate].name, rec_a[iterate].description, rec_a[iterate].dbxrefs, [], rec_a[iterate].annotations))
+ rec_b_out.append(SeqRecord(rec_b[iterate].seq, rec_b[iterate].id, rec_b[iterate].name, rec_b[iterate].description, rec_b[iterate].dbxrefs, [], rec_b[iterate].annotations))
+ iterate += 1
+ continue
+
+ a_neg = []
+ a_pos = []
+ b_neg = []
+ b_pos = []
+ tree_a = []
+ tree_b = []
+ if stranding == True:
+ for feat in rec_a_i.features:
+ if feat.type == 'remark' or feat.type == 'annotation':
+ continue
+ if feat.strand > 0:
+ a_pos.append(
+ Interval(
+ int(feat.location.start) - int(window),
+ int(feat.location.end) + int(window),
+ feat.id,
+ )
+ )
+ else:
+ a_neg.append(
+ Interval(
+ int(feat.location.start) - int(window),
+ int(feat.location.end) + int(window),
+ feat.id,
+ )
+ )
+
+ for feat in rec_b_i.features:
+ if feat.type == 'remark' or feat.type == 'annotation':
+ continue
+ if feat.strand > 0:
+ b_pos.append(
+ Interval(
+ int(feat.location.start) - int(window),
+ int(feat.location.end) + int(window),
+ feat.id,
+ )
+ )
+ else:
+ b_neg.append(
+ Interval(
+ int(feat.location.start) - int(window),
+ int(feat.location.end) + int(window),
+ feat.id,
+ )
+ )
+
+ else:
+ for feat in rec_a_i.features:
+ if feat.type == 'remark' or feat.type == 'annotation':
+ continue
+ tree_a.append(
+ Interval(
+ int(feat.location.start) - int(window),
+ int(feat.location.end) + int(window),
+ feat.id,
+ )
+ )
+ for feat in rec_b_i.features:
+ if feat.type == 'remark' or feat.type == 'annotation':
+ continue
+ tree_b.append(
+ Interval(
+ int(feat.location.start) - int(window),
+ int(feat.location.end) + int(window),
+ feat.id,
+ )
+ )
+ if stranding:
+ # builds interval tree from Interval objects of form (start, end, id) for each feature
+ # tree_a = IntervalTree(list(treeFeatures_noRem(rec_a_i.features, window)))
+ #tree_b = IntervalTree(list(treeFeatures_noRem(rec_b_i.features, window)))
+ #else:
+ tree_a_pos = IntervalTree(a_pos)
+ tree_a_neg = IntervalTree(a_neg)
+ tree_b_pos = IntervalTree(b_pos)
+ tree_b_neg = IntervalTree(b_neg)
+ else:
+ tree_a = IntervalTree(tree_a)
+ tree_b = IntervalTree(tree_b)
+
+
+ # Used to map ids back to features later
+ rec_a_map = {f.id: f for f in rec_a_i.features}
+ rec_b_map = {f.id: f for f in rec_b_i.features}
+
+ rec_a_hits_in_b = []
+ rec_b_hits_in_a = []
+
+ for feature in rec_a_i.features:
+ # Save each feature in rec_a that overlaps a feature in rec_b
+ # hits = tree_b.find_range((int(feature.location.start), int(feature.location.end)))
+
+ if feature.type == "remark" or feature.type == "annotation":
+ continue
+
+ if stranding == False:
+ hits = tree_b[int(feature.location.start) : int(feature.location.end)]
+
+
+ # feature id is saved in interval result.data, use map to get full feature
+ for hit in hits:
+ rec_a_hits_in_b.append(rec_b_map[hit.data])
+
+ else:
+ if feature.strand > 0:
+ hits_pos = tree_b_pos[
+ int(feature.location.start) : int(feature.location.end)
+ ]
+ for hit in hits_pos:
+ rec_a_hits_in_b.append(rec_b_map[hit.data])
+ else:
+ hits_neg = tree_b_neg[
+ int(feature.location.start) : int(feature.location.end)
+ ]
+ for hit in hits_neg:
+ rec_a_hits_in_b.append(rec_b_map[hit.data])
+
+ for feature in rec_b_i.features:
+ if feature.type == "remark" or feature.type == "annotation":
+ continue
+
+ if stranding == False:
+ hits = tree_a[int(feature.location.start) : int(feature.location.end)]
+
+ # feature id is saved in interval result.data, use map to get full feature
+ for hit in hits:
+ rec_b_hits_in_a.append(rec_a_map[hit.data])
+
+ else:
+ if feature.strand > 0:
+ hits_pos = tree_a_pos[
+ int(feature.location.start) : int(feature.location.end)
+ ]
+ for hit in hits_pos:
+ rec_b_hits_in_a.append(rec_a_map[hit.data])
+ else:
+ hits_neg = tree_a_neg[
+ int(feature.location.start) : int(feature.location.end)
+ ]
+ for hit in hits_neg:
+ rec_b_hits_in_a.append(rec_a_map[hit.data])
+
+ # Remove duplicate features using sets
+ rec_a_out.append(SeqRecord(rec_a[iterate].seq, rec_a[iterate].id, rec_a[iterate].name, rec_a[iterate].description, rec_a[iterate].dbxrefs, sorted(set(rec_a_hits_in_b), key=lambda feat: feat.location.start), rec_a[iterate].annotations))
+ rec_b_out.append(SeqRecord(rec_b[iterate].seq, rec_b[iterate].id, rec_b[iterate].name, rec_b[iterate].description, rec_b[iterate].dbxrefs, sorted(set(rec_b_hits_in_a), key=lambda feat: feat.location.start), rec_b[iterate].annotations))
+ iterate += 1
+
+ else:
+ # If one input is empty, output two empty result files.
+ rec_a_out = [SeqRecord(Seq(""), "none")]
+ rec_b_out = [SeqRecord(Seq(""), "none")]
+ return rec_a_out, rec_b_out
+
+
+if __name__ == "__main__":
+ parser = argparse.ArgumentParser(
+ description="rebase gff3 features against parent locations", epilog=""
+ )
+ parser.add_argument("a", type=argparse.FileType("r"))
+ parser.add_argument("b", type=argparse.FileType("r"))
+ parser.add_argument(
+ "window",
+ type=int,
+ default=50,
+ help="Allows features this far away to still be considered 'adjacent'",
+ )
+ parser.add_argument(
+ "-stranding",
+ action="store_true",
+ help="Only allow adjacency for same-strand features",
+ )
+ parser.add_argument("--oa", type=str, default="a_hits_near_b.gff")
+ parser.add_argument("--ob", type=str, default="b_hits_near_a.gff")
+ args = parser.parse_args()
+
+ b, a = intersect(args.a, args.b, args.window, args.stranding)
+
+ with open(args.oa, "w") as handle:
+ for rec in a:
+ gffWrite([rec], handle)
+
+ with open(args.ob, "w") as handle:
+ for rec in b:
+ gffWrite([rec], handle)
diff -r 000000000000 -r 4c72b6accdee cpt_intersect_adj/intersect_and_adjacent.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/cpt_intersect_adj/intersect_and_adjacent.xml Fri May 13 05:05:59 2022 +0000
@@ -0,0 +1,52 @@
+
+
+ Outputs nearby top-level GFF features from two GFF3 files
+
+ macros.xml
+ cpt-macros.xml
+
+
+ python
+ biopython
+ cpt_gffparser
+ intervaltree
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
diff -r 000000000000 -r 4c72b6accdee cpt_intersect_adj/macros.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/cpt_intersect_adj/macros.xml Fri May 13 05:05:59 2022 +0000
@@ -0,0 +1,85 @@
+
+
+
+
+ python
+ biopython
+ cpt_gffparser
+
+
+
+
+ "$blast_tsv"
+
+
+
+
+
+
+ "$blast_xml"
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+ "$gff3_data"
+
+
+#if str($reference_genome.reference_genome_source) == 'cached':
+ "${reference_genome.fasta_indexes.fields.path}"
+#else if str($reference_genome.reference_genome_source) == 'history':
+ genomeref.fa
+#end if
+
+
+#if $reference_genome.reference_genome_source == 'history':
+ ln -s $reference_genome.genome_fasta genomeref.fa;
+#end if
+
+
+#if str($reference_genome.reference_genome_source) == 'cached':
+ "${reference_genome.fasta_indexes.fields.path}"
+#else if str($reference_genome.reference_genome_source) == 'history':
+ genomeref.fa
+#end if
+
+
+
+
+
+
+ "$sequences"
+
+
+
+
+
diff -r 000000000000 -r 4c72b6accdee cpt_intersect_adj/test-data/T7_IntersectAIn.gff3
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/cpt_intersect_adj/test-data/T7_IntersectAIn.gff3 Fri May 13 05:05:59 2022 +0000
@@ -0,0 +1,202 @@
+##gff-version 3
+##sequence-region NC_001604 1 39847
+NC_001604 feature Chain 545 634 . - . Description=Transmembrane protein;ID=tmhmm_tmd_1-f21272ae-496f-4fc1-8d6e-c0ea75f90171;Note=Transmembrane protein - N in C out;Target=ORF.0.2506_0.167028375883.CDS
+NC_001604 TMHMM Topological domain 620 637 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_1-f21272ae-496f-4fc1-8d6e-c0ea75f90171
+NC_001604 TMHMM Transmembrane 551 619 . - . Note=Helical;Parent=tmhmm_tmd_1-f21272ae-496f-4fc1-8d6e-c0ea75f90171
+NC_001604 TMHMM Topological domain 545 550 . - . Note=Extracellular;Parent=tmhmm_tmd_1-f21272ae-496f-4fc1-8d6e-c0ea75f90171
+NC_001604 feature Chain 1499 1636 . + . Description=Transmembrane protein;ID=tmhmm_tmd_2-82f21b97-6a7e-4ddd-9c7a-a6043f5b598e;Note=Transmembrane protein - N out C in;Target=ORF.0.566_0.38534199341.CDS
+NC_001604 TMHMM Topological domain 1496 1561 . + . Note=Extracellular;Parent=tmhmm_tmd_2-82f21b97-6a7e-4ddd-9c7a-a6043f5b598e
+NC_001604 TMHMM Transmembrane 1562 1630 . + . Note=Helical;Parent=tmhmm_tmd_2-82f21b97-6a7e-4ddd-9c7a-a6043f5b598e
+NC_001604 TMHMM Topological domain 1631 1636 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_2-82f21b97-6a7e-4ddd-9c7a-a6043f5b598e
+NC_001604 feature Chain 1505 1636 . + . Description=Transmembrane protein;ID=tmhmm_tmd_3-86aae52d-c800-485f-8895-a9287e122d65;Note=Transmembrane protein - N out C in;Target=ORF.0.567_0.804461971525.CDS
+NC_001604 TMHMM Topological domain 1502 1543 . + . Note=Extracellular;Parent=tmhmm_tmd_3-86aae52d-c800-485f-8895-a9287e122d65
+NC_001604 TMHMM Transmembrane 1544 1612 . + . Note=Helical;Parent=tmhmm_tmd_3-86aae52d-c800-485f-8895-a9287e122d65
+NC_001604 TMHMM Topological domain 1613 1636 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_3-86aae52d-c800-485f-8895-a9287e122d65
+NC_001604 feature Chain 1782 2018 . - . Description=Transmembrane protein;ID=tmhmm_tmd_4-69abcd70-170f-472f-8d52-eeb29376d71b;Note=Transmembrane protein - N in C out;Target=ORF.0.3347_0.667378729511.CDS
+NC_001604 TMHMM Topological domain 1986 2021 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_4-69abcd70-170f-472f-8d52-eeb29376d71b
+NC_001604 TMHMM Transmembrane 1917 1985 . - . Note=Helical;Parent=tmhmm_tmd_4-69abcd70-170f-472f-8d52-eeb29376d71b
+NC_001604 TMHMM Topological domain 1782 1916 . - . Note=Extracellular;Parent=tmhmm_tmd_4-69abcd70-170f-472f-8d52-eeb29376d71b
+NC_001604 feature Chain 2801 2896 . - . Description=Transmembrane protein;ID=tmhmm_tmd_5-727cd513-bd63-4234-b5d0-04c3b0e3e553;Note=Transmembrane protein - N in C out;Target=ORF.0.2482_0.370811900925.CDS
+NC_001604 TMHMM Topological domain 2864 2899 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_5-727cd513-bd63-4234-b5d0-04c3b0e3e553
+NC_001604 TMHMM Transmembrane 2804 2863 . - . Note=Helical;Parent=tmhmm_tmd_5-727cd513-bd63-4234-b5d0-04c3b0e3e553
+NC_001604 TMHMM Topological domain 2801 2803 . - . Note=Extracellular;Parent=tmhmm_tmd_5-727cd513-bd63-4234-b5d0-04c3b0e3e553
+NC_001604 feature Chain 2997 3089 . + . Description=Transmembrane protein;ID=tmhmm_tmd_6-378e5997-850e-46f8-8e45-49106261d847;Note=Transmembrane protein - N in C out;Target=ORF.0.1442_0.301385622759.CDS
+NC_001604 TMHMM Topological domain 2994 3011 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_6-378e5997-850e-46f8-8e45-49106261d847
+NC_001604 TMHMM Transmembrane 3012 3071 . + . Note=Helical;Parent=tmhmm_tmd_6-378e5997-850e-46f8-8e45-49106261d847
+NC_001604 TMHMM Topological domain 3072 3089 . + . Note=Extracellular;Parent=tmhmm_tmd_6-378e5997-850e-46f8-8e45-49106261d847
+NC_001604 feature Chain 4106 4408 . - . Description=Transmembrane protein;ID=tmhmm_tmd_7-cd8efeae-028d-4b07-876f-435d36998a1d;Note=Transmembrane protein - N out C in;Target=ORF.0.2446_0.195161217306.CDS
+NC_001604 TMHMM Topological domain 4187 4411 . - . Parent=tmhmm_tmd_7-cd8efeae-028d-4b07-876f-435d36998a1d
+NC_001604 TMHMM Transmembrane 4118 4186 . - . Note=Helical;Parent=tmhmm_tmd_7-cd8efeae-028d-4b07-876f-435d36998a1d
+NC_001604 TMHMM Topological domain 4106 4117 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_7-cd8efeae-028d-4b07-876f-435d36998a1d
+NC_001604 feature Chain 4106 4384 . - . Description=Transmembrane protein;ID=tmhmm_tmd_8-507b8e45-5895-418c-97ca-3e92fd136054;Note=Transmembrane protein - N in C in;Target=ORF.0.2447_0.435965644427.CDS
+NC_001604 TMHMM Topological domain 4298 4387 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_8-507b8e45-5895-418c-97ca-3e92fd136054
+NC_001604 TMHMM Transmembrane 4229 4297 . - . Note=Helical;Parent=tmhmm_tmd_8-507b8e45-5895-418c-97ca-3e92fd136054
+NC_001604 TMHMM Topological domain 4187 4228 . - . Note=Extracellular;Parent=tmhmm_tmd_8-507b8e45-5895-418c-97ca-3e92fd136054
+NC_001604 TMHMM Transmembrane 4118 4186 . - . Note=Helical;Parent=tmhmm_tmd_8-507b8e45-5895-418c-97ca-3e92fd136054
+NC_001604 TMHMM Topological domain 4106 4117 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_8-507b8e45-5895-418c-97ca-3e92fd136054
+NC_001604 feature Chain 4106 4333 . - . Description=Transmembrane protein;ID=tmhmm_tmd_9-56f14f9b-21b8-4fe0-8da7-ae789707f0cd;Note=Transmembrane protein - N in C in;Target=ORF.0.2452_0.137810349502.CDS
+NC_001604 TMHMM Topological domain 4304 4336 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_9-56f14f9b-21b8-4fe0-8da7-ae789707f0cd
+NC_001604 TMHMM Transmembrane 4244 4303 . - . Note=Helical;Parent=tmhmm_tmd_9-56f14f9b-21b8-4fe0-8da7-ae789707f0cd
+NC_001604 TMHMM Topological domain 4187 4243 . - . Note=Extracellular;Parent=tmhmm_tmd_9-56f14f9b-21b8-4fe0-8da7-ae789707f0cd
+NC_001604 TMHMM Transmembrane 4118 4186 . - . Note=Helical;Parent=tmhmm_tmd_9-56f14f9b-21b8-4fe0-8da7-ae789707f0cd
+NC_001604 TMHMM Topological domain 4106 4117 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_9-56f14f9b-21b8-4fe0-8da7-ae789707f0cd
+NC_001604 feature Chain 4106 4327 . - . Description=Transmembrane protein;ID=tmhmm_tmd_10-71767cb3-d5c5-48df-8d08-b6781dcc357f;Note=Transmembrane protein - N in C in;Target=ORF.0.2453_0.868115932092.CDS
+NC_001604 TMHMM Topological domain 4298 4330 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_10-71767cb3-d5c5-48df-8d08-b6781dcc357f
+NC_001604 TMHMM Transmembrane 4229 4297 . - . Note=Helical;Parent=tmhmm_tmd_10-71767cb3-d5c5-48df-8d08-b6781dcc357f
+NC_001604 TMHMM Topological domain 4187 4228 . - . Note=Extracellular;Parent=tmhmm_tmd_10-71767cb3-d5c5-48df-8d08-b6781dcc357f
+NC_001604 TMHMM Transmembrane 4118 4186 . - . Note=Helical;Parent=tmhmm_tmd_10-71767cb3-d5c5-48df-8d08-b6781dcc357f
+NC_001604 TMHMM Topological domain 4106 4117 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_10-71767cb3-d5c5-48df-8d08-b6781dcc357f
+NC_001604 feature Chain 4106 4273 . - . Description=Transmembrane protein;ID=tmhmm_tmd_11-1cd15c95-d799-428a-ae52-a4b616961c8a;Note=Transmembrane protein - N out C in;Target=ORF.0.2455_0.763533476313.CDS
+NC_001604 TMHMM Topological domain 4187 4276 . - . Note=Extracellular;Parent=tmhmm_tmd_11-1cd15c95-d799-428a-ae52-a4b616961c8a
+NC_001604 TMHMM Transmembrane 4118 4186 . - . Note=Helical;Parent=tmhmm_tmd_11-1cd15c95-d799-428a-ae52-a4b616961c8a
+NC_001604 TMHMM Topological domain 4106 4117 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_11-1cd15c95-d799-428a-ae52-a4b616961c8a
+NC_001604 feature Chain 4106 4267 . - . Description=Transmembrane protein;ID=tmhmm_tmd_12-92022042-76b7-4e8a-b952-31f430897d4b;Note=Transmembrane protein - N out C in;Target=ORF.0.2456_0.946273358886.CDS
