--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/cloning_similation.xml	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,393 @@
+<tool id="cloning_simulation" name="Cloning Simulation" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="21.09">
+    <description>A cloning simulator for synthetic biology</description>
+    <macros>
+        <token name="@VERSION_SUFFIX@">0</token>
+        <token name="@TOOL_VERSION@">0.1.0</token>
+    </macros>
+    <requirements>
+        <requirement type="package" version="0.1.11">flametree</requirement>
+        <requirement type="package" version="1.85"> biopython </requirement>
+        <requirement type="package" version="0.1.10">proglog</requirement>
+        <requirement type="package" version="2.2.3">pandas</requirement>
+        <requirement type="package" version="2.0.12">dnacauldron</requirement>
+        <requirement type="package" version="0.3.9">pdf-reports</requirement>
+        <requirement type="package" version="0.1.8">sequenticon</requirement>
+        <requirement type="package" version="3.1.5">dna_features_viewer</requirement>
+    </requirements>
+    <command detect_errors="exit_code"><![CDATA[
+        #set genbank_file_paths = ','.join([str(f) for f in $genbank_files])
+        #set file_name_mapping = ",".join(["%s:%s" % (file.file_name, file.name) for file in $genbank_files])
+        #set domesticated_input_paths = ','.join([str(f) for f in $domesticated_input])
+        #set file_name_mapping_dom = ",".join(["%s:%s" % (file.file_name, file.name) for file in $domesticated_input])
+        #if $domesticated_input_paths != '' and $genbank_file_paths == ''
+            #set genbank_file_paths = ','.join([str(f) for f in $domesticated_input])
+            #set file_name_mapping = ",".join(["%s:%s" % (file.file_name, file.name) for file in $domesticated_input])
+            #set domesticated_input_paths = ''
+            #set file_name_mapping_dom = ''
+        #end if
+        mkdir 'outdir_zip' && mkdir 'outdir_gb' &&
+        cp '$assembly_csv' 'assembly_csv.csv' &&
+        python '$__tool_directory__/cloning_simulation.py'
+            --parts_files '$genbank_file_paths'
+            --domesticated_seq '$domesticated_input_paths'
+            --assembly_csv 'assembly_csv.csv'
+            --assembly_plan_name '$assembly_plan_name'
+            --file_name_mapping '$file_name_mapping'
+            --file_name_mapping_dom '$file_name_mapping_dom'
+            --use_file_names_as_id '$adv.use_file_names_as_ids'
+            --outdir_simulation 'outdir_zip'
+            --outdir_gb 'outdir_gb'
+            --output_simulation 'output_zip.zip'
+            --enzyme '$adv.enzyme'
+            --topology '$topology' &&
+        cp 'output_zip.zip' '$output_zip'
+    ]]></command>
+    <inputs>
+        <param name="genbank_files" type="data_collection" collection_type="list" format="genbank,fasta" label="GenBank and/or Fasta File(s)" optional="True"/>
+        <param name="assembly_csv" type="data" format="csv" label="Assemby csv"/>
+        <param name="domesticated_input" type="data_collection" collection_type="list" format="genbank" label="Domesticated GenBank" optional="True"/>
+        <param name="assembly_plan_name" type="select" label="Assembly Calss" help="select the assambly class">
+            <option value="Type2sRestrictionAssembly" selected="True">GoldenGate_assembly</option>
+            <option value="GibsonAssembly">Gibson_assembly</option>
+            <option value="BASICAssembly">BASIC_assembly</option>
+            <option value="BioBrickStandardAssembly">biobrick_assembly</option>
+            <option value="LigaseCyclingReactionAssembly">lcr_assembly</option>
+        </param>
+        <param name="topology" type="select" label="Assambly Topology" help="select circular or linear topology">
+            <option value="linear">linear</option>
+            <option value="circular" selected="True">circular</option>
+        </param>
+        <section name="adv" title="Advanced Options" expanded="false">
+            <param name="enzyme" type="text" label="Enzyme" value="auto" optional="True"/>
+            <param name="use_file_names_as_ids" type="boolean" checked="True" label="Use File Names As Sequence IDs" />
+        </section>
+    </inputs>   
+    <outputs>
+        <data format="zip" name="output_zip" label="simulation results (zip)"/>
+        <collection name="construct_gb" type="list" label="simulation results (gb)">
+                <discover_datasets pattern="(?P&lt;name&gt;.*).gb" format="genbank" directory="outdir_gb" />
+        </collection>
+    </outputs>
+    <tests>
+        <!--test type2s_assembly class-->
+        <test> 
+            <param name="genbank_files">
+                <collection type="list">
+                    <element name="part_A" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_A.gb" />
+                    <element name="part_B" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_B.gb" />
+                    <element name="part_C" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_C.gb" />
+                    <element name="part_D" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_D.gb" />
+                    <element name="part_E" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_E.gb" />
+                    <element name="part_F" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_F.gb" />
+                    <element name="part_G" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_G.gb" />
+                    <element name="part_H" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_H.gb" />
+                    <element name="part_I" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_I.gb" />
+                    <element name="part_J" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_J.gb" />
+                    <element name="part_K" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_K.gb" />
+                    <element name="part_L" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_L.gb" />
+                </collection>
+            </param>
+            <param name="assembly_csv" value="2-step_golden_gate_parts/2-step-golden_gate_plan.csv" />
+            <param name='assembly_plan_name' value='Type2sRestrictionAssembly' />
+            <param name="topology" value="circular"/>
+            <param name="adv|use_file_names_as_ids" value="True" />
+            <output name="output_zip" ftype='zip'>
+                <assert_contents>
+                    <has_archive_member path=".*" n="62"/>
+                    <has_archive_member path="assambly_simulation/assembly_plan_graph.pdf">
+                        <has_size min="5"/>
+                    </has_archive_member>
+                </assert_contents>
+            </output>
+            <output_collection name="construct_gb" type="list" count="4">
+                <element name="construct_1">
+                    <assert_contents>
+                     <has_n_lines min="20" />
+                    </assert_contents>
+                </element>
+                <element name="construct_2">
+                    <assert_contents>
+                     <has_n_lines min="20" />
+                    </assert_contents>
+                </element>
+                <element name="construct_3">
+                    <assert_contents>
+                     <has_n_lines min="20" />
+                    </assert_contents>
+                </element>
+                 <element name="construct_4">
+                    <assert_contents>
+                     <has_n_lines min="20" />
+                    </assert_contents>
+                </element>
+            </output_collection>
+        </test>
+        <!--test gibson_assembly class-->
+        <test> 
+            <param name="genbank_files">
+                <collection type="list">
+                    <element name="gibson_sequences" value="Gibson_assembly_dataset/gibson_sequences.fa" />
+                </collection>
+            </param>
+            <param name="assembly_csv" value="Gibson_assembly_dataset/gibson_assembly.csv" />
+            <param name='assembly_plan_name' value='GibsonAssembly' />
+            <param name="topology" value="circular"/>
+            <param name="adv|use_file_names_as_ids" value="True" />
+            <output name="output_zip" ftype='zip'>
+                <assert_contents>
+                    <has_archive_member path=".*" n="78"/>
+                    <has_archive_member path="assambly_simulation/Report.pdf">
+                        <has_size min="5"/>
+                    </has_archive_member>
+                </assert_contents>
+            </output>
+            <output_collection name="construct_gb" type="list" count="3">
+                <element name="construct_1">
+                    <assert_contents>
+                     <has_n_lines min="20" />
+                    </assert_contents>
+                </element>
+                <element name="construct_2">
+                    <assert_contents>
+                     <has_n_lines min="20" />
+                    </assert_contents>
+                </element>
+                <element name="construct_3">
+                    <assert_contents>
+                     <has_n_lines min="20" />
+                    </assert_contents>
+                </element>
+            </output_collection>
+        </test>
+        <!--test lcr_assembly class-->
+        <test> 
+            <param name="genbank_files">
+                <collection type="list">
+                    <element name="RFP_GFP_plasmid_BOs" value="lcr_assembly_dataset/RFP_GFP_plasmid_BOs.fa" />
+                    <element name="RFP_GFP_plasmid_parts" value="lcr_assembly_dataset/RFP_GFP_plasmid_parts.fa" />
+                </collection>
+            </param>
+            <param name="assembly_csv" value="lcr_assembly_dataset/assembly_plan.csv" />
+            <param name='assembly_plan_name' value='LigaseCyclingReactionAssembly' />
+            <param name="topology" value="circular"/>
+            <param name="adv|use_file_names_as_ids" value="True" />
+            <output name="output_zip" ftype='zip'>
+                <assert_contents>
+                    <has_archive_member path=".*" n="68"/>
+                    <has_archive_member path="assambly_simulation/Report.pdf">
+                        <has_size min="5"/>
+                    </has_archive_member>
+                </assert_contents>
+            </output>
+            <output_collection name="construct_gb" type="list" count="0">
+            </output_collection>
+        </test>
+        <!--test BASIC_assembly class-->
+        <test> 
+            <param name="genbank_files">
+                <collection type="list">
+                    <element name="GFP" value="BASIC_assembly_dataset/GFP.gb" />
+                    <element name="p15A_kan" value="BASIC_assembly_dataset/p15A_kan.gb" />
+                    <element name="promoter" value="BASIC_assembly_dataset/promoter.gb" />
+                    <element name="RFP" value="BASIC_assembly_dataset/RFP.gb" />
+                    <element name="oligos" value="BASIC_assembly_dataset/oligos.fa" />
+                </collection>
+            </param>
+            <param name="assembly_csv" value="BASIC_assembly_dataset/basic_assembly.csv" />
+            <param name='assembly_plan_name' value='BASICAssembly' />
+            <param name="topology" value="circular"/>
+            <param name="adv|use_file_names_as_ids" value="True" />
+            <output name="output_zip" ftype='zip'>
+                <assert_contents>
+                    <has_archive_member path=".*" n="47"/>
+                    <has_archive_member path="assambly_simulation/Report.pdf">
+                        <has_size min="5"/>
+                    </has_archive_member>
+                </assert_contents>
+            </output>
+            <output_collection name="construct_gb" type="list" count="0">
+            </output_collection>
+        </test>
+        <!--test biobrick_assembly class-->
+        <test> 
+            <param name="genbank_files">
+                <collection type="list">
+                    <element name="BBa_E0040_GFP" value="BioBrick_assembly_dataset/BBa_E0040_GFP.gb" />
+                    <element name="BBa_J23119_prom" value="BioBrick_assembly_dataset/BBa_J23119_prom.gb" />
+                    <element name="BBa_J23119_prom_flawed" value="BioBrick_assembly_dataset/BBa_J23119_prom_flawed.gb" />
+                    <element name="BBa_J61048_term" value="BioBrick_assembly_dataset/BBa_J61048_term.gb" />
+                    <element name="BBa_K611094_bar" value="BioBrick_assembly_dataset/BBa_K611094_bar.gb" />
+                </collection>
+            </param>
+            <param name="assembly_csv" value="BioBrick_assembly_dataset/hierarchical_biobrick.csv" />
+            <param name='assembly_plan_name' value='BioBrickStandardAssembly' />
+            <param name="topology" value="circular"/>
+            <param name="adv|use_file_names_as_ids" value="True" />
+            <output name="output_zip" ftype='zip'>
+                <assert_contents>
+                    <has_archive_member path=".*" n="47"/>
+                    <has_archive_member path="assambly_simulation/Report.pdf">
+                        <has_size min="5"/>
+                    </has_archive_member>
+                </assert_contents>
+            </output>
+            <output_collection name="construct_gb" type="list" count="3">
+                <element name="C1_prom_barcode">
+                    <assert_contents>
+                     <has_n_lines min="20" />
+                    </assert_contents>
+                </element>
+                <element name="C2_gfp_term">
+                    <assert_contents>
+                     <has_n_lines min="20" />
+                    </assert_contents>
+                </element>
+                <element name="C3_final">
+                    <assert_contents>
+                     <has_n_lines min="20" />
+                    </assert_contents>
+                </element>
+            </output_collection>
+        </test>
+        <!--test type2s_assembly with domesticated files-->
+        <test> 
+            <param name="genbank_files">
+                <collection type="list">
+                    <element name="part_A" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_A.gb" />
+                    <element name="part_B" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_B.gb" />
+                    <element name="part_C" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_C.gb" />
+                    <element name="part_D" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_D.gb" />
+                    <element name="part_E" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_E.gb" />
+                    <element name="part_F" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_F.gb" />
+                    <element name="part_G" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_G.gb" />
+                </collection>
+            </param>
+            <param name="assembly_csv" value="2-step_golden_gate_parts/2-step-golden_gate_plan.csv" />
+            <param name='assembly_plan_name' value='Type2sRestrictionAssembly' />
+            <param name="domesticated_input">
+                <collection type="list">
+                    <element name="part_H" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_H.gb" />
+                    <element name="part_I" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_I.gb" />
+                    <element name="part_J" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_J.gb" />
+                    <element name="part_K" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_K.gb" />
+                    <element name="part_L" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_L.gb" />
+                </collection>
+            </param>
+            <param name="topology" value="circular"/>
+            <param name="adv|use_file_names_as_ids" value="True" />
+            <output name="output_zip" ftype='zip'>
+                <assert_contents>
+                    <has_archive_member path=".*" n="62"/>
+                    <has_archive_member path="assambly_simulation/assembly_plan_graph.pdf">
+                        <has_size min="5"/>
+                    </has_archive_member>
+                </assert_contents>
+            </output>
+            <output_collection name="construct_gb" type="list" count="4">
+                <element name="construct_1">
+                    <assert_contents>
+                     <has_n_lines min="20" />
+                    </assert_contents>
+                </element>
+                <element name="construct_2">
+                    <assert_contents>
+                     <has_n_lines min="20" />
+                    </assert_contents>
+                </element>
+                <element name="construct_3">
+                    <assert_contents>
+                     <has_n_lines min="20" />
+                    </assert_contents>
+                </element>
+                 <element name="construct_4">
+                    <assert_contents>
+                     <has_n_lines min="20" />
+                    </assert_contents>
+                </element>
+            </output_collection>
+        </test>
+        <!--test only domestication input-->
+        <test> 
+            <param name="domesticated_input">
+                <collection type="list">
+                    <element name="part_A" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_A.gb" />
+                    <element name="part_B" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_B.gb" />
+                    <element name="part_C" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_C.gb" />
+                    <element name="part_D" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_D.gb" />
+                    <element name="part_E" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_E.gb" />
+                    <element name="part_F" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_F.gb" />
+                    <element name="part_G" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_G.gb" />
+                    <element name="part_H" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_H.gb" />
+                    <element name="part_I" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_I.gb" />
+                    <element name="part_J" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_J.gb" />
+                    <element name="part_K" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_K.gb" />
+                    <element name="part_L" value="2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_L.gb" />
+                </collection>
+            </param>
+            <param name="assembly_csv" value="2-step_golden_gate_parts/2-step-golden_gate_plan.csv" />
+            <param name='assembly_plan_name' value='Type2sRestrictionAssembly' />
+            <param name="topology" value="circular"/>
+            <param name="adv|use_file_names_as_ids" value="True" />
+            <output name="output_zip" ftype='zip'>
+                <assert_contents>
+                    <has_archive_member path=".*" n="62"/>
+                    <has_archive_member path="assambly_simulation/assembly_plan_graph.pdf">
+                        <has_size min="5"/>
+                    </has_archive_member>
+                </assert_contents>
+            </output>
+            <output_collection name="construct_gb" type="list" count="4">
+                <element name="construct_1">
+                    <assert_contents>
+                     <has_n_lines min="20" />
+                    </assert_contents>
+                </element>
+                <element name="construct_2">
+                    <assert_contents>
+                     <has_n_lines min="20" />
+                    </assert_contents>
+                </element>
+                <element name="construct_3">
+                    <assert_contents>
+                     <has_n_lines min="20" />
+                    </assert_contents>
+                </element>
+                 <element name="construct_4">
+                    <assert_contents>
+                     <has_n_lines min="20" />
+                    </assert_contents>
+                </element>
+            </output_collection>
+        </test>
+    </tests>
+    
+    <help><![CDATA[
+Cloning_Simulation
+    ====================
+
+The Cloning Simulation tool is based on the DnaCauldron package developed by the EGF Biofoundry. It enables rapid and accurate assembly simulation of DNA parts for modular cloning systems, such as Golden Gate Assembly (complete documentation `here <https://edinburgh-genome-foundry.github.io/DnaCauldron/>`_).
+
+**Parameters**:
+---------------
+* **Assemby csv**: csv file containes the construct names with their parts. (Without Header)
+* **GenBank files**: Upload all the parts sequences for your assembli(es). Don't forget the receptor vector(s).
+* **Domesticated GenBank**: Dimesticated GenBank list (Optional)
+* **Topology**: Can be "circular", "linear".
+* **Enzyme**: It will be selected automatically, or you can set one from this dictionnary : `dict <https://github.com/biopython/biopython/blob/master/Bio/Restriction/Restriction_Dictionary.py>`_ 
+* **Assembly Class**: 
+    - "GoldenGate_assembly": Type2sRestrictionAssembly (recommended in Domesticated dataset) `ex. dataset <https://github.com/Edinburgh-Genome-Foundry/DnaCauldron/tree/master/examples/hierarchical_golden_gate>`_
+    - "gibson_assembly": GibsonAssembly `ex. dataset <https://github.com/Edinburgh-Genome-Foundry/DnaCauldron/tree/master/examples/gibson_assembly>`_
+    - "BASIC_assembly": BASICAssembly `ex. dataset <https://github.com/Edinburgh-Genome-Foundry/DnaCauldron/tree/master/examples/BASIC_assembly>`_
+    - "biobrick_assembly": BioBrickStandardAssembly, `ex. dataset <https://github.com/Edinburgh-Genome-Foundry/DnaCauldron/tree/master/examples/hierarchical_biobrick>`_
+    - "lcr_assembly": LigaseCyclingReactionAssembly `ex. dataset <https://github.com/Edinburgh-Genome-Foundry/DnaCauldron/tree/master/examples/lcr_assembly>`_
+    ]]></help>
+    <citations>
+        <citation type="bibtex">
+            @unpublished{cloning_simulation
+                author = {Ramiz Khaled},
+                title = {{cloning_simulation}},
+                url = {https://github.com/Edinburgh-Genome-Foundry/Examples/blob/master/templates/template1.ipynb},
+            }
+        </citation>
+    </citations>
+</tool>