+NC_001604 TMHMM Topological domain 4187 4270 . - . Note=Extracellular;Parent=tmhmm_tmd_12-92022042-76b7-4e8a-b952-31f430897d4b
+NC_001604 TMHMM Transmembrane 4118 4186 . - . Note=Helical;Parent=tmhmm_tmd_12-92022042-76b7-4e8a-b952-31f430897d4b
+NC_001604 TMHMM Topological domain 4106 4117 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_12-92022042-76b7-4e8a-b952-31f430897d4b
+NC_001604 feature Chain 4106 4195 . - . Description=Transmembrane protein;ID=tmhmm_tmd_13-798e70fa-3947-4672-afa7-12fdccbfeac7;Note=Transmembrane protein - N in C out;Target=ORF.0.2460_0.990220383403.CDS
+NC_001604 TMHMM Topological domain 4187 4198 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_13-798e70fa-3947-4672-afa7-12fdccbfeac7
+NC_001604 TMHMM Transmembrane 4118 4186 . - . Note=Helical;Parent=tmhmm_tmd_13-798e70fa-3947-4672-afa7-12fdccbfeac7
+NC_001604 TMHMM Topological domain 4106 4117 . - . Note=Extracellular;Parent=tmhmm_tmd_13-798e70fa-3947-4672-afa7-12fdccbfeac7
+NC_001604 feature Chain 5442 5525 . - . Description=Transmembrane protein;ID=tmhmm_tmd_14-94782fdb-8c41-45c5-a39f-efe7b63d9400;Note=Transmembrane protein - N out C in;Target=ORF.0.3307_0.109031738779.CDS
+NC_001604 TMHMM Topological domain 5502 5528 . - . Note=Extracellular;Parent=tmhmm_tmd_14-94782fdb-8c41-45c5-a39f-efe7b63d9400
+NC_001604 TMHMM Transmembrane 5448 5501 . - . Note=Helical;Parent=tmhmm_tmd_14-94782fdb-8c41-45c5-a39f-efe7b63d9400
+NC_001604 TMHMM Topological domain 5442 5447 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_14-94782fdb-8c41-45c5-a39f-efe7b63d9400
+NC_001604 feature Chain 7611 7760 . + . Description=Transmembrane protein;ID=tmhmm_tmd_15-06ae012d-7e0c-43f2-b065-b3d75bad06ce;Note=Transmembrane protein - N in C in;Target=ORF.0.1571_0.432752129598.CDS
+NC_001604 TMHMM Topological domain 7608 7619 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_15-06ae012d-7e0c-43f2-b065-b3d75bad06ce
+NC_001604 TMHMM Transmembrane 7620 7679 . + . Note=Helical;Parent=tmhmm_tmd_15-06ae012d-7e0c-43f2-b065-b3d75bad06ce
+NC_001604 TMHMM Topological domain 7680 7688 . + . Note=Extracellular;Parent=tmhmm_tmd_15-06ae012d-7e0c-43f2-b065-b3d75bad06ce
+NC_001604 TMHMM Transmembrane 7689 7757 . + . Note=Helical;Parent=tmhmm_tmd_15-06ae012d-7e0c-43f2-b065-b3d75bad06ce
+NC_001604 TMHMM Topological domain 7758 7760 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_15-06ae012d-7e0c-43f2-b065-b3d75bad06ce
+NC_001604 feature Chain 8241 8417 . - . Description=Transmembrane protein;ID=tmhmm_tmd_16-c54ddff2-51cc-44c9-9b51-740c9e634c09;Note=Transmembrane protein - N in C in;Target=ORF.0.3257_0.390605676456.CDS
+NC_001604 TMHMM Topological domain 8385 8420 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_16-c54ddff2-51cc-44c9-9b51-740c9e634c09
+NC_001604 TMHMM Transmembrane 8325 8384 . - . Note=Helical;Parent=tmhmm_tmd_16-c54ddff2-51cc-44c9-9b51-740c9e634c09
+NC_001604 TMHMM Topological domain 8313 8324 . - . Note=Extracellular;Parent=tmhmm_tmd_16-c54ddff2-51cc-44c9-9b51-740c9e634c09
+NC_001604 TMHMM Transmembrane 8244 8312 . - . Note=Helical;Parent=tmhmm_tmd_16-c54ddff2-51cc-44c9-9b51-740c9e634c09
+NC_001604 TMHMM Topological domain 8241 8243 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_16-c54ddff2-51cc-44c9-9b51-740c9e634c09
+NC_001604 feature Chain 8241 8393 . - . Description=Transmembrane protein;ID=tmhmm_tmd_17-acc5c4e6-6a78-4138-b96b-e14da7269fa4;Note=Transmembrane protein - N in C in;Target=ORF.0.3260_0.786396696237.CDS
+NC_001604 TMHMM Topological domain 8385 8396 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_17-acc5c4e6-6a78-4138-b96b-e14da7269fa4
+NC_001604 TMHMM Transmembrane 8325 8384 . - . Note=Helical;Parent=tmhmm_tmd_17-acc5c4e6-6a78-4138-b96b-e14da7269fa4
+NC_001604 TMHMM Topological domain 8313 8324 . - . Note=Extracellular;Parent=tmhmm_tmd_17-acc5c4e6-6a78-4138-b96b-e14da7269fa4
+NC_001604 TMHMM Transmembrane 8244 8312 . - . Note=Helical;Parent=tmhmm_tmd_17-acc5c4e6-6a78-4138-b96b-e14da7269fa4
+NC_001604 TMHMM Topological domain 8241 8243 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_17-acc5c4e6-6a78-4138-b96b-e14da7269fa4
+NC_001604 feature Chain 8614 8751 . - . Description=Transmembrane protein;ID=tmhmm_tmd_18-f39903d3-a49a-43b4-b8b4-faec398af4ac;Note=Transmembrane protein - N in C out;Target=ORF.0.2902_0.83195723196.CDS
+NC_001604 TMHMM Topological domain 8719 8754 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_18-f39903d3-a49a-43b4-b8b4-faec398af4ac
+NC_001604 TMHMM Transmembrane 8650 8718 . - . Note=Helical;Parent=tmhmm_tmd_18-f39903d3-a49a-43b4-b8b4-faec398af4ac
+NC_001604 TMHMM Topological domain 8614 8649 . - . Note=Extracellular;Parent=tmhmm_tmd_18-f39903d3-a49a-43b4-b8b4-faec398af4ac
+NC_001604 feature Chain 9554 10030 . - . Description=Transmembrane protein;ID=tmhmm_tmd_19-2311f09c-6a9d-4be1-b2ee-1932b9f7bdcc;Note=Transmembrane protein - N in C in;Target=ORF.0.2389_0.812387617851.CDS
+NC_001604 TMHMM Topological domain 9977 10033 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_19-2311f09c-6a9d-4be1-b2ee-1932b9f7bdcc
+NC_001604 TMHMM Transmembrane 9908 9976 . - . Note=Helical;Parent=tmhmm_tmd_19-2311f09c-6a9d-4be1-b2ee-1932b9f7bdcc
+NC_001604 TMHMM Topological domain 9851 9907 . - . Note=Extracellular;Parent=tmhmm_tmd_19-2311f09c-6a9d-4be1-b2ee-1932b9f7bdcc
+NC_001604 TMHMM Transmembrane 9782 9850 . - . Note=Helical;Parent=tmhmm_tmd_19-2311f09c-6a9d-4be1-b2ee-1932b9f7bdcc
+NC_001604 TMHMM Topological domain 9554 9781 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_19-2311f09c-6a9d-4be1-b2ee-1932b9f7bdcc
+NC_001604 feature Chain 11808 12101 . - . Description=Transmembrane protein;ID=tmhmm_tmd_20-164851bc-ac96-4231-b220-b2fe78666da4;Note=Transmembrane protein - N in C out;Target=ORF.0.3228_0.584251370197.CDS
+NC_001604 TMHMM Topological domain 11949 12104 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_20-164851bc-ac96-4231-b220-b2fe78666da4
+NC_001604 TMHMM Transmembrane 11880 11948 . - . Note=Helical;Parent=tmhmm_tmd_20-164851bc-ac96-4231-b220-b2fe78666da4
+NC_001604 TMHMM Topological domain 11808 11879 . - . Note=Extracellular;Parent=tmhmm_tmd_20-164851bc-ac96-4231-b220-b2fe78666da4
+NC_001604 feature Chain 11808 11969 . - . Description=Transmembrane protein;ID=tmhmm_tmd_21-1c181346-8781-4e34-ac25-b047b1d43d8d;Note=Transmembrane protein - N in C out;Target=ORF.0.3233_0.929860663537.CDS
+NC_001604 TMHMM Topological domain 11949 11972 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_21-1c181346-8781-4e34-ac25-b047b1d43d8d
+NC_001604 TMHMM Transmembrane 11880 11948 . - . Note=Helical;Parent=tmhmm_tmd_21-1c181346-8781-4e34-ac25-b047b1d43d8d
+NC_001604 TMHMM Topological domain 11808 11879 . - . Note=Extracellular;Parent=tmhmm_tmd_21-1c181346-8781-4e34-ac25-b047b1d43d8d
+NC_001604 feature Chain 12298 12417 . + . Description=Transmembrane protein;ID=tmhmm_tmd_22-62203e00-6f4f-44f9-9dfc-e782e68af436;Note=Transmembrane protein - N in C out;Target=ORF.0.146_0.862093981501.CDS
+NC_001604 TMHMM Topological domain 12295 12312 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_22-62203e00-6f4f-44f9-9dfc-e782e68af436
+NC_001604 TMHMM Transmembrane 12313 12372 . + . Note=Helical;Parent=tmhmm_tmd_22-62203e00-6f4f-44f9-9dfc-e782e68af436
+NC_001604 TMHMM Topological domain 12373 12417 . + . Note=Extracellular;Parent=tmhmm_tmd_22-62203e00-6f4f-44f9-9dfc-e782e68af436
+NC_001604 feature Chain 12310 12417 . + . Description=Transmembrane protein;ID=tmhmm_tmd_23-d9df3929-0107-4bf7-98fb-af72469396d3;Note=Transmembrane protein - N in C out;Target=ORF.0.147_0.801965827017.CDS
+NC_001604 TMHMM Topological domain 12307 12324 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_23-d9df3929-0107-4bf7-98fb-af72469396d3
+NC_001604 TMHMM Transmembrane 12325 12378 . + . Note=Helical;Parent=tmhmm_tmd_23-d9df3929-0107-4bf7-98fb-af72469396d3
+NC_001604 TMHMM Topological domain 12379 12417 . + . Note=Extracellular;Parent=tmhmm_tmd_23-d9df3929-0107-4bf7-98fb-af72469396d3
+NC_001604 feature Chain 12991 13323 . + . Description=Transmembrane protein;ID=tmhmm_tmd_24-976d0b1e-57ab-4a73-8331-9bbd863feaa5;Note=Transmembrane protein - N in C in;Target=ORF.0.156_0.0712415448217.CDS
+NC_001604 TMHMM Topological domain 12988 13005 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_24-976d0b1e-57ab-4a73-8331-9bbd863feaa5
+NC_001604 TMHMM Transmembrane 13006 13074 . + . Note=Helical;Parent=tmhmm_tmd_24-976d0b1e-57ab-4a73-8331-9bbd863feaa5
+NC_001604 TMHMM Topological domain 13075 13086 . + . Note=Extracellular;Parent=tmhmm_tmd_24-976d0b1e-57ab-4a73-8331-9bbd863feaa5
+NC_001604 TMHMM Transmembrane 13087 13155 . + . Note=Helical;Parent=tmhmm_tmd_24-976d0b1e-57ab-4a73-8331-9bbd863feaa5
+NC_001604 TMHMM Topological domain 13156 13323 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_24-976d0b1e-57ab-4a73-8331-9bbd863feaa5
+NC_001604 feature Chain 15202 15372 . - . Description=Transmembrane protein;ID=tmhmm_tmd_25-fea2e54b-e2fa-47d6-8a46-35e7ba119b92;Note=Transmembrane protein - N in C out;Target=ORF.0.2827_0.307040161403.CDS
+NC_001604 TMHMM Topological domain 15316 15375 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_25-fea2e54b-e2fa-47d6-8a46-35e7ba119b92
+NC_001604 TMHMM Transmembrane 15247 15315 . - . Note=Helical;Parent=tmhmm_tmd_25-fea2e54b-e2fa-47d6-8a46-35e7ba119b92
+NC_001604 TMHMM Topological domain 15202 15246 . - . Note=Extracellular;Parent=tmhmm_tmd_25-fea2e54b-e2fa-47d6-8a46-35e7ba119b92
+NC_001604 feature Chain 15202 15342 . - . Description=Transmembrane protein;ID=tmhmm_tmd_26-93e5780e-9be1-40a4-bd26-7389d5e7eb9b;Note=Transmembrane protein - N out C in;Target=ORF.0.2828_0.260962590428.CDS
+NC_001604 TMHMM Topological domain 15319 15345 . - . Note=Extracellular;Parent=tmhmm_tmd_26-93e5780e-9be1-40a4-bd26-7389d5e7eb9b
+NC_001604 TMHMM Transmembrane 15250 15318 . - . Note=Helical;Parent=tmhmm_tmd_26-93e5780e-9be1-40a4-bd26-7389d5e7eb9b
+NC_001604 TMHMM Topological domain 15202 15249 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_26-93e5780e-9be1-40a4-bd26-7389d5e7eb9b
+NC_001604 feature Chain 15284 15472 . + . Description=Transmembrane protein;ID=tmhmm_tmd_27-6d85b6cd-a56e-40fc-878e-b22c2200c4ab;Note=Transmembrane protein - N out C in;Target=ORF.0.742_0.279076184927.CDS
+NC_001604 TMHMM Topological domain 15281 15307 . + . Note=Extracellular;Parent=tmhmm_tmd_27-6d85b6cd-a56e-40fc-878e-b22c2200c4ab
+NC_001604 TMHMM Transmembrane 15308 15376 . + . Note=Helical;Parent=tmhmm_tmd_27-6d85b6cd-a56e-40fc-878e-b22c2200c4ab
+NC_001604 TMHMM Topological domain 15377 15472 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_27-6d85b6cd-a56e-40fc-878e-b22c2200c4ab
+NC_001604 feature Chain 15299 15472 . + . Description=Transmembrane protein;ID=tmhmm_tmd_28-4218c6d9-3c61-460b-a5bc-ca1850343359;Note=Transmembrane protein - N out C in;Target=ORF.0.743_0.95824473196.CDS
+NC_001604 TMHMM Topological domain 15296 15304 . + . Note=Extracellular;Parent=tmhmm_tmd_28-4218c6d9-3c61-460b-a5bc-ca1850343359
+NC_001604 TMHMM Transmembrane 15305 15373 . + . Note=Helical;Parent=tmhmm_tmd_28-4218c6d9-3c61-460b-a5bc-ca1850343359
+NC_001604 TMHMM Topological domain 15374 15472 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_28-4218c6d9-3c61-460b-a5bc-ca1850343359
+NC_001604 feature Chain 15605 15742 . + . Description=Transmembrane protein;ID=tmhmm_tmd_29-27cc050f-d992-4235-b275-5c310a52e21c;Note=Transmembrane protein - N in C out;Target=ORF.0.758_0.969642398146.CDS
+NC_001604 TMHMM Topological domain 15602 15670 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_29-27cc050f-d992-4235-b275-5c310a52e21c
+NC_001604 TMHMM Transmembrane 15671 15739 . + . Note=Helical;Parent=tmhmm_tmd_29-27cc050f-d992-4235-b275-5c310a52e21c
+NC_001604 TMHMM Topological domain 15740 15742 . + . Note=Extracellular;Parent=tmhmm_tmd_29-27cc050f-d992-4235-b275-5c310a52e21c
+NC_001604 feature Chain 15641 15742 . + . Description=Transmembrane protein;ID=tmhmm_tmd_30-72609b3e-5be8-483f-8752-ea05dcd993bc;Note=Transmembrane protein - N in C out;Target=ORF.0.761_0.606943986845.CDS
+NC_001604 TMHMM Topological domain 15638 15670 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_30-72609b3e-5be8-483f-8752-ea05dcd993bc
+NC_001604 TMHMM Transmembrane 15671 15739 . + . Note=Helical;Parent=tmhmm_tmd_30-72609b3e-5be8-483f-8752-ea05dcd993bc
+NC_001604 TMHMM Topological domain 15740 15742 . + . Note=Extracellular;Parent=tmhmm_tmd_30-72609b3e-5be8-483f-8752-ea05dcd993bc
+NC_001604 feature Chain 15650 15742 . + . Description=Transmembrane protein;ID=tmhmm_tmd_31-fb6d4868-d423-49f2-a541-7ec3cea828e9;Note=Transmembrane protein - N in C out;Target=ORF.0.762_0.807724849681.CDS
+NC_001604 TMHMM Topological domain 15647 15670 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_31-fb6d4868-d423-49f2-a541-7ec3cea828e9
+NC_001604 TMHMM Transmembrane 15671 15739 . + . Note=Helical;Parent=tmhmm_tmd_31-fb6d4868-d423-49f2-a541-7ec3cea828e9
+NC_001604 TMHMM Topological domain 15740 15742 . + . Note=Extracellular;Parent=tmhmm_tmd_31-fb6d4868-d423-49f2-a541-7ec3cea828e9
+NC_001604 feature Chain 18259 18378 . - . Description=Transmembrane protein;ID=tmhmm_tmd_32-fac3bca1-fb85-4c82-9c68-28f24d6723b7;Note=Transmembrane protein - N in C out;Target=ORF.0.2763_0.0976798882623.CDS
+NC_001604 TMHMM Topological domain 18349 18381 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_32-fac3bca1-fb85-4c82-9c68-28f24d6723b7
+NC_001604 TMHMM Transmembrane 18289 18348 . - . Note=Helical;Parent=tmhmm_tmd_32-fac3bca1-fb85-4c82-9c68-28f24d6723b7
+NC_001604 TMHMM Topological domain 18259 18288 . - . Note=Extracellular;Parent=tmhmm_tmd_32-fac3bca1-fb85-4c82-9c68-28f24d6723b7
+NC_001604 feature Chain 18397 18504 . + . Description=Transmembrane protein;ID=tmhmm_tmd_33-5de09f17-eff3-46d8-abe6-96ae4dfd69fc;Note=Transmembrane protein - N out C in;Target=ORF.0.298_0.896134049513.CDS
+NC_001604 TMHMM Topological domain 18394 18405 . + . Note=Extracellular;Parent=tmhmm_tmd_33-5de09f17-eff3-46d8-abe6-96ae4dfd69fc
+NC_001604 TMHMM Transmembrane 18406 18465 . + . Note=Helical;Parent=tmhmm_tmd_33-5de09f17-eff3-46d8-abe6-96ae4dfd69fc
+NC_001604 TMHMM Topological domain 18466 18504 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_33-5de09f17-eff3-46d8-abe6-96ae4dfd69fc
+NC_001604 feature Chain 18577 18693 . - . Description=Transmembrane protein;ID=tmhmm_tmd_34-b3424672-5d80-42eb-a2cb-7ca7a549b9de;Note=Transmembrane protein - N out C in;Target=ORF.0.2761_0.226398266856.CDS
+NC_001604 TMHMM Topological domain 18670 18696 . - . Note=Extracellular;Parent=tmhmm_tmd_34-b3424672-5d80-42eb-a2cb-7ca7a549b9de
+NC_001604 TMHMM Transmembrane 18601 18669 . - . Note=Helical;Parent=tmhmm_tmd_34-b3424672-5d80-42eb-a2cb-7ca7a549b9de
+NC_001604 TMHMM Topological domain 18577 18600 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_34-b3424672-5d80-42eb-a2cb-7ca7a549b9de
+NC_001604 feature Chain 19351 19761 . - . Description=Transmembrane protein;ID=tmhmm_tmd_35-6ad75bad-a355-49a8-ae3b-b61762d6bde7;Note=Transmembrane protein - N out C in;Target=ORF.0.2751_0.199850521186.CDS
+NC_001604 TMHMM Topological domain 19588 19764 . - . Note=Extracellular;Parent=tmhmm_tmd_35-6ad75bad-a355-49a8-ae3b-b61762d6bde7
+NC_001604 TMHMM Transmembrane 19519 19587 . - . Note=Helical;Parent=tmhmm_tmd_35-6ad75bad-a355-49a8-ae3b-b61762d6bde7
+NC_001604 TMHMM Topological domain 19351 19518 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_35-6ad75bad-a355-49a8-ae3b-b61762d6bde7
+NC_001604 feature Chain 28523 29278 . - . Description=Transmembrane protein;ID=tmhmm_tmd_36-7ccd4500-53cb-4119-b088-ef9b6866ee18;Note=Transmembrane protein - N in C out;Target=ORF.0.2112_0.388955799353.CDS
+NC_001604 TMHMM Topological domain 28784 29281 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_36-7ccd4500-53cb-4119-b088-ef9b6866ee18
+NC_001604 TMHMM Transmembrane 28715 28783 . - . Note=Helical;Parent=tmhmm_tmd_36-7ccd4500-53cb-4119-b088-ef9b6866ee18
+NC_001604 TMHMM Topological domain 28523 28714 . - . Note=Extracellular;Parent=tmhmm_tmd_36-7ccd4500-53cb-4119-b088-ef9b6866ee18
+NC_001604 feature Chain 28938 29054 . + . Description=Transmembrane protein;ID=tmhmm_tmd_37-ec9fa92b-dbcb-4a7d-b3fc-d045ef990d91;Note=Transmembrane protein - N in C out;Target=ORF.0.1946_0.470938817659.CDS
+NC_001604 TMHMM Topological domain 28935 28952 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_37-ec9fa92b-dbcb-4a7d-b3fc-d045ef990d91
+NC_001604 TMHMM Transmembrane 28953 29021 . + . Note=Helical;Parent=tmhmm_tmd_37-ec9fa92b-dbcb-4a7d-b3fc-d045ef990d91
+NC_001604 TMHMM Topological domain 29022 29054 . + . Note=Extracellular;Parent=tmhmm_tmd_37-ec9fa92b-dbcb-4a7d-b3fc-d045ef990d91
+NC_001604 feature Chain 31172 31426 . + . Description=Transmembrane protein;ID=tmhmm_tmd_38-0ea85e17-7ecf-46ca-964a-c360e66fba68;Note=Transmembrane protein - N out C in;Target=ORF.0.1262_0.230588376361.CDS
+NC_001604 TMHMM Topological domain 31169 31318 . + . Note=Extracellular;Parent=tmhmm_tmd_38-0ea85e17-7ecf-46ca-964a-c360e66fba68
+NC_001604 TMHMM Transmembrane 31319 31372 . + . Note=Helical;Parent=tmhmm_tmd_38-0ea85e17-7ecf-46ca-964a-c360e66fba68
+NC_001604 TMHMM Topological domain 31373 31426 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_38-0ea85e17-7ecf-46ca-964a-c360e66fba68
+NC_001604 feature Chain 31250 31426 . + . Description=Transmembrane protein;ID=tmhmm_tmd_39-2b22fdd8-dc82-4ab8-ae3e-f30c5314fae5;Note=Transmembrane protein - N out C in;Target=ORF.0.1263_0.7051683867.CDS
+NC_001604 TMHMM Topological domain 31247 31303 . + . Note=Extracellular;Parent=tmhmm_tmd_39-2b22fdd8-dc82-4ab8-ae3e-f30c5314fae5
+NC_001604 TMHMM Transmembrane 31304 31372 . + . Note=Helical;Parent=tmhmm_tmd_39-2b22fdd8-dc82-4ab8-ae3e-f30c5314fae5
+NC_001604 TMHMM Topological domain 31373 31426 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_39-2b22fdd8-dc82-4ab8-ae3e-f30c5314fae5
+NC_001604 feature Chain 31292 31426 . + . Description=Transmembrane protein;ID=tmhmm_tmd_40-5f3b3b76-c62e-4936-8d3d-78e71f81949a;Note=Transmembrane protein - N out C in;Target=ORF.0.1264_0.997259655684.CDS
+NC_001604 TMHMM Topological domain 31289 31315 . + . Note=Extracellular;Parent=tmhmm_tmd_40-5f3b3b76-c62e-4936-8d3d-78e71f81949a
+NC_001604 TMHMM Transmembrane 31316 31372 . + . Note=Helical;Parent=tmhmm_tmd_40-5f3b3b76-c62e-4936-8d3d-78e71f81949a
+NC_001604 TMHMM Topological domain 31373 31426 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_40-5f3b3b76-c62e-4936-8d3d-78e71f81949a
+NC_001604 feature Chain 33913 34548 . + . Description=Transmembrane protein;ID=tmhmm_tmd_41-366d135b-3f32-4e85-a42b-79d65e6f26d6;Note=Transmembrane protein - N in C out;Target=ORF.0.470_0.0223503021819.CDS
+NC_001604 TMHMM Topological domain 33910 33990 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_41-366d135b-3f32-4e85-a42b-79d65e6f26d6
+NC_001604 TMHMM Transmembrane 33991 34059 . + . Note=Helical;Parent=tmhmm_tmd_41-366d135b-3f32-4e85-a42b-79d65e6f26d6
+NC_001604 TMHMM Topological domain 34060 34548 . + . Parent=tmhmm_tmd_41-366d135b-3f32-4e85-a42b-79d65e6f26d6
+NC_001604 feature Chain 36347 36544 . + . Description=Transmembrane protein;ID=tmhmm_tmd_42-e8edf813-5edf-4572-b01e-a338e0b87f22;Note=Transmembrane protein - N out C in;Target=ORF.0.1312_0.680684781715.CDS
+NC_001604 TMHMM Topological domain 36344 36451 . + . Note=Extracellular;Parent=tmhmm_tmd_42-e8edf813-5edf-4572-b01e-a338e0b87f22
+NC_001604 TMHMM Transmembrane 36452 36508 . + . Note=Helical;Parent=tmhmm_tmd_42-e8edf813-5edf-4572-b01e-a338e0b87f22
+NC_001604 TMHMM Topological domain 36509 36544 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_42-e8edf813-5edf-4572-b01e-a338e0b87f22
+NC_001604 feature Chain 37001 37102 . - . Description=Transmembrane protein;ID=tmhmm_tmd_43-a4f91c3c-dde7-4dd4-8420-df0050dd1146;Note=Transmembrane protein - N in C out;Target=ORF.0.2065_0.772127826341.CDS
+NC_001604 TMHMM Topological domain 37073 37105 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_43-a4f91c3c-dde7-4dd4-8420-df0050dd1146
+NC_001604 TMHMM Transmembrane 37004 37072 . - . Note=Helical;Parent=tmhmm_tmd_43-a4f91c3c-dde7-4dd4-8420-df0050dd1146
+NC_001604 TMHMM Topological domain 37001 37003 . - . Note=Extracellular;Parent=tmhmm_tmd_43-a4f91c3c-dde7-4dd4-8420-df0050dd1146
+NC_001604 feature Chain 37035 37280 . + . Description=Transmembrane protein;ID=tmhmm_tmd_44-b4121b3a-f384-4f27-8abb-e14261bfd2fd;Note=Transmembrane protein - N in C out;Target=ORF.0.1961_0.261039005028.CDS
+NC_001604 TMHMM Topological domain 37032 37112 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_44-b4121b3a-f384-4f27-8abb-e14261bfd2fd
+NC_001604 TMHMM Transmembrane 37113 37181 . + . Note=Helical;Parent=tmhmm_tmd_44-b4121b3a-f384-4f27-8abb-e14261bfd2fd
+NC_001604 TMHMM Topological domain 37182 37280 . + . Note=Extracellular;Parent=tmhmm_tmd_44-b4121b3a-f384-4f27-8abb-e14261bfd2fd
+NC_001604 feature Chain 39392 39535 . + . Description=Transmembrane protein;ID=tmhmm_tmd_45-ec6c20e1-8a25-47bf-8ded-cbe854809ce3;Note=Transmembrane protein - N in C out;Target=ORF.0.1414_0.296990322019.CDS
+NC_001604 TMHMM Topological domain 39389 39424 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_45-ec6c20e1-8a25-47bf-8ded-cbe854809ce3
+NC_001604 TMHMM Transmembrane 39425 39478 . + . Note=Helical;Parent=tmhmm_tmd_45-ec6c20e1-8a25-47bf-8ded-cbe854809ce3
+NC_001604 TMHMM Topological domain 39479 39535 . + . Note=Extracellular;Parent=tmhmm_tmd_45-ec6c20e1-8a25-47bf-8ded-cbe854809ce3
+NC_001604 feature Chain 39456 39554 . + . Description=Transmembrane protein;ID=tmhmm_tmd_46-bb7be945-aca9-4ef4-93f5-4de3337ea164;Note=Transmembrane protein - N out C in;Target=ORF.0.2021_0.203671539857.CDS
+NC_001604 TMHMM Topological domain 39453 39494 . + . Note=Extracellular;Parent=tmhmm_tmd_46-bb7be945-aca9-4ef4-93f5-4de3337ea164
+NC_001604 TMHMM Transmembrane 39495 39548 . + . Note=Helical;Parent=tmhmm_tmd_46-bb7be945-aca9-4ef4-93f5-4de3337ea164
+NC_001604 TMHMM Topological domain 39549 39554 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_46-bb7be945-aca9-4ef4-93f5-4de3337ea164
diff -r 000000000000 -r 4c72b6accdee cpt_intersect_adj/test-data/T7_IntersectAOut.gff3
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/cpt_intersect_adj/test-data/T7_IntersectAOut.gff3 Fri May 13 05:05:59 2022 +0000
@@ -0,0 +1,82 @@
+##gff-version 3
+##sequence-region NC_001604 1 39937
+NC_001604 feature Chain 545 634 . - . Description=Transmembrane protein;ID=tmhmm_tmd_1-f21272ae-496f-4fc1-8d6e-c0ea75f90171;Note=Transmembrane protein - N in C out;Target=ORF.0.2506_0.167028375883.CDS;
+NC_001604 TMHMM Topological domain 620 637 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_1-f21272ae-496f-4fc1-8d6e-c0ea75f90171;
+NC_001604 TMHMM Transmembrane 551 619 . - . Note=Helical;Parent=tmhmm_tmd_1-f21272ae-496f-4fc1-8d6e-c0ea75f90171;
+NC_001604 TMHMM Topological domain 545 550 . - . Note=Extracellular;Parent=tmhmm_tmd_1-f21272ae-496f-4fc1-8d6e-c0ea75f90171;
+NC_001604 feature Chain 1499 1636 . + . Description=Transmembrane protein;ID=tmhmm_tmd_2-82f21b97-6a7e-4ddd-9c7a-a6043f5b598e;Note=Transmembrane protein - N out C in;Target=ORF.0.566_0.38534199341.CDS;
+NC_001604 TMHMM Topological domain 1496 1561 . + . Note=Extracellular;Parent=tmhmm_tmd_2-82f21b97-6a7e-4ddd-9c7a-a6043f5b598e;
+NC_001604 TMHMM Transmembrane 1562 1630 . + . Note=Helical;Parent=tmhmm_tmd_2-82f21b97-6a7e-4ddd-9c7a-a6043f5b598e;
+NC_001604 TMHMM Topological domain 1631 1636 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_2-82f21b97-6a7e-4ddd-9c7a-a6043f5b598e;
+NC_001604 feature Chain 1505 1636 . + . Description=Transmembrane protein;ID=tmhmm_tmd_3-86aae52d-c800-485f-8895-a9287e122d65;Note=Transmembrane protein - N out C in;Target=ORF.0.567_0.804461971525.CDS;
+NC_001604 TMHMM Topological domain 1502 1543 . + . Note=Extracellular;Parent=tmhmm_tmd_3-86aae52d-c800-485f-8895-a9287e122d65;
+NC_001604 TMHMM Transmembrane 1544 1612 . + . Note=Helical;Parent=tmhmm_tmd_3-86aae52d-c800-485f-8895-a9287e122d65;
+NC_001604 TMHMM Topological domain 1613 1636 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_3-86aae52d-c800-485f-8895-a9287e122d65;
+NC_001604 feature Chain 1782 2018 . - . Description=Transmembrane protein;ID=tmhmm_tmd_4-69abcd70-170f-472f-8d52-eeb29376d71b;Note=Transmembrane protein - N in C out;Target=ORF.0.3347_0.667378729511.CDS;
+NC_001604 TMHMM Topological domain 1986 2021 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_4-69abcd70-170f-472f-8d52-eeb29376d71b;
+NC_001604 TMHMM Transmembrane 1917 1985 . - . Note=Helical;Parent=tmhmm_tmd_4-69abcd70-170f-472f-8d52-eeb29376d71b;
+NC_001604 TMHMM Topological domain 1782 1916 . - . Note=Extracellular;Parent=tmhmm_tmd_4-69abcd70-170f-472f-8d52-eeb29376d71b;
+NC_001604 feature Chain 7611 7760 . + . Description=Transmembrane protein;ID=tmhmm_tmd_15-06ae012d-7e0c-43f2-b065-b3d75bad06ce;Note=Transmembrane protein - N in C in;Target=ORF.0.1571_0.432752129598.CDS;
+NC_001604 TMHMM Topological domain 7608 7619 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_15-06ae012d-7e0c-43f2-b065-b3d75bad06ce;
+NC_001604 TMHMM Transmembrane 7620 7679 . + . Note=Helical;Parent=tmhmm_tmd_15-06ae012d-7e0c-43f2-b065-b3d75bad06ce;
+NC_001604 TMHMM Topological domain 7680 7688 . + . Note=Extracellular;Parent=tmhmm_tmd_15-06ae012d-7e0c-43f2-b065-b3d75bad06ce;
+NC_001604 TMHMM Transmembrane 7689 7757 . + . Note=Helical;Parent=tmhmm_tmd_15-06ae012d-7e0c-43f2-b065-b3d75bad06ce;
+NC_001604 TMHMM Topological domain 7758 7760 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_15-06ae012d-7e0c-43f2-b065-b3d75bad06ce;
+NC_001604 feature Chain 8241 8393 . - . Description=Transmembrane protein;ID=tmhmm_tmd_17-acc5c4e6-6a78-4138-b96b-e14da7269fa4;Note=Transmembrane protein - N in C in;Target=ORF.0.3260_0.786396696237.CDS;
+NC_001604 TMHMM Topological domain 8385 8396 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_17-acc5c4e6-6a78-4138-b96b-e14da7269fa4;
+NC_001604 TMHMM Transmembrane 8325 8384 . - . Note=Helical;Parent=tmhmm_tmd_17-acc5c4e6-6a78-4138-b96b-e14da7269fa4;
+NC_001604 TMHMM Topological domain 8313 8324 . - . Note=Extracellular;Parent=tmhmm_tmd_17-acc5c4e6-6a78-4138-b96b-e14da7269fa4;
+NC_001604 TMHMM Transmembrane 8244 8312 . - . Note=Helical;Parent=tmhmm_tmd_17-acc5c4e6-6a78-4138-b96b-e14da7269fa4;
+NC_001604 TMHMM Topological domain 8241 8243 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_17-acc5c4e6-6a78-4138-b96b-e14da7269fa4;
+NC_001604 feature Chain 8241 8417 . - . Description=Transmembrane protein;ID=tmhmm_tmd_16-c54ddff2-51cc-44c9-9b51-740c9e634c09;Note=Transmembrane protein - N in C in;Target=ORF.0.3257_0.390605676456.CDS;
+NC_001604 TMHMM Topological domain 8385 8420 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_16-c54ddff2-51cc-44c9-9b51-740c9e634c09;
+NC_001604 TMHMM Transmembrane 8325 8384 . - . Note=Helical;Parent=tmhmm_tmd_16-c54ddff2-51cc-44c9-9b51-740c9e634c09;
+NC_001604 TMHMM Topological domain 8313 8324 . - . Note=Extracellular;Parent=tmhmm_tmd_16-c54ddff2-51cc-44c9-9b51-740c9e634c09;
+NC_001604 TMHMM Transmembrane 8244 8312 . - . Note=Helical;Parent=tmhmm_tmd_16-c54ddff2-51cc-44c9-9b51-740c9e634c09;
+NC_001604 TMHMM Topological domain 8241 8243 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_16-c54ddff2-51cc-44c9-9b51-740c9e634c09;
+NC_001604 feature Chain 12298 12417 . + . Description=Transmembrane protein;ID=tmhmm_tmd_22-62203e00-6f4f-44f9-9dfc-e782e68af436;Note=Transmembrane protein - N in C out;Target=ORF.0.146_0.862093981501.CDS;
+NC_001604 TMHMM Topological domain 12295 12312 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_22-62203e00-6f4f-44f9-9dfc-e782e68af436;
+NC_001604 TMHMM Transmembrane 12313 12372 . + . Note=Helical;Parent=tmhmm_tmd_22-62203e00-6f4f-44f9-9dfc-e782e68af436;
+NC_001604 TMHMM Topological domain 12373 12417 . + . Note=Extracellular;Parent=tmhmm_tmd_22-62203e00-6f4f-44f9-9dfc-e782e68af436;
+NC_001604 feature Chain 12310 12417 . + . Description=Transmembrane protein;ID=tmhmm_tmd_23-d9df3929-0107-4bf7-98fb-af72469396d3;Note=Transmembrane protein - N in C out;Target=ORF.0.147_0.801965827017.CDS;
+NC_001604 TMHMM Topological domain 12307 12324 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_23-d9df3929-0107-4bf7-98fb-af72469396d3;
+NC_001604 TMHMM Transmembrane 12325 12378 . + . Note=Helical;Parent=tmhmm_tmd_23-d9df3929-0107-4bf7-98fb-af72469396d3;
+NC_001604 TMHMM Topological domain 12379 12417 . + . Note=Extracellular;Parent=tmhmm_tmd_23-d9df3929-0107-4bf7-98fb-af72469396d3;
+NC_001604 feature Chain 12991 13323 . + . Description=Transmembrane protein;ID=tmhmm_tmd_24-976d0b1e-57ab-4a73-8331-9bbd863feaa5;Note=Transmembrane protein - N in C in;Target=ORF.0.156_0.0712415448217.CDS;
+NC_001604 TMHMM Topological domain 12988 13005 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_24-976d0b1e-57ab-4a73-8331-9bbd863feaa5;
+NC_001604 TMHMM Transmembrane 13006 13074 . + . Note=Helical;Parent=tmhmm_tmd_24-976d0b1e-57ab-4a73-8331-9bbd863feaa5;
+NC_001604 TMHMM Topological domain 13075 13086 . + . Note=Extracellular;Parent=tmhmm_tmd_24-976d0b1e-57ab-4a73-8331-9bbd863feaa5;
+NC_001604 TMHMM Transmembrane 13087 13155 . + . Note=Helical;Parent=tmhmm_tmd_24-976d0b1e-57ab-4a73-8331-9bbd863feaa5;