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/cloning_simulation.py	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,177 @@
+import argparse
+import os
+import zipfile
+import pandas
+import dnacauldron
+
+
+def cloning_simulation(files_to_assembly, domesticated_list,
+                       csv_file, assembly_type, topology,
+                       file_name_mapping, file_name_mapping_dom,
+                       use_file_names_as_id,
+                       outdir_simulation, output_simulation, enzyme, outdir_gb):
+
+    files_to_assembly = files_to_assembly.split(',')
+
+    repository = dnacauldron.SequenceRepository()
+    repository.import_records(files=files_to_assembly,
+                              use_file_names_as_ids=use_file_names_as_id,
+                              topology=topology)
+    if domesticated_list:
+       domesticated_files = domesticated_list.split(',')
+       repository.import_records(files=domesticated_files,
+                                 use_file_names_as_ids=use_file_names_as_id,
+                                 topology=topology)
+
+    # refine the real record name dict
+    if isinstance(file_name_mapping, str):
+        file_name_mapping = dict(
+            item.split(":") for item in file_name_mapping.split(",")
+        )
+    real_names = {
+        os.path.splitext(os.path.basename(k))[0]: v.replace(".gb", "")
+        for k, v in file_name_mapping.items()
+    }
+
+    # refine the real record name dict_dom
+    if file_name_mapping_dom == "":
+        file_name_mapping_dom = {}
+    else:
+        if isinstance(file_name_mapping_dom, str):
+            file_name_mapping_dom = dict(
+                item.split(":") for item in file_name_mapping_dom.split(",")
+            )
+        dom_real_names = {
+            os.path.splitext(os.path.basename(k))[0]: v.replace(".gb", "")
+            for k, v in file_name_mapping_dom.items()
+        }
+        real_names.update(dom_real_names)
+
+    # update the records
+
+    for key, record in list(repository.collections["parts"].items()):
+        current_id = record.id
+        if current_id in real_names:
+            new_id = real_names[current_id]
+            record.id = new_id
+            record.name = new_id
+            record.description = new_id
+            repository.collections["parts"][new_id] = repository.collections["parts"].pop(key)
+    ########################################################
+    # print (f"repo: {vars(repository)}")
+    # any(pandas.read_csv(csv_file, index_col=0, header=None).duplicated())
+    df = pandas.read_csv(csv_file, index_col=0, header=None)
+    if df.duplicated().any():
+        raise ValueError("Duplicate rows found in the data!")
+
+    if assembly_type == "Type2sRestrictionAssembly":
+        assembly_class = dnacauldron.Type2sRestrictionAssembly
+    elif assembly_type == "GibsonAssembly":
+        assembly_class = dnacauldron.GibsonAssembly
+    elif assembly_type == "BASICAssembly":
+        assembly_class = dnacauldron.BASICAssembly
+    elif assembly_type == "BioBrickStandardAssembly":
+        assembly_class = dnacauldron.BioBrickStandardAssembly
+    elif assembly_type == "OligoPairAnnealin":
+        assembly_class = dnacauldron.OligoPairAnnealin
+    elif assembly_type == "LigaseCyclingReactionAssembly":
+        assembly_class = dnacauldron.LigaseCyclingReactionAssembly
+    else:
+        raise ValueError(f"Unsupported assembly type: {assembly_type}")
+
+    new_csvname = "assambly.csv"
+    os.rename(csv_file, new_csvname)
+
+    assembly_plan = dnacauldron.AssemblyPlan.from_spreadsheet(
+        name="auto_from_filename",
+        path=new_csvname,
+        dataframe=None,
+        header=None,
+        assembly_class=assembly_class
+    )
+    if enzyme != 'auto':
+        for assembly in assembly_plan.assemblies:
+            assembly.enzyme = enzyme
+
+    simulation = assembly_plan.simulate(sequence_repository=repository)
+    stats = simulation.compute_stats()
+    print(stats)
+
+    report_writer = dnacauldron.AssemblyReportWriter(
+        include_mix_graphs=True,
+        include_assembly_plots=True,
+        show_overhangs_in_graph=True,
+        annotate_parts_homologies=True,
+        include_pdf_report=True,
+    )
+    simulation.write_report(outdir_simulation, assembly_report_writer=report_writer)
+
+    # Append report files to .dat (ZIP)
+    with zipfile.ZipFile(output_simulation, mode='a', compression=zipfile.ZIP_DEFLATED) as zipf:
+        for root, dirs, files in os.walk(outdir_simulation):
+            for file in files:
+                full_path = os.path.join(root, file)
+                arcname = os.path.relpath(full_path, outdir_simulation)
+                zipf.write(full_path, arcname)
+ #       print("Files in the zip archive:")
+ #       for info in zipf.infolist():
+ #           print(info.filename)
+        for member in zipf.namelist():
+            # Only extract actual files inside 'all_construct_records/' (not subfolders)
+            if member.startswith("assambly_simulation/all_construct_records/") and not member.endswith("/"):
+                # Get the file name only (strip folder path)
+                filename = os.path.basename(member)
+                if not filename:
+                    continue  # skip any edge cases
+
+                # Destination path directly in outdir_dir
+                target_path = os.path.join(outdir_gb, filename)
+
+                # Write the file content
+                with zipf.open(member) as source, open(target_path, "wb") as target:
+                    target.write(source.read())
+
+    return output_simulation, outdir_gb
+
+
+def parse_command_line_args():
+    parser = argparse.ArgumentParser(description="Domestication")
+
+    parser.add_argument("--parts_files", required=True,
+                        help="List of GenBank files (Comma-separated)")
+    parser.add_argument("--domesticated_seq", required=True,
+                        help="output of domestication (ganbank list)")
+    parser.add_argument("--assembly_csv", required=True,
+                        help="csv assembly")
+    parser.add_argument('--assembly_plan_name', type=str,
+                        help='type of assembly')
+    parser.add_argument('--topology', type=str,
+                        help='"circular" or "linear"')
+    parser.add_argument('--file_name_mapping', type=str,
+                        help='Mapping of Galaxy filenames to original filenames')
+    parser.add_argument('--file_name_mapping_dom', type=str,
+                        help='Mapping of Galaxy filenames to original domestication filenames')
+    parser.add_argument("--use_file_names_as_id", type=lambda x: x.lower() == 'true', default=True,
+                        help="Use file names as IDs (True/False)")
+    parser.add_argument("--outdir_simulation", required=True,
+                        help="dir output for cloning simulation results")
+    parser.add_argument("--output_simulation", required=True,
+                        help="zip output for cloning simulation results")
+    parser.add_argument('--enzyme', type=str,
+                        help='enzyme to use')
+    parser.add_argument("--outdir_gb", required=True,
+                        help="dir output constructs gb files")
+ 
+    return parser.parse_args()
+
+
+if __name__ == "__main__":
+    args = parse_command_line_args()
+
+    cloning_simulation(
+        args.parts_files, args.domesticated_seq,
+        args.assembly_csv, args.assembly_plan_name, args.topology,
+        args.file_name_mapping, args.file_name_mapping_dom,
+        args.use_file_names_as_id, args.outdir_simulation,
+        args.output_simulation, args.enzyme, args.outdir_gb
+    )

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/2-step_golden_gate_parts/2-step-golden_gate_plan.csv	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,4 @@
+construct_3,construct_1,part_L,part_J,part_K,,
+construct_4,construct_2,part_L,part_J,part_K,,
+construct_1,part_A,part_B,part_C,part_D,part_E,part_F
+construct_2,part_A,part_G,part_H,part_I,part_F,

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_A.gb	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,197 @@
+LOCUS       part_A                  4292 bp    ds-DNA  circular UNK 28-OCT-2019
+DEFINITION  .
+ACCESSION   part_A
+VERSION     part_A
+KEYWORDS    "creator:SynthSys Center".
+SOURCE      .
+  ORGANISM  .
+            .
+FEATURES             Location/Qualifiers
+     RBS             2332..2343
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#ffef86"
+     misc_feature    2208..2238
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     promoter        2289..2323
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#85dae9"
+     misc_feature    3162..3178
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     -35_signal      228..233
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     gene            1009..2028
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     -35_signal      51..56
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     CDS             2350..3027
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#ff00ff"
+     CDS             complement(3376..4191)
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#993366"
+     misc_RNA        87..639
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     misc_feature    2257
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#84b0dc"
+     terminator      3119..3146
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+     misc_feature    2053..2100
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+     misc_feature    2278..2281
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#ff0000"
+     misc_RNA        complement(90..197)
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     misc_feature    726..734
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     misc_feature    2274..2277
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#faac61"
+     rep_origin      51..639
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#ffef86"
+     misc_feature    2161..2185
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     -10_signal      206..211
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     misc_feature    complement(3292..3332)
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+     rep_origin      760..1008
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#ffef86"
+     terminator      3032..3103
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+     misc_feature    3158..3161
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#faac61"
+     misc_feature    3173..3178
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#84b0dc"
+     gene            complement(3376..4191)
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     misc_feature    2258..2262
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#84b0dc"
+     misc_feature    3342..3365
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     misc_feature    3204..3227
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     misc_feature    2256..2273
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     -10_signal      72..77
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     misc_feature    2029..2052
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     CDS             1009..2028
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#993366"
+     misc_feature    3237..3265
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     misc_feature    3154..3157
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#ff0000"
+     misc_feature    3180..3290
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     misc_feature    2212..2236
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#f8d3a9"
+     misc_feature    1..24
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+ORIGIN
+        1 tcacaggatg gtccaacgaa actaggcttt agacgaggga tgaatgaccg acccccactc
+       61 gtggcactaa cggacagact tccctgacgg ttattcgacc attaaagtca gacatgcggg
+      121 ggtgaataaa ttagccaaat tgtgtcgaag aaaagacgtg cggctggcac ataaggcagt
+      181 cttgatccta gtcttgcagg gatgcacgta agtcgcctca attaactgca gccgagctcc
+      241 aggttaccaa agaccctagt atgccagggc ctaacggttg gagtatatta tgggtacgca
+      301 atagtgcgga agttaacctg ggcaacatcc aggtgagagg ttggacggaa gcgacagtaa
+      361 gtggccatag actgccgagt cgtgttaatg aatcgctata cgcccatgga gttgtggggt
+      421 cgttttatcc gagtaggggc ccgctgacta cttcgtccag acaatatgcc gtcttcaata
+      481 gtctacctga gagtcatgcc ggcatttccg acgctgagtg aaacccgcgt agccaggcga
+      541 aatttgcatc ttgaaatacc actgcagatc agccagtaag gcccatataa gggcgctggt
+      601 gttctggcga cagataaagt gttatctaat gtaacccgcg gacttttaga ggatacttga
+      661 atgcgggcat atcgtcccac cagcgtcacg tggtcgggct agcggcagac aaactctgcc
+      721 gatgtttttc tttgccgcga tagcgggcta gtcaattcac tatccggcga tgaagcatag
+      781 attgttatcg cgcttatgcg gaggataatc aagtcttggc agaacctgct cgctcatgca
+      841 ctggtgaggc gtggttatcc taacaaccgc ctaggacgaa gaatgggctc ggtagggaca
+      901 gttcgtgcgt ttagcttcgt cccatcttaa tgctgtctgg agggaggcta catgcgaaca
+      961 gaagccgtgg gcgaaagttg ttgatccggg tctaacacgg ataagggcca tggtgaacgc
+     1021 atcatgcgat acttcttggt agttcttcta acatgaccgt gccatagccc ttaccctttg
+     1081 aagaagttaa cctatctgcc gtctcctgca cgaatagcga ctggactcgg gtattttgga
+     1141 tacctcacga aagcacttcg atcggccgaa gcatggatat ttcgccggac gggcccgaat
+     1201 agagagcctt gtatgtcggt tagtacaacg cagtcctgga gacatctacg cggatgggcc
+     1261 taggggctgg acttaacatt gggtaacgta cctggtccaa agtgaatgca aagcactttt
+     1321 acaaagcgcg ggtccccgtg ggtgtttagg gtagaagatt ggcggatgct acgaacgatc
+     1381 ccgctttgaa actatcatta catcgtgtaa aagagacact taacaaaggc caataaactg
+     1441 ccagtaagaa tcgctcagtg cggtgctggg gacgctaagt aggggcaaca gccagtgaag
+     1501 gacgtgaccg acctttctca gataagatat gctggcgtct atctaataag catagtgaaa
+     1561 aaccaaccat ttcacttaca cgaagtacat ttgcattgct agtaaagacg cctaaacaga
+     1621 agtgcccttg catgctgtat gtctatagtc cttagggaag catcagccct tctacttatt
+     1681 cgaggtctga gaaaccctgg acaagctccg aattattcaa tgtgcctgtc tccgaggtta
+     1741 gatagcgcta tgctcttaag agttgcacag aatgaccatc ctggaatgtc cctggagggg
+     1801 tctaggtatg ctgatcgaag ggtgctctaa ggacttgacg tgcgtccgag gagggtgctg
+     1861 cctccttcgc ctttagatcc aacgcggatc acatgcgcgt gagctaatag gatcaccttc
+     1921 tgctccgatt tttaccctcc tgggtcactt ccgaatgagg tagcgggcga aatataatgt
+     1981 ctccactcgt aggtgttccc tgtatgtgaa gctctatagt ggacaaaggt ttgatgaact
+     2041 agcccccgta tacgctctca ccgacggacg cgggggtctg ttatttgaag catcatacat
+     2101 gcgaaggtgc cttctcagca acgaaaggta gtgggagtgt acaagttcaa tgcgccgcca
+     2161 taggtctgag tatacaaggg gatgccccca tccacaacgg gattggctac ccggagagct
+     2221 ggctccgctc caacaaataa ttatattaac ctattggaat tccacctgca tatcagagga
+     2281 gagagacctt tacggctatt ctgtttaccg gatccatcgg taccaaggat cagaaagtga
+     2341 cacggtttga acgggttgtt gtaatacttt gagtatacct ctgacgctga gcgtgtcgtc
+     2401 ctgagcgcag actcaataac atagcagtcc gacatcgccg tgatatgtaa atgcaacgaa
+     2461 tttaggtctt gactcggtct accatgtcaa aagggtagcc agatttcagc gcgaaattga
+     2521 actttgtgtt tagtgtgggg tcctcggtta caaaatagga tcagacatgt gtgattttgg
+     2581 taacctagtc tggcagtccg acagacttcg ctatgatttg atggggccgg cctataattg
+     2641 gcttgcgcaa cccgctcatc tcgggcgtgt tttacttcct gcggtcccca cgccctattt
+     2701 tcgggccagc tgtaggtgct agagtgaatg ctggcgaata agattccccg ctatttggcg
+     2761 cctcgccaca gctctggcac tatgggggga gtttctctgt tccttaaaca gcacccgttt
+     2821 ttgaggtgta ttggtttcgg ttctgcatta ggcaattcgt accgtacaat caattacgac
+     2881 acattggcgg cagttatcag ctacccatcg caaagcacac acccacatgt atctattttt
+     2941 cgcaaattcc aaaagcttcg attgagattg catcggtagt ccctcagaca tgtcgtaatc
+     3001 gaatgcctct tgttccatga gagagagaag tatggcgcga accgctctgc ctttaatttg
+     3061 gttctaccat ccacgagttt aaggggcata accctgccca gcactttccg aggctcacgt
+     3121 tcatgctacg gtagcacctt tctgcgggtc tcacgctgtc aatatgcagg tgctgcagga
+     3181 atttgtctcc aatcgacttg agatatcgca agcatgaaat tatattagac acgccagaga
+     3241 acttgggaag cagcactggt agtgatagca acccgagtac agtaacgagt gagcttctga
+     3301 tcatgagctc tcctacggcg tcaatgcgac gaatgcccag catgcactct cgctatccat
+     3361 gcctgctagg gtggcattat gctcaggaac agttgtagct tggatatcgt ctagatgaaa
+     3421 tacctggaca ctggttagcg tcgtcaagca ccaaggacat tcacacgctc gcggtctttc
+     3481 gtctccctaa gcgttcggca gtcgggcgtg aagaggttgt aatcagacgg aacaaagcct
+     3541 gaaaaaattc cagcgacgta gtattcatga tcctgtacca tctgtagccg ccgcggcgca
+     3601 cgattgaatg taggctacta accccatccg tgttagcgat gtgagtttct accgcaacga
+     3661 atgctcaagc gaaccttctt ctttcgtccg caacccacaa gccgtggtta tgacagctaa
+     3721 attgtcccag acatcccttt attacacaag agctccagcg gaatacctag tcacagcggt
+     3781 aatgacacaa agctcttagt tagtccaggg actacttctg tctacagcac atcacactca
+     3841 ttatcagcat cagtgtagag acggagaaca tgggctatcc tataccaaga tccgccatct
+     3901 aaacatttga agtttcccgt cttctataac ttagcactcg acgctattct gctgagtgcg
+     3961 cttagtctgt agcgacttgc gaaatccata aactgagaat tgaaagagag tgcataaccg
+     4021 aaacctttgt ggcatatttc cgttgaaacg taccagaaca gccgtttagt gcggaacata
+     4081 cagtatcctg ataaagcact caacccaaca gacaccctat gccgatagcg ggatgctaac
+     4141 aagtatagtc atgatgattt ctcggacagc ggggtttggt acagctgcaa tccgtgattt
+     4201 aaattcggac ctctgcacac accgacggtt acccatatcc tctacggctg taggaagttt
+     4261 taccttggat gtcattctga tttcggcgta tc
+//

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_B.gb	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,124 @@
+LOCUS       part_B                  4259 bp    ds-DNA  circular UNK 29-OCT-2019
+DEFINITION  .
+ACCESSION   part_B
+VERSION     part_B
+KEYWORDS    "Source" "Sequence" "Freezer" "Shelf" "Box" "Concentration" "Use".
+SOURCE      .
+  ORGANISM  .
+            .
+FEATURES             Location/Qualifiers
+     primer_bind     531..550
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#faac61"
+     terminator      3078..3135
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+     CDS             complement(join(4216..4259,1..616))
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#f58a5e"
+     exon            2863..3060
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#75c6a9"
+     gene            2863..3060
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#faac61"
+     terminator      4101..4195
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#9eafd2"
+     primer_bind     complement(3410..3429)
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#faac61"
+     primer_bind     778..796
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#75c6a9"
+     misc_feature    859..862
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#ffef86"
+     primer_bind     complement(3159..3176)
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#faac61"
+     misc_feature    863..3060
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#f58a5e"
+     rep_origin      complement(3330..3918)
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#84b0dc"
+     misc_feature    3061..3064
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#ffef86"
+     terminator      800..843
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#85dae9"
+ORIGIN
+        1 cgggtctagc cacgcggctg aaaatgcgcc tcaccaagtt cagagagttg taatttaaag
+       61 gaccaaagaa cgtccattat gaagacacca atgagaaaag ttcattgcga tcgcagctta
+      121 gactgacgtg aagttccaac atttggcata cgtacttgtt aagttcctcc ggctatatgc
+      181 gctaggcgca ggtatattag ccggacatct gcaaggttga cgctgaagcc ttatcggtaa
+      241 tgcaagcaca acggtattgc agacacacaa taggaagtta tgttaacagg agagggtgat
+      301 gccgatgatt acgccccgcg tcgacagtac aataaaacag ctagatcatg tcgaaagtgt
+      361 aggcaaaaca ggtaggtgca ggacaggagg gttccctcaa gtcggcttgc tttatgtggc
+      421 gaatctgata cccataccgg ctatacatcg gccagggaat atcacagatt ttaaatgagc
+      481 ggagatagac ctatgggacc gcatcgatgc aagacatcgc ctacagatac ataatctgga
+      541 agacgcagat atcagtacgc tccttcctgg gaggcgtggt ccttggcacc agtcggccac
+      601 cccttagcgt ttcacctaag caacgaatcc aggactcctc ttttagcgtt tgggtgtcag
+      661 gcgcatcagg agtggttaaa tgaacgctgt acttcgcaag ataattgtga agatctctgc
+      721 tattccttaa cattaccacc aactttgcct acatatggcg taatcaaaaa tgcagcgggg
+      781 tgctcgatcg tgaaccctca atcacgatgt gctatggcgt agccacacaa catagttccg
+      841 gtctggaatt cggtctctgg agagcatacg gtgctctggg ctcacacgta cttcctcttg
+      901 tcacgcgcct ttgtagagca ttagggcgga ggtcactggg acggggatca gagagcttaa
+      961 aatcccaagt agcagtgcct aaggtgtaga atcttgtgca gatcttcgtc tggcccgaaa
+     1021 cctgggcctc cacaacaatg tcgggtcttt tataatttga aaacatcgcg ccttacccgc
+     1081 accgcgcagg acgattagac acagggggtc atgtccatgg ttcggggtaa gccaaattta
+     1141 catcgagtgt gggcttcatt gaggagaggg cgttacgata cccgttaaat gaaaacccgg
+     1201 acagtctcta actgataggc ctgataatcg ccaaatgaag tcgcaattag cagtacatga
+     1261 ctggcagata tgtcgccgga gacggtatgg gggacctatc ctaggttggc acgcgagcgc
+     1321 gaatgacgcc tatcttatcc ccctgcacgt gatggtatcg tcccaactat cttttacctc
+     1381 atcaacgttt tcctgcataa tctgcaagat ggagagtccg cgagtgcggg gagtacgaga
+     1441 tcacaaatct gccctgaaga caaagctcgc aggccgtact caggaaatag catcgactca
+     1501 cacatatcgg gaacggcaaa gagtgcatcg gccaatgcaa actattgaac gtccatgaaa
+     1561 ttgtgtcaaa ctactagtgt gtggacttgc gtcaaggcca tggcgcaata ctcaaagccc
+     1621 cggtatttat cccccgcaga gtatccgtgc ggatggagtt ccacagctct ttggacatgc
+     1681 aatgcgtggc gctacatgct ccgctgatac agaatatcta atgtctcgcc tcttgccgtc
+     1741 gaccctacaa ctactgcacg ggcagagtgg acgcgacccc tgagcggtgc agaaccttag
+     1801 tataaggcaa gggtggcacg gccgagccgc acttgctcct actaggccgt gctcgaagct
+     1861 attgatgcaa gcacagtatt cccgatttgt aaagcaaggt gcccgtagcc atacacccag
+     1921 ctactcaccg gccaatttcg accctctcta tctcagacct ccgcatattc ccaaactcct
+     1981 gctcaagtat gaaatgaccg gctcctccta aggcctgcgg acatggagtc atgcgtggaa
+     2041 tgccgtgtag gtagggtaca cacagcctta ccatgtaggg caataaatta tagactactg
+     2101 acattgattc cttgagggcc cgttcacttg tgggggaacc aggaaggcgc cgatagtcat
+     2161 cacttaaaca catgcgacgc atccatttca agaaagacac gctacgggtc tacaccgcct
+     2221 atagttctaa tttgggcccc ggtacgcaca tcgatgtact ctccattaca gcatagcaca
+     2281 tcagcggccc tagttagcgc ttctttttgt tccaacattc aatagcgggg actgcattat
+     2341 cctcacccta tttgttgcat aggtatttgg ccgtatactt gggaaagagc aaccacggga
+     2401 gtgcactaga aactgattca cccatgttat aacgcgttgc tcgcaagtcg tactgtggcc
+     2461 acgcacaggt caggcaatcg caaccatgtc ttagcagttt gtaagaagac ctttaaacat
+     2521 gtacctcaca gcaatctcgg aacttttaat tttcctgagt caatgacatg ctagctccgt
+     2581 ccacttgtaa tcaccgtcat aacacagtta gcctgcaaaa gggcgtgtac accttgccac
+     2641 tttaaagctg accgaataac ctacctacag gagatgctta gtgccacgga atgatctcgc
+     2701 aatgcttagt cttacaccca gtgaatcaac ccaagacctc gccgactgaa cggtattgag
+     2761 tccaatcccg agaggcaatt tatggccgtt agtgacagtc ggtcgctgat agaataaggc
+     2821 agactcgtct taagcgggct gctttaagag aaaatggagc cctgacgaag aagtggatga
+     2881 accaggtttt gacaacgtcc catattggta atgtaggctc gttatcaaga gataggttta
+     2941 gaaggctcaa tgctcgacgt aaaagaagtc ttaagctcta tgagccagtg atgagagcta
+     3001 attatagggc gcattcgttg gggtaaggtt gcgaattgtc atttaactaa aaccgacggc
+     3061 aatgtgagac cctgcagtcc gcctacacct ggctcactga ggcggcaacc gttatcgaag
+     3121 cagcatgtat tggtagtacc tgtcgccgat ttccttggga gtgcgctgtt gcgataacgc
+     3181 ttatttatgg tttgcgcggg atgtatctaa tgcggccgcc gcccgatcag cctgaacact
+     3241 gcggtcatga gccggtccat catgcagttc gcctgtaatt ataacctatt tgttaatggg
+     3301 gcttacagag gagcttccaa cgcatctacg agtaacggct gggatcacaa cttagccacc
+     3361 ttgtagcagg gacataccgc tttgcgacta ctgcgattct ctaacgagtc ttctgattgg
+     3421 tcctatgctc tttcaaaatc tcgataccgt agccaaccct gctgcccacc ttaaactatg
+     3481 acaggacaca ccattgtgcc aacctacacc ttaccagtag ttctgctctc caccactaat
+     3541 acgatgtcag aggccagaag gagcaccgtc aacaaacgcg ataatcaggg cggcgaagat
+     3601 ggaagtagct tgggttgtcg gtgggcaggt caggcgttag tgttatttga ataccaactg
+     3661 ttagaccaca gcgactcgaa cagtccgcaa gtcaagtgcg gtcggctttt acaggtggcg
+     3721 gattttcatt ccaccattcg ggtctaggtg tggtactaac cgcggtcata cgtggagttg
+     3781 aaccgcctga cgcactaagc tatgcgggca acaatatcgc caaagtcatt gtgttgggtt
+     3841 ttcacaacag tcacttcgct cacggccgaa ttaaatatct ctaactatta agccattttc
+     3901 caaccatcgg ctatcccagc ggttcaatcc gaatcgttac cagtgggtag ctgcagagga
+     3961 tcctaagggc gggtcccgct tactgtaact cgtcatgtct cgtggtctac caattcggtt
+     4021 agtattcgtg ccatgtatct cataagggtt gcagtttcgt cattgtcgta gttccttaat
+     4081 ggactggtac gacccggttg ttatacaacc atcaatcgtt aacggacatt agtgagccga
+     4141 ggagaagacc catcagcgga taacccgcca ttatcaccga tactgacata tgagtgccat
+     4201 actgggactg gcttcacgtg agggacctca aagtgagtcg tacaaggcag ctcctcaaa
+//

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_C.gb	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,99 @@
+LOCUS       part_C                  3423 bp    ds-DNA  linear   UNK 20-NOV-2019
+DEFINITION  .
+ACCESSION   part_C
+VERSION     part_C
+KEYWORDS    .
+SOURCE      .
+  ORGANISM  .
+            .
+FEATURES             Location/Qualifiers
+     CDS             18..3275
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#ffef86"
+     CDS             3276..3404
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#ffef86"
+     misc_feature    2486
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#b1ff67"
+     misc_feature    3411..3423
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#faac61"
+     misc_feature    3407..3410
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#f8d3a9"
+     misc_feature    14..17
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#f8d3a9"
+     misc_feature    1..13
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#faac61"
+     misc_feature    3131
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#b1ff67"
+     misc_feature    2078
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#b1ff67"
+     misc_feature    14
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#b1ff67"
+ORIGIN
+        1 tggctaggtc tccaatggtt tcaccggagc tgagatcgca ttaaagtcac actacgaatt
+       61 atttgtcccc gcggctccag agacaaattt ctaggagtgg gttcatggag aaccgtgaca
+      121 agcatggtag cttcaaatag cgtcatcgga tcttaaagtg attgtgacat atatgggatt
+      181 gcgcgtctct cttacacaag ctagtgtgcg cgaggtgctg aacacctatt acgtcaactc
+      241 ccgggatccc ggcgggttac agagacataa gcagggtgtc catcattaac ttcgatgttg
+      301 agcccgtgcc ctgatcaaac acctctcgta gtagtgggtg ccggccgtgt attattttgg
+      361 gggagaggat gcgccctaag caatttcttt ccatcggcca gccattcgac gccggcacgc
+      421 aagttgttgc gggcactgtt gcagttcccg tactagagtc tcaagtctag aggtaccagc
+      481 atcaggaaga tgggtacttc gtgtggatct tctcctgaac ctgaaacctg aagagctaaa
+      541 gcgcgtcgcg ctgccatacg ataagtcgct ctcatttccg gaagacgtcg ttgggtgatg
+      601 gcgaacaatc gcgaaacgaa aatcgcggtc ggtatgttga ttcaagacgg gctacgggcg
+      661 ggttactaac aggtgcgcag aaatgtgatg ggtcacttga ccatgaactt tcgcgccgtc
+      721 gcttctgtgg actggccggc tccctgatag tgcactagcc cgttgatatg cccattacca
+      781 tttggcggcg cagtgtgcca gcgggattaa gatgcgtggc gtacaactat ccgcactttg
+      841 ctgacgcaca aaggcaactg atggacagcc ttcgggcatt cgactggttg gctgagttcg
+      901 cctgcctatt aatatgcttg tggaaattga tttacagcgc ctacttctac ttaggtgtac
+      961 ctatttacgg cacagggata aaggctgaca gaaaagtcct ggacaggtca taggtagttg
+     1021 tcagacctac aatggtataa cttgagagtc ctgtaccgca catgcggttg tagctagatg
+     1081 tccagaagac cgtagctagc gacgagtggg ttgcacgcgc attttgggaa ggggctgcgc
+     1141 gagggtgggg tcacgggtta ttccatttct aaatgctaaa ccagcagttg ctttagttct
+     1201 gacctagcag gcatgtcata tgtatggcta gattattagt acaatgcagg actaagaaag
+     1261 cctgagactt aaatgcgttg gtttttcagc cgacgggccg ggagggcaga tggccgaatg
+     1321 cgcactgagg agtgcattgc gagggaatag gcggaccacc aggtcccctc acatactgtg
+     1381 gataaaccta cccagggaca actcacgcca tcattttcaa gagtagcact actttccact
+     1441 aagtacggtt tgtcgagagc cggtggcacc gtgcgacgag cttgtgggca ctaggcgaac
+     1501 cgggttatat aggactgcct tgcggtgcgg gaatacttta ccccgtggag aggccataaa
+     1561 agcttacatt tattgtagcc gctagcggtt tcgacgcgct caagtggggc tttatcttag
+     1621 agtatcaaat aatgccctct cagcttcatc ttgatttttg tgtttggggt agtgtatccg
+     1681 atgggtcacc ttcttgacct tggggagctc catccatcgt accaatactc cgtttctttg
+     1741 tgttgcctac cgagtaatcg aataccgcac gagggctaga atctaattta aggtgggtct
+     1801 tatccctgtt gtttggacct aacgctgtaa caaatcactt ccgcgacggg tgtcattacg
+     1861 tcttctatcc gccaccggtt caacagtgcg tcgaatgcca agtccctatt acccgcattg
+     1921 taaagccatt acaatacctc cggtgatata attgattgcc ggttggcaag ggatcatctg
+     1981 tacgggccgc gattgattgc tgataaggaa cggcggtaag gaacgtatcg cgtacgaggt
+     2041 tgtacactgg aaccgctaaa caagcggtat cgctaaatta ccggcgatta tatcaaggga
+     2101 atcttaggta gcacgaagcc ctacgccctg gaaacaggat cggcgcgagg ccgtggacat
+     2161 attagcctac gtttttttac acccagattt ccgacgatgt ccacagctaa ggctatccta
+     2221 aaccgcaaac acatataacc gcagtataaa gcacgggatg attccttggc catcttgcaa
+     2281 gcagtgcaag gcaattctgg tgataggggc aaggcagtga accgagtggt cagcgtattg
+     2341 tgaccctgca attgtcatgg cagataattg tttatgaacc tgtttcacac acccatccct
+     2401 tggatctcca gcgtagttac taatagtacg atttcctggt gttctgtcac ccgccttgct
+     2461 gccttcacgc ctgccccacg ttttgctgtc cactgaatat cgctctaatt aataggtgtc
+     2521 acactgtatc aggtaagtcc attccgggtg ctattggatc attcctgaga tgtaccaccg
+     2581 atcccatagg cgttaggtct tacatctgga gtgaaaaaga tcagcatcga actataggta
+     2641 gataaaggtc atgactgtta acagagaatc gttcctatcg caaccttcac taactggaag
+     2701 gcacccccac actttgatta gtaagcccct agcgaatgta gtgatccaag aacatcgagt
+     2761 atactttagc tctcggttca ggcatgtatg caatcgacca cccttccgtt cagagtactc
+     2821 tcaaccagca gatttctaaa ctttatagcc tccgcccact aaaattgcct tatctcaggt
+     2881 tgactcttgg atgtagctgt aatctaacat acacatggag ctgcggcaaa ttatcgtacg
+     2941 tccaaaccac caccggatca gtggcgatac tattctcgca aaaaagccat ccagcattgg
+     3001 aacaagtgtt aaccagcatt tttctgagtc ccccggaaag aaagttgact acactacatc
+     3061 cataaatgct agagtgtgga ttcgccatgt gttacaacgg tcaaccgaaa ggttagcatg
+     3121 atacttcgtt gttcaatcgg acgttcgagc gccctccctg tttatcactt gatccccctt
+     3181 ttgaaacatg tgcgctgcga cgcagggctg ggagagtcac cggaaaccaa aagcccgacc
+     3241 tcggacgtgt agggccctcc gtttgccatc aatggcgatg taggattctc ttttaataca
+     3301 acgttcactc aattaacgtc ttggtataag cgtcgaacgt gaccgaggtt gacaccagtg
+     3361 tcacggctgc gccggggttt gttgctccgc gtgtacaggg tattggttcg tgagacctag
+     3421 cca
+//

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_D.gb	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,96 @@
+LOCUS       part_D                  2682 bp    ds-DNA  circular UNK 30-OCT-2019
+DEFINITION  .
+ACCESSION   part_D
+VERSION     part_D
+KEYWORDS    "Source:Subcloned from vector Andrew" "Sequence" "Freezer" "Shelf"
+            "Box:Mobius box" "Concentration" "Use:Mobius".
+SOURCE      .
+  ORGANISM  .
+            .
+FEATURES             Location/Qualifiers
+     rep_origin      complement(262..850)
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#ffef86"
+     misc_feature    2642..2671
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#b1ff67"
+     terminator      1991..2034
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+     CDS             2054..2566
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#84b0dc"
+     misc_feature    1919..1938
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#f58a5e"
+     misc_feature    2050..2053
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#f8d3a9"
+     misc_feature    2576..2641
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#b7e6d7"
+     terminator      10..67
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+     misc_feature    143..162
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#75c6a9"
+     misc_feature    2675..2678
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#f8d3a9"
+     CDS             2618..2641
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#84b0dc"
+     CDS             complement(1148..1807)
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#b7e6d7"
+     terminator      1033..1127
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+ORIGIN
+        1 accctgcagt ccgtgaatta agaccaatcc actggagctc tatacaggac atcagcgatc
+       61 ggtcgagtaa aaccgagttt ctggactccc ttagtctgag aattgtacct tattacgaat
+      121 ccggaaatga agtgcgctca taaaatcttg atcgctaact gttttccgct ttttgaacct
+      181 acagtcagct atttcgccgc aagcgaggtt tatccccttt tgtgtgtgtc agcgggcgaa
+      241 cgtggaggac aattatgacg aatgcctaat aaccaacgta ggcttggctg gtgaggacat
+      301 tgcccttccc cttctactaa ccagtgttgt tcagatcatg taccaagtgc agtaatgcta
+      361 atcccctgaa ttctgacgtt ggatttggag cgtgattggc aattatccgc tgcaaggcgt
+      421 agtatcgcta tctgggaaaa cttagggttg caagcaaggt catcgcccgt ctctagatcc
+      481 gacgggagcc tcaccctgca tgaggaagtc ctaatccgct ctaaacaaga gctgaacact
+      541 ggatgtctcg cagtagattt gctagaatgc aatgctggct cgtgtgcagc ctcaaggtca
+      601 ccatgcttcc gttaaattcc acgctctccg agtctgctgg ttcgggataa atctacgtga
+      661 cattcgcgag gtcccggcct gtagatcgtc tcggcaggag agaacacggt tgatccccca
+      721 cgcggaaccg atagatgcca ggctagatga tgactgaagg tagtttgtac gagtgacctc
+      781 tctagccaag tattttcccg tctcttaagt tatagccgct ctcattccgg gttgtgatat
+      841 ccttcatatc cactctctgt aaaatgctgg gttgttcttc tctccacggt cagggaatcg
+      901 cctcttttcg gataaacgac attatttcgc gccacagaac ggtttggggg tcgaaggacc
+      961 ctagactttg ggtatcccac tcttaccgga tggtaccgct atctccccag ggtccatcgg
+     1021 aatggctagc cacgttaccc ttatctgtca gtatcagtct cagacttaag tataccacgg
+     1081 tagcgacagc tgtcttttaa tggcccgggc agggagccgg gcccaccgtc catggtccac
+     1141 tgtaagggta tctgcaacct tcgccgagct tcttccccaa ggaggtagta ccttaccaaa
+     1201 cttccgagtc agtatcgtca aaggggcccc tagggctcac accatcgagt ttccgcggct
+     1261 taccagtcta gcctgatatg tttcaggtca ggaaataaga ggtatagccc cgtggacacg
+     1321 tactgttcga gcggctagat gtaggttgag ttaagtacag tagacgcgtt ggataccgtc
+     1381 gaacattact ccgtctgcca agggtagccg agtacttctt ccggctcggc cattccgact
+     1441 aagttagttt cgaattgacg tgccaaagcg tggctcccag tcatttgtcc ttaaattaaa
+     1501 cataagtttt ttacctgctc gcgtgccggc cgcttgaggg ggcagcaaga agtcggttca
+     1561 aatggggtgt taagaccggt gttgcaagcg gaccatccag agttagcgtc ctcgacgaaa
+     1621 cgttaacaat cgtgagatta gaggtcgaat atccccttcg tagggggttt tattgtgcaa
+     1681 gatgcgcaaa tgaaccccaa ccttgcgggc ctgtagcgaa caggcgaaaa ggtccaatac
+     1741 ggcgcccgat gcaccgtaaa acaggtcctc taactgtgtg ttctacgctc tccggatcct
+     1801 gtatataaga acgaatcccc ttttcctagg gcccggccgc gtagacccag tacacttgac
+     1861 tttcacgaag atccatccta ctcccatacg cttgagagtg ccaacgtagt ttgtaaccga
+     1921 ccttgcctcg gctagaaagg cattttgtcg catgtggcca gcctgtcagg gcgtgctcta
+     1981 ggcttgacga ttagtgctac gggatgattc gtaaccgagc tgacgggacg cctctggaat
+     2041 tcggtctctt tcgatggtgc ctcctctacg tagatctact ggataaccgt ccccaatatc
+     2101 cgcttcccaa cgtagattgc cgacaggcat aagcttcggg ggcgcaaagg ccgacgtccg
+     2161 cattgcagtg tagctttgtg agcaggaagt gtgatagtct ttcgattatt aaagtctgag
+     2221 ctgaatgaaa aaaggtccaa cgaatggagg acgcgaagac atgggtgtct cttatggccc
+     2281 gagcgggagt aatggcggtt cgtacataaa ggctgaaagg attctggcgt tagctgtctt
+     2341 acgttggatt ggcccttcaa attatcgatg ttagctgatt cggtgtaccg ggcgaggaaa
+     2401 gcgctctcag aacaacttca tatacgaggt tcgactataa tggtctaagc tcctgggcta
+     2461 gtctcaagaa gcgggtacct ttagtagcac gtatcgacgg caaagcaaag aataaaaact
+     2521 tggctttgca tcgtgcaaag atttctaact aggttgttta agggctggta tctatgtccc
+     2581 gctataacag cgcgcctaca gtagaagttt aaccatgaca tacctttgaa gtgttcgtat
+     2641 cacacacaag gaaggagcat gtggacacca ctgagctttg ag
+//