+NC_001604 TMHMM Topological domain 13156 13323 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_24-976d0b1e-57ab-4a73-8331-9bbd863feaa5;
+NC_001604 feature Chain 15202 15342 . - . Description=Transmembrane protein;ID=tmhmm_tmd_26-93e5780e-9be1-40a4-bd26-7389d5e7eb9b;Note=Transmembrane protein - N out C in;Target=ORF.0.2828_0.260962590428.CDS;
+NC_001604 TMHMM Topological domain 15319 15345 . - . Note=Extracellular;Parent=tmhmm_tmd_26-93e5780e-9be1-40a4-bd26-7389d5e7eb9b;
+NC_001604 TMHMM Transmembrane 15250 15318 . - . Note=Helical;Parent=tmhmm_tmd_26-93e5780e-9be1-40a4-bd26-7389d5e7eb9b;
+NC_001604 TMHMM Topological domain 15202 15249 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_26-93e5780e-9be1-40a4-bd26-7389d5e7eb9b;
+NC_001604 feature Chain 15202 15372 . - . Description=Transmembrane protein;ID=tmhmm_tmd_25-fea2e54b-e2fa-47d6-8a46-35e7ba119b92;Note=Transmembrane protein - N in C out;Target=ORF.0.2827_0.307040161403.CDS;
+NC_001604 TMHMM Topological domain 15316 15375 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_25-fea2e54b-e2fa-47d6-8a46-35e7ba119b92;
+NC_001604 TMHMM Transmembrane 15247 15315 . - . Note=Helical;Parent=tmhmm_tmd_25-fea2e54b-e2fa-47d6-8a46-35e7ba119b92;
+NC_001604 TMHMM Topological domain 15202 15246 . - . Note=Extracellular;Parent=tmhmm_tmd_25-fea2e54b-e2fa-47d6-8a46-35e7ba119b92;
+NC_001604 feature Chain 18397 18504 . + . Description=Transmembrane protein;ID=tmhmm_tmd_33-5de09f17-eff3-46d8-abe6-96ae4dfd69fc;Note=Transmembrane protein - N out C in;Target=ORF.0.298_0.896134049513.CDS;
+NC_001604 TMHMM Topological domain 18394 18405 . + . Note=Extracellular;Parent=tmhmm_tmd_33-5de09f17-eff3-46d8-abe6-96ae4dfd69fc;
+NC_001604 TMHMM Transmembrane 18406 18465 . + . Note=Helical;Parent=tmhmm_tmd_33-5de09f17-eff3-46d8-abe6-96ae4dfd69fc;
+NC_001604 TMHMM Topological domain 18466 18504 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_33-5de09f17-eff3-46d8-abe6-96ae4dfd69fc;
+NC_001604 feature Chain 19351 19761 . - . Description=Transmembrane protein;ID=tmhmm_tmd_35-6ad75bad-a355-49a8-ae3b-b61762d6bde7;Note=Transmembrane protein - N out C in;Target=ORF.0.2751_0.199850521186.CDS;
+NC_001604 TMHMM Topological domain 19588 19764 . - . Note=Extracellular;Parent=tmhmm_tmd_35-6ad75bad-a355-49a8-ae3b-b61762d6bde7;
+NC_001604 TMHMM Transmembrane 19519 19587 . - . Note=Helical;Parent=tmhmm_tmd_35-6ad75bad-a355-49a8-ae3b-b61762d6bde7;
+NC_001604 TMHMM Topological domain 19351 19518 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_35-6ad75bad-a355-49a8-ae3b-b61762d6bde7;
+NC_001604 feature Chain 28523 29278 . - . Description=Transmembrane protein;ID=tmhmm_tmd_36-7ccd4500-53cb-4119-b088-ef9b6866ee18;Note=Transmembrane protein - N in C out;Target=ORF.0.2112_0.388955799353.CDS;
+NC_001604 TMHMM Topological domain 28784 29281 . - . Note=Cytoplasmic;Parent=tmhmm_tmd_36-7ccd4500-53cb-4119-b088-ef9b6866ee18;
+NC_001604 TMHMM Transmembrane 28715 28783 . - . Note=Helical;Parent=tmhmm_tmd_36-7ccd4500-53cb-4119-b088-ef9b6866ee18;
+NC_001604 TMHMM Topological domain 28523 28714 . - . Note=Extracellular;Parent=tmhmm_tmd_36-7ccd4500-53cb-4119-b088-ef9b6866ee18;
+NC_001604 feature Chain 37035 37280 . + . Description=Transmembrane protein;ID=tmhmm_tmd_44-b4121b3a-f384-4f27-8abb-e14261bfd2fd;Note=Transmembrane protein - N in C out;Target=ORF.0.1961_0.261039005028.CDS;
+NC_001604 TMHMM Topological domain 37032 37112 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_44-b4121b3a-f384-4f27-8abb-e14261bfd2fd;
+NC_001604 TMHMM Transmembrane 37113 37181 . + . Note=Helical;Parent=tmhmm_tmd_44-b4121b3a-f384-4f27-8abb-e14261bfd2fd;
+NC_001604 TMHMM Topological domain 37182 37280 . + . Note=Extracellular;Parent=tmhmm_tmd_44-b4121b3a-f384-4f27-8abb-e14261bfd2fd;
+NC_001604 feature Chain 39392 39535 . + . Description=Transmembrane protein;ID=tmhmm_tmd_45-ec6c20e1-8a25-47bf-8ded-cbe854809ce3;Note=Transmembrane protein - N in C out;Target=ORF.0.1414_0.296990322019.CDS;
+NC_001604 TMHMM Topological domain 39389 39424 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_45-ec6c20e1-8a25-47bf-8ded-cbe854809ce3;
+NC_001604 TMHMM Transmembrane 39425 39478 . + . Note=Helical;Parent=tmhmm_tmd_45-ec6c20e1-8a25-47bf-8ded-cbe854809ce3;
+NC_001604 TMHMM Topological domain 39479 39535 . + . Note=Extracellular;Parent=tmhmm_tmd_45-ec6c20e1-8a25-47bf-8ded-cbe854809ce3;
+NC_001604 feature Chain 39456 39554 . + . Description=Transmembrane protein;ID=tmhmm_tmd_46-bb7be945-aca9-4ef4-93f5-4de3337ea164;Note=Transmembrane protein - N out C in;Target=ORF.0.2021_0.203671539857.CDS;
+NC_001604 TMHMM Topological domain 39453 39494 . + . Note=Extracellular;Parent=tmhmm_tmd_46-bb7be945-aca9-4ef4-93f5-4de3337ea164;
+NC_001604 TMHMM Transmembrane 39495 39548 . + . Note=Helical;Parent=tmhmm_tmd_46-bb7be945-aca9-4ef4-93f5-4de3337ea164;
+NC_001604 TMHMM Topological domain 39549 39554 . + . Note=Cytoplasmic;Parent=tmhmm_tmd_46-bb7be945-aca9-4ef4-93f5-4de3337ea164;
diff -r 000000000000 -r 4c72b6accdee cpt_intersect_adj/test-data/T7_IntersectBIn.gff3
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/cpt_intersect_adj/test-data/T7_IntersectBIn.gff3 Fri May 13 05:05:59 2022 +0000
@@ -0,0 +1,492 @@
+##gff-version 3
+##sequence-region NC_001604 1 39937
+NC_001604 cpt.fixModel gene 627 824 . - . ID=ORF.0.3363_0.587331907045
+NC_001604 cpt.fixModel mRNA 627 824 . - . ID=ORF.0.3363_0.587331907045.mRNA;Parent=ORF.0.3363_0.587331907045
+NC_001604 getOrfsOrCds CDS 627 824 . - 0 ID=ORF.0.3363_0.587331907045.CDS;Parent=ORF.0.3363_0.587331907045.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 837 839 . - . ID=ORF.0.3363_0.587331907045.rbs-0;Parent=ORF.0.3363_0.587331907045
+NC_001604 CPT_LipoRy Lipobox 693 704 . - . ID=ORF.0.3363_0.587331907045.lipobox;Parent=ORF.0.3363_0.587331907045;sequence=FTLC
+NC_001604 cpt.fixModel gene 627 734 . - . ID=ORF.0.3367_0.864588620692
+NC_001604 cpt.fixModel mRNA 627 734 . - . ID=ORF.0.3367_0.864588620692.mRNA;Parent=ORF.0.3367_0.864588620692
+NC_001604 getOrfsOrCds CDS 627 734 . - 0 ID=ORF.0.3367_0.864588620692.CDS;Parent=ORF.0.3367_0.864588620692.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 745 747 . - . ID=ORF.0.3367_0.864588620692.rbs-0;Parent=ORF.0.3367_0.864588620692
+NC_001604 CPT_LipoRy Lipobox 693 704 . - . ID=ORF.0.3367_0.864588620692.lipobox;Parent=ORF.0.3367_0.864588620692;sequence=FTLC
+NC_001604 cpt.fixModel gene 1182 1298 . - . ID=ORF.0.3359_0.0923195020918
+NC_001604 cpt.fixModel mRNA 1182 1298 . - . ID=ORF.0.3359_0.0923195020918.mRNA;Parent=ORF.0.3359_0.0923195020918
+NC_001604 getOrfsOrCds CDS 1182 1298 . - 0 ID=ORF.0.3359_0.0923195020918.CDS;Parent=ORF.0.3359_0.0923195020918.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 1308 1310 . - . ID=ORF.0.3359_0.0923195020918.rbs-0;Parent=ORF.0.3359_0.0923195020918
+NC_001604 CPT_LipoRy Lipobox 1188 1199 . - . ID=ORF.0.3359_0.0923195020918.lipobox;Parent=ORF.0.3359_0.0923195020918;sequence=IVNC
+NC_001604 cpt.fixModel gene 1496 1639 . + . ID=ORF.0.566_0.38534199341
+NC_001604 cpt.fixModel mRNA 1496 1639 . + . ID=ORF.0.566_0.38534199341.mRNA;Parent=ORF.0.566_0.38534199341
+NC_001604 getOrfsOrCds CDS 1496 1639 . + 0 ID=ORF.0.566_0.38534199341.CDS;Parent=ORF.0.566_0.38534199341.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 1487 1490 . + . ID=ORF.0.566_0.38534199341.rbs-0;Parent=ORF.0.566_0.38534199341
+NC_001604 CPT_LipoRy Lipobox 1589 1600 . + . ID=ORF.0.566_0.38534199341.lipobox;Parent=ORF.0.566_0.38534199341;sequence=FTAC
+NC_001604 cpt.fixModel gene 1502 1639 . + . ID=ORF.0.567_0.804461971525
+NC_001604 cpt.fixModel mRNA 1502 1639 . + . ID=ORF.0.567_0.804461971525.mRNA;Parent=ORF.0.567_0.804461971525
+NC_001604 getOrfsOrCds CDS 1502 1639 . + 0 ID=ORF.0.567_0.804461971525.CDS;Parent=ORF.0.567_0.804461971525.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 1487 1490 . + . ID=ORF.0.567_0.804461971525.rbs-0;Parent=ORF.0.567_0.804461971525
+NC_001604 CPT_LipoRy Lipobox 1589 1600 . + . ID=ORF.0.567_0.804461971525.lipobox;Parent=ORF.0.567_0.804461971525;sequence=FTAC
+NC_001604 cpt.fixModel gene 1779 2021 . - . ID=ORF.0.3347_0.667378729511
+NC_001604 cpt.fixModel mRNA 1779 2021 . - . ID=ORF.0.3347_0.667378729511.mRNA;Parent=ORF.0.3347_0.667378729511
+NC_001604 getOrfsOrCds CDS 1779 2021 . - 0 ID=ORF.0.3347_0.667378729511.CDS;Parent=ORF.0.3347_0.667378729511.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 2030 2032 . - . ID=ORF.0.3347_0.667378729511.rbs-0;Parent=ORF.0.3347_0.667378729511
+NC_001604 CPT_LipoRy Lipobox 1896 1907 . - . ID=ORF.0.3347_0.667378729511.lipobox;Parent=ORF.0.3347_0.667378729511;sequence=ALSC
+NC_001604 cpt.fixModel gene 1779 1979 . - . ID=ORF.0.3349_0.219533700187
+NC_001604 cpt.fixModel mRNA 1779 1979 . - . ID=ORF.0.3349_0.219533700187.mRNA;Parent=ORF.0.3349_0.219533700187
+NC_001604 getOrfsOrCds CDS 1779 1979 . - 0 ID=ORF.0.3349_0.219533700187.CDS;Parent=ORF.0.3349_0.219533700187.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 1992 1994 . - . ID=ORF.0.3349_0.219533700187.rbs-0;Parent=ORF.0.3349_0.219533700187
+NC_001604 CPT_LipoRy Lipobox 1896 1907 . - . ID=ORF.0.3349_0.219533700187.lipobox;Parent=ORF.0.3349_0.219533700187;sequence=ALSC
+NC_001604 cpt.fixModel gene 2467 2652 . - . ID=ORF.0.2946_0.333584772665
+NC_001604 cpt.fixModel mRNA 2467 2652 . - . ID=ORF.0.2946_0.333584772665.mRNA;Parent=ORF.0.2946_0.333584772665
+NC_001604 getOrfsOrCds CDS 2467 2652 . - 0 ID=ORF.0.2946_0.333584772665.CDS;Parent=ORF.0.2946_0.333584772665.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 2658 2661 . - . ID=ORF.0.2946_0.333584772665.rbs-0;Parent=ORF.0.2946_0.333584772665
+NC_001604 CPT_LipoRy Lipobox 2608 2619 . - . ID=ORF.0.2946_0.333584772665.lipobox;Parent=ORF.0.2946_0.333584772665;sequence=FPLC
+NC_001604 cpt.fixModel gene 3341 3535 . - . ID=ORF.0.2469_0.735470743882
+NC_001604 cpt.fixModel mRNA 3341 3535 . - . ID=ORF.0.2469_0.735470743882.mRNA;Parent=ORF.0.2469_0.735470743882
+NC_001604 getOrfsOrCds CDS 3341 3535 . - 0 ID=ORF.0.2469_0.735470743882.CDS;Parent=ORF.0.2469_0.735470743882.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 3545 3547 . - . ID=ORF.0.2469_0.735470743882.rbs-0;Parent=ORF.0.2469_0.735470743882
+NC_001604 CPT_LipoRy Lipobox 3488 3499 . - . ID=ORF.0.2469_0.735470743882.lipobox;Parent=ORF.0.2469_0.735470743882;sequence=LISC
+NC_001604 cpt.fixModel gene 3444 5822 . + . ID=ORF.0.1457_0.214979578493
+NC_001604 cpt.fixModel mRNA 3444 5822 . + . ID=ORF.0.1457_0.214979578493.mRNA;Parent=ORF.0.1457_0.214979578493
+NC_001604 getOrfsOrCds CDS 3444 5822 . + 0 ID=ORF.0.1457_0.214979578493.CDS;Parent=ORF.0.1457_0.214979578493.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 3433 3435 . + . ID=ORF.0.1457_0.214979578493.rbs-0;Parent=ORF.0.1457_0.214979578493
+NC_001604 CPT_LipoRy Lipobox 3534 3545 . + . ID=ORF.0.1457_0.214979578493.lipobox;Parent=ORF.0.1457_0.214979578493;sequence=TLAC
+NC_001604 cpt.fixModel gene 3855 3977 . - . ID=ORF.0.3338_0.822840937084
+NC_001604 cpt.fixModel mRNA 3855 3977 . - . ID=ORF.0.3338_0.822840937084.mRNA;Parent=ORF.0.3338_0.822840937084
+NC_001604 getOrfsOrCds CDS 3855 3977 . - 0 ID=ORF.0.3338_0.822840937084.CDS;Parent=ORF.0.3338_0.822840937084.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 3989 3992 . - . ID=ORF.0.3338_0.822840937084.rbs-0;Parent=ORF.0.3338_0.822840937084
+NC_001604 CPT_LipoRy Lipobox 3933 3944 . - . ID=ORF.0.3338_0.822840937084.lipobox;Parent=ORF.0.3338_0.822840937084;sequence=CTGC
+NC_001604 cpt.fixModel gene 4375 4488 . + . ID=ORF.0.43_0.340613740121
+NC_001604 cpt.fixModel mRNA 4375 4488 . + . ID=ORF.0.43_0.340613740121.mRNA;Parent=ORF.0.43_0.340613740121
+NC_001604 getOrfsOrCds CDS 4375 4488 . + 0 ID=ORF.0.43_0.340613740121.CDS;Parent=ORF.0.43_0.340613740121.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 4365 4367 . + . ID=ORF.0.43_0.340613740121.rbs-0;Parent=ORF.0.43_0.340613740121
+NC_001604 CPT_LipoRy Lipobox 4447 4458 . + . ID=ORF.0.43_0.340613740121.lipobox;Parent=ORF.0.43_0.340613740121;sequence=FTLC
+NC_001604 cpt.fixModel gene 4428 5822 . + . ID=ORF.0.1499_0.439144727272
+NC_001604 cpt.fixModel mRNA 4428 5822 . + . ID=ORF.0.1499_0.439144727272.mRNA;Parent=ORF.0.1499_0.439144727272
+NC_001604 getOrfsOrCds CDS 4428 5822 . + 0 ID=ORF.0.1499_0.439144727272.CDS;Parent=ORF.0.1499_0.439144727272.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 4414 4416 . + . ID=ORF.0.1499_0.439144727272.rbs-0;Parent=ORF.0.1499_0.439144727272
+NC_001604 CPT_LipoRy Lipobox 4560 4571 . + . ID=ORF.0.1499_0.439144727272.lipobox;Parent=ORF.0.1499_0.439144727272;sequence=GANC
+NC_001604 cpt.fixModel gene 4455 5822 . + . ID=ORF.0.1500_0.525693052251
+NC_001604 cpt.fixModel mRNA 4455 5822 . + . ID=ORF.0.1500_0.525693052251.mRNA;Parent=ORF.0.1500_0.525693052251
+NC_001604 getOrfsOrCds CDS 4455 5822 . + 0 ID=ORF.0.1500_0.525693052251.CDS;Parent=ORF.0.1500_0.525693052251.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 4440 4442 . + . ID=ORF.0.1500_0.525693052251.rbs-0;Parent=ORF.0.1500_0.525693052251
+NC_001604 CPT_LipoRy Lipobox 4635 4646 . + . ID=ORF.0.1500_0.525693052251.lipobox;Parent=ORF.0.1500_0.525693052251;sequence=IMAC
+NC_001604 cpt.fixModel gene 4485 5822 . + . ID=ORF.0.1502_0.187729321755
+NC_001604 cpt.fixModel mRNA 4485 5822 . + . ID=ORF.0.1502_0.187729321755.mRNA;Parent=ORF.0.1502_0.187729321755
+NC_001604 getOrfsOrCds CDS 4485 5822 . + 0 ID=ORF.0.1502_0.187729321755.CDS;Parent=ORF.0.1502_0.187729321755.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 4475 4478 . + . ID=ORF.0.1502_0.187729321755.rbs-0;Parent=ORF.0.1502_0.187729321755
+NC_001604 CPT_LipoRy Lipobox 4635 4646 . + . ID=ORF.0.1502_0.187729321755.lipobox;Parent=ORF.0.1502_0.187729321755;sequence=IMAC
+NC_001604 cpt.fixModel gene 4638 5822 . + . ID=ORF.0.1511_0.56340825751
+NC_001604 cpt.fixModel mRNA 4638 5822 . + . ID=ORF.0.1511_0.56340825751.mRNA;Parent=ORF.0.1511_0.56340825751
+NC_001604 getOrfsOrCds CDS 4638 5822 . + 0 ID=ORF.0.1511_0.56340825751.CDS;Parent=ORF.0.1511_0.56340825751.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 4629 4631 . + . ID=ORF.0.1511_0.56340825751.rbs-0;Parent=ORF.0.1511_0.56340825751
+NC_001604 CPT_LipoRy Lipobox 4749 4760 . + . ID=ORF.0.1511_0.56340825751.lipobox;Parent=ORF.0.1511_0.56340825751;sequence=SYNC
+NC_001604 cpt.fixModel gene 4880 4975 . - . ID=ORF.0.2442_0.840871293673
+NC_001604 cpt.fixModel mRNA 4880 4975 . - . ID=ORF.0.2442_0.840871293673.mRNA;Parent=ORF.0.2442_0.840871293673
+NC_001604 getOrfsOrCds CDS 4880 4975 . - 0 ID=ORF.0.2442_0.840871293673.CDS;Parent=ORF.0.2442_0.840871293673.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 4985 4987 . - . ID=ORF.0.2442_0.840871293673.rbs-0;Parent=ORF.0.2442_0.840871293673
+NC_001604 CPT_LipoRy Lipobox 4916 4927 . - . ID=ORF.0.2442_0.840871293673.lipobox;Parent=ORF.0.2442_0.840871293673;sequence=ASAC
+NC_001604 cpt.fixModel gene 5677 5781 . + . ID=ORF.0.59_0.635559411884
+NC_001604 cpt.fixModel mRNA 5677 5781 . + . ID=ORF.0.59_0.635559411884.mRNA;Parent=ORF.0.59_0.635559411884
+NC_001604 getOrfsOrCds CDS 5677 5781 . + 0 ID=ORF.0.59_0.635559411884.CDS;Parent=ORF.0.59_0.635559411884.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 5666 5668 . + . ID=ORF.0.59_0.635559411884.rbs-0;Parent=ORF.0.59_0.635559411884
+NC_001604 CPT_LipoRy Lipobox 5719 5730 . + . ID=ORF.0.59_0.635559411884.lipobox;Parent=ORF.0.59_0.635559411884;sequence=LTSC
+NC_001604 cpt.fixModel gene 5689 5781 . + . ID=ORF.0.61_0.193819963015
+NC_001604 cpt.fixModel mRNA 5689 5781 . + . ID=ORF.0.61_0.193819963015.mRNA;Parent=ORF.0.61_0.193819963015
+NC_001604 getOrfsOrCds CDS 5689 5781 . + 0 ID=ORF.0.61_0.193819963015.CDS;Parent=ORF.0.61_0.193819963015.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 5679 5681 . + . ID=ORF.0.61_0.193819963015.rbs-0;Parent=ORF.0.61_0.193819963015
+NC_001604 CPT_LipoRy Lipobox 5719 5730 . + . ID=ORF.0.61_0.193819963015.lipobox;Parent=ORF.0.61_0.193819963015;sequence=LTSC
+NC_001604 cpt.fixModel gene 6001 6189 . - . ID=ORF.0.2926_0.941001506358
+NC_001604 cpt.fixModel mRNA 6001 6189 . - . ID=ORF.0.2926_0.941001506358.mRNA;Parent=ORF.0.2926_0.941001506358
+NC_001604 getOrfsOrCds CDS 6001 6189 . - 0 ID=ORF.0.2926_0.941001506358.CDS;Parent=ORF.0.2926_0.941001506358.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 6195 6197 . - . ID=ORF.0.2926_0.941001506358.rbs-0;Parent=ORF.0.2926_0.941001506358
+NC_001604 CPT_LipoRy Lipobox 6064 6075 . - . ID=ORF.0.2926_0.941001506358.lipobox;Parent=ORF.0.2926_0.941001506358;sequence=TFGC
+NC_001604 cpt.fixModel gene 7282 7554 . + . ID=ORF.0.109_0.926945960179
+NC_001604 cpt.fixModel mRNA 7282 7554 . + . ID=ORF.0.109_0.926945960179.mRNA;Parent=ORF.0.109_0.926945960179
+NC_001604 getOrfsOrCds CDS 7282 7554 . + 0 ID=ORF.0.109_0.926945960179.CDS;Parent=ORF.0.109_0.926945960179.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 7273 7275 . + . ID=ORF.0.109_0.926945960179.rbs-0;Parent=ORF.0.109_0.926945960179
+NC_001604 CPT_LipoRy Lipobox 7444 7455 . + . ID=ORF.0.109_0.926945960179.lipobox;Parent=ORF.0.109_0.926945960179;sequence=GWAC
+NC_001604 cpt.fixModel gene 7608 7763 . + . ID=ORF.0.1571_0.432752129598
+NC_001604 cpt.fixModel mRNA 7608 7763 . + . ID=ORF.0.1571_0.432752129598.mRNA;Parent=ORF.0.1571_0.432752129598
+NC_001604 getOrfsOrCds CDS 7608 7763 . + 0 ID=ORF.0.1571_0.432752129598.CDS;Parent=ORF.0.1571_0.432752129598.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 7596 7600 . + . ID=ORF.0.1571_0.432752129598.rbs-0;Parent=ORF.0.1571_0.432752129598
+NC_001604 CPT_LipoRy Lipobox 7728 7739 . + . ID=ORF.0.1571_0.432752129598.lipobox;Parent=ORF.0.1571_0.432752129598;sequence=VCAC
+NC_001604 cpt.fixModel gene 7791 7880 . + . ID=ORF.0.1576_0.12740804191
+NC_001604 cpt.fixModel mRNA 7791 7880 . + . ID=ORF.0.1576_0.12740804191.mRNA;Parent=ORF.0.1576_0.12740804191
+NC_001604 getOrfsOrCds CDS 7791 7880 . + 0 ID=ORF.0.1576_0.12740804191.CDS;Parent=ORF.0.1576_0.12740804191.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 7777 7783 . + . ID=ORF.0.1576_0.12740804191.rbs-0;Parent=ORF.0.1576_0.12740804191
+NC_001604 CPT_LipoRy Lipobox 7821 7832 . + . ID=ORF.0.1576_0.12740804191.lipobox;Parent=ORF.0.1576_0.12740804191;sequence=IVGC
+NC_001604 cpt.fixModel gene 8166 8756 . + . ID=ORF.0.1578_0.507399651779
+NC_001604 cpt.fixModel mRNA 8166 8756 . + . ID=ORF.0.1578_0.507399651779.mRNA;Parent=ORF.0.1578_0.507399651779
+NC_001604 getOrfsOrCds CDS 8166 8756 . + 0 ID=ORF.0.1578_0.507399651779.CDS;Parent=ORF.0.1578_0.507399651779.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 8153 8159 . + . ID=ORF.0.1578_0.507399651779.rbs-0;Parent=ORF.0.1578_0.507399651779
+NC_001604 CPT_LipoRy Lipobox 8226 8237 . + . ID=ORF.0.1578_0.507399651779.lipobox;Parent=ORF.0.1578_0.507399651779;sequence=CIAC
+NC_001604 cpt.fixModel gene 8255 8383 . - . ID=ORF.0.2415_0.910545970566
+NC_001604 cpt.fixModel mRNA 8255 8383 . - . ID=ORF.0.2415_0.910545970566.mRNA;Parent=ORF.0.2415_0.910545970566
+NC_001604 getOrfsOrCds CDS 8255 8383 . - 0 ID=ORF.0.2415_0.910545970566.CDS;Parent=ORF.0.2415_0.910545970566.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 8395 8398 . - . ID=ORF.0.2415_0.910545970566.rbs-0;Parent=ORF.0.2415_0.910545970566
+NC_001604 CPT_LipoRy Lipobox 8303 8314 . - . ID=ORF.0.2415_0.910545970566.lipobox;Parent=ORF.0.2415_0.910545970566;sequence=IISC
+NC_001604 cpt.fixModel gene 8289 8756 . + . ID=ORF.0.1581_0.485792525724
+NC_001604 cpt.fixModel mRNA 8289 8756 . + . ID=ORF.0.1581_0.485792525724.mRNA;Parent=ORF.0.1581_0.485792525724
+NC_001604 getOrfsOrCds CDS 8289 8756 . + 0 ID=ORF.0.1581_0.485792525724.CDS;Parent=ORF.0.1581_0.485792525724.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 8276 8280 . + . ID=ORF.0.1581_0.485792525724.rbs-0;Parent=ORF.0.1581_0.485792525724
+NC_001604 CPT_LipoRy Lipobox 8391 8402 . + . ID=ORF.0.1581_0.485792525724.lipobox;Parent=ORF.0.1581_0.485792525724;sequence=CHLC
+NC_001604 cpt.fixModel gene 8322 8756 . + . ID=ORF.0.1585_0.203114887634
+NC_001604 cpt.fixModel mRNA 8322 8756 . + . ID=ORF.0.1585_0.203114887634.mRNA;Parent=ORF.0.1585_0.203114887634
+NC_001604 getOrfsOrCds CDS 8322 8756 . + 0 ID=ORF.0.1585_0.203114887634.CDS;Parent=ORF.0.1585_0.203114887634.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 8307 8309 . + . ID=ORF.0.1585_0.203114887634.rbs-0;Parent=ORF.0.1585_0.203114887634
+NC_001604 CPT_LipoRy Lipobox 8391 8402 . + . ID=ORF.0.1585_0.203114887634.lipobox;Parent=ORF.0.1585_0.203114887634;sequence=CHLC
+NC_001604 cpt.fixModel gene 8355 8756 . + . ID=ORF.0.1587_0.52583318309
+NC_001604 cpt.fixModel mRNA 8355 8756 . + . ID=ORF.0.1587_0.52583318309.mRNA;Parent=ORF.0.1587_0.52583318309
+NC_001604 getOrfsOrCds CDS 8355 8756 . + 0 ID=ORF.0.1587_0.52583318309.CDS;Parent=ORF.0.1587_0.52583318309.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 8340 8342 . + . ID=ORF.0.1587_0.52583318309.rbs-0;Parent=ORF.0.1587_0.52583318309
+NC_001604 CPT_LipoRy Lipobox 8391 8402 . + . ID=ORF.0.1587_0.52583318309.lipobox;Parent=ORF.0.1587_0.52583318309;sequence=CHLC
+NC_001604 cpt.fixModel gene 8749 8895 . + . ID=ORF.0.128_0.495440600892
+NC_001604 cpt.fixModel mRNA 8749 8895 . + . ID=ORF.0.128_0.495440600892.mRNA;Parent=ORF.0.128_0.495440600892
+NC_001604 getOrfsOrCds CDS 8749 8895 . + 0 ID=ORF.0.128_0.495440600892.CDS;Parent=ORF.0.128_0.495440600892.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 8737 8740 . + . ID=ORF.0.128_0.495440600892.rbs-0;Parent=ORF.0.128_0.495440600892
+NC_001604 CPT_LipoRy Lipobox 8797 8808 . + . ID=ORF.0.128_0.495440600892.lipobox;Parent=ORF.0.128_0.495440600892;sequence=FTSC
+NC_001604 cpt.fixModel gene 9857 10276 . + . ID=ORF.0.666_0.154209788567
+NC_001604 cpt.fixModel mRNA 9857 10276 . + . ID=ORF.0.666_0.154209788567.mRNA;Parent=ORF.0.666_0.154209788567
+NC_001604 getOrfsOrCds CDS 9857 10276 . + 0 ID=ORF.0.666_0.154209788567.CDS;Parent=ORF.0.666_0.154209788567.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 9845 9848 . + . ID=ORF.0.666_0.154209788567.rbs-0;Parent=ORF.0.666_0.154209788567
+NC_001604 CPT_LipoRy Lipobox 10028 10039 . + . ID=ORF.0.666_0.154209788567.lipobox;Parent=ORF.0.666_0.154209788567;sequence=LHSC
+NC_001604 cpt.fixModel gene 9893 10276 . + . ID=ORF.0.670_0.798225643399
+NC_001604 cpt.fixModel mRNA 9893 10276 . + . ID=ORF.0.670_0.798225643399.mRNA;Parent=ORF.0.670_0.798225643399
+NC_001604 getOrfsOrCds CDS 9893 10276 . + 0 ID=ORF.0.670_0.798225643399.CDS;Parent=ORF.0.670_0.798225643399.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 9881 9883 . + . ID=ORF.0.670_0.798225643399.rbs-0;Parent=ORF.0.670_0.798225643399
+NC_001604 CPT_LipoRy Lipobox 10028 10039 . + . ID=ORF.0.670_0.798225643399.lipobox;Parent=ORF.0.670_0.798225643399;sequence=LHSC
+NC_001604 cpt.fixModel gene 9953 10276 . + . ID=ORF.0.671_0.995844778527
+NC_001604 cpt.fixModel mRNA 9953 10276 . + . ID=ORF.0.671_0.995844778527.mRNA;Parent=ORF.0.671_0.995844778527
+NC_001604 getOrfsOrCds CDS 9953 10276 . + 0 ID=ORF.0.671_0.995844778527.CDS;Parent=ORF.0.671_0.995844778527.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 9941 9944 . + . ID=ORF.0.671_0.995844778527.rbs-0;Parent=ORF.0.671_0.995844778527
+NC_001604 CPT_LipoRy Lipobox 10028 10039 . + . ID=ORF.0.671_0.995844778527.lipobox;Parent=ORF.0.671_0.995844778527;sequence=LHSC
+NC_001604 cpt.fixModel gene 10409 10564 . - . ID=ORF.0.2383_0.0770764235668
+NC_001604 cpt.fixModel mRNA 10409 10564 . - . ID=ORF.0.2383_0.0770764235668.mRNA;Parent=ORF.0.2383_0.0770764235668
+NC_001604 getOrfsOrCds CDS 10409 10564 . - 0 ID=ORF.0.2383_0.0770764235668.CDS;Parent=ORF.0.2383_0.0770764235668.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 10570 10573 . - . ID=ORF.0.2383_0.0770764235668.rbs-0;Parent=ORF.0.2383_0.0770764235668
+NC_001604 CPT_LipoRy Lipobox 10508 10519 . - . ID=ORF.0.2383_0.0770764235668.lipobox;Parent=ORF.0.2383_0.0770764235668;sequence=SSGC
+NC_001604 cpt.fixModel gene 10580 11011 . - . ID=ORF.0.2367_0.356070282465
+NC_001604 cpt.fixModel mRNA 10580 11011 . - . ID=ORF.0.2367_0.356070282465.mRNA;Parent=ORF.0.2367_0.356070282465
+NC_001604 getOrfsOrCds CDS 10580 11011 . - 0 ID=ORF.0.2367_0.356070282465.CDS;Parent=ORF.0.2367_0.356070282465.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 11020 11022 . - . ID=ORF.0.2367_0.356070282465.rbs-0;Parent=ORF.0.2367_0.356070282465
+NC_001604 CPT_LipoRy Lipobox 10880 10891 . - . ID=ORF.0.2367_0.356070282465.lipobox;Parent=ORF.0.2367_0.356070282465;sequence=ISSC
+NC_001604 cpt.fixModel gene 10580 11005 . - . ID=ORF.0.2368_0.206102621609
+NC_001604 cpt.fixModel mRNA 10580 11005 . - . ID=ORF.0.2368_0.206102621609.mRNA;Parent=ORF.0.2368_0.206102621609
+NC_001604 getOrfsOrCds CDS 10580 11005 . - 0 ID=ORF.0.2368_0.206102621609.CDS;Parent=ORF.0.2368_0.206102621609.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 11012 11014 . - . ID=ORF.0.2368_0.206102621609.rbs-0;Parent=ORF.0.2368_0.206102621609
+NC_001604 CPT_LipoRy Lipobox 10880 10891 . - . ID=ORF.0.2368_0.206102621609.lipobox;Parent=ORF.0.2368_0.206102621609;sequence=ISSC
+NC_001604 cpt.fixModel gene 12252 13265 . + . ID=ORF.0.1687_0.584434310255
+NC_001604 cpt.fixModel mRNA 12252 13265 . + . ID=ORF.0.1687_0.584434310255.mRNA;Parent=ORF.0.1687_0.584434310255
+NC_001604 getOrfsOrCds CDS 12252 13265 . + 0 ID=ORF.0.1687_0.584434310255.CDS;Parent=ORF.0.1687_0.584434310255.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 12244 12246 . + . ID=ORF.0.1687_0.584434310255.rbs-0;Parent=ORF.0.1687_0.584434310255
+NC_001604 CPT_LipoRy Lipobox 12429 12440 . + . ID=ORF.0.1687_0.584434310255.lipobox;Parent=ORF.0.1687_0.584434310255;sequence=FSGC
+NC_001604 cpt.fixModel gene 12357 13265 . + . ID=ORF.0.1692_0.946746859523
+NC_001604 cpt.fixModel mRNA 12357 13265 . + . ID=ORF.0.1692_0.946746859523.mRNA;Parent=ORF.0.1692_0.946746859523
+NC_001604 getOrfsOrCds CDS 12357 13265 . + 0 ID=ORF.0.1692_0.946746859523.CDS;Parent=ORF.0.1692_0.946746859523.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 12343 12345 . + . ID=ORF.0.1692_0.946746859523.rbs-0;Parent=ORF.0.1692_0.946746859523
+NC_001604 CPT_LipoRy Lipobox 12429 12440 . + . ID=ORF.0.1692_0.946746859523.lipobox;Parent=ORF.0.1692_0.946746859523;sequence=FSGC
+NC_001604 cpt.fixModel gene 13451 13540 . - . ID=ORF.0.2329_0.903854413495
+NC_001604 cpt.fixModel mRNA 13451 13540 . - . ID=ORF.0.2329_0.903854413495.mRNA;Parent=ORF.0.2329_0.903854413495
+NC_001604 getOrfsOrCds CDS 13451 13540 . - 0 ID=ORF.0.2329_0.903854413495.CDS;Parent=ORF.0.2329_0.903854413495.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 13547 13549 . - . ID=ORF.0.2329_0.903854413495.rbs-0;Parent=ORF.0.2329_0.903854413495
+NC_001604 CPT_LipoRy Lipobox 13493 13504 . - . ID=ORF.0.2329_0.903854413495.lipobox;Parent=ORF.0.2329_0.903854413495;sequence=FSGC
+NC_001604 cpt.fixModel gene 13611 13928 . - . ID=ORF.0.3205_0.16043286773
+NC_001604 cpt.fixModel mRNA 13611 13928 . - . ID=ORF.0.3205_0.16043286773.mRNA;Parent=ORF.0.3205_0.16043286773
+NC_001604 getOrfsOrCds CDS 13611 13928 . - 0 ID=ORF.0.3205_0.16043286773.CDS;Parent=ORF.0.3205_0.16043286773.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 13934 13937 . - . ID=ORF.0.3205_0.16043286773.rbs-0;Parent=ORF.0.3205_0.16043286773
+NC_001604 CPT_LipoRy Lipobox 13791 13802 . - . ID=ORF.0.3205_0.16043286773.lipobox;Parent=ORF.0.3205_0.16043286773;sequence=FMNC
+NC_001604 cpt.fixModel gene 13611 13877 . - . ID=ORF.0.3211_0.675466343854
+NC_001604 cpt.fixModel mRNA 13611 13877 . - . ID=ORF.0.3211_0.675466343854.mRNA;Parent=ORF.0.3211_0.675466343854
+NC_001604 getOrfsOrCds CDS 13611 13877 . - 0 ID=ORF.0.3211_0.675466343854.CDS;Parent=ORF.0.3211_0.675466343854.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 13886 13888 . - . ID=ORF.0.3211_0.675466343854.rbs-0;Parent=ORF.0.3211_0.675466343854
+NC_001604 CPT_LipoRy Lipobox 13791 13802 . - . ID=ORF.0.3211_0.675466343854.lipobox;Parent=ORF.0.3211_0.675466343854;sequence=FMNC
+NC_001604 cpt.fixModel gene 14471 14560 . + . ID=ORF.0.731_0.079213635231
+NC_001604 cpt.fixModel mRNA 14471 14560 . + . ID=ORF.0.731_0.079213635231.mRNA;Parent=ORF.0.731_0.079213635231
+NC_001604 getOrfsOrCds CDS 14471 14560 . + 0 ID=ORF.0.731_0.079213635231.CDS;Parent=ORF.0.731_0.079213635231.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 14460 14462 . + . ID=ORF.0.731_0.079213635231.rbs-0;Parent=ORF.0.731_0.079213635231
+NC_001604 CPT_LipoRy Lipobox 14513 14524 . + . ID=ORF.0.731_0.079213635231.lipobox;Parent=ORF.0.731_0.079213635231;sequence=VLLC
+NC_001604 cpt.fixModel gene 15199 15375 . - . ID=ORF.0.2827_0.307040161403
+NC_001604 cpt.fixModel mRNA 15199 15375 . - . ID=ORF.0.2827_0.307040161403.mRNA;Parent=ORF.0.2827_0.307040161403
+NC_001604 getOrfsOrCds CDS 15199 15375 . - 0 ID=ORF.0.2827_0.307040161403.CDS;Parent=ORF.0.2827_0.307040161403.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 15388 15390 . - . ID=ORF.0.2827_0.307040161403.rbs-0;Parent=ORF.0.2827_0.307040161403
+NC_001604 CPT_LipoRy Lipobox 15265 15276 . - . ID=ORF.0.2827_0.307040161403.lipobox;Parent=ORF.0.2827_0.307040161403;sequence=FSLC
+NC_001604 cpt.fixModel gene 15199 15345 . - . ID=ORF.0.2828_0.260962590428
+NC_001604 cpt.fixModel mRNA 15199 15345 . - . ID=ORF.0.2828_0.260962590428.mRNA;Parent=ORF.0.2828_0.260962590428