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_E.gb	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,38 @@
+LOCUS       part_E                   347 bp    ds-DNA  linear   UNK 20-OCT-2019
+DEFINITION  .
+ACCESSION   part_E
+VERSION     part_E
+KEYWORDS    .
+SOURCE      .
+  ORGANISM  .
+            .
+FEATURES             Location/Qualifiers
+     3'UTR           21..330
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+     misc_feature    1..13
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#faac61"
+     misc_feature    18..20
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#b1ff67"
+     misc_feature    14..17
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     misc_feature    331..334
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#f8d3a9"
+     misc_feature    14..17
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#f8d3a9"
+     misc_feature    335..347
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#faac61"
+ORIGIN
+        1 tggctaggtc tccgctttga tcagcacgcg tctcagagtt tcagggggac ccaaattact
+       61 ggtcctcaat tgggacgcga ccgcatctcc ccacgaaagc ttatggggat tgcccactgc
+      121 ccagcttcaa atctgaaggt tcggcttatt gacagggtct aacacgcagc tcaactgctc
+      181 gaggttagag gcgtaatgac gggccccgat agccttctac gattacgtcc agcaggaacc
+      241 ccacagcttt tccctacgtc taacaccgtg aaagcaaaac tgtctgccct tttacatggt
+      301 ctttaaggaa tctctgcact tatgttatta ggtatgagac ctagcca
+//

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_F.gb	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,74 @@
+LOCUS       part_F                  2470 bp    ds-DNA  circular UNK 20-OCT-2019
+DEFINITION  .
+ACCESSION   part_F
+VERSION     part_F
+KEYWORDS    .
+SOURCE      .
+  ORGANISM  .
+            .
+FEATURES             Location/Qualifiers
+     terminator      1991..2034
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+     terminator      10..67
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+     rep_origin      complement(262..850)
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#ffef86"
+     CDS             complement(1148..1807)
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#b7e6d7"
+     misc_feature    2054..2462
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#faac61"
+     primer_bind     complement(2351..2371)
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#85dae9"
+     terminator      1033..1127
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+ORIGIN
+        1 accctgcagt ccgctcacgg accgcaagga cgggctaatt aggaggcaac gccgatgggg
+       61 ccgcagttca gcgctgcaat gtttgctgaa cagggatgtc acgcatactc gtctacaccg
+      121 cccgtgaccc gttatcacgg ttgaagtgtc gaggactagt gctgccgctg cgtgagggac
+      181 acaagctgct atttgtccat acgccatgtg ctccgagctc atgctgccat gagacaatga
+      241 gacatgtcgc caataatcga gtgacgagtc agaatgacct ggctccgcat aaccgttcaa
+      301 agttattgac aacgcatctt tcgtagttcg tgcagcagcg gtctttcttc tatagccgac
+      361 tagatgttaa gggactcctg gataccgcta gttttaccct ctccaggaag ccagcgaggg
+      421 cgtgccgcaa gtcccaatag ataccgggca tgatcaaggg gccctgtgct ctgagtctgg
+      481 aggcgacagt gcgctgcagc tcagaggtgg ttattgcgaa ccggcaccgc tggacagcac
+      541 ccacggggac acgtaagtaa tttagggtct gggccaacgg ctcagcgcca gtaggattaa
+      601 caaactcgac taatcaatgt gccagctact tccgccgggt ctgacggggc ggcacccatt
+      661 accatgtgta ctgaataggg attccgagcg accgtaaagg cgttcctaag tgtcatatac
+      721 tggcaactag aggcactcac atcggggtta agggcccacc gtaatggcca cgcaggatac
+      781 caattggccg ggtgaggatc tattcacgcc gatggggagt tctaagcccg agttattggt
+      841 gctagtggct tggacctgtg tgtcgatgat gcgcgatata gaggcgcggg actagctggg
+      901 gtccacaggt gctatgttgg gtgcgctcta tggacgtccg gaaagagact aatgcaacgg
+      961 tatggcatca agcgcgaccg atggggagac tggaaattgt gaaatagtgt actggcgcga
+     1021 tcattaaata ttgcatacgc tgtccgttat gacctagagg ggattatttg aacgagaggt
+     1081 cttgggaact gcattggaga tggtcagatg gaatgcgaaa tgtatcacca cgggcggccg
+     1141 aaggggagac agactatccc tagttggctt cggtaaccgt aatcagatgg aacggcgggt
+     1201 aatgctgata ccgagcgctc gtacggcgcg tggtgatgac acggtctgat gtcgtagcaa
+     1261 acgagccggt cctcgtacaa caggctcaca tctcaatcac gcataccaac cgattacata
+     1321 acgcgatcta tatttgggga actctactta ctaccctgtc tgcagagtgc gttctatgat
+     1381 cctcccctac gtgacggcca acgattagtc ggcctaggtc taacggataa aaggactccc
+     1441 cagtacatgt gaccatatga gccaggccgt cgagcgcgac cactccccag cctatagtga
+     1501 ggaggagcgg tattcggtta aagtttagct agcgactttt ttgtcaccga agtagggacg
+     1561 ggcatattgt ttacccttaa agcggggatc aatccattgg ggtcggcagt cataaaagga
+     1621 tctaagcccc caaagcgcat ggtaaggtac tcccgggttt cccgaaatct aggcaagtct
+     1681 cggtgggtgt cagcctgacg agtagggcac gttaccgagg ccacggtgct tgatgactac
+     1741 gggtgaatcg aaccgatcaa acgcacagca tctaaaccct ggtgtactgg tccacagggg
+     1801 gacaagtctt tgaagtgtcg cttcagatga cggccgcggg ccaatctgaa ttgttagaca
+     1861 ccgacagtag ggtgtgcaac tcgctcgggc aagagtgtaa aggcacatcc tccccgaggt
+     1921 aagttatacc gctctaacgg cgcgggcagc ttttcaactc aacacttccg cggttcagtc
+     1981 ctgagcatta ggctgcatgt ctatcacaag aggtgcgggg aacgacaagg gctctggaat
+     2041 tcggtctctg gtaagctccc ataagagcac cacttcgtgt accttgctaa ctcccttcat
+     2101 ccccacccgc gaaaacttaa gacgtcaccc ctgttattat cccgtgcact cctaaagtgc
+     2161 gatgggcaag aacgcaaaca attgtctgag atttatatgg gcggcggaca tagtcagaga
+     2221 gccttatata atctcccacg tcttgccagt ccgagttatg agaaacccgg gaccgatgac
+     2281 gctattacgg tcgcccagcg aggttcaaca gagcgaggca taggagtcat tacgcgtgtt
+     2341 agcttcaaca tgcgtggaag tgaaacggat ctataaaacg gcgtggagtc atcagcttga
+     2401 gcagatctaa cttactcgcc acgcgcgcaa atcgtctttc gctgtccacg ttatacgtaa
+     2461 ctcgcttgag
+//

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_G.gb	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,36 @@
+LOCUS       part_G                  1119 bp    ds-DNA  linear   UNK 25-OCT-2019
+DEFINITION  .
+ACCESSION   part_G
+VERSION     part_G
+KEYWORDS    .
+SOURCE      .
+  ORGANISM  .
+            .
+FEATURES             Location/Qualifiers
+     GoldenGate      1..13
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#faac61"
+     GoldenGate      1107..1119
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#faac61"
+ORIGIN
+        1 tggctaggtc tccggaggaa cttctatggg acgaaagatg cgcagctcga caaatctcaa
+       61 attggaaacc gtctaaggtc tttgagccca cgctaggcca ccgaatagtt gcgagctcgt
+      121 gggcaattgc tggctagcgg tttgtatcgt atacgtaaca agagattgcg ccggattcat
+      181 tcgtgtgggg tgctttcaca tcggaatact caagagtggg ggtttgcgct ttaatatgac
+      241 ggcctcatgc accccaaaaa taagagcgcc aatttcatcg accacattcc ggacaattct
+      301 gacttccctg tcggatcgac cctcgctcac aactcctaga actccaagac ggtaggacgt
+      361 cagccgaaaa ggaggagtga cgacgggccc tcctagctga agcaatgggg ggcgtcgacc
+      421 ctagcctggt gtgggacttc ggagggtcgg gcgtgtggcc attcctgcac gaggggccct
+      481 tgcagtatcg aactttgacg agaaagtggg gggcgaccta taaacatagc ggagttcaat
+      541 actcctgcaa gtgcatgatg acgttcagcg ttggcacatc gaacgcgtcg ctacacttgc
+      601 tcaccggaag gcaaaataga ccggcagctg gcccgcacgg acgtctagac tcctacgctg
+      661 tcaaatgcac gatgactatt agcatgcgga attcgaggcg gccggtacat cgagacacgc
+      721 tggtcttaat acctgtgtta tgtcaaaaca agtgtctcgg cggctttgta ctacgctgtg
+      781 aatgcgcatg atgttgcgag aagctgaacg ttggtagcag tctacaacag aaccgacgag
+      841 ctacggacgg gttacagcag gatcccctct taaggcatta ttcgacgact ccaggttcta
+      901 accgatcagt aattgcctcg gatggtcgta cgtgttaacc gagacagcaa ggcaccacat
+      961 agacaactgc atagggcgcc tacaggtcca caatcagggt ggcccaagat cctcaaagac
+     1021 ttgttgcagt ctctgcttat tccgtttaac acgttgtgtg agctctagct tactacctca
+     1081 tcggtgtcgg gagtgattta ggaatgtgag acctagcca
+//

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_H.gb	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,109 @@
+LOCUS       part_H                  4246 bp    ds-DNA  circular UNK 07-NOV-2019
+DEFINITION  .
+ACCESSION   part_H
+VERSION     part_H
+KEYWORDS    "creator:militzis" "marker:SmR".
+SOURCE      .
+  ORGANISM  .
+            .
+FEATURES             Location/Qualifiers
+     primer_bind     1966..1982
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#a020f0"
+     terminator      3774..3860
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+     rep_origin      complement(63..651)
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#ffef86"
+     CDS             2015..3667
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#ffef86"
+     promoter        1987..2005
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+     CDS             complement(744..1535)
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#b7e6d7"
+     misc_feature    3667..3670
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#ff0000"
+     terminator      3952..3979
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+     primer_bind     complement(3694..3710)
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#a020f0"
+ORIGIN
+        1 aacatggatc cgttacacaa ggtctactcc gcgatgtggg ctcaccccct agatcccttt
+       61 tcctaccgcc cgatcgcaaa ctacgcgtag cttcacggct ctctgtctgt cggctgacct
+      121 gcggctcatt tttcatccat ttagtatagg ttgcaagggg tgtgactgat ttctctacat
+      181 aaagaagcct atagtaccac atgcaatgcc gatccggtga gtgctgtagt ccttattccg
+      241 gcttggtggc ctcctgccac ttaggatcgc aacggaattc tagttcctaa cgtcccttct
+      301 acctgattaa gtgagagaaa acggaaccaa cctaagacat ctatgcatcg atgttttaca
+      361 atgacgagag tgctccatgg ttcatactgg ggacatagtt tcgggcattt aggcccgcaa
+      421 gagttcgggt atctagtttt tccgtacgaa aaacaccacc ttagaacagg tcacacgagt
+      481 acagagagta aacccgtaat gttttcaccc attccccgat ttgactgcaa acaaacaagt
+      541 ctccccgtat cgcttcattg ttttatcaac gggggcggaa tcgtagacca ataattaacg
+      601 acaactctag gcttttcaac cgacgggggc aaagtctgaa atgcctgaga aaggcacaac
+      661 gacggtggga ggggcccctg caaatattgt tctagcactc caggattcac accaacctcg
+      721 gggccagcca ttccggtact tttggttata cggcaggata ccacgtccct aagcggagta
+      781 tacacggagt tgccttagcc aggtacccgc ttaaccgtcc aactcccctg agtggtacgt
+      841 ccatcacgcc gcgtaaacgg tttccaaaag agtaagctta ggcattcctc acctgtcacg
+      901 tccctcttaa gatccctgcc tcgaactggg atcttgtaaa aatgtggcca tgggagcagg
+      961 agttcatgtg gggcgacggc gatcggacgc ccctttaaac cagagccctt gacgctagga
+     1021 gatcagtaga gttacccgga atgagatctc taatctaagt ttgatacgac gaaagcggcc
+     1081 tgacgggcgc tactcatgct cttagaatcc gtcacttatt ctgccacaga tccgaggtac
+     1141 tgtggatgtt atttgcggag actggcctcg gattaggggt actaagtccg agatgtcatg
+     1201 agttaagccc aattcactag ttgcattgtc aacgagtgga cctccaaaac gatgttaggg
+     1261 tcactacccc aagcgagcac ctccgctagg accacacacc cccactttca aggtattttg
+     1321 ttcgcatcac ataccgtctt ccctttgcgg tctaatagtg aagcttggga caaggaacgg
+     1381 ccagtcgcag caatactacg agtgagagtc ctaggcgcaa ctacgtaggt tccgcaaacg
+     1441 tgttgtggat tactgttgag gtttgagttt atccggaggg ctgtgtaaga attaccagct
+     1501 agtcaaaagc cctgcatggc ctgatctcat tagatacctc ggccgggccg aggcaaatcc
+     1561 gtgaacaaaa accatgcatt tattctatca tagaaacatt tgttacacat ctactggccg
+     1621 tgtgccgtga acaagaactc aatttagtta tcaagggact gctgtaaacg gagccgcgtc
+     1681 acccgcgtgc acacgtgtag tgcttacgcc ggcccccgtc cagcgacacc gtagtcaagt
+     1741 aaaaaatgcg tattcacgac ctcacgtacc cgtttcggag ggtgccttga cgcatagagt
+     1801 tgtctgtgtg attggaattt gtaaggggtc cgcccatgta aaatagagcc catgtcttac
+     1861 gaggacatga ggaaacatag gttctggtgg ccttccaaga agctgcctct acactccttc
+     1921 tctttaatca ccgaaaacct taccttgaga ggacgtcatt cgtcaaaaca aaatattggt
+     1981 ggcaaattaa gattaccact ataggcggtc tcaaatggaa gacgcgttta gtcttcggcc
+     2041 cccagacggc accggcagag ccactgccaa tgccttttac gctgaactct tcgactttgg
+     2101 catgtgcgac tgactatacg ccgatggccc taccctgcag cggaaaggca cagggccaaa
+     2161 aacagtggaa gcgcaccgct agagctttac taaatccttt agggtgaacc ggtgttcagt
+     2221 caacagaaac atatgactag tccttaatgg cactactaaa ggcggcccat ctcttttgta
+     2281 ggtcacgtct catcgtttag caagcgtccg ccatccgagg agtatcctag tacgtgagag
+     2341 ggtgttttac ctcatcacat ggtttttggc tagatgtggc agatgccagc tgatacctta
+     2401 caacccgcta taacggtttc tggatcgacg atacaacctg cttcggcata tcataatggc
+     2461 ggcctcatag gacttccaat catggttatg cgagtttgat gtgttgaaga ttgtgagggg
+     2521 aaaccttttt ccgagtacgt tgaatctgcg actgatggtg aacaactcat cgagagggat
+     2581 gtgcgggcag tctccttgat gcgcgaaaag gagtcgcgac cgcgtgttcg tgacgcactt
+     2641 gatgctagac cgtaggggct cattatctcc tgaaacagta gctagctttt ggtgtccgag
+     2701 tcagcttagg cacagtaatt gaaaagaagg aaatgcgtga aaactaaacg tagacactcc
+     2761 ttgctaagaa ttccctggtc tttttcgagc atagactacc gtaggtaaaa ggcttgtcgt
+     2821 gtcacaaata gacttgatct gttcggcata tacacatcct actgcttcag taaccaagga
+     2881 cgattctccg gccattggac tgtgggacca cccgcgttca aacggaatcc tctacgaacg
+     2941 gttaagaaag gagcccactg cttgcggaga catatcgttg ctgagtggta caccggtgag
+     3001 tcaaaaagta ctgacactac tggtggactc tcgggtacga tgtgtggggt attggcatac
+     3061 tatggcgcta agcgtggaat agtgtttcca atagcccttt acctaagaag cattctgaca
+     3121 catgggttgg acttttacac agacctataa ctcgtatccg gcctggtgat gtatgtccgc
+     3181 ttatcactga atgcaggatt ccgccaattc cgctcgcggg ttctcggaca acgggccatg
+     3241 gagatggatc aatgagccat gttgattacc atttcactac acacggttag tcaattccgg
+     3301 agatcataat tcgacaattg aatatgcgtg atacgctttc tgttaccagg atcgttgcta
+     3361 attagtttcc aatgtcacag tgttgggcgg cgaggtatca cggcgctctg ggtagaatgg
+     3421 cggtgcctga ctggacctca taactggtaa catacctatg accaaaggag gtcagacacc
+     3481 gatgagtcgg tgacatgggc ggtcacagcg tgccctgcat agtaatacag ctcgtttcta
+     3541 gacatttgtc ctaattcgcc acacaagtac gagagcgggg gtaacccatc accatcgtgc
+     3601 ccgtaggtac ctaatcttca tcgagcgcta ttgttaaagt ggactcaggg atcggcatct
+     3661 cgtgtagctt tgagaccggg gcccgaggat gtatgccttg catggaactt gactaatctc
+     3721 agtaatactg gccgtgtatt ggtgtgtctt ccttggcctc acatgggaac attaccacat
+     3781 ataacatcat ggggttcagt ctattactaa cgaagtcact aaaacgtact cgacggcgca
+     3841 tgcgagtatc gacgtagcgg ttggttacct taagctgact tggtctatgc atacactgat
+     3901 tagcttgtag cggtggcctt cgacgtctgt atcgtaggcg ttgtttgttg caaacacaaa
+     3961 cgacctagcg tcaagacccc ttctagagaa agagagtgac gactcttgtc agttcaactc
+     4021 tgtggtacgc cgctgcgaga tgcgcgttgc cacggcagac cccatgaact cgttcaagct
+     4081 aaactctagt tcacgctaca tgtgtttgtt tctgcgtacg caaaagtact aggtacagct
+     4141 atcttttggg ccccaagtgg gaccacactt tcggtcttcc tagcaaggct ataaaaccgt
+     4201 atggcatgag tccttgatct gcatttcgtt tagacagagc gagatg
+//

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_I.gb	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,69 @@
+LOCUS       part_I                  2396 bp    ds-DNA  circular UNK 29-OCT-2019
+DEFINITION  .
+ACCESSION   part_I
+VERSION     part_I
+KEYWORDS    .
+SOURCE      .
+  ORGANISM  .
+            .
+FEATURES             Location/Qualifiers
+     terminator      1991..2034
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+     terminator      10..67
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+     rep_origin      complement(262..850)
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#ffef86"
+     misc_feature    2054..2388
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#f8d3a9"
+     CDS             complement(1148..1807)
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#b7e6d7"
+     terminator      1033..1127
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+ORIGIN
+        1 accctgcagt ccgcatccaa gcttgctggg gcctctatcc gggacctgct tccgtacccc
+       61 gtccgcctat caggctaacg actctgcctg ccattcaggc tcaccggcaa gttggagtga
+      121 cctcttcatc gatacaaata gcgcatacgc cagacatacc gcccacgcac tcgaccataa
+      181 aattccccgt cacggcgcgc acctccacac tccgtggcct aaggaacgtg gcagccggct
+      241 gggccacttt ttagactacc atcggctcat ttttagaagg ccaccggctg tccgtcaatc
+      301 gtacccgttt aggcctcctt aacacagttc cgaatagtta cctcaagatg cggatacagg
+      361 atggctcccc caggggtcta gttcagtctt ttgtcgcctg cgcttgaacc tttatgcagc
+      421 gatccacaaa cggaacaccg agatttgtat ttgggagggc aggctttgga ggaacggtgt
+      481 atgtactttt gcttggtacc ctaggtaccc cacgatctaa tcggtcttcc tgacaggtga
+      541 cagaggaggc cgtaactgcg accacaggct aactgcggcc ttaacttatg gtcgcgaact
+      601 gcataagggc gtcgccgccc gttgtcagtg cgaattctgt tagtcgtcgt gtacaccttc
+      661 cggtctaaca tctcgtagtt actagaagag cggatgggtc ctgtaaagag agcaggttcc
+      721 cgtcttctct cactttaccg gtactggtgt gaccgggtgt gagtgatact gtgattccgc
+      781 tactattgct atgcctgccg tcgtagctag atacgatccc agaacatttt gggctgattt
+      841 caagtctctc cgggattccg taacgacggt tctcgaactg aatagctttg agatatcgca
+      901 atattccttg gttgactctt gtccccggga cacaagtcgt gtgcaatatg tatacgtcag
+      961 tatgctcgag actcctaagg ccgcatatct atgctatcac tattgcctat gcagtaactg
+     1021 gctaagcttg tggggtactt gcacatgact catgtcaagg tcggaggatt cccagacagt
+     1081 tggcatcatc agtgcgttca aggcggggag cgaccagcca gatattgatc gacgaggtgc
+     1141 cacgaagtgt tccaaggtta tttttagtat gttacatcca tcagcgggtc taggccatac
+     1201 cggtctatat tatggtgagt cgtataggct gtaatgccgg ctgcacaatc tacggccgat
+     1261 tgcacataaa atggtcaact aacgacaagc tctgattctc aacttggata aaccttatca
+     1321 caaaaggtcc gacacggttc agccgaggta aatcaaagtg attatgactc caggagcgac
+     1381 acaaagttgc actgtctact gttggtcatc accgtactgc aaacgggtaa agatacttag
+     1441 ctttgttagc tattgcagaa cctaattgct ttcctgccct aaggcgatcc ggatcctcta
+     1501 tttatcaagt taattatcag agcttagctc aagtcaaagg tcttagtcag gtatggttta
+     1561 gtcggcttat ctcgctccga taaacccctc gcgcctcgga ttcattcacg cgtttatatg
+     1621 gtgaggggcg acccgtaggc tagtcgcact cctcggcaat taatcctaca gaaacctaga
+     1681 catgggagtt gcgatcctcg agatacggcc tgagagggtc ggcaaagtgg gtgcttcatt
+     1741 ctcttcggcg gagttcgcag gctctagaat gcctggtttt catctcgaca taaattacga
+     1801 tgttatctcg tgcattatta ccccttttct gcaggtttta agtcgagtct agtcttacta
+     1861 acgctgttct tcccgagaag gtgtccaggt tagatctcgg catattttca ctggcgcgct
+     1921 atccgacagg aagacagcac ccgttaagcg ccccagtcac atcaagatca gtcctatgtt
+     1981 gactcttgct ggaggtcttc tcgaatccag ctaatgttgg attacccgcc cctctggaat
+     2041 tcggtctctg cttttattat ccggcatgca tgcggcgttg catcgcttca tcgtcatcga
+     2101 catatcgtta gcgggactta tcagggtccc atcacggctg tgacagctgt tcataagtgt
+     2161 aatagcagtc accccaccaa atgcaagact gttcccaaac taagtgctag ggaggttggc
+     2221 tacctatcgg cgtggcagtt gaccgggttt ttcttagtac ctgccttcca atctccgata
+     2281 aaagcaagat gacttcctgc ttgcgctaaa gtctgaattc gctaaggggg cagattcatt
+     2341 accagagact gccaaagtca accgccgaac gatactggaa tatatggagg tatgag
+//

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_J.gb	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,196 @@
+LOCUS       part_J                  4380 bp    ds-DNA  circular UNK 31-OCT-2019
+DEFINITION  .
+ACCESSION   part_J
+VERSION     part_J
+KEYWORDS    "Source" "Sequence" "Freezer" "Shelf" "Box" "Concentration" "Use"
+            "creator:SynthSys Center" "marker:SmR".
+SOURCE      .
+  ORGANISM  .
+            .
+FEATURES             Location/Qualifiers
+     rep_origin      join(4298..4380,1..166)
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#ffef86"
+     promoter        1442..1476
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#85dae9"
+     misc_feature    2345..2362
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     CDS             complement(2550..3341)
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#b7e6d7"
+     misc_feature    1187..1210
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     misc_feature    1366..1396
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     CDS             complement(2550..3455)
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#993366"
+     misc_feature    2421..2449
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     -35_signal      3766..3771
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     CDS             167..1186
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#993366"
+     misc_feature    2526..2549
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     gene            167..1186
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     -10_signal      3744..3749
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     CDS             1503..2222
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#ffef86"
+     misc_feature    1409..1426
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     -35_signal      3589..3594
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     terminator      2227..2298
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+     misc_feature    1319..1343
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     misc_feature    1370..1394
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#f8d3a9"
+     misc_RNA        3625..4177
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     terminator      2314..2341
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+     misc_feature    2364..2474
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     misc_RNA        complement(3628..3735)
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     misc_feature    4264..4272
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     RBS             1485..1496
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#ffef86"
+     misc_feature    2353..2356
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#ff0000"
+     misc_feature    complement(2476..2516)
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+     misc_feature    3539..3562
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     misc_feature    1427..1430
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#ff0000"
+     -10_signal      3610..3615
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     misc_feature    1211..1258
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+     gene            complement(2550..3455)
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     rep_origin      3589..4177
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#ffef86"
+     misc_feature    1414..1419
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#84b0dc"
+     misc_feature    2388..2411
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     terminator      1409..1411
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+     misc_feature    2357..2362
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#84b0dc"
+ORIGIN
+        1 ctcatgggag tgtagcgcta gccatagttg acctgtcagc cggtcaaggt tggtccgaac
+       61 ctagccagtt agacgaccag ctcccccact attgcacagt gcctgtataa gcacgtcagt
+      121 gtctggcacc actgtgcgcg gtgtggtcct cgggacgatc ttcctacggc tacccatgcg
+      181 ctagtgatta cagacgatcg ttttttcttt ttctgtggtg caaatacaca agatacgtca
+      241 agagtcctag cagcctcatc ttgccaattg caggggtacc gattcaccca tggtatcagt
+      301 cacgcaaaaa aagacgacat cggagttgct ggcgactggc aaaagaaaac atctatctgc
+      361 cgtggcgttc gtctagcgca gcgagccgac tgactactcc gttatctcaa atttagtttc
+      421 gtaagatctt cacgggagcc ggccagctga agaatctata ggtctaccgc tagaggaagc
+      481 ccgtttacaa ccgacgtact agtccgacag caatcgtcag catgccaatt tattgtatca
+      541 ggttgagaat gcaccactac ggaatcgacg tgccactggc cgcacgatac tagtgcgctg
+      601 gtaaacaggc caggagctct aaatctggag tggtgtgaat ttaaccgcgg aacgattgtt
+      661 gcacgcggtc cctgtgactc tgttgggagc actgtccccg gctccggata agtgatgtga
+      721 acgaaaaggt gggctgacca gagatagggt taaggacggg cgatcgtagt ggacgattac
+      781 tgctgatctt ccgagcactc tgagtcgcgc ggcgtatcgg gagttacccc gctcgctaca
+      841 catctgaatt ccgccggata ctatgggtgc agagtggatc accttttcgt gacccgtata
+      901 ttcgtcgttc tcatcactgt cctccgcgat ttatttcaat cgtcggtttc gccagatgca
+      961 ttcctgggga agtcatcgcg acagtgcgct gcgcgcacag ctcttcttgg tttattcgag
+     1021 attgtggttt atcaacatgg tctatctacg gactgattag aatattccca cgttaagccg
+     1081 acgtgcattg gtactggctc cttaattaag cgcagagggt aggcgccttt tcttgtgcaa
+     1141 accattatat gaggaactag caaacactat ggcgcaatat gtccacgtga ctcgagcatt
+     1201 ctgtgttgcg gtagcgattt cactagtcac aaacggatag attctacggc gcacccggtg
+     1261 catcgttgta tgttcagcaa tttggtcata tcccgctcct ctattcaatc tcttttttcg
+     1321 tcaggggggg cacatacttg gagcagctgc gcctaacatt acaataagca gtcggagctc
+     1381 agtacaaaac ccttatctta gcggtccgtt ctggaattcg gtctcaggag atatgcaggt
+     1441 gtttacggct aggcacttac gcgaaatttc agctcgcggc aaactgtgct tatgcgactt
+     1501 cagctagtcg tcatcgagtg ctgacgcgct tgttctacct taaggtgccc gctatcgcat
+     1561 tgtccagggt tcggctatga gggtcggaac cagatcgcac ctacatgatg tcacgatact
+     1621 attattcacg tcgttagaga acggacggtc cttcgtcctc acaggaaaat tattagaaat
+     1681 ggtcaaccgg gtccacaaac gggcaattgc cactttggta gtacggttgc acataagatg
+     1741 atatttacgc cttctgcgtt caggttacga tagtcgttga tggggctcgc tccgggtgaa
+     1801 gttgatccag taaaatgggc gtcgatactt ctcctgtgag ctaagcgtct aaattcattc
+     1861 ctagtctcgt gacgagaaca gaaaagacta aaccacgcgt gatggacctt ggtaagcgct
+     1921 tgtcggtcta acttgtctca tctcacacgg tatgttcttg tgagcgctga ccagcccgtg
+     1981 tccctgacgg ggaattcatt ctaacttacg gcttgggcgt cgtgatgttt cggaatccag
+     2041 gatattacac agtagatgta gcttgtggcc gaacgagtgt atttcctgcg tcggattacc
+     2101 tcatttcttg ttaatctgcc tacaattaag ccctttcagc agccttccct ctcgtttata
+     2161 tttcgacagt caccgtgaca gtgtgatcga gctgtgggaa aatcacaata tagacgttag
+     2221 ttgcttcgac agaaacggcg aatgtacgcg gttgtgatgg atgagacagg ccattcaatt
+     2281 ctattcagcg aagttcagat tggttgctac tgctaaagga tgcgcatttg tcctttctgc
+     2341 gcacctgcat atacccctaa gatgccagcg caatacggca tcgcagggca agcaacaccg
+     2401 cacagcatgt ccctaaaggg aagatttaat acggactcag tcaagttgtg agaaacgaca
+     2461 atacattgag tggaatgccc tttggtacgt tggcgataga tctaacgaga aacttcaacg
+     2521 agatctagag tatcggactg agatgcatca tggctaggga ttgctgaatg gatatctttg
+     2581 ccaaaatgag ctcgactagg aatctcagac tgccagctac gaaaagctgg gggatattca
+     2641 tttccgctct tgtaaggcgc acgatgaccc tgtggagcaa aattcgacgc ggcaacgtag
+     2701 tcaaagtacg gcctatctgg gacggagatg ggattgtttc tgtattcatg ccggcctctt
+     2761 gagattgtaa ggatacccgg ccacagtctc gtaagaaacc cgatatcgct caaacgaatt
+     2821 gacatcagtt agggcttgcg ctctagcaac cacgcgtcgg gtgttcgact gaatttaaga
+     2881 tccagcgcaa accattcctt aaaggcggtc caggtgaaac cggctctgat aatgtacagt
+     2941 ggattgtcca gttcgcttca aagtgcaatc aggcaaggta ctggcaagtc accgcttggg
+     3001 gccggtttca gtggagcttt atcgacaaaa ggccgggccc tttggcctag agctcacttt
+     3061 tggtgtcgtt cacgagtgag aactttggct cgcagcttga atgcttgtca cgtttagggt
+     3121 tatacaacgt ttctataaac tacctatgac aaatcccgat cttctgaaac tccataagga
+     3181 ctaagagagt ccgcgacagt ttcacttggt cggtgctatt gactatgtca cgcatgcccg
+     3241 gtaaagcttt taagcaaagc ctgatatatc acgggaggtt actcaaagca ttttctaaag
+     3301 ggacagcgga ctcacattag cctaatataa acccgatcag gccatgcacc tcgattcacc
+     3361 ggaaggtagt accatgcacc ggatatttgg gacaacagtg aatagtacat cgtaaaatgt
+     3421 caaggcctag ctatttttca ctggtgtctt atctctatta caacacacac ggatgtcccg
+     3481 agcctacact ttcaaatata ctcaaggttc gctgttaagg gtaatacaag agtgctcggt
+     3541 ttagtatcca tatgttggta caagtgactg tgctagccgt aaattaattc ggcttccatt
+     3601 ccagcttggg tgtttagggt ctagacggtt gaaaccagaa agagtacaga caaaaccgta
+     3661 gctctcccaa ggttgatcct ccagacacct acccacacta gtagcgcagg cctagaggag
+     3721 acgttaggag cggaattgta cattcagtat cgcattaagc acaaagacag acaaacctag
+     3781 aagccactta tcccctcgta ggagtacaac ggcagcgctt tcgggaggag ttgcctaact
+     3841 acgctctgga cagcaagtcc cagaatgaag aaaatgactt ggcgagaacc caccactaca
+     3901 tgcagggtct tgggaccggt cagcacagct tatccatgcg gcaattccgg acgaccgcga
+     3961 atgaggatca cgacactgcc gatgttgcac cattgacctt ctcctatgca acaagggctt
+     4021 aagatggtag atggtaatag agtagcctgc gaccttatgc ggtaatacac aaaaaccggt
+     4081 aaacagtgcg ttgatgctgt gtgctggcgc atttgtgtac cttgctgggc tcgtataaaa
+     4141 ttctgtcagc aggacgttca cctcccttct gctagtcgct aggcacaaac ggaaaaggtc
+     4201 taatcgcgcg cgtgctcgtt agagtactgg ggcctcccac cacggatgat cacctcgccg
+     4261 atacatttgg ccttatgtct caataagacc tcatggtcta tcctacacca tagatttgga
+     4321 aagtctagtt gctgcctagc aggctgatag caagcgtcgt acgaggatcg aggaagggca
+//

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_K.gb	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,108 @@
+LOCUS       part_K                  3634 bp    ds-DNA  circular UNK 28-OCT-2019
+DEFINITION  .
+ACCESSION   part_K
+VERSION     part_K
+KEYWORDS    "creator:SynthSys Center" "marker:KanR, BlpR".
+SOURCE      .
+  ORGANISM  .
+            .
+FEATURES             Location/Qualifiers
+     misc_feature    1268..1284
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#b4abac"
+     CDS             complement(join(3199..3634,1..380))
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#b7e6d7"
+     misc_feature    2374..2377
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#faac61"
+     misc_feature    2395..2419
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#f8d3a9"
+     promoter        1382..1560
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+     misc_feature    2370..2373
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#ff0000"
+     misc_feature    2389..2393
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#84b0dc"
+     misc_feature    1239..1261
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#f8d3a9"
+     rep_origin      complement(2510..3098)
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#ffef86"
+     terminator      2117..2369
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+     CDS             1562..2112
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#b7e6d7"
+     rep_origin      671..1106
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#ffef86"
+ORIGIN
+        1 accagacagc ttccctgctg cttagagtgc catggggaat tgatctgtgt tcaatgactt
+       61 taccataagc gcgcatcgtc attgcatcac gtgctttatc tctcgtagct agtagggaac
+      121 aagagtttgc gaccactggt ggaatttcta gccgctatgt gaaaagtcac tagtagtatt
+      181 aatagtcggc acatcgcgta cgcagtgctg agattcccct cactgttact tgagctagtc
+      241 gcgccttgac agaccgcctt tcgaaggtgg cagagtgcct aatatattgc cacgttgagc
+      301 gtactccttc ccggagtttc atcttaccgc cgggcgcgcg aagctacgtt tttcgaattt
+      361 actaacgcac gctgacggtg gaagggcgat tggactggtt agattcaggt atgccttaag
+      421 cgtactttac aaccagaggc tttatttgat tgtctaatct tcgtcaaaga acgaatacca
+      481 gcgcttgagg ggtgactaga ctaataggag acaccgtctg tatcactcgt cggctatggc
+      541 cgtactgtga acgcgacggg ccctaccagg ccacagattc ctatgtacgt tgcaagggtg
+      601 ggctttgacc gttgcaacgg cgcactaggt ggcattcttc tctgctgcca atgatccgcc
+      661 tcgccgagct aggggcgaag caggttatga cgcagcggaa cggtagtact atctaatatc
+      721 aactaaaatt gtttctcaaa ggttcaaact agtattcttt attagaaacg atgatggcat
+      781 ccggaacagg gttatggccc aggtgctgga tgaagccttg cctcgaggga cttagtcgcg
+      841 tcgcccctct accaaggcgc taacggctag cgagatggtt gaggcgggag ccccgccact
+      901 ttctagttga attcagagct acgtatcctg atgctaatcc ctcgaagaac tttccgatgc
+      961 agctactatc tctttcgtaa agttagaata ggaacccggt aacggtggaa cgtcccgtca
+     1021 taggaggttg tctcctacac tatctaagta cgtcagaaga tcgatttcct cagccgctga
+     1081 ccccgtccgg catgaccagc gccgaacgta taggccgtat tgctgccgga acgactgctt
+     1141 caaaggtaac catagccgtg gtacagtgac aacccactta gctattaaat catgcgcact
+     1201 ctagacctct tgcacatacg gagcaactat gtatctaatt ggcacgagac atagaggagg
+     1261 gccaatcaca gtagtttact ggtcgaattc cacctgcata tggagagaca ctccttcatc
+     1321 aacagcagag gttacatacg tttaacctga ccgatggttg cccatcgaaa gcaaggaccc
+     1381 acgggtaggc agctgttgtt tgatatgctt ttgtccccgg aaggcgccga taaaattata
+     1441 cgccgtcccc cgcgtccgtt acgagcttcg tgatgttgcg ggctgaagtt ccctacgagt
+     1501 caataggcca actcgaatgg ctaaatggtt gcaacccaca ggctcaactt tgaaggtaat
+     1561 acgccaaaat ccaatatgct ctttcgggta gcgcataaaa ccttctgggg gccactgcag
+     1621 acagtcatgg aggactacgt gcaacactac gctctagagt gatgatgtgg cagtcaaccg
+     1681 agggctgtta agagaagtct gtgcacgaaa atcaatgagt cggtgtaatc ttcaccttcc
+     1741 tacaaaccaa ggcttgaggg cctcaatttc gagcaccact tcttgaccaa gccgttcgcc
+     1801 ggtataggag ttacgaattc gggtcgtctg ccgtctttga accatagata agtacctccc
+     1861 gagtcgggag aacacgaatc gcatcagaac tcatcgaagg gtgttacttt gcccatcggc
+     1921 atccccgaag attaattgca ttcgaaattt taacttcgag aatcatccgt gctaaccaac
+     1981 gtggacgagc tatgaacgtt tacgtgttca gtatctagga attgacacgt ctccgatagc
+     2041 gggagtcacg gcatgagtta cggcttttgt gaccagcgtc tgtgtaattt tattgacagt
+     2101 ttcatatata gtgtctcgtc ttgcctttga gattcacagg ctgtaagagg gatgccgtcg
+     2161 tgtatatgcc tgcagttaga gcttccttgt caggacgagc aactcactcc ttctggtgat
+     2221 gctttgctag catgtagctt cgggtacttg cggaaaagga cagcctacag tgtctgcggc
+     2281 ggtacgtcac taatatgaca tacgctgtgg acatcgtgaa gcggcgaatc gctccagatt
+     2341 gaggtttaca gagtactcca tagtcacaca actcagaata tgcaggtgct gcagtgaccg
+     2401 aatcctctca ggtcgcgctg gcggcccgtt tgagagtgct gaaagcgaag tttatccgca
+     2461 ccgtcatcca gtgcacctcc cccagagaat gattacttgt gaatgcggtt aacctgaggg
+     2521 ccgacgccgc gattaaattt ttaacgtgat gcacaagctg ggggcactct cccctggggt
+     2581 caggttataa ttttaaaccc actacggacc tggactgcaa gatgcttagt ccacgcgtct
+     2641 catagaccgt cggtctatag ccatgttcaa cgccgccagg ctgggcgcat aactgtatgt
+     2701 gactttgtcc acatccaagg cgacgatggc ggcagttggc cggagggctg gctgtcaagg
+     2761 ggccacgcgg atgaagggag ctcatacgca actatggagc gcggtatata gtataggatc
+     2821 cgccgggaca cgcgggaatc aagggacaaa ggagcagtca gcgtgaaatc tttacgggtg
+     2881 aagcgcgctc gtaccaccta gtcccgccta aggcccttgt gtcgtgcaac atcgctgggg
+     2941 cgacggatga caatatgatc aaggcccgag agctttgaat gtaagaggcg tattataaag
+     3001 cctaggtccg catgttgata cggggagcag cccatgcgca gtaggaaggt ccgaccaccc
+     3061 ttttctgagg tctactccaa cctccttgcc gagtgctctc cgctatctcc acgcatagca
+     3121 tactccgctt ctaacatctt cttcaaagca tacacgctac ttagcagagc aaatcgacac
+     3181 gcccatggag tggtccgctc aaaccgcgca attaagtata agctaatgtg acggaccgga
+     3241 cctacgattt cccccaactc gtggggatca gttgactcgt ctcagcttat gagacataat
+     3301 tacggtcata gggtacgcct atgcccctca gagatctcta ggtcatatgc cctatcgggt
+     3361 gctcggtgac cattgtctca tacaaagtca tatttggcag ggcttctatg gacgagtatt
+     3421 atgtgcccaa aagggaacgt ctgagttggg attcgcttct aaccaatact ctaatggtac
+     3481 ctaatttaat gtggtcgctg cgcaccccgc cgggtacaac tgctgagttc ctgagatcgg
+     3541 tacggcaaac atcttttatc cagacgaggg ttctggccag aattgatgtt cagatacgag
+     3601 aaggcatgtc atgtcacaag gattttggag aatt
+//