+NC_001604 getOrfsOrCds CDS 15199 15345 . - 0 ID=ORF.0.2828_0.260962590428.CDS;Parent=ORF.0.2828_0.260962590428.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 15356 15359 . - . ID=ORF.0.2828_0.260962590428.rbs-0;Parent=ORF.0.2828_0.260962590428
+NC_001604 CPT_LipoRy Lipobox 15265 15276 . - . ID=ORF.0.2828_0.260962590428.lipobox;Parent=ORF.0.2828_0.260962590428;sequence=FSLC
+NC_001604 cpt.fixModel gene 16519 16839 . + . ID=ORF.0.282_0.151031682754
+NC_001604 cpt.fixModel mRNA 16519 16839 . + . ID=ORF.0.282_0.151031682754.mRNA;Parent=ORF.0.282_0.151031682754
+NC_001604 getOrfsOrCds CDS 16519 16839 . + 0 ID=ORF.0.282_0.151031682754.CDS;Parent=ORF.0.282_0.151031682754.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 16504 16506 . + . ID=ORF.0.282_0.151031682754.rbs-0;Parent=ORF.0.282_0.151031682754
+NC_001604 CPT_LipoRy Lipobox 16687 16698 . + . ID=ORF.0.282_0.151031682754.lipobox;Parent=ORF.0.282_0.151031682754;sequence=LGGC
+NC_001604 cpt.fixModel gene 16594 16839 . + . ID=ORF.0.285_0.585284506038
+NC_001604 cpt.fixModel mRNA 16594 16839 . + . ID=ORF.0.285_0.585284506038.mRNA;Parent=ORF.0.285_0.585284506038
+NC_001604 getOrfsOrCds CDS 16594 16839 . + 0 ID=ORF.0.285_0.585284506038.CDS;Parent=ORF.0.285_0.585284506038.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 16581 16583 . + . ID=ORF.0.285_0.585284506038.rbs-0;Parent=ORF.0.285_0.585284506038
+NC_001604 CPT_LipoRy Lipobox 16687 16698 . + . ID=ORF.0.285_0.585284506038.lipobox;Parent=ORF.0.285_0.585284506038;sequence=LGGC
+NC_001604 cpt.fixModel gene 16803 17150 . + . ID=ORF.0.1747_0.0552177368642
+NC_001604 cpt.fixModel mRNA 16803 17150 . + . ID=ORF.0.1747_0.0552177368642.mRNA;Parent=ORF.0.1747_0.0552177368642
+NC_001604 getOrfsOrCds CDS 16803 17150 . + 0 ID=ORF.0.1747_0.0552177368642.CDS;Parent=ORF.0.1747_0.0552177368642.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 16788 16791 . + . ID=ORF.0.1747_0.0552177368642.rbs-0;Parent=ORF.0.1747_0.0552177368642
+NC_001604 CPT_LipoRy Lipobox 16938 16949 . + . ID=ORF.0.1747_0.0552177368642.lipobox;Parent=ORF.0.1747_0.0552177368642;sequence=LHLC
+NC_001604 cpt.fixModel gene 16851 17150 . + . ID=ORF.0.1751_0.741840163162
+NC_001604 cpt.fixModel mRNA 16851 17150 . + . ID=ORF.0.1751_0.741840163162.mRNA;Parent=ORF.0.1751_0.741840163162
+NC_001604 getOrfsOrCds CDS 16851 17150 . + 0 ID=ORF.0.1751_0.741840163162.CDS;Parent=ORF.0.1751_0.741840163162.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 16838 16842 . + . ID=ORF.0.1751_0.741840163162.rbs-0;Parent=ORF.0.1751_0.741840163162
+NC_001604 CPT_LipoRy Lipobox 16938 16949 . + . ID=ORF.0.1751_0.741840163162.lipobox;Parent=ORF.0.1751_0.741840163162;sequence=LHLC
+NC_001604 cpt.fixModel gene 17841 17969 . + . ID=ORF.0.1774_0.274436837056
+NC_001604 cpt.fixModel mRNA 17841 17969 . + . ID=ORF.0.1774_0.274436837056.mRNA;Parent=ORF.0.1774_0.274436837056
+NC_001604 getOrfsOrCds CDS 17841 17969 . + 0 ID=ORF.0.1774_0.274436837056.CDS;Parent=ORF.0.1774_0.274436837056.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 17833 17835 . + . ID=ORF.0.1774_0.274436837056.rbs-0;Parent=ORF.0.1774_0.274436837056
+NC_001604 CPT_LipoRy Lipobox 17889 17900 . + . ID=ORF.0.1774_0.274436837056.lipobox;Parent=ORF.0.1774_0.274436837056;sequence=VSLC
+NC_001604 cpt.fixModel gene 17850 17969 . + . ID=ORF.0.1775_0.234034637658
+NC_001604 cpt.fixModel mRNA 17850 17969 . + . ID=ORF.0.1775_0.234034637658.mRNA;Parent=ORF.0.1775_0.234034637658
+NC_001604 getOrfsOrCds CDS 17850 17969 . + 0 ID=ORF.0.1775_0.234034637658.CDS;Parent=ORF.0.1775_0.234034637658.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 17835 17837 . + . ID=ORF.0.1775_0.234034637658.rbs-0;Parent=ORF.0.1775_0.234034637658
+NC_001604 CPT_LipoRy Lipobox 17889 17900 . + . ID=ORF.0.1775_0.234034637658.lipobox;Parent=ORF.0.1775_0.234034637658;sequence=VSLC
+NC_001604 cpt.fixModel gene 17853 17969 . + . ID=ORF.0.1776_0.956678283472
+NC_001604 cpt.fixModel mRNA 17853 17969 . + . ID=ORF.0.1776_0.956678283472.mRNA;Parent=ORF.0.1776_0.956678283472
+NC_001604 getOrfsOrCds CDS 17853 17969 . + 0 ID=ORF.0.1776_0.956678283472.CDS;Parent=ORF.0.1776_0.956678283472.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 17843 17845 . + . ID=ORF.0.1776_0.956678283472.rbs-0;Parent=ORF.0.1776_0.956678283472
+NC_001604 CPT_LipoRy Lipobox 17889 17900 . + . ID=ORF.0.1776_0.956678283472.lipobox;Parent=ORF.0.1776_0.956678283472;sequence=VSLC
+NC_001604 cpt.fixModel gene 17918 18406 . + . ID=ORF.0.808_0.284208778955
+NC_001604 cpt.fixModel mRNA 17918 18406 . + . ID=ORF.0.808_0.284208778955.mRNA;Parent=ORF.0.808_0.284208778955
+NC_001604 getOrfsOrCds CDS 17918 18406 . + 0 ID=ORF.0.808_0.284208778955.CDS;Parent=ORF.0.808_0.284208778955.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 17905 17908 . + . ID=ORF.0.808_0.284208778955.rbs-0;Parent=ORF.0.808_0.284208778955
+NC_001604 CPT_LipoRy Lipobox 17999 18010 . + . ID=ORF.0.808_0.284208778955.lipobox;Parent=ORF.0.808_0.284208778955;sequence=IPNC
+NC_001604 cpt.fixModel gene 18375 18503 . + . ID=ORF.0.1782_0.36618964442
+NC_001604 cpt.fixModel mRNA 18375 18503 . + . ID=ORF.0.1782_0.36618964442.mRNA;Parent=ORF.0.1782_0.36618964442
+NC_001604 getOrfsOrCds CDS 18375 18503 . + 0 ID=ORF.0.1782_0.36618964442.CDS;Parent=ORF.0.1782_0.36618964442.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 18362 18364 . + . ID=ORF.0.1782_0.36618964442.rbs-0;Parent=ORF.0.1782_0.36618964442
+NC_001604 CPT_LipoRy Lipobox 18420 18431 . + . ID=ORF.0.1782_0.36618964442.lipobox;Parent=ORF.0.1782_0.36618964442;sequence=GSLC
+NC_001604 cpt.fixModel gene 18605 18859 . + . ID=ORF.0.827_0.0796993206003
+NC_001604 cpt.fixModel mRNA 18605 18859 . + . ID=ORF.0.827_0.0796993206003.mRNA;Parent=ORF.0.827_0.0796993206003
+NC_001604 getOrfsOrCds CDS 18605 18859 . + 0 ID=ORF.0.827_0.0796993206003.CDS;Parent=ORF.0.827_0.0796993206003.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 18591 18594 . + . ID=ORF.0.827_0.0796993206003.rbs-0;Parent=ORF.0.827_0.0796993206003
+NC_001604 CPT_LipoRy Lipobox 18740 18751 . + . ID=ORF.0.827_0.0796993206003.lipobox;Parent=ORF.0.827_0.0796993206003;sequence=ANGC
+NC_001604 cpt.fixModel gene 19127 19531 . + . ID=ORF.0.834_0.84724977775
+NC_001604 cpt.fixModel mRNA 19127 19531 . + . ID=ORF.0.834_0.84724977775.mRNA;Parent=ORF.0.834_0.84724977775
+NC_001604 getOrfsOrCds CDS 19127 19531 . + 0 ID=ORF.0.834_0.84724977775.CDS;Parent=ORF.0.834_0.84724977775.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 19116 19121 . + . ID=ORF.0.834_0.84724977775.rbs-0;Parent=ORF.0.834_0.84724977775
+NC_001604 CPT_LipoRy Lipobox 19265 19276 . + . ID=ORF.0.834_0.84724977775.lipobox;Parent=ORF.0.834_0.84724977775;sequence=MSGC
+NC_001604 cpt.fixModel gene 19130 19531 . + . ID=ORF.0.835_0.198028099199
+NC_001604 cpt.fixModel mRNA 19130 19531 . + . ID=ORF.0.835_0.198028099199.mRNA;Parent=ORF.0.835_0.198028099199
+NC_001604 getOrfsOrCds CDS 19130 19531 . + 0 ID=ORF.0.835_0.198028099199.CDS;Parent=ORF.0.835_0.198028099199.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 19116 19121 . + . ID=ORF.0.835_0.198028099199.rbs-0;Parent=ORF.0.835_0.198028099199
+NC_001604 CPT_LipoRy Lipobox 19265 19276 . + . ID=ORF.0.835_0.198028099199.lipobox;Parent=ORF.0.835_0.198028099199;sequence=MSGC
+NC_001604 cpt.fixModel gene 19146 19250 . + . ID=ORF.0.1797_0.0971524354331
+NC_001604 cpt.fixModel mRNA 19146 19250 . + . ID=ORF.0.1797_0.0971524354331.mRNA;Parent=ORF.0.1797_0.0971524354331
+NC_001604 getOrfsOrCds CDS 19146 19250 . + 0 ID=ORF.0.1797_0.0971524354331.CDS;Parent=ORF.0.1797_0.0971524354331.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 19136 19138 . + . ID=ORF.0.1797_0.0971524354331.rbs-0;Parent=ORF.0.1797_0.0971524354331
+NC_001604 CPT_LipoRy Lipobox 19194 19205 . + . ID=ORF.0.1797_0.0971524354331.lipobox;Parent=ORF.0.1797_0.0971524354331;sequence=TLGC
+NC_001604 cpt.fixModel gene 19148 19531 . + . ID=ORF.0.836_0.601498128182
+NC_001604 cpt.fixModel mRNA 19148 19531 . + . ID=ORF.0.836_0.601498128182.mRNA;Parent=ORF.0.836_0.601498128182
+NC_001604 getOrfsOrCds CDS 19148 19531 . + 0 ID=ORF.0.836_0.601498128182.CDS;Parent=ORF.0.836_0.601498128182.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 19136 19138 . + . ID=ORF.0.836_0.601498128182.rbs-0;Parent=ORF.0.836_0.601498128182
+NC_001604 CPT_LipoRy Lipobox 19265 19276 . + . ID=ORF.0.836_0.601498128182.lipobox;Parent=ORF.0.836_0.601498128182;sequence=MSGC
+NC_001604 cpt.fixModel gene 19187 19531 . + . ID=ORF.0.838_0.552072337694
+NC_001604 cpt.fixModel mRNA 19187 19531 . + . ID=ORF.0.838_0.552072337694.mRNA;Parent=ORF.0.838_0.552072337694
+NC_001604 getOrfsOrCds CDS 19187 19531 . + 0 ID=ORF.0.838_0.552072337694.CDS;Parent=ORF.0.838_0.552072337694.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 19179 19181 . + . ID=ORF.0.838_0.552072337694.rbs-0;Parent=ORF.0.838_0.552072337694
+NC_001604 CPT_LipoRy Lipobox 19331 19342 . + . ID=ORF.0.838_0.552072337694.lipobox;Parent=ORF.0.838_0.552072337694;sequence=CVSC
+NC_001604 cpt.fixModel gene 19202 19531 . + . ID=ORF.0.839_0.741052455962
+NC_001604 cpt.fixModel mRNA 19202 19531 . + . ID=ORF.0.839_0.741052455962.mRNA;Parent=ORF.0.839_0.741052455962
+NC_001604 getOrfsOrCds CDS 19202 19531 . + 0 ID=ORF.0.839_0.741052455962.CDS;Parent=ORF.0.839_0.741052455962.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 19189 19191 . + . ID=ORF.0.839_0.741052455962.rbs-0;Parent=ORF.0.839_0.741052455962
+NC_001604 CPT_LipoRy Lipobox 19331 19342 . + . ID=ORF.0.839_0.741052455962.lipobox;Parent=ORF.0.839_0.741052455962;sequence=CVSC
+NC_001604 cpt.fixModel gene 19229 19531 . + . ID=ORF.0.840_0.512729086502
+NC_001604 cpt.fixModel mRNA 19229 19531 . + . ID=ORF.0.840_0.512729086502.mRNA;Parent=ORF.0.840_0.512729086502
+NC_001604 getOrfsOrCds CDS 19229 19531 . + 0 ID=ORF.0.840_0.512729086502.CDS;Parent=ORF.0.840_0.512729086502.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 19219 19222 . + . ID=ORF.0.840_0.512729086502.rbs-0;Parent=ORF.0.840_0.512729086502
+NC_001604 CPT_LipoRy Lipobox 19331 19342 . + . ID=ORF.0.840_0.512729086502.lipobox;Parent=ORF.0.840_0.512729086502;sequence=CVSC
+NC_001604 cpt.fixModel gene 19348 19764 . - . ID=ORF.0.2751_0.199850521186
+NC_001604 cpt.fixModel mRNA 19348 19764 . - . ID=ORF.0.2751_0.199850521186.mRNA;Parent=ORF.0.2751_0.199850521186
+NC_001604 getOrfsOrCds CDS 19348 19764 . - 0 ID=ORF.0.2751_0.199850521186.CDS;Parent=ORF.0.2751_0.199850521186.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 19770 19772 . - . ID=ORF.0.2751_0.199850521186.rbs-0;Parent=ORF.0.2751_0.199850521186
+NC_001604 CPT_LipoRy Lipobox 19684 19695 . - . ID=ORF.0.2751_0.199850521186.lipobox;Parent=ORF.0.2751_0.199850521186;sequence=AAAC
+NC_001604 cpt.fixModel gene 20240 21850 . + . ID=ORF.0.857_0.30133479257
+NC_001604 cpt.fixModel mRNA 20240 21850 . + . ID=ORF.0.857_0.30133479257.mRNA;Parent=ORF.0.857_0.30133479257
+NC_001604 getOrfsOrCds CDS 20240 21850 . + 0 ID=ORF.0.857_0.30133479257.CDS;Parent=ORF.0.857_0.30133479257.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 20227 20230 . + . ID=ORF.0.857_0.30133479257.rbs-0;Parent=ORF.0.857_0.30133479257
+NC_001604 CPT_LipoRy Lipobox 20330 20341 . + . ID=ORF.0.857_0.30133479257.lipobox;Parent=ORF.0.857_0.30133479257;sequence=AQNC
+NC_001604 cpt.fixModel gene 21847 22131 . - . ID=ORF.0.2711_0.405563765295
+NC_001604 cpt.fixModel mRNA 21847 22131 . - . ID=ORF.0.2711_0.405563765295.mRNA;Parent=ORF.0.2711_0.405563765295
+NC_001604 getOrfsOrCds CDS 21847 22131 . - 0 ID=ORF.0.2711_0.405563765295.CDS;Parent=ORF.0.2711_0.405563765295.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 22137 22140 . - . ID=ORF.0.2711_0.405563765295.rbs-0;Parent=ORF.0.2711_0.405563765295
+NC_001604 CPT_LipoRy Lipobox 22027 22038 . - . ID=ORF.0.2711_0.405563765295.lipobox;Parent=ORF.0.2711_0.405563765295;sequence=FCSC
+NC_001604 cpt.fixModel gene 22171 22380 . - . ID=ORF.0.2706_0.647869144577
+NC_001604 cpt.fixModel mRNA 22171 22380 . - . ID=ORF.0.2706_0.647869144577.mRNA;Parent=ORF.0.2706_0.647869144577
+NC_001604 getOrfsOrCds CDS 22171 22380 . - 0 ID=ORF.0.2706_0.647869144577.CDS;Parent=ORF.0.2706_0.647869144577.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 22389 22391 . - . ID=ORF.0.2706_0.647869144577.rbs-0;Parent=ORF.0.2706_0.647869144577
+NC_001604 CPT_LipoRy Lipobox 22303 22314 . - . ID=ORF.0.2706_0.647869144577.lipobox;Parent=ORF.0.2706_0.647869144577;sequence=SPSC
+NC_001604 cpt.fixModel gene 22171 22365 . - . ID=ORF.0.2707_0.824850750578
+NC_001604 cpt.fixModel mRNA 22171 22365 . - . ID=ORF.0.2707_0.824850750578.mRNA;Parent=ORF.0.2707_0.824850750578
+NC_001604 getOrfsOrCds CDS 22171 22365 . - 0 ID=ORF.0.2707_0.824850750578.CDS;Parent=ORF.0.2707_0.824850750578.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 22376 22378 . - . ID=ORF.0.2707_0.824850750578.rbs-0;Parent=ORF.0.2707_0.824850750578
+NC_001604 CPT_LipoRy Lipobox 22303 22314 . - . ID=ORF.0.2707_0.824850750578.lipobox;Parent=ORF.0.2707_0.824850750578;sequence=SPSC
+NC_001604 cpt.fixModel gene 23303 24004 . + . ID=ORF.0.992_0.0628398583098
+NC_001604 cpt.fixModel mRNA 23303 24004 . + . ID=ORF.0.992_0.0628398583098.mRNA;Parent=ORF.0.992_0.0628398583098
+NC_001604 getOrfsOrCds CDS 23303 24004 . + 0 ID=ORF.0.992_0.0628398583098.CDS;Parent=ORF.0.992_0.0628398583098.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 23294 23297 . + . ID=ORF.0.992_0.0628398583098.rbs-0;Parent=ORF.0.992_0.0628398583098
+NC_001604 CPT_LipoRy Lipobox 23393 23404 . + . ID=ORF.0.992_0.0628398583098.lipobox;Parent=ORF.0.992_0.0628398583098;sequence=AGLC
+NC_001604 cpt.fixModel gene 23342 24004 . + . ID=ORF.0.993_0.137302872597
+NC_001604 cpt.fixModel mRNA 23342 24004 . + . ID=ORF.0.993_0.137302872597.mRNA;Parent=ORF.0.993_0.137302872597
+NC_001604 getOrfsOrCds CDS 23342 24004 . + 0 ID=ORF.0.993_0.137302872597.CDS;Parent=ORF.0.993_0.137302872597.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 23327 23329 . + . ID=ORF.0.993_0.137302872597.rbs-0;Parent=ORF.0.993_0.137302872597
+NC_001604 CPT_LipoRy Lipobox 23393 23404 . + . ID=ORF.0.993_0.137302872597.lipobox;Parent=ORF.0.993_0.137302872597;sequence=AGLC
+NC_001604 cpt.fixModel gene 23360 24004 . + . ID=ORF.0.995_0.947816373168
+NC_001604 cpt.fixModel mRNA 23360 24004 . + . ID=ORF.0.995_0.947816373168.mRNA;Parent=ORF.0.995_0.947816373168
+NC_001604 getOrfsOrCds CDS 23360 24004 . + 0 ID=ORF.0.995_0.947816373168.CDS;Parent=ORF.0.995_0.947816373168.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 23345 23347 . + . ID=ORF.0.995_0.947816373168.rbs-0;Parent=ORF.0.995_0.947816373168