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/2-step_golden_gate_parts/parts_for_2-step_golden_gate/part_L.gb	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,79 @@
+LOCUS       part_L                  2267 bp    ds-DNA  circular UNK 28-OCT-2019
+DEFINITION  .
+ACCESSION   part_L
+VERSION     part_L
+KEYWORDS    "creator:SynthSys Center" "marker:KanR".
+SOURCE      .
+  ORGANISM  .
+            .
+FEATURES             Location/Qualifiers
+     misc_feature    join(2263..2267,1)
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#84b0dc"
+     terminator      2..59
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+     CDS             complement(1140..1955)
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#b7e6d7"
+     misc_feature    2206..2209
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#ff0000"
+     misc_feature    2202..2205
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#faac61"
+     terminator      2139..2182
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+     rep_origin      complement(254..842)
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#ffef86"
+     misc_feature    2248..2251
+                     /label="another feature"
+                     /ApEinfo_fwdcolor="#ff0000"
+     misc_feature    2185..2190
+                     /label="yet another feature"
+                     /ApEinfo_fwdcolor="#84b0dc"
+     terminator      1025..1119
+                     /label="feature"
+                     /ApEinfo_fwdcolor="#c6c9d1"
+ORIGIN
+        1 gtccgatgcg agcaccacct atagataccc taatcagcat ggtcccggtg accattacca
+       61 ccgacggcct tgttttaaac gaaggcgctc actatacaag aaactaatgt ctcccacaag
+      121 gctcagaccc agccggtgct ttcagcgctc cccgttggcg ccccccgaag accatagaga
+      181 ggtgctctgt taacaactat aatgaaaggg attattgagg gagtcggagg tgaattctga
+      241 agccttaccc ctacggtcgt ggtcatcatc acggatcgcg ataagcggcc ggtctgttac
+      301 ggacgccact acgaggaggg tttcttggca atcaaggcta cgcattacaa ccatcggggt
+      361 cggtctggct gaacaatctt gatgttcaac ctttgttacc ggctccttgt gttattatcc
+      421 ggtttttttg atctatatgt ttataaggaa gcggtgcaga ccgtagagaa ataccggcta
+      481 aggcagtcgc tcaatgcaca ccagcatcgc cgagacatat aaagccataa acattaattg
+      541 gaatgctagt cacagcgtgt tgactggacg cttaaaagtt tctacaaaag gtatagtttt
+      601 aacatttctc tgagttagcg ctatcgggtc gactgacatc tagaattgac acgttactca
+      661 cctggatcct agtcacactc cgggaaccgc tcgcttagtg gcagtagcgg ggggcgtccc
+      721 taggatagct gcgcaaagcg tggtttatct aatcgtggct tgtgtggaca tgatgctgtt
+      781 caggcgcatc tgtggccgcc acagcattac caagctaatc agaaaccgcg gcatgtcccc
+      841 gcgatgcgag aggcatctgt tagagccaaa gagtggaggt ctgtaatatc gctagcggag
+      901 attttctaag gggcgtggga ctttatcccg atatggctga acgatccaac ggcaaatggt
+      961 tctgccattg aactttaacc atgaatagac tccaggcgag ggataatgga aataatagca
+     1021 ggaaatgaca atctactagg tgcgcactat caagattgta tgtttgcgta tcgtagttct
+     1081 aatggtcttg tgtcccgtat tgggtcggac ggtgctgttc ctgatcgtag caatgcccgg
+     1141 ttagaatcac gcatcggagc gatcatttcg ggcgatacgc gttcgttctg tccactcttg
+     1201 tgggagtccg acgtatgcct gctcggtatt gttttattca ggcgacagta cctcccattc
+     1261 aaatatacag ggttatacta cacaccacga gtaataaaga cttgtgttgt gccaattcct
+     1321 cgtgggactg ccacgctcgt gagcttcgcg gttacatacc cctatgtccc caactgttgg
+     1381 tggcaaatcc ctaatctaat ctattgtatc acagtcggtc aacgactgaa attggggcaa
+     1441 caccaacagt gctcttacga tattcgtctg tgtctaacaa tccaacaaaa agctgttatt
+     1501 atgatggagg atcttggatt gcgtcagtac tacggtgttg tacgagaatt gcatgatgat
+     1561 tcctcgatgt cgagtccttg caagatcgtg atctatagcc aagctgctgc tgtagatcaa
+     1621 cctcaccggg gcgggggtcc cattactatg ggcggcatta gagtaccata gatgaacgcg
+     1681 agcagagaca tgtcaatgta tcccagtcct gcagtactac gtcagtctct gctcctgggg
+     1741 ccaatgcacg cctgtagaat agggccgtgt tcccatgaga aatttgaggg acttacgatt
+     1801 agatggcctt ggcaggggac tccgcgtacg tgtggggatg aaccggcacc ggccttggcc
+     1861 ctgagtaaat gtaagcgata tcaacttcgc tattcatgat cagtggtatt cgtgtaggca
+     1921 ccgaaagtcc cttggcgaaa gtagagacat acgatacgga ccgcaagcga gcagaatttc
+     1981 agcacatgac agttattagc ttttttctaa tggtgctccc attatgattg tcaagtcccg
+     2041 actgctagct gtaggatgaa acacatccac acacgtgtta ccatactgat tttgacacta
+     2101 cttcctaacc gggccgaatg gtatctgctg cgatgcttag ttacgtaaca gccgaatgtc
+     2161 acgccactgc atattgtggt tctggaattc cacctgcata tgtcacgcta gagaccgtat
+     2221 gaggtgggcg gatagtggtg acttcaaacc catatgcagg tgctgca
+//

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/BASIC_assembly_dataset/GFP.gb	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,130 @@
+LOCUS       GFP                     3735 bp    DNA     circular UNK 01-JAN-1980
+DEFINITION  
+ACCESSION   
+VERSION     
+SOURCE      
+  ORGANISM  
+COMMENT     Serial Cloner Genbank Format
+COMMENT     SerialCloner_Type=DNA
+COMMENT     SerialCloner_Comments=seq 20140514
+COMMENT     SerialCloner_Ends=0,0,,0,
+FEATURES             Location/Qualifiers
+     primer_bind     3668..3687
+                     /label=T7
+                     /SerialCloner_Color=&h008B8B
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     rep_origin      complement(1534..2162)
+                     /label=ColE1 origin
+                     /SerialCloner_Color=&h4682B4
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     CDS             complement(2314..2973)
+                     /label=AmpR
+                     /SerialCloner_Color=&h8FBC8F
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     Promoter        complement(3213..3241)
+                     /label=Amp prom
+                     /SerialCloner_Color=&h4682B4
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     misc_feature    3668..3684
+                     /label=T7-promoter
+                     /SerialCloner_Color=&hFF00FF
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     misc_feature    19..732
+                     /label=GFP-SF-pep
+                     /SerialCloner_Color=&h80FF80
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     misc_feature    1..18
+                     /label=Prefix
+                     /SerialCloner_Color=&hFF0080
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     misc_feature    742..759
+                     /label=Suffix
+                     /SerialCloner_Color=&hFF00FF
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     misc_feature    2974..3170
+                     /label=pB1a promoter
+                     /SerialCloner_Color=&h84A4C0
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+ORIGIN
+        1 TCTGGTGGGT CTCTGTCCat gcgtaaaggc gaagaactgt tcacgggcgt agttccgatt 
+       61 ctggtcgagc tggacggcga tgtgaacggt cataagttta gcgttcgcgg tgaaggtgag 
+      121 ggcgacgcga ccaacggcaa actgaccctg aagttcatct gcaccaccgg taaactgccg 
+      181 gtgccttggc cgaccttggt gacgacgttg acgtatggcg tgcagtgttt tgcgcgttat 
+      241 ccggaccaca tgaaacaaca cgatttcttc aaatctgcga tgccggaggg ttacgtccag 
+      301 gagcgtacca tttccttcaa ggatgatggc acttacaaaa ctcgcgcaga ggttaagttt 
+      361 gaaggtgaca cgctggtcaa tcgtatcgaa ttgaagggta tcgactttaa agaggatggt 
+      421 aacattctgg gccataaact ggagtataac ttcaacagcc ataatgttta cattacggca 
+      481 gacaagcaaa agaacggcat caaggccaat ttcaagattc gccacaatgt tgaggacggt 
+      541 agcgtccaac tggccgacca ttaccagcag aacaccccaa ttggtgacgg tccggttttg 
+      601 ctgccggata atcactatct gagcacccaa agcgtgctga gcaaagatcc gaacgaaaaa 
+      661 cgtgatcaca tggtcctgct ggaatttgtg accgctgcgg gcatcaccca cggtatggac 
+      721 gagctgtata agcgtccgta aGGCTCGGGA GACCTATCGT ATCTTTCTAG AAGATCTCCT 
+      781 ACAATATTCT CAGCTGCCAT GGAAAATCGA TGTTCTTCTT TTATTCTCTC AAGATTTTCA 
+      841 GGCTGTATAT TAAAACTTAT ATTAAGAACT ATGCTAACCA CCTCATCAGG AACCGTTGTA 
+      901 GGTGGCGTGG GTTTTCTTGG CAATCGACTC TCATGAAAAC TACGAGCTAA ATATTCAATA 
+      961 TGTTCCTCTT GACCAACTTT ATTCTGCATT TTTTTTGAAC GAGGTTTAGA GCAAGCTTCA 
+     1021 GGAAACTGAG ACAGGAATTT TATTAAAAAT TTAAATTTTG AAGAAAGTTC AGGGTTAATA 
+     1081 GCATCCATTT TTTGCTTTGC AAGTTCCTCA GCATTCTTAA CAAAAGACGT CTCTTTTGAC 
+     1141 ATGTTTAAAG TTTAAACCTC CTGTGTGAAA TTaTTATCCG CTCAtAATTC CACACATTAT 
+     1201 ACGAGCCGGA AGCATAAAGT GTAAAGCCTG GGGTGCCTAA TGAGTGAGCT AACTCACATT 
+     1261 AATTGCGTTG CGCTCACTGC CAATTGCTTT CCAGTCGGGA AACCTGTCGT GCCAGCTGCA 
+     1321 TTAATGAATC GGCCAACGCG CGGGGAGAGG CGGTTTGCGT ATTGGGCGCT CTTCCGCTTC 
+     1381 CTCGCTCACT GACTCGCTGC GCTCGGTCGT TCGGCTGCGG CGAGCGGTAT CAGCTCACTC 
+     1441 AAAGGCGGTA ATACGGTTAT CCACAGAATC AGGGGATAAC GCAGGAAAGA ACATGTGAGC 
+     1501 AAAAGGCCAG CAAAAGGCCA GGAACCGTAA AAAGGCCGCG TTGCTGGCGT TTTTCCATAG 
+     1561 GCTCCGCCCC CCTGACGAGC ATCACAAAAA TCGACGCTCA AGTCAGAGGT GGCGAAACCC 
+     1621 GACAGGACTA TAAAGATACC AGGCGTTTCC CCCTGGAAGC TCCCTCGTGC GCTCTCCTGT 
+     1681 TCCGACCCTG CCGCTTACCG GATACCTGTC CGCCTTTCTC CCTTCGGGAA GCGTGGCGCT 
+     1741 TTCTCATAGC TCACGCTGTA GGTATCTCAG TTCGGTGTAG GTCGTTCGCT CCAAGCTGGG 
+     1801 CTGTGTGCAC GAACCCCCCG TTCAGCCCGA CCGCTGCGCC TTATCCGGTA ACTATCGTCT 
+     1861 TGAGTCCAAC CCGGTAAGAC ACGACTTATC GCCACTGGCA GCAGCCACTG GTAACAGGAT 
+     1921 TAGCAGAGCG AGGTATGTAG GCGGTGCTAC AGAGTTCTTG AAGTGGTGGC CTAACTACGG 
+     1981 CTACACTAGA AGGACAGTAT TTGGTATCTG CGCTCTGCTG AAGCCAGTTA CCTTCGGAAA 
+     2041 AAGAGTTGGT AGCTCTTGAT CCGGCAAACA AACCACCGCT GGTAGCGGTG GTTTTTTTGT 
+     2101 TTGCAAGCAG CAGATTACGC GCAGAAAAAA AGGATCTCAA GAAGATCCTT TGATCTTTTC 
+     2161 TACGGGGTCT GACGCTCAGT GGAACGAAAA CTCACGTTAA GGGATTTTGG TCATGAGATT 
+     2221 ATCAAAAAGG ATCTTCACCT AGATCCTTTT AAATTAAAAA TGAAGTTTTA AATCAATCTA 
+     2281 AAGTATATAT GAGTAAACTT GGTCTGACAG TTACCAATGC TTAATCAGTG AGGCACCTAT 
+     2341 CTCAGCGATC TGTCTATTTC GTTCATCCAT AGTTGCCTGA CTCCCCGTCG TGTAGATAAC 
+     2401 TACGATACGG GAGGGCTTAC CATCTGGCCC CAGTGCTGCA ATGATACCGC GAGACCCACG 
+     2461 CTCACCGGCT CCAGATTTAT CAGCAATAAA CCAGCCAGCC GGAAGGGCCG AGCGCAGAAG 
+     2521 TGGTCCTGCA ACTTTATCCG CCTCCATCCA GTCTATTAAT TGTTGCCGGG AAGCTAGAGT 
+     2581 AAGTAGTTCG CCAGTTAATA GTTTGCGCAA CGTTGTTGCC ATTGCTACAG GCATCGTGGT 
+     2641 GTCACGCTCG TCGTTTGGTA TGGCTTCATT CAGCTCCGGT TCCCAACGAT CAAGGCGAGT 
+     2701 TACATGATCC CCCATGTTGT GCAAAAAAGC GGTTAGCTCC TTCGGTCCTC CGATCGTTGT 
+     2761 CAGAAGTAAG TTGGCCGCAG TGTTATCACT CATGGTTATG GCAGCACTGC ATAATTCTCT 
+     2821 TACTGTCATG CCATCCGTAA GATGCTTTTC TGTGACTGGT GAGTACTCAA CCAAGTCATT 
+     2881 CTGAGAATAG TGTATGCGGC GACCGAGTTG CTCTTGCCCG GCGTCAATAC GGGATAATAC 
+     2941 CGCGCCACAT AGCAGAACTT TAAAAGTGCT CATCATTGGA AAACGTTCTT CGGGGCGAAA 
+     3001 ACTCTCAAGG ATCTTACCGC TGTTGAGATC CAGTTCGATG TAACCCACTC GTGCACCCAA 
+     3061 CTGATCTTCA GCATCTTTTA CTTTCACCAG CGTTTCTGGG TGAGCAAAAA CAGGAAGGCA 
+     3121 AAATGCCGCA AAAAAGGGAA TAAGGGCGAC ACGGAAATGT TGAATACTCA TACTCTTCCT 
+     3181 TTTTCAATAT TATTGAAGCA TTTATCAGGG TTATTGTCTC ATGAGCGGAT ACATATTTGA 
+     3241 ATGTATTTAG AAAAATAAAC AAATAGGGGT TCCGCGCACA TTTCCCCGAA AAGTGCCACC 
+     3301 TGACGTCTAA GAAACCATTA TTATCATGAC ATTAACCTAT AAAAATAGGC GTATCACGAG 
+     3361 GCCGCCCCTG CAGCCGAATT ATATTATTTT TGCCAAATAA TTTTTAACAA AAGCTCTGAA 
+     3421 GTCTTCTTCA TTTAAATTCT TAGATGATAC TTCATCTGGA AAATTGTCCC AATTAGTAGC 
+     3481 ATCACGCTGT GAGTAAGTTC TAAACCATTT TTTTATTGTT GTATTATCTC TAATCTTACT 
+     3541 ACTCGATGAG TTTTCGGTAT TATCTCTATT TTTAACTTGG AGCAGGTTCC ATTCATTGTT 
+     3601 TTTTTCATCA TAGTGAATAA AATCAACTGC TTTAACACTT GTGCCTGAAC ACCATATCCA 
+     3661 TCCGGCGTAA TACGACTCAC TATAGGGAGA GCGGCCGCCA GATCTTCCGG ATGGCTCGAG 
+     3721 TTTTTCAGCA AGATA
+//
\ No newline at end of file

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/BASIC_assembly_dataset/RFP.gb	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,136 @@
+LOCUS       RFP                     3723 bp    DNA     circular UNK 01-JAN-1980
+DEFINITION  
+ACCESSION   
+VERSION     
+SOURCE      
+  ORGANISM  
+COMMENT     Serial Cloner Genbank Format
+COMMENT     SerialCloner_Type=DNA
+COMMENT     SerialCloner_Comments=seq verified 20140514
+COMMENT     SerialCloner_Ends=0,0,,0,
+FEATURES             Location/Qualifiers
+     primer_bind     complement(796..815)
+                     /label=T7
+                     /SerialCloner_Color=&h008B8B
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     rep_origin      2321..2949
+                     /label=ColE1 origin
+                     /SerialCloner_Color=&h4682B4
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     misc_binding    3292..3314
+                     /label=LacO
+                     /SerialCloner_Color=&h6495ED
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     CDS             1510..2169
+                     /label=AmpR
+                     /SerialCloner_Color=&h8FBC8F
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     Promoter        1242..1270
+                     /label=Amp prom
+                     /SerialCloner_Color=&h4682B4
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     misc_feature    complement(799..815)
+                     /label=T7-promoter
+                     /SerialCloner_Color=&hFF00FF
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     misc_feature    19..726
+                     /label=mcherry
+                     /SerialCloner_Color=&hFF0080
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     misc_feature    1..18
+                     /label=Prefix
+                     /SerialCloner_Color=&hFF0080
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     misc_feature    730..747
+                     /label=Suffix
+                     /SerialCloner_Color=&hFF00FF
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     misc_feature    complement(1313..1509)
+                     /label=pB1a promoter
+                     /SerialCloner_Color=&h84A4C0
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+ORIGIN
+        1 TCTGGTGGGT CTCTGTCCAT GGTGAGCAAG GGCGAGGAGG ATAACATGGC CATCATCAAG 
+       61 GAGTTCATGC GCTTCAAGGT GCACATGGAG GGCTCCGTGA ACGGCCACGA GTTCGAGATC 
+      121 GAGGGCGAGG GCGAGGGCCG CCCCTACGAG GGCACCCAGA CCGCCAAGCT GAAGGTGACC 
+      181 AAGGGTGGCC CCCTGCCCTT CGCCTGGGAC ATCCTGTCCC CTCAGTTCAT GTACGGCTCC 
+      241 AAGGCCTACG TGAAGCACCC CGCCGACATC CCCGACTACT TGAAGCTGTC CTTCCCCGAG 
+      301 GGCTTCAAGT GGGAGCGCGT GATGAACTTC GAGGACGGCG GCGTGGTGAC CGTGACCCAG 
+      361 GACTCCTCCT TGCAGGACGG CGAGTTCATC TACAAGGTGA AGCTGCGCGG CACCAACTTC 
+      421 CCCTCCGACG GCCCCGTAAT GCAGAAGAAG ACCATGGGCT GGGAGGCCTC CTCCGAGCGG 
+      481 ATGTACCCCG AGGACGGCGC CCTGAAGGGC GAGATCAAGC AGAGGCTGAA GCTGAAGGAC 
+      541 GGCGGCCACT ACGACGCTGA GGTCAAGACC ACCTACAAGG CCAAGAAGCC CGTGCAGCTG 
+      601 CCCGGCGCCT ACAACGTCAA CATCAAGTTG GACATCACCT CCCACAACGA GGACTACACC 
+      661 ATCGTGGAAC AGTACGAACG CGCCGAGGGC CGCCACTCCA CCGGCGGCAT GGACGAGCTG 
+      721 TACAAGTAAG GCTCGGGAGA CCTATCGTAT CTTGCTGAAA AACTCGAGCC ATCCGGAAGA 
+      781 TCTGGCGGCC GCTCTCCCTA TAGTGAGTCG TATTACGCCG GATGGATATG GTGTTCAGGC 
+      841 ACAAGTGTTA AAGCAGTTGA TTTTATTCAC TATGATGAAA AAAACAATGA ATGGAACCTG 
+      901 CTCCAAGTTA AAAATAGAGA TAATACCGAA AACTCATCGA GTAGTAAGAT TAGAGATAAT 
+      961 ACAACAATAA AAAAATGGTT TAGAACTTAC TCACAGCGTG ATGCTACTAA TTGGGACAAT 
+     1021 TTTCCAGATG AAGTATCATC TAAGAATTTA AATGAAGAAG ACTTCAGAGC TTTTGTTAAA 
+     1081 AATTATTTGG CAAAAATAAT ATAATTCGGC TGCAGGGGCG GCCTCGTGAT ACGCCTATTT 
+     1141 TTATAGGTTA ATGTCATGAT AATAATGGTT TCTTAGACGT CAGGTGGCAC TTTTCGGGGA 
+     1201 AATGTGCGCG GAACCCCTAT TTGTTTATTT TTCTAAATAC ATTCAAATAT GTATCCGCTC 
+     1261 ATGAGACAAT AACCCTGATA AATGCTTCAA TAATATTGAA AAAGGAAGAG TATGAGTATT 
+     1321 CAACATTTCC GTGTCGCCCT TATTCCCTTT TTTGCGGCAT TTTGCCTTCC TGTTTTTGCT 
+     1381 CACCCAGAAA CGCTGGTGAA AGTAAAAGAT GCTGAAGATC AGTTGGGTGC ACGAGTGGGT 
+     1441 TACATCGAAC TGGATCTCAA CAGCGGTAAG ATCCTTGAGA GTTTTCGCCC CGAAGAACGT 
+     1501 TTTCCAATGA TGAGCACTTT TAAAGTTCTG CTATGTGGCG CGGTATTATC CCGTATTGAC 
+     1561 GCCGGGCAAG AGCAACTCGG TCGCCGCATA CACTATTCTC AGAATGACTT GGTTGAGTAC 
+     1621 TCACCAGTCA CAGAAAAGCA TCTTACGGAT GGCATGACAG TAAGAGAATT ATGCAGTGCT 
+     1681 GCCATAACCA TGAGTGATAA CACTGCGGCC AACTTACTTC TGACAACGAT CGGAGGACCG 
+     1741 AAGGAGCTAA CCGCTTTTTT GCACAACATG GGGGATCATG TAACTCGCCT TGATCGTTGG 
+     1801 GAACCGGAGC TGAATGAAGC CATACCAAAC GACGAGCGTG ACACCACGAT GCCTGTAGCA 
+     1861 ATGGCAACAA CGTTGCGCAA ACTATTAACT GGCGAACTAC TTACTCTAGC TTCCCGGCAA 
+     1921 CAATTAATAG ACTGGATGGA GGCGGATAAA GTTGCAGGAC CACTTCTGCG CTCGGCCCTT 
+     1981 CCGGCTGGCT GGTTTATTGC TGATAAATCT GGAGCCGGTG AGCGTGGGTC TCGCGGTATC 
+     2041 ATTGCAGCAC TGGGGCCAGA TGGTAAGCCC TCCCGTATCG TAGTTATCTA CACGACGGGG 
+     2101 AGTCAGGCAA CTATGGATGA ACGAAATAGA CAGATCGCTG AGATAGGTGC CTCACTGATT 
+     2161 AAGCATTGGT AACTGTCAGA CCAAGTTTAC TCATATATAC TTTAGATTGA TTTAAAACTT 
+     2221 CATTTTTAAT TTAAAAGGAT CTAGGTGAAG ATCCTTTTTG ATAATCTCAT GACCAAAATC 
+     2281 CCTTAACGTG AGTTTTCGTT CCACTGAGCG TCAGACCCCG TAGAAAAGAT CAAAGGATCT 
+     2341 TCTTGAGATC CTTTTTTTCT GCGCGTAATC TGCTGCTTGC AAACAAAAAA ACCACCGCTA 
+     2401 CCAGCGGTGG TTTGTTTGCC GGATCAAGAG CTACCAACTC TTTTTCCGAA GGTAACTGGC 
+     2461 TTCAGCAGAG CGCAGATACC AAATACTGTC CTTCTAGTGT AGCCGTAGTT AGGCCACCAC 
+     2521 TTCAAGAACT CTGTAGCACC GCCTACATAC CTCGCTCTGC TAATCCTGTT ACCAGTGGCT 
+     2581 GCTGCCAGTG GCGATAAGTC GTGTCTTACC GGGTTGGACT CAAGACGATA GTTACCGGAT 
+     2641 AAGGCGCAGC GGTCGGGCTG AACGGGGGGT TCGTGCACAC AGCCCAGCTT GGAGCGAACG 
+     2701 ACCTACACCG AACTGAGATA CCTACAGCGT GAGCTATGAG AAAGCGCCAC GCTTCCCGAA 
+     2761 GGGAGAAAGG CGGACAGGTA TCCGGTAAGC GGCAGGGTCG GAACAGGAGA GCGCACGAGG 
+     2821 GAGCTTCCAG GGGGAAACGC CTGGTATCTT TATAGTCCTG TCGGGTTTCG CCACCTCTGA 
+     2881 CTTGAGCGTC GATTTTTGTG ATGCTCGTCA GGGGGGCGGA GCCTATGGAA AAACGCCAGC 
+     2941 AACGCGGCCT TTTTACGGTT CCTGGCCTTT TGCTGGCCTT TTGCTCACAT GTTCTTTCCT 
+     3001 GCGTTATCCC CTGATTCTGT GGATAACCGT ATTACCGCCT TTGAGTGAGC TGATACCGCT 
+     3061 CGCCGCAGCC GAACGACCGA GCGCAGCGAG TCAGTGAGCG AGGAAGCGGA AGAGCGCCCA 
+     3121 ATACGCAAAC CGCCTCTCCC CGCGCGTTGG CCGATTCATT AATGCAGCTG GCACGACAGG 
+     3181 TTTCCCGACT GGAAAGCAAT TGGCAGTGAG CGCAACGCAA TTAATGTGAG TTAGCTCACT 
+     3241 CATTAGGCAC CCCAGGCTTT ACACTTTATG CTTCCGGCTC GTATAATGTG TGGAATTGTG 
+     3301 AGCGGATAAC AATTTCACAC AGGAGGTTTA AACTTTAAAC ATGTCAAAAG AGACGTCTTT 
+     3361 TGTTAAGAAT GCTGAGGAAC TTGCAAAGCA AAAAATGGAT GCTATTAACC CTGAACTTTC 
+     3421 TTCAAAATTT AAATTTTTAA TAAAATTCCT GTCTCAGTTT CCTGAAGCTT GCTCTAAACC 
+     3481 TCGTTCAAAA AAAATGCAGA ATAAAGTTGG TCAAGAGGAA CATATTGAAT ATTTAGCTCG 
+     3541 TAGTTTTCAT GAGAGTCGAT TGCCAAGAAA ACCCACGCCA CCTACAACGG TTCCTGATGA 
+     3601 GGTGGTTAGC ATAGTTCTTA ATATAAGTTT TAATATACAG CCTGAAAATC TTGAGAGAAT 
+     3661 AAAAGAAGAA CATCGATTTT CCATGGCAGC TGAGAATATT GTAGGAGATC TTCTAGAAAG 
+     3721 ATA
+//
\ No newline at end of file

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/BASIC_assembly_dataset/basic_assembly.csv	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,10 @@
+L2RBS-1P,L2RBS-1P_fwd,L2RBS-1P_adapter,,,,,,,,,,
+LMA-S,LMA-S_fwd,LMA-S_adapter,,,,,,,,,,
+L1RBS-xS,L1RBS-xS_fwd,L1RBS-xS_adapter,,,,,,,,,,
+L1RBS-1P,L1RBS-1P_fwd,L1RBS-1P_adapter,,,,,,,,,,
+L2RBS-xS,L2RBS-xS_fwd,L2RBS-xS_adapter,,,,,,,,,,
+LMA-P,LMA-P_fwd,LMA-P_adapter,,,,,,,,,,
+LMB-S,LMB-S_fwd,LMB-S_adapter,,,,,,,,,,
+LMB-P,LMB-P_fwd,LMB-P_adapter,,,,,,,,,,
+asm_GFP_RFP,LMA-P,promoter,L1RBS-xS,L1RBS-1P,GFP,L2RBS-xS,L2RBS-1P,RFP,LMB-S,LMB-P,p15A_kan,LMA-S
+asm_RFP_GFP,LMA-P,promoter,L1RBS-xS,L1RBS-1P,RFP,L2RBS-xS,L2RBS-1P,GFP,LMB-S,LMB-P,p15A_kan,LMA-S

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/BASIC_assembly_dataset/oligos.fa	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,32 @@
+>L2RBS-1P_fwd
+GGACTAGTCCTGTGTGATTTTCTGCTACCCTTATCTCAG
+>L2RBS-1P_adapter
+ATCACACAGGACTA
+>LMA-S_fwd
+CTCGGGTAAGAACTCGCACTTCGTGGAAACACTATTA
+>LMA-S_adapter
+CGAGTTCTTACC
+>L1RBS-xS_fwd
+CTCGTTGAACACCGTCTCAGGTAAGTATCAGTTGTAA
+>L1RBS-xS_adapter
+GACGGTGTTCAA
+>L1RBS-1P_fwd
+GGACTAGTCCTGTGTGATTTACAACTGATACTTACCTGA
+>L1RBS-1P_adapter
+ATCACACAGGACTA
+>L2RBS-xS_fwd
+CTCGTGTTACTATTGGCTGAGATAAGGGTAGCAGAAA
+>L2RBS-xS_adapter
+CCAATAGTAACA
+>LMA-P_fwd
+GGACAGAGACCCACCAGATAATAGTGTTTCCACGAAGTG
+>LMA-P_adapter
+TCTGGTGGGTCTCT
+>LMB-S_fwd
+CTCGGGAGACCTATCGGTAATAACAGTCCAATCTGGTGT
+>LMB-S_adapter
+CGATAGGTCTCC
+>LMB-P_fwd
+GGACGATTCCGAAGTTACACCAGATTGGACTGTTATTAC
+>LMB-P_adapter
+AACTTCGGAATC

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/BASIC_assembly_dataset/p15A_kan.gb	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,75 @@
+LOCUS       F0001_p15A-Kan.xdna    2235 bp      DNA     linear   22/05/2017
+DEFINITION  
+ACCESSION   
+VERSION     
+SOURCE      
+  ORGANISM  
+COMMENT     Serial Cloner Genbank Format
+COMMENT     SerialCloner_Type=DNA
+COMMENT     SerialCloner_Comments=
+COMMENT     SerialCloner_Ends=0,0,,0,
+FEATURES             Location/Qualifiers
+     misc_feature    complement(72..887)
+                     /label=p15A
+                     /SerialCloner_Color=&h84A4C0
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=True
+                     /SerialCloner_Arrow=True
+     misc_feature    complement(1223..2043)
+                     /label=kanR
+                     /SerialCloner_Color=&hFF0000
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=True
+                     /SerialCloner_Arrow=True
+     misc_feature    1..18
+                     /label=iPrefix
+                     /SerialCloner_Color=&hFF00FF
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=True
+                     /SerialCloner_Arrow=True
+     misc_feature    2218..2235
+                     /label=iSuffix
+                     /SerialCloner_Color=&hFF00FF
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=True
+                     /SerialCloner_Arrow=True
+ORIGIN
+        1 TCTGGTGGGT CTCTGTCCCG TCAAGTCAGC GTAATGCTCT GCCAGTGTTA CAACCAATTA 
+       61 ACCAATTCTG ATTAGAAAAA CTCATCGAGC ATCAAATGAA ACTGCAATTT ATTCATATCA 
+      121 GGATTATCAA TACCATATTT TTGAAAAAGC CGTTTCTGTA ATGAAGGAGA AAACTCACCG 
+      181 AGGCAGTTCC ATAGGATGGC AAGATCCTGG TATCGGTCTG CGATTCCGAC TCGTCCAACA 
+      241 TCAATACAAC CTATTAATTT CCCCTCGTCA AAAATAAGGT TATCAAGTGA GAAATCACCA 
+      301 TGAGTGACGA CTGAATCCGG TGAGAATGGC AAAAGCTTAT GCATTTCTTT CCAGACTTGT 
+      361 TCAACAGGCC AGCCATTACG CTCGTCATCA AAATCACTCG CATCAACCAA ACCGTTATTC 
+      421 ATTCGTGATT GCGCCTGAGC GAGACGAAAT ACGCGATCGC TGTTAAAAGG ACAATTACAA 
+      481 ACAGGAATCG AATGCAACCG GCGCAGGAAC ACTGCCAGCG CATCAACAAT ATTTTCACCT 
+      541 GAATCAGGAT ATTCTTCTAA TACCTGGAAT GCTGTTTTCC CGGGGATCGC AGTGGTGAGT 
+      601 AACCATGCAT CATCAGGAGT ACGGATAAAA TGCTTGATGG TCGGAAGAGG CATAAATTCC 
+      661 GTCAGCCAGT TTAGTCTGAC CATCTCATCT GTAACATCAT TGGCAACGCT ACCTTTGCCA 
+      721 TGTTTCAGAA ACAACTCTGG CGCATCGGGC TTCCCATACA ATCGATAGAT TGTCGCACCT 
+      781 GATTGCCCGA CATTATCGCG AGCCCATTTA TACCCATATA AATCAGCATC CATGTTGGAA 
+      841 TTTAATCGCG GCCTCGAGCA AGACGTTTCC CGTTGAATAT GGCTCATAAC ACCCCTTGTA 
+      901 TTACTGTTTA TGTAAGCAGA CAGTTTTATT GTTCATGATG ATATATTTTT ATCTTGTGCA 
+      961 ATGTAACATC AGAGATTTTG AGACACAACG TGGCTTTGTT GAATAAATCG AACTTTTGCT 
+     1021 GAGTTGAAGG ATCAGATCAC GCATCTTCCC GACAACGCAG ACCGTTCCGT GGCAAAGCAA 
+     1081 AAGTTCAAAA TCACCAACTG GTCCACCTAC AACAAAGCTC TCATCAACCG TGGCTCCCTC 
+     1141 ACTTTCTGGC TGGATGATGG GGCGATTCAG GCCTGGTATG AGTCAGCAAC ACCTTCTTCA 
+     1201 CGAGGCAGAC CTCAGCGCTA GCGGAGTGTA TACTGGCTTA CTATGTTGGC ACTGATGAGG 
+     1261 GTGTCAGTGA AGTGCTTCAT GTGGCAGGAG AAAAAAGGCT GCACCGGTGC GTCAGCAGAA 
+     1321 TATGTGATAC AGGATATATT CCGCTTCCTC GCTCACTGAC TCGCTACGCT CGGTCGTTCG 
+     1381 ACTGCGGCGA GCGGAAATGG CTTACGAACG GGGCGGAGAT TTCCTGGAAG ATGCCAGGAA 
+     1441 GATACTTAAC AGGGAAGTGA GAGGGCCGCG GCAAAGCCGT TTTTCCATAG GCTCCGCCCC 
+     1501 CCTGACAAGC ATCACGAAAT CTGACGCTCA AATCAGTGGT GGCGAAACCC GACAGGACTA 
+     1561 TAAAGATACC AGGCGTTTCC CCTGGCGGCT CCCTCGTGCG CTCTCCTGTT CCTGCCTTTC 
+     1621 GGTTTACCGG TGTCATTCCG CTGTTATGGC CGCGTTTGTC TCATTCCACG CCTGACACTC 
+     1681 AGTTCCGGGT AGGCAGTTCG CTCCAAGCTG GACTGTATGC ACGAACCCCC CGTTCAGTCC 
+     1741 GACCGCTGCG CCTTATCCGG TAACTATCGT CTTGAGTCCA ACCCGGAAAG ACATGCAAAA 
+     1801 GCACCACTGG CAGCAGCCAC TGGTAATTGA TTTAGAGGAG TTAGTCTTGA AGTCATGCGC 
+     1861 CGGTTAAGGC TAAACTGAAA GGACAAGTTT TGGTGACTGC GCTCCTCCAA GCCAGTTACC 
+     1921 TCGGTTCAAA GAGTTGGTAG CTCAGAGAAC CTTCGAAAAA CCGCCCTGCA AGGCGGTTTT 
+     1981 TTCGTTTTCA GAGCAAGAGA TTACGCGCAG ACCAAAACGA TCTCAAGAAG ATCATCTTAT 
+     2041 TAAGGGGTCT GACGCTCAGT GGAACGAAAA CTCACGTTAA GGGATTTTGG TCATGAGATT 
+     2101 ATCAAAAAGG ATCTTCACCT AGATCCTTTT AAATTAAAAA TGAAGTTTTA AATCAATCTA 
+     2161 AAGTATATAT GAGTAAACTT GGTCTGACAG TTACCAATGC TTAATCAGTG AGGCACCGGC 
+     2221 TCGGGAGACC TATCG
+//
\ No newline at end of file