+NC_001604 CPT_LipoRy Lipobox 23393 23404 . + . ID=ORF.0.995_0.947816373168.lipobox;Parent=ORF.0.995_0.947816373168;sequence=AGLC
+NC_001604 cpt.fixModel gene 23751 23861 . + . ID=ORF.0.1858_0.446816749041
+NC_001604 cpt.fixModel mRNA 23751 23861 . + . ID=ORF.0.1858_0.446816749041.mRNA;Parent=ORF.0.1858_0.446816749041
+NC_001604 getOrfsOrCds CDS 23751 23861 . + 0 ID=ORF.0.1858_0.446816749041.CDS;Parent=ORF.0.1858_0.446816749041.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 23741 23743 . + . ID=ORF.0.1858_0.446816749041.rbs-0;Parent=ORF.0.1858_0.446816749041
+NC_001604 CPT_LipoRy Lipobox 23835 23846 . + . ID=ORF.0.1858_0.446816749041.lipobox;Parent=ORF.0.1858_0.446816749041;sequence=ACSC
+NC_001604 cpt.fixModel gene 26196 26435 . + . ID=ORF.0.1900_0.395270115201
+NC_001604 cpt.fixModel mRNA 26196 26435 . + . ID=ORF.0.1900_0.395270115201.mRNA;Parent=ORF.0.1900_0.395270115201
+NC_001604 getOrfsOrCds CDS 26196 26435 . + 0 ID=ORF.0.1900_0.395270115201.CDS;Parent=ORF.0.1900_0.395270115201.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 26184 26186 . + . ID=ORF.0.1900_0.395270115201.rbs-0;Parent=ORF.0.1900_0.395270115201
+NC_001604 CPT_LipoRy Lipobox 26259 26270 . + . ID=ORF.0.1900_0.395270115201.lipobox;Parent=ORF.0.1900_0.395270115201;sequence=TTLC
+NC_001604 cpt.fixModel gene 26202 26435 . + . ID=ORF.0.1901_0.947459771709
+NC_001604 cpt.fixModel mRNA 26202 26435 . + . ID=ORF.0.1901_0.947459771709.mRNA;Parent=ORF.0.1901_0.947459771709
+NC_001604 getOrfsOrCds CDS 26202 26435 . + 0 ID=ORF.0.1901_0.947459771709.CDS;Parent=ORF.0.1901_0.947459771709.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 26188 26190 . + . ID=ORF.0.1901_0.947459771709.rbs-0;Parent=ORF.0.1901_0.947459771709
+NC_001604 CPT_LipoRy Lipobox 26259 26270 . + . ID=ORF.0.1901_0.947459771709.lipobox;Parent=ORF.0.1901_0.947459771709;sequence=TTLC
+NC_001604 cpt.fixModel gene 26211 26435 . + . ID=ORF.0.1902_0.529677364227
+NC_001604 cpt.fixModel mRNA 26211 26435 . + . ID=ORF.0.1902_0.529677364227.mRNA;Parent=ORF.0.1902_0.529677364227
+NC_001604 getOrfsOrCds CDS 26211 26435 . + 0 ID=ORF.0.1902_0.529677364227.CDS;Parent=ORF.0.1902_0.529677364227.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 26199 26201 . + . ID=ORF.0.1902_0.529677364227.rbs-0;Parent=ORF.0.1902_0.529677364227
+NC_001604 CPT_LipoRy Lipobox 26259 26270 . + . ID=ORF.0.1902_0.529677364227.lipobox;Parent=ORF.0.1902_0.529677364227;sequence=TTLC
+NC_001604 cpt.fixModel gene 27032 27226 . + . ID=ORF.0.1110_0.659690370089
+NC_001604 cpt.fixModel mRNA 27032 27226 . + . ID=ORF.0.1110_0.659690370089.mRNA;Parent=ORF.0.1110_0.659690370089
+NC_001604 getOrfsOrCds CDS 27032 27226 . + 0 ID=ORF.0.1110_0.659690370089.CDS;Parent=ORF.0.1110_0.659690370089.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 27021 27023 . + . ID=ORF.0.1110_0.659690370089.rbs-0;Parent=ORF.0.1110_0.659690370089
+NC_001604 CPT_LipoRy Lipobox 27173 27184 . + . ID=ORF.0.1110_0.659690370089.lipobox;Parent=ORF.0.1110_0.659690370089;sequence=IIGC
+NC_001604 cpt.fixModel gene 27307 27723 . + . ID=ORF.0.316_0.909704516637
+NC_001604 cpt.fixModel mRNA 27307 27723 . + . ID=ORF.0.316_0.909704516637.mRNA;Parent=ORF.0.316_0.909704516637
+NC_001604 getOrfsOrCds CDS 27307 27723 . + 0 ID=ORF.0.316_0.909704516637.CDS;Parent=ORF.0.316_0.909704516637.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 27294 27298 . + . ID=ORF.0.316_0.909704516637.rbs-0;Parent=ORF.0.316_0.909704516637
+NC_001604 CPT_LipoRy Lipobox 27463 27474 . + . ID=ORF.0.316_0.909704516637.lipobox;Parent=ORF.0.316_0.909704516637;sequence=GGNC
+NC_001604 cpt.fixModel gene 27310 27723 . + . ID=ORF.0.317_0.772851906945
+NC_001604 cpt.fixModel mRNA 27310 27723 . + . ID=ORF.0.317_0.772851906945.mRNA;Parent=ORF.0.317_0.772851906945
+NC_001604 getOrfsOrCds CDS 27310 27723 . + 0 ID=ORF.0.317_0.772851906945.CDS;Parent=ORF.0.317_0.772851906945.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 27297 27300 . + . ID=ORF.0.317_0.772851906945.rbs-0;Parent=ORF.0.317_0.772851906945
+NC_001604 CPT_LipoRy Lipobox 27463 27474 . + . ID=ORF.0.317_0.772851906945.lipobox;Parent=ORF.0.317_0.772851906945;sequence=GGNC
+NC_001604 cpt.fixModel gene 27433 27723 . + . ID=ORF.0.321_0.0639466467061
+NC_001604 cpt.fixModel mRNA 27433 27723 . + . ID=ORF.0.321_0.0639466467061.mRNA;Parent=ORF.0.321_0.0639466467061
+NC_001604 getOrfsOrCds CDS 27433 27723 . + 0 ID=ORF.0.321_0.0639466467061.CDS;Parent=ORF.0.321_0.0639466467061.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 27421 27423 . + . ID=ORF.0.321_0.0639466467061.rbs-0;Parent=ORF.0.321_0.0639466467061
+NC_001604 CPT_LipoRy Lipobox 27463 27474 . + . ID=ORF.0.321_0.0639466467061.lipobox;Parent=ORF.0.321_0.0639466467061;sequence=GGNC
+NC_001604 cpt.fixModel gene 28184 28360 . - . ID=ORF.0.2143_0.413406715024
+NC_001604 cpt.fixModel mRNA 28184 28360 . - . ID=ORF.0.2143_0.413406715024.mRNA;Parent=ORF.0.2143_0.413406715024
+NC_001604 getOrfsOrCds CDS 28184 28360 . - 0 ID=ORF.0.2143_0.413406715024.CDS;Parent=ORF.0.2143_0.413406715024.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 28371 28373 . - . ID=ORF.0.2143_0.413406715024.rbs-0;Parent=ORF.0.2143_0.413406715024
+NC_001604 CPT_LipoRy Lipobox 28268 28279 . - . ID=ORF.0.2143_0.413406715024.lipobox;Parent=ORF.0.2143_0.413406715024;sequence=CLSC
+NC_001604 cpt.fixModel gene 28184 28351 . - . ID=ORF.0.2144_0.655595263383
+NC_001604 cpt.fixModel mRNA 28184 28351 . - . ID=ORF.0.2144_0.655595263383.mRNA;Parent=ORF.0.2144_0.655595263383
+NC_001604 getOrfsOrCds CDS 28184 28351 . - 0 ID=ORF.0.2144_0.655595263383.CDS;Parent=ORF.0.2144_0.655595263383.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 28360 28362 . - . ID=ORF.0.2144_0.655595263383.rbs-0;Parent=ORF.0.2144_0.655595263383
+NC_001604 CPT_LipoRy Lipobox 28268 28279 . - . ID=ORF.0.2144_0.655595263383.lipobox;Parent=ORF.0.2144_0.655595263383;sequence=CLSC
+NC_001604 cpt.fixModel gene 29038 29148 . - . ID=ORF.0.2627_0.865400195799
+NC_001604 cpt.fixModel mRNA 29038 29148 . - . ID=ORF.0.2627_0.865400195799.mRNA;Parent=ORF.0.2627_0.865400195799
+NC_001604 getOrfsOrCds CDS 29038 29148 . - 0 ID=ORF.0.2627_0.865400195799.CDS;Parent=ORF.0.2627_0.865400195799.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 29157 29159 . - . ID=ORF.0.2627_0.865400195799.rbs-0;Parent=ORF.0.2627_0.865400195799
+NC_001604 CPT_LipoRy Lipobox 29047 29058 . - . ID=ORF.0.2627_0.865400195799.lipobox;Parent=ORF.0.2627_0.865400195799;sequence=LISC
+NC_001604 cpt.fixModel gene 30569 30709 . - . ID=ORF.0.2092_0.128402710833
+NC_001604 cpt.fixModel mRNA 30569 30709 . - . ID=ORF.0.2092_0.128402710833.mRNA;Parent=ORF.0.2092_0.128402710833
+NC_001604 getOrfsOrCds CDS 30569 30709 . - 0 ID=ORF.0.2092_0.128402710833.CDS;Parent=ORF.0.2092_0.128402710833.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 30718 30720 . - . ID=ORF.0.2092_0.128402710833.rbs-0;Parent=ORF.0.2092_0.128402710833
+NC_001604 CPT_LipoRy Lipobox 30578 30589 . - . ID=ORF.0.2092_0.128402710833.lipobox;Parent=ORF.0.2092_0.128402710833;sequence=ASLC
+NC_001604 cpt.fixModel gene 30672 30902 . - . ID=ORF.0.3082_0.766125556504
+NC_001604 cpt.fixModel mRNA 30672 30902 . - . ID=ORF.0.3082_0.766125556504.mRNA;Parent=ORF.0.3082_0.766125556504
+NC_001604 getOrfsOrCds CDS 30672 30902 . - 0 ID=ORF.0.3082_0.766125556504.CDS;Parent=ORF.0.3082_0.766125556504.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 30909 30911 . - . ID=ORF.0.3082_0.766125556504.rbs-0;Parent=ORF.0.3082_0.766125556504
+NC_001604 CPT_LipoRy Lipobox 30756 30767 . - . ID=ORF.0.3082_0.766125556504.lipobox;Parent=ORF.0.3082_0.766125556504;sequence=LVNC
+NC_001604 cpt.fixModel gene 31040 31144 . - . ID=ORF.0.2090_0.755340496691
+NC_001604 cpt.fixModel mRNA 31040 31144 . - . ID=ORF.0.2090_0.755340496691.mRNA;Parent=ORF.0.2090_0.755340496691
+NC_001604 getOrfsOrCds CDS 31040 31144 . - 0 ID=ORF.0.2090_0.755340496691.CDS;Parent=ORF.0.2090_0.755340496691.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 31152 31155 . - . ID=ORF.0.2090_0.755340496691.rbs-0;Parent=ORF.0.2090_0.755340496691
+NC_001604 CPT_LipoRy Lipobox 31070 31081 . - . ID=ORF.0.2090_0.755340496691.lipobox;Parent=ORF.0.2090_0.755340496691;sequence=LGLC
+NC_001604 cpt.fixModel gene 31125 31379 . - . ID=ORF.0.3071_0.185167330335
+NC_001604 cpt.fixModel mRNA 31125 31379 . - . ID=ORF.0.3071_0.185167330335.mRNA;Parent=ORF.0.3071_0.185167330335
+NC_001604 getOrfsOrCds CDS 31125 31379 . - 0 ID=ORF.0.3071_0.185167330335.CDS;Parent=ORF.0.3071_0.185167330335.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 31391 31393 . - . ID=ORF.0.3071_0.185167330335.rbs-0;Parent=ORF.0.3071_0.185167330335
+NC_001604 CPT_LipoRy Lipobox 31188 31199 . - . ID=ORF.0.3071_0.185167330335.lipobox;Parent=ORF.0.3071_0.185167330335;sequence=VASC
+NC_001604 cpt.fixModel gene 31125 31259 . - . ID=ORF.0.3076_0.188149499635
+NC_001604 cpt.fixModel mRNA 31125 31259 . - . ID=ORF.0.3076_0.188149499635.mRNA;Parent=ORF.0.3076_0.188149499635
+NC_001604 getOrfsOrCds CDS 31125 31259 . - 0 ID=ORF.0.3076_0.188149499635.CDS;Parent=ORF.0.3076_0.188149499635.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 31270 31273 . - . ID=ORF.0.3076_0.188149499635.rbs-0;Parent=ORF.0.3076_0.188149499635
+NC_001604 CPT_LipoRy Lipobox 31143 31154 . - . ID=ORF.0.3076_0.188149499635.lipobox;Parent=ORF.0.3076_0.188149499635;sequence=GSSC
+NC_001604 cpt.fixModel gene 31768 31974 . - . ID=ORF.0.2592_0.643398083603
+NC_001604 cpt.fixModel mRNA 31768 31974 . - . ID=ORF.0.2592_0.643398083603.mRNA;Parent=ORF.0.2592_0.643398083603
+NC_001604 getOrfsOrCds CDS 31768 31974 . - 0 ID=ORF.0.2592_0.643398083603.CDS;Parent=ORF.0.2592_0.643398083603.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 31982 31984 . - . ID=ORF.0.2592_0.643398083603.rbs-0;Parent=ORF.0.2592_0.643398083603
+NC_001604 CPT_LipoRy Lipobox 31906 31917 . - . ID=ORF.0.2592_0.643398083603.lipobox;Parent=ORF.0.2592_0.643398083603;sequence=GVSC
+NC_001604 cpt.fixModel gene 33345 33572 . - . ID=ORF.0.3027_0.898941439735
+NC_001604 cpt.fixModel mRNA 33345 33572 . - . ID=ORF.0.3027_0.898941439735.mRNA;Parent=ORF.0.3027_0.898941439735
+NC_001604 getOrfsOrCds CDS 33345 33572 . - 0 ID=ORF.0.3027_0.898941439735.CDS;Parent=ORF.0.3027_0.898941439735.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 33578 33581 . - . ID=ORF.0.3027_0.898941439735.rbs-0;Parent=ORF.0.3027_0.898941439735
+NC_001604 CPT_LipoRy Lipobox 33522 33533 . - . ID=ORF.0.3027_0.898941439735.lipobox;Parent=ORF.0.3027_0.898941439735;sequence=ASSC
+NC_001604 cpt.fixModel gene 35128 35496 . - . ID=ORF.0.2553_0.319093082442
+NC_001604 cpt.fixModel mRNA 35128 35496 . - . ID=ORF.0.2553_0.319093082442.mRNA;Parent=ORF.0.2553_0.319093082442
+NC_001604 getOrfsOrCds CDS 35128 35496 . - 0 ID=ORF.0.2553_0.319093082442.CDS;Parent=ORF.0.2553_0.319093082442.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 35508 35510 . - . ID=ORF.0.2553_0.319093082442.rbs-0;Parent=ORF.0.2553_0.319093082442
+NC_001604 CPT_LipoRy Lipobox 35353 35364 . - . ID=ORF.0.2553_0.319093082442.lipobox;Parent=ORF.0.2553_0.319093082442;sequence=VSGC
+NC_001604 cpt.fixModel gene 36743 36898 . + . ID=ORF.0.1318_0.942257676054
+NC_001604 cpt.fixModel mRNA 36743 36898 . + . ID=ORF.0.1318_0.942257676054.mRNA;Parent=ORF.0.1318_0.942257676054
+NC_001604 getOrfsOrCds CDS 36743 36898 . + 0 ID=ORF.0.1318_0.942257676054.CDS;Parent=ORF.0.1318_0.942257676054.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 36735 36737 . + . ID=ORF.0.1318_0.942257676054.rbs-0;Parent=ORF.0.1318_0.942257676054
+NC_001604 CPT_LipoRy Lipobox 36851 36862 . + . ID=ORF.0.1318_0.942257676054.lipobox;Parent=ORF.0.1318_0.942257676054;sequence=LYGC
+NC_001604 cpt.fixModel gene 36749 36898 . + . ID=ORF.0.1320_0.465020155472
+NC_001604 cpt.fixModel mRNA 36749 36898 . + . ID=ORF.0.1320_0.465020155472.mRNA;Parent=ORF.0.1320_0.465020155472
+NC_001604 getOrfsOrCds CDS 36749 36898 . + 0 ID=ORF.0.1320_0.465020155472.CDS;Parent=ORF.0.1320_0.465020155472.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 36735 36738 . + . ID=ORF.0.1320_0.465020155472.rbs-0;Parent=ORF.0.1320_0.465020155472
+NC_001604 CPT_LipoRy Lipobox 36851 36862 . + . ID=ORF.0.1320_0.465020155472.lipobox;Parent=ORF.0.1320_0.465020155472;sequence=LYGC
+NC_001604 cpt.fixModel gene 36779 36898 . + . ID=ORF.0.1322_0.214220607598
+NC_001604 cpt.fixModel mRNA 36779 36898 . + . ID=ORF.0.1322_0.214220607598.mRNA;Parent=ORF.0.1322_0.214220607598
+NC_001604 getOrfsOrCds CDS 36779 36898 . + 0 ID=ORF.0.1322_0.214220607598.CDS;Parent=ORF.0.1322_0.214220607598.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 36769 36771 . + . ID=ORF.0.1322_0.214220607598.rbs-0;Parent=ORF.0.1322_0.214220607598
+NC_001604 CPT_LipoRy Lipobox 36851 36862 . + . ID=ORF.0.1322_0.214220607598.lipobox;Parent=ORF.0.1322_0.214220607598;sequence=LYGC
+NC_001604 cpt.fixModel gene 36797 36898 . + . ID=ORF.0.1324_0.149247979479
+NC_001604 cpt.fixModel mRNA 36797 36898 . + . ID=ORF.0.1324_0.149247979479.mRNA;Parent=ORF.0.1324_0.149247979479
+NC_001604 getOrfsOrCds CDS 36797 36898 . + 0 ID=ORF.0.1324_0.149247979479.CDS;Parent=ORF.0.1324_0.149247979479.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 36787 36789 . + . ID=ORF.0.1324_0.149247979479.rbs-0;Parent=ORF.0.1324_0.149247979479
+NC_001604 CPT_LipoRy Lipobox 36851 36862 . + . ID=ORF.0.1324_0.149247979479.lipobox;Parent=ORF.0.1324_0.149247979479;sequence=LYGC
+NC_001604 cpt.fixModel gene 36800 36898 . + . ID=ORF.0.1325_0.813429946488
+NC_001604 cpt.fixModel mRNA 36800 36898 . + . ID=ORF.0.1325_0.813429946488.mRNA;Parent=ORF.0.1325_0.813429946488
+NC_001604 getOrfsOrCds CDS 36800 36898 . + 0 ID=ORF.0.1325_0.813429946488.CDS;Parent=ORF.0.1325_0.813429946488.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 36787 36789 . + . ID=ORF.0.1325_0.813429946488.rbs-0;Parent=ORF.0.1325_0.813429946488
+NC_001604 CPT_LipoRy Lipobox 36851 36862 . + . ID=ORF.0.1325_0.813429946488.lipobox;Parent=ORF.0.1325_0.813429946488;sequence=LYGC
+NC_001604 cpt.fixModel gene 37032 37283 . + . ID=ORF.0.1961_0.261039005028
+NC_001604 cpt.fixModel mRNA 37032 37283 . + . ID=ORF.0.1961_0.261039005028.mRNA;Parent=ORF.0.1961_0.261039005028
+NC_001604 getOrfsOrCds CDS 37032 37283 . + 0 ID=ORF.0.1961_0.261039005028.CDS;Parent=ORF.0.1961_0.261039005028.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 37020 37026 . + . ID=ORF.0.1961_0.261039005028.rbs-0;Parent=ORF.0.1961_0.261039005028
+NC_001604 CPT_LipoRy Lipobox 37167 37178 . + . ID=ORF.0.1961_0.261039005028.lipobox;Parent=ORF.0.1961_0.261039005028;sequence=ISGC
+NC_001604 cpt.fixModel gene 37083 37283 . + . ID=ORF.0.1964_0.894779255809
+NC_001604 cpt.fixModel mRNA 37083 37283 . + . ID=ORF.0.1964_0.894779255809.mRNA;Parent=ORF.0.1964_0.894779255809
+NC_001604 getOrfsOrCds CDS 37083 37283 . + 0 ID=ORF.0.1964_0.894779255809.CDS;Parent=ORF.0.1964_0.894779255809.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 37074 37076 . + . ID=ORF.0.1964_0.894779255809.rbs-0;Parent=ORF.0.1964_0.894779255809
+NC_001604 CPT_LipoRy Lipobox 37167 37178 . + . ID=ORF.0.1964_0.894779255809.lipobox;Parent=ORF.0.1964_0.894779255809;sequence=ISGC
+NC_001604 cpt.fixModel gene 37213 37368 . - . ID=ORF.0.2528_0.841717806577
+NC_001604 cpt.fixModel mRNA 37213 37368 . - . ID=ORF.0.2528_0.841717806577.mRNA;Parent=ORF.0.2528_0.841717806577
+NC_001604 getOrfsOrCds CDS 37213 37368 . - 0 ID=ORF.0.2528_0.841717806577.CDS;Parent=ORF.0.2528_0.841717806577.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 37377 37379 . - . ID=ORF.0.2528_0.841717806577.rbs-0;Parent=ORF.0.2528_0.841717806577
+NC_001604 CPT_LipoRy Lipobox 37315 37326 . - . ID=ORF.0.2528_0.841717806577.lipobox;Parent=ORF.0.2528_0.841717806577;sequence=IVSC
+NC_001604 cpt.fixModel gene 38016 38273 . + . ID=ORF.0.1988_0.755408274882
+NC_001604 cpt.fixModel mRNA 38016 38273 . + . ID=ORF.0.1988_0.755408274882.mRNA;Parent=ORF.0.1988_0.755408274882
+NC_001604 getOrfsOrCds CDS 38016 38273 . + 0 ID=ORF.0.1988_0.755408274882.CDS;Parent=ORF.0.1988_0.755408274882.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 38006 38009 . + . ID=ORF.0.1988_0.755408274882.rbs-0;Parent=ORF.0.1988_0.755408274882
+NC_001604 CPT_LipoRy Lipobox 38091 38102 . + . ID=ORF.0.1988_0.755408274882.lipobox;Parent=ORF.0.1988_0.755408274882;sequence=LLLC
+NC_001604 cpt.fixModel gene 38376 38513 . + . ID=ORF.0.2003_0.337942263367
+NC_001604 cpt.fixModel mRNA 38376 38513 . + . ID=ORF.0.2003_0.337942263367.mRNA;Parent=ORF.0.2003_0.337942263367
+NC_001604 getOrfsOrCds CDS 38376 38513 . + 0 ID=ORF.0.2003_0.337942263367.CDS;Parent=ORF.0.2003_0.337942263367.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 38361 38364 . + . ID=ORF.0.2003_0.337942263367.rbs-0;Parent=ORF.0.2003_0.337942263367
+NC_001604 CPT_LipoRy Lipobox 38490 38501 . + . ID=ORF.0.2003_0.337942263367.lipobox;Parent=ORF.0.2003_0.337942263367;sequence=VTLC
+NC_001604 cpt.fixModel gene 39389 39538 . + . ID=ORF.0.1414_0.296990322019
+NC_001604 cpt.fixModel mRNA 39389 39538 . + . ID=ORF.0.1414_0.296990322019.mRNA;Parent=ORF.0.1414_0.296990322019
+NC_001604 getOrfsOrCds CDS 39389 39538 . + 0 ID=ORF.0.1414_0.296990322019.CDS;Parent=ORF.0.1414_0.296990322019.mRNA
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 39378 39382 . + . ID=ORF.0.1414_0.296990322019.rbs-0;Parent=ORF.0.1414_0.296990322019
+NC_001604 CPT_LipoRy Lipobox 39443 39454 . + . ID=ORF.0.1414_0.296990322019.lipobox;Parent=ORF.0.1414_0.296990322019;sequence=VVLC
diff -r 000000000000 -r 4c72b6accdee cpt_intersect_adj/test-data/T7_IntersectBOut.gff3
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/cpt_intersect_adj/test-data/T7_IntersectBOut.gff3 Fri May 13 05:05:59 2022 +0000
@@ -0,0 +1,102 @@
+##gff-version 3
+##sequence-region NC_001604 1 39847
+NC_001604 cpt.fixModel gene 627 824 . - . ID=ORF.0.3363_0.587331907045;
+NC_001604 cpt.fixModel mRNA 627 824 . - . ID=ORF.0.3363_0.587331907045.mRNA;Parent=ORF.0.3363_0.587331907045;
+NC_001604 getOrfsOrCds CDS 627 824 . - 0 ID=ORF.0.3363_0.587331907045.CDS;Parent=ORF.0.3363_0.587331907045.mRNA;
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 837 839 . - . ID=ORF.0.3363_0.587331907045.rbs-0;Parent=ORF.0.3363_0.587331907045;
+NC_001604 CPT_LipoRy Lipobox 693 704 . - . ID=ORF.0.3363_0.587331907045.lipobox;Parent=ORF.0.3363_0.587331907045;sequence=FTLC;
+NC_001604 cpt.fixModel gene 627 734 . - . ID=ORF.0.3367_0.864588620692;
+NC_001604 cpt.fixModel mRNA 627 734 . - . ID=ORF.0.3367_0.864588620692.mRNA;Parent=ORF.0.3367_0.864588620692;
+NC_001604 getOrfsOrCds CDS 627 734 . - 0 ID=ORF.0.3367_0.864588620692.CDS;Parent=ORF.0.3367_0.864588620692.mRNA;
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 745 747 . - . ID=ORF.0.3367_0.864588620692.rbs-0;Parent=ORF.0.3367_0.864588620692;
+NC_001604 CPT_LipoRy Lipobox 693 704 . - . ID=ORF.0.3367_0.864588620692.lipobox;Parent=ORF.0.3367_0.864588620692;sequence=FTLC;
+NC_001604 cpt.fixModel gene 1496 1639 . + . ID=ORF.0.566_0.38534199341;
+NC_001604 cpt.fixModel mRNA 1496 1639 . + . ID=ORF.0.566_0.38534199341.mRNA;Parent=ORF.0.566_0.38534199341;
+NC_001604 getOrfsOrCds CDS 1496 1639 . + 0 ID=ORF.0.566_0.38534199341.CDS;Parent=ORF.0.566_0.38534199341.mRNA;
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 1487 1490 . + . ID=ORF.0.566_0.38534199341.rbs-0;Parent=ORF.0.566_0.38534199341;
+NC_001604 CPT_LipoRy Lipobox 1589 1600 . + . ID=ORF.0.566_0.38534199341.lipobox;Parent=ORF.0.566_0.38534199341;sequence=FTAC;
+NC_001604 cpt.fixModel gene 1502 1639 . + . ID=ORF.0.567_0.804461971525;
+NC_001604 cpt.fixModel mRNA 1502 1639 . + . ID=ORF.0.567_0.804461971525.mRNA;Parent=ORF.0.567_0.804461971525;
+NC_001604 getOrfsOrCds CDS 1502 1639 . + 0 ID=ORF.0.567_0.804461971525.CDS;Parent=ORF.0.567_0.804461971525.mRNA;
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 1487 1490 . + . ID=ORF.0.567_0.804461971525.rbs-0;Parent=ORF.0.567_0.804461971525;
+NC_001604 CPT_LipoRy Lipobox 1589 1600 . + . ID=ORF.0.567_0.804461971525.lipobox;Parent=ORF.0.567_0.804461971525;sequence=FTAC;
+NC_001604 cpt.fixModel gene 1779 1979 . - . ID=ORF.0.3349_0.219533700187;
+NC_001604 cpt.fixModel mRNA 1779 1979 . - . ID=ORF.0.3349_0.219533700187.mRNA;Parent=ORF.0.3349_0.219533700187;
+NC_001604 getOrfsOrCds CDS 1779 1979 . - 0 ID=ORF.0.3349_0.219533700187.CDS;Parent=ORF.0.3349_0.219533700187.mRNA;
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 1992 1994 . - . ID=ORF.0.3349_0.219533700187.rbs-0;Parent=ORF.0.3349_0.219533700187;
+NC_001604 CPT_LipoRy Lipobox 1896 1907 . - . ID=ORF.0.3349_0.219533700187.lipobox;Parent=ORF.0.3349_0.219533700187;sequence=ALSC;
+NC_001604 cpt.fixModel gene 1779 2021 . - . ID=ORF.0.3347_0.667378729511;
+NC_001604 cpt.fixModel mRNA 1779 2021 . - . ID=ORF.0.3347_0.667378729511.mRNA;Parent=ORF.0.3347_0.667378729511;
+NC_001604 getOrfsOrCds CDS 1779 2021 . - 0 ID=ORF.0.3347_0.667378729511.CDS;Parent=ORF.0.3347_0.667378729511.mRNA;
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 2030 2032 . - . ID=ORF.0.3347_0.667378729511.rbs-0;Parent=ORF.0.3347_0.667378729511;
+NC_001604 CPT_LipoRy Lipobox 1896 1907 . - . ID=ORF.0.3347_0.667378729511.lipobox;Parent=ORF.0.3347_0.667378729511;sequence=ALSC;
+NC_001604 cpt.fixModel gene 7608 7763 . + . ID=ORF.0.1571_0.432752129598;
+NC_001604 cpt.fixModel mRNA 7608 7763 . + . ID=ORF.0.1571_0.432752129598.mRNA;Parent=ORF.0.1571_0.432752129598;
+NC_001604 getOrfsOrCds CDS 7608 7763 . + 0 ID=ORF.0.1571_0.432752129598.CDS;Parent=ORF.0.1571_0.432752129598.mRNA;
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 7596 7600 . + . ID=ORF.0.1571_0.432752129598.rbs-0;Parent=ORF.0.1571_0.432752129598;
+NC_001604 CPT_LipoRy Lipobox 7728 7739 . + . ID=ORF.0.1571_0.432752129598.lipobox;Parent=ORF.0.1571_0.432752129598;sequence=VCAC;
+NC_001604 cpt.fixModel gene 7791 7880 . + . ID=ORF.0.1576_0.12740804191;
+NC_001604 cpt.fixModel mRNA 7791 7880 . + . ID=ORF.0.1576_0.12740804191.mRNA;Parent=ORF.0.1576_0.12740804191;
+NC_001604 getOrfsOrCds CDS 7791 7880 . + 0 ID=ORF.0.1576_0.12740804191.CDS;Parent=ORF.0.1576_0.12740804191.mRNA;
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 7777 7783 . + . ID=ORF.0.1576_0.12740804191.rbs-0;Parent=ORF.0.1576_0.12740804191;
+NC_001604 CPT_LipoRy Lipobox 7821 7832 . + . ID=ORF.0.1576_0.12740804191.lipobox;Parent=ORF.0.1576_0.12740804191;sequence=IVGC;
+NC_001604 cpt.fixModel gene 8255 8383 . - . ID=ORF.0.2415_0.910545970566;
+NC_001604 cpt.fixModel mRNA 8255 8383 . - . ID=ORF.0.2415_0.910545970566.mRNA;Parent=ORF.0.2415_0.910545970566;
+NC_001604 getOrfsOrCds CDS 8255 8383 . - 0 ID=ORF.0.2415_0.910545970566.CDS;Parent=ORF.0.2415_0.910545970566.mRNA;
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 8395 8398 . - . ID=ORF.0.2415_0.910545970566.rbs-0;Parent=ORF.0.2415_0.910545970566;
+NC_001604 CPT_LipoRy Lipobox 8303 8314 . - . ID=ORF.0.2415_0.910545970566.lipobox;Parent=ORF.0.2415_0.910545970566;sequence=IISC;
+NC_001604 cpt.fixModel gene 12252 13265 . + . ID=ORF.0.1687_0.584434310255;
+NC_001604 cpt.fixModel mRNA 12252 13265 . + . ID=ORF.0.1687_0.584434310255.mRNA;Parent=ORF.0.1687_0.584434310255;
+NC_001604 getOrfsOrCds CDS 12252 13265 . + 0 ID=ORF.0.1687_0.584434310255.CDS;Parent=ORF.0.1687_0.584434310255.mRNA;
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 12244 12246 . + . ID=ORF.0.1687_0.584434310255.rbs-0;Parent=ORF.0.1687_0.584434310255;
+NC_001604 CPT_LipoRy Lipobox 12429 12440 . + . ID=ORF.0.1687_0.584434310255.lipobox;Parent=ORF.0.1687_0.584434310255;sequence=FSGC;
+NC_001604 cpt.fixModel gene 12357 13265 . + . ID=ORF.0.1692_0.946746859523;
+NC_001604 cpt.fixModel mRNA 12357 13265 . + . ID=ORF.0.1692_0.946746859523.mRNA;Parent=ORF.0.1692_0.946746859523;
+NC_001604 getOrfsOrCds CDS 12357 13265 . + 0 ID=ORF.0.1692_0.946746859523.CDS;Parent=ORF.0.1692_0.946746859523.mRNA;
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 12343 12345 . + . ID=ORF.0.1692_0.946746859523.rbs-0;Parent=ORF.0.1692_0.946746859523;
+NC_001604 CPT_LipoRy Lipobox 12429 12440 . + . ID=ORF.0.1692_0.946746859523.lipobox;Parent=ORF.0.1692_0.946746859523;sequence=FSGC;
+NC_001604 cpt.fixModel gene 15199 15345 . - . ID=ORF.0.2828_0.260962590428;
+NC_001604 cpt.fixModel mRNA 15199 15345 . - . ID=ORF.0.2828_0.260962590428.mRNA;Parent=ORF.0.2828_0.260962590428;
+NC_001604 getOrfsOrCds CDS 15199 15345 . - 0 ID=ORF.0.2828_0.260962590428.CDS;Parent=ORF.0.2828_0.260962590428.mRNA;
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 15356 15359 . - . ID=ORF.0.2828_0.260962590428.rbs-0;Parent=ORF.0.2828_0.260962590428;
+NC_001604 CPT_LipoRy Lipobox 15265 15276 . - . ID=ORF.0.2828_0.260962590428.lipobox;Parent=ORF.0.2828_0.260962590428;sequence=FSLC;
+NC_001604 cpt.fixModel gene 15199 15375 . - . ID=ORF.0.2827_0.307040161403;
+NC_001604 cpt.fixModel mRNA 15199 15375 . - . ID=ORF.0.2827_0.307040161403.mRNA;Parent=ORF.0.2827_0.307040161403;
+NC_001604 getOrfsOrCds CDS 15199 15375 . - 0 ID=ORF.0.2827_0.307040161403.CDS;Parent=ORF.0.2827_0.307040161403.mRNA;
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 15388 15390 . - . ID=ORF.0.2827_0.307040161403.rbs-0;Parent=ORF.0.2827_0.307040161403;
+NC_001604 CPT_LipoRy Lipobox 15265 15276 . - . ID=ORF.0.2827_0.307040161403.lipobox;Parent=ORF.0.2827_0.307040161403;sequence=FSLC;
+NC_001604 cpt.fixModel gene 17918 18406 . + . ID=ORF.0.808_0.284208778955;
+NC_001604 cpt.fixModel mRNA 17918 18406 . + . ID=ORF.0.808_0.284208778955.mRNA;Parent=ORF.0.808_0.284208778955;
+NC_001604 getOrfsOrCds CDS 17918 18406 . + 0 ID=ORF.0.808_0.284208778955.CDS;Parent=ORF.0.808_0.284208778955.mRNA;
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 17905 17908 . + . ID=ORF.0.808_0.284208778955.rbs-0;Parent=ORF.0.808_0.284208778955;
+NC_001604 CPT_LipoRy Lipobox 17999 18010 . + . ID=ORF.0.808_0.284208778955.lipobox;Parent=ORF.0.808_0.284208778955;sequence=IPNC;
+NC_001604 cpt.fixModel gene 18375 18503 . + . ID=ORF.0.1782_0.36618964442;
+NC_001604 cpt.fixModel mRNA 18375 18503 . + . ID=ORF.0.1782_0.36618964442.mRNA;Parent=ORF.0.1782_0.36618964442;
+NC_001604 getOrfsOrCds CDS 18375 18503 . + 0 ID=ORF.0.1782_0.36618964442.CDS;Parent=ORF.0.1782_0.36618964442.mRNA;
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 18362 18364 . + . ID=ORF.0.1782_0.36618964442.rbs-0;Parent=ORF.0.1782_0.36618964442;
+NC_001604 CPT_LipoRy Lipobox 18420 18431 . + . ID=ORF.0.1782_0.36618964442.lipobox;Parent=ORF.0.1782_0.36618964442;sequence=GSLC;
+NC_001604 cpt.fixModel gene 19348 19764 . - . ID=ORF.0.2751_0.199850521186;
+NC_001604 cpt.fixModel mRNA 19348 19764 . - . ID=ORF.0.2751_0.199850521186.mRNA;Parent=ORF.0.2751_0.199850521186;
+NC_001604 getOrfsOrCds CDS 19348 19764 . - 0 ID=ORF.0.2751_0.199850521186.CDS;Parent=ORF.0.2751_0.199850521186.mRNA;
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 19770 19772 . - . ID=ORF.0.2751_0.199850521186.rbs-0;Parent=ORF.0.2751_0.199850521186;
+NC_001604 CPT_LipoRy Lipobox 19684 19695 . - . ID=ORF.0.2751_0.199850521186.lipobox;Parent=ORF.0.2751_0.199850521186;sequence=AAAC;
+NC_001604 cpt.fixModel gene 29038 29148 . - . ID=ORF.0.2627_0.865400195799;
+NC_001604 cpt.fixModel mRNA 29038 29148 . - . ID=ORF.0.2627_0.865400195799.mRNA;Parent=ORF.0.2627_0.865400195799;
+NC_001604 getOrfsOrCds CDS 29038 29148 . - 0 ID=ORF.0.2627_0.865400195799.CDS;Parent=ORF.0.2627_0.865400195799.mRNA;
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 29157 29159 . - . ID=ORF.0.2627_0.865400195799.rbs-0;Parent=ORF.0.2627_0.865400195799;
+NC_001604 CPT_LipoRy Lipobox 29047 29058 . - . ID=ORF.0.2627_0.865400195799.lipobox;Parent=ORF.0.2627_0.865400195799;sequence=LISC;
+NC_001604 cpt.fixModel gene 37032 37283 . + . ID=ORF.0.1961_0.261039005028;
+NC_001604 cpt.fixModel mRNA 37032 37283 . + . ID=ORF.0.1961_0.261039005028.mRNA;Parent=ORF.0.1961_0.261039005028;
+NC_001604 getOrfsOrCds CDS 37032 37283 . + 0 ID=ORF.0.1961_0.261039005028.CDS;Parent=ORF.0.1961_0.261039005028.mRNA;
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 37020 37026 . + . ID=ORF.0.1961_0.261039005028.rbs-0;Parent=ORF.0.1961_0.261039005028;
+NC_001604 CPT_LipoRy Lipobox 37167 37178 . + . ID=ORF.0.1961_0.261039005028.lipobox;Parent=ORF.0.1961_0.261039005028;sequence=ISGC;
+NC_001604 cpt.fixModel gene 37083 37283 . + . ID=ORF.0.1964_0.894779255809;
+NC_001604 cpt.fixModel mRNA 37083 37283 . + . ID=ORF.0.1964_0.894779255809.mRNA;Parent=ORF.0.1964_0.894779255809;
+NC_001604 getOrfsOrCds CDS 37083 37283 . + 0 ID=ORF.0.1964_0.894779255809.CDS;Parent=ORF.0.1964_0.894779255809.mRNA;
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 37074 37076 . + . ID=ORF.0.1964_0.894779255809.rbs-0;Parent=ORF.0.1964_0.894779255809;
+NC_001604 CPT_LipoRy Lipobox 37167 37178 . + . ID=ORF.0.1964_0.894779255809.lipobox;Parent=ORF.0.1964_0.894779255809;sequence=ISGC;
+NC_001604 cpt.fixModel gene 39389 39538 . + . ID=ORF.0.1414_0.296990322019;
+NC_001604 cpt.fixModel mRNA 39389 39538 . + . ID=ORF.0.1414_0.296990322019.mRNA;Parent=ORF.0.1414_0.296990322019;
+NC_001604 getOrfsOrCds CDS 39389 39538 . + 0 ID=ORF.0.1414_0.296990322019.CDS;Parent=ORF.0.1414_0.296990322019.mRNA;
+NC_001604 CPT_ShineFind Shine_Dalgarno_sequence 39378 39382 . + . ID=ORF.0.1414_0.296990322019.rbs-0;Parent=ORF.0.1414_0.296990322019;
+NC_001604 CPT_LipoRy Lipobox 39443 39454 . + . ID=ORF.0.1414_0.296990322019.lipobox;Parent=ORF.0.1414_0.296990322019;sequence=VVLC;