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/BASIC_assembly_dataset/promoter.gb	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,170 @@
+LOCUS       promoter                4361 bp    DNA     circular UNK 01-JAN-1980
+DEFINITION  
+ACCESSION   
+VERSION     
+SOURCE      
+  ORGANISM  
+COMMENT     Serial Cloner Genbank Format
+COMMENT     SerialCloner_Type=DNA
+COMMENT     SerialCloner_Comments=
+COMMENT     SerialCloner_Ends=0,0,,0,
+FEATURES             Location/Qualifiers
+     misc_feature    984..1028
+                     /label=Linker01
+                     /SerialCloner_Color=&h8000FF
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     misc_feature    1168..1212
+                     /label=Linker02
+                     /SerialCloner_Color=&h8000FF
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     misc_feature    1327..1361
+                     /label=PJ23105
+                     /SerialCloner_Color=&h84A4C0
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     primer_bind     4295..4314
+                     /label=T7
+                     /SerialCloner_Color=&h008B8B
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     rep_origin      complement(2161..2789)
+                     /label=ColE1 origin
+                     /SerialCloner_Color=&h4682B4
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     CDS             complement(2941..3600)
+                     /label=AmpR
+                     /SerialCloner_Color=&h8FBC8F
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     CDS             168..824
+                     /label=CmR
+                     /SerialCloner_Color=&h8FBC8F
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     Promoter        complement(3840..3868)
+                     /label=Amp prom
+                     /SerialCloner_Color=&h4682B4
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     misc_feature    1033..1161
+                     /label=terminator_B0015
+                     /SerialCloner_Color=&h84A4C0
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     misc_feature    4295..4311
+                     /label=T7-promoter
+                     /SerialCloner_Color=&hFF00FF
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     misc_feature    1..18
+                     /label=Prefix
+                     /SerialCloner_Color=&hFF0080
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     misc_feature    1370..1387
+                     /label=Suffix
+                     /SerialCloner_Color=&hFF00FF
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     misc_feature    3601..3797
+                     /label=pB1a promoter
+                     /SerialCloner_Color=&h84A4C0
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+     misc_feature    1327..1361
+                     /label=ANDERSON 024
+                     /SerialCloner_Color=&h84A4C0
+                     /SerialCloner_Show=True
+                     /SerialCloner_Protect=False
+                     /SerialCloner_Arrow=True
+ORIGIN
+        1 tctggtgggt ctctGTCCTT GATACCGGGA AGCCCTGGGC CAACTTTTGG CGAAAATGAG 
+       61 ACGTTGATCG GCACGTAAGA GGTTCCAACT TTCACCATAA TGAAATAAGA TCACTACCGG 
+      121 GCGTATTTTT TGAGTTATCG AGATTTTCAG GAGCTAAGGA AGCTAAAATG GAGAAAAAAA 
+      181 TCACTGGATA TACCACCGTT GATATATCCC AATGGCATCG TAAAGAACAT TTTGAGGCAT 
+      241 TTCAGTCAGT TGCTCAATGT ACCTATAACC AGACCGTTCA GCTGGATATT ACGGCCTTTT 
+      301 TAAAGACCGT AAAGAAAAAT AAGCACAAGT TTTATCCGGC CTTTATTCAC ATTCTTGCCC 
+      361 GCCTGATGAA TGCTCATCCG GAATTCCGTA TGGCAATGAA AGACGGTGAG CTGGTGATAT 
+      421 GGGATAGTGT TCACCCTTGT TACACCGTTT TCCATGAGCA AACTGAAACG TTTTCATCGC 
+      481 TCTGGAGTGA ATACCACGAC GATTTCCGGC AGTTTCTACA CATATATTCG CAAGATGTGG 
+      541 CGTGTTACGG TGAAAACCTG GCCTATTTCC CTAAAGGGTT TATTGAGAAT ATGTTTTTCG 
+      601 TCTCAGCCAA TCCCTGGGTG AGTTTCACCA GTTTTGATTT AAACGTGGCC AATATGGACA 
+      661 ACTTCTTCGC CCCCGTTTTC ACCATGGGCA AATATTATAC GCAAGGCGAC AAGGTGCTGA 
+      721 TGCCGCTGGC GATTCAGGTT CATCATGCCG TCTGTGATGG CTTCCATGTC GGCAGAATGC 
+      781 TTAATGAATT ACAACAGTAC TGCGATGAGT GGCAGGGCGG GGCGTAATTT TTTTAAGGCA 
+      841 GTTATTGGTG CCCTTAAACG CCTGGTGCTA CGCCTGAATA AGTGATAATA AGCGGATGAA 
+      901 TGGCAGAAAT TCGAAAGCAA ATTCGACCCG GTCGTCGGTT CAGGGCAGGG TCGTTAAATA 
+      961 GCCGCTTATG TCTATTGGGC TCGttactta cgacactccg agacagtcag agggtattta 
+     1021 ttgaactaGT CCCCAGGCAT CAAATAAAAC GAAAGGCTCA GTCGAAAGAC TGGGCCTTTC 
+     1081 GTTTTATCTG TTGTTTGTCG GTGAACGCTC TCTACTAGAG TCACACTGGC TCACCTTCGG 
+     1141 GTGGGCCTTT CTGCGTTTAT AGGCTCGATC GGTGTGAAAA GTCAGTATCC AGTCGTGTAG 
+     1201 TTCTTATTAC CTGTCCAGAC CTTTACGCCG CTGGAGACTA GTCACAGCTA ACACCACGTC 
+     1261 GTCCCTATCT GCTGCCCTAG GTCTATGAGT GGTTGCTGGA TAACGAATTC GCGGCCGCTT 
+     1321 CTAGAGTTTA CGGCTAGCTC AGTCCTAGGT ACTATGCTAG CTACTAGAGG GCTCGggaga 
+     1381 cctatcgATC TTTCTAGAAG ATCTCCTACA ATATTCTCAG CTGCCATGGA AAATCGATGT 
+     1441 TCTTCTTTTA TTCTCTCAAG ATTTTCAGGC TGTATATTAA AACTTATATT AAGAACTATG 
+     1501 CTAACCACCT CATCAGGAAC CGTTGTAGGT GGCGTGGGTT TTCTTGGCAA TCGACTCTCA 
+     1561 TGAAAACTAC GAGCTAAATA TTCAATATGT TCCTCTTGAC CAACTTTATT CTGCATTTTT 
+     1621 TTTGAACGAG GTTTAGAGCA AGCTTCAGGA AACTGAGACA GGAATTTTAT TAAAAATTTA 
+     1681 AATTTTGAAG AAAGTTCAGG GTTAATAGCA TCCATTTTTT GCTTTGCAAG TTCCTCAGCA 
+     1741 TTCTTAACAA AAGACGTCTC TTTTGACATG TTTAAAGTTT AAACCTCCTG TGTGAAATTA 
+     1801 TTATCCGCTC ATAATTCCAC ACATTATACG AGCCGGAAGC ATAAAGTGTA AAGCCTGGGG 
+     1861 TGCCTAATGA GTGAGCTAAC TCACATTAAT TGCGTTGCGC TCACTGCCAA TTGCTTTCCA 
+     1921 GTCGGGAAAC CTGTCGTGCC AGCTGCATTA ATGAATCGGC CAACGCGCGG GGAGAGGCGG 
+     1981 TTTGCGTATT GGGCGCTCTT CCGCTTCCTC GCTCACTGAC TCGCTGCGCT CGGTCGTTCG 
+     2041 GCTGCGGCGA GCGGTATCAG CTCACTCAAA GGCGGTAATA CGGTTATCCA CAGAATCAGG 
+     2101 GGATAACGCA GGAAAGAACA TGTGAGCAAA AGGCCAGCAA AAGGCCAGGA ACCGTAAAAA 
+     2161 GGCCGCGTTG CTGGCGTTTT TCCATAGGCT CCGCCCCCCT GACGAGCATC ACAAAAATCG 
+     2221 ACGCTCAAGT CAGAGGTGGC GAAACCCGAC AGGACTATAA AGATACCAGG CGTTTCCCCC 
+     2281 TGGAAGCTCC CTCGTGCGCT CTCCTGTTCC GACCCTGCCG CTTACCGGAT ACCTGTCCGC 
+     2341 CTTTCTCCCT TCGGGAAGCG TGGCGCTTTC TCATAGCTCA CGCTGTAGGT ATCTCAGTTC 
+     2401 GGTGTAGGTC GTTCGCTCCA AGCTGGGCTG TGTGCACGAA CCCCCCGTTC AGCCCGACCG 
+     2461 CTGCGCCTTA TCCGGTAACT ATCGTCTTGA GTCCAACCCG GTAAGACACG ACTTATCGCC 
+     2521 ACTGGCAGCA GCCACTGGTA ACAGGATTAG CAGAGCGAGG TATGTAGGCG GTGCTACAGA 
+     2581 GTTCTTGAAG TGGTGGCCTA ACTACGGCTA CACTAGAAGG ACAGTATTTG GTATCTGCGC 
+     2641 TCTGCTGAAG CCAGTTACCT TCGGAAAAAG AGTTGGTAGC TCTTGATCCG GCAAACAAAC 
+     2701 CACCGCTGGT AGCGGTGGTT TTTTTGTTTG CAAGCAGCAG ATTACGCGCA GAAAAAAAGG 
+     2761 ATCTCAAGAA GATCCTTTGA TCTTTTCTAC GGGGTCTGAC GCTCAGTGGA ACGAAAACTC 
+     2821 ACGTTAAGGG ATTTTGGTCA TGAGATTATC AAAAAGGATC TTCACCTAGA TCCTTTTAAA 
+     2881 TTAAAAATGA AGTTTTAAAT CAATCTAAAG TATATATGAG TAAACTTGGT CTGACAGTTA 
+     2941 CCAATGCTTA ATCAGTGAGG CACCTATCTC AGCGATCTGT CTATTTCGTT CATCCATAGT 
+     3001 TGCCTGACTC CCCGTCGTGT AGATAACTAC GATACGGGAG GGCTTACCAT CTGGCCCCAG 
+     3061 TGCTGCAATG ATACCGCGAG ACCCACGCTC ACCGGCTCCA GATTTATCAG CAATAAACCA 
+     3121 GCCAGCCGGA AGGGCCGAGC GCAGAAGTGG TCCTGCAACT TTATCCGCCT CCATCCAGTC 
+     3181 TATTAATTGT TGCCGGGAAG CTAGAGTAAG TAGTTCGCCA GTTAATAGTT TGCGCAACGT 
+     3241 TGTTGCCATT GCTACAGGCA TCGTGGTGTC ACGCTCGTCG TTTGGTATGG CTTCATTCAG 
+     3301 CTCCGGTTCC CAACGATCAA GGCGAGTTAC ATGATCCCCC ATGTTGTGCA AAAAAGCGGT 
+     3361 TAGCTCCTTC GGTCCTCCGA TCGTTGTCAG AAGTAAGTTG GCCGCAGTGT TATCACTCAT 
+     3421 GGTTATGGCA GCACTGCATA ATTCTCTTAC TGTCATGCCA TCCGTAAGAT GCTTTTCTGT 
+     3481 GACTGGTGAG TACTCAACCA AGTCATTCTG AGAATAGTGT ATGCGGCGAC CGAGTTGCTC 
+     3541 TTGCCCGGCG TCAATACGGG ATAATACCGC GCCACATAGC AGAACTTTAA AAGTGCTCAT 
+     3601 CATTGGAAAA CGTTCTTCGG GGCGAAAACT CTCAAGGATC TTACCGCTGT TGAGATCCAG 
+     3661 TTCGATGTAA CCCACTCGTG CACCCAACTG ATCTTCAGCA TCTTTTACTT TCACCAGCGT 
+     3721 TTCTGGGTGA GCAAAAACAG GAAGGCAAAA TGCCGCAAAA AAGGGAATAA GGGCGACACG 
+     3781 GAAATGTTGA ATACTCATAC TCTTCCTTTT TCAATATTAT TGAAGCATTT ATCAGGGTTA 
+     3841 TTGTCTCATG AGCGGATACA TATTTGAATG TATTTAGAAA AATAAACAAA TAGGGGTTCC 
+     3901 GCGCACATTT CCCCGAAAAG TGCCACCTGA CGTCTAAGAA ACCATTATTA TCATGACATT 
+     3961 AACCTATAAA AATAGGCGTA TCACGAGGCC GCCCCTGCAG CCGAATTATA TTATTTTTGC 
+     4021 CAAATAATTT TTAACAAAAG CTCTGAAGTC TTCTTCATTT AAATTCTTAG ATGATACTTC 
+     4081 ATCTGGAAAA TTGTCCCAAT TAGTAGCATC ACGCTGTGAG TAAGTTCTAA ACCATTTTTT 
+     4141 TATTGTTGTA TTATCTCTAA TCTTACTACT CGATGAGTTT TCGGTATTAT CTCTATTTTT 
+     4201 AACTTGGAGC AGGTTCCATT CATTGTTTTT TTCATCATAG TGAATAAAAT CAACTGCTTT 
+     4261 AACACTTGTG CCTGAACACC ATATCCATCC GGCGTAATAC GACTCACTAT AGGGAGAGCG 
+     4321 GCCGCCAGAT CTTCCGGATG GCTCGAGTTT TTCAGCAAGA T
+//
\ No newline at end of file

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/BioBrick_assembly_dataset/BBa_E0040_GFP.gb	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,85 @@
+LOCUS       BBa_E0040_GFP           2875 bp    DNA     circular UNK 01-JAN-1980
+DEFINITION  .
+ACCESSION   BBa_E0040_GFP
+VERSION     BBa_E0040_GFP
+KEYWORDS    .
+SOURCE      .
+  ORGANISM  .
+            .
+FEATURES             Location/Qualifiers
+     misc_feature    1..21
+                     /label="suffix"
+     misc_feature    22..93
+                     /label="E. coli his operon terminator"
+     stem_loop       30..64
+                     /label="terminator stem loop"
+     primer_bind     157..176
+                     /label="VR"
+     CDS             261..875
+                     /label="rep(pMB1) (rev)"
+     misc_feature    276
+                     /label="ORI"
+     CDS             1035..1895
+                     /label="ampR (rev)"
+     primer_bind     2018..2037
+                     /label="VF2"
+     misc_feature    2094..2097
+                     /label="end of terminator"
+     stem_loop       2107..2126
+                     /label="terminator stem loop"
+     misc_feature    2136..2157
+                     /label="prefix"
+     CDS             2156..2875
+                     /label="GFP protein"
+     misc_feature    2156..2875
+                     /label="BBa_E0040_GFP"
+ORIGIN
+        1 tactagtagc ggccgctgca gtccggcaaa aaagggcaag gtgtcaccac cctgcccttt
+       61 ttctttaaaa ccgaaaagat tacttcgcgt tatgcaggct tcctcgctca ctgactcgct
+      121 gcgctcggtc gttcggctgc ggcgagcggt atcagctcac tcaaaggcgg taatacggtt
+      181 atccacagaa tcaggggata acgcaggaaa gaacatgtga gcaaaaggcc agcaaaaggc
+      241 caggaaccgt aaaaaggccg cgttgctggc gtttttccac aggctccgcc cccctgacga
+      301 gcatcacaaa aatcgacgct caagtcagag gtggcgaaac ccgacaggac tataaagata
+      361 ccaggcgttt ccccctggaa gctccctcgt gcgctctcct gttccgaccc tgccgcttac
+      421 cggatacctg tccgcctttc tcccttcggg aagcgtggcg ctttctcata gctcacgctg
+      481 taggtatctc agttcggtgt aggtcgttcg ctccaagctg ggctgtgtgc acgaaccccc
+      541 cgttcagccc gaccgctgcg ccttatccgg taactatcgt cttgagtcca acccggtaag
+      601 acacgactta tcgccactgg cagcagccac tggtaacagg attagcagag cgaggtatgt
+      661 aggcggtgct acagagttct tgaagtggtg gcctaactac ggctacacta gaagaacagt
+      721 atttggtatc tgcgctctgc tgaagccagt taccttcgga aaaagagttg gtagctcttg
+      781 atccggcaaa caaaccaccg ctggtagcgg tggttttttt gtttgcaagc agcagattac
+      841 gcgcagaaaa aaaggatctc aagaagatcc tttgatcttt tctacggggt ctgacgctca
+      901 gtggaacgaa aactcacgtt aagggatttt ggtcatgaga ttatcaaaaa ggatcttcac
+      961 ctagatcctt ttaaattaaa aatgaagttt taaatcaatc taaagtatat atgagtaaac
+     1021 ttggtctgac agttaccaat gcttaatcag tgaggcacct atctcagcga tctgtctatt
+     1081 tcgttcatcc atagttgcct gactccccgt cgtgtagata actacgatac gggagggctt
+     1141 accatctggc cccagtgctg caatgatacc gcgagaccca cgctcaccgg ctccagattt
+     1201 atcagcaata aaccagccag ccggaagggc cgagcgcaga agtggtcctg caactttatc
+     1261 cgcctccatc cagtctatta attgttgccg ggaagctaga gtaagtagtt cgccagttaa
+     1321 tagtttgcgc aacgttgttg ccattgctac aggcatcgtg gtgtcacgct cgtcgtttgg
+     1381 tatggcttca ttcagctccg gttcccaacg atcaaggcga gttacatgat cccccatgtt
+     1441 gtgcaaaaaa gcggttagct ccttcggtcc tccgatcgtt gtcagaagta agttggccgc
+     1501 agtgttatca ctcatggtta tggcagcact gcataattct cttactgtca tgccatccgt
+     1561 aagatgcttt tctgtgactg gtgagtactc aaccaagtca ttctgagaat agtgtatgcg
+     1621 gcgaccgagt tgctcttgcc cggcgtcaat acgggataat accgcgccac atagcagaac
+     1681 tttaaaagtg ctcatcattg gaaaacgttc ttcggggcga aaactctcaa ggatcttacc
+     1741 gctgttgaga tccagttcga tataacccac tcgtgcaccc aactgatctt cagcatcttt
+     1801 tactttcacc agcgtttctg ggtgagcaaa aacaggaagg caaaatgccg caaaaaaggg
+     1861 aataagggcg acacggaaat gttgaatact catactcttc ctttttcaat attattgaag
+     1921 catttatcag ggttattgtc tcatgagcgg atacatattt gaatgtattt agaaaaataa
+     1981 acaaataggg gttccgcgca catttccccg aaaagtgcca cctgacgtct aagaaaccat
+     2041 tattatcatg acattaacct ataaaaatag gcgtatcacg aggcagaatt tcagataaaa
+     2101 aaaatcctta gctttcgcta aggatgattt ctggaattcg cggccgcttc tagagatgcg
+     2161 taaaggagaa gaacttttca ctggagttgt cccaattctt gttgaattag atggtgatgt
+     2221 taatgggcac aaattttctg tcagtggaga gggtgaaggt gatgcaacat acggaaaact
+     2281 tacccttaaa tttatttgca ctactggaaa actacctgtt ccatggccaa cacttgtcac
+     2341 tactttcggt tatggtgttc aatgctttgc gagataccca gatcatatga aacagcatga
+     2401 ctttttcaag agtgccatgc ccgaaggtta tgtacaggaa agaactatat ttttcaaaga
+     2461 tgacgggaac tacaagacac gtgctgaagt caagtttgaa ggtgataccc ttgttaatag
+     2521 aatcgagtta aaaggtattg attttaaaga agatggaaac attcttggac acaaattgga
+     2581 atacaactat aactcacaca atgtatacat catggcagac aaacaaaaga atggaatcaa
+     2641 agttaacttc aaaattagac acaacattga agatggaagc gttcaactag cagaccatta
+     2701 tcaacaaaat actccaattg gcgatggccc tgtcctttta ccagacaacc attacctgtc
+     2761 cacacaatct gccctttcga aagatcccaa cgaaaagaga gaccacatgg tccttcttga
+     2821 gtttgtaaca gctgctggga ttacacatgg catggatgaa ctatacaaat aataa
+//

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/BioBrick_assembly_dataset/BBa_J23119_prom.gb	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,72 @@
+LOCUS       BBa_J23119_prom         2190 bp    DNA     circular UNK 01-JAN-1980
+DEFINITION  .
+ACCESSION   BBa_J23119_prom    
+VERSION     BBa_J23119_prom    
+KEYWORDS    .
+SOURCE      .
+  ORGANISM  .
+            .
+FEATURES             Location/Qualifiers
+     misc_feature    1..21
+                     /label="suffix"
+     misc_feature    22..93
+                     /label="E. coli his operon terminator"
+     stem_loop       30..64
+                     /label="terminator stem loop"
+     primer_bind     157..176
+                     /label="VR"
+     CDS             261..875
+                     /label="rep(pMB1) (rev)"
+     misc_feature    276
+                     /label="ORI"
+     CDS             1035..1895
+                     /label="ampR (rev)"
+     primer_bind     2018..2037
+                     /label="VF2"
+     misc_feature    2094..2097
+                     /label="end of terminator"
+     stem_loop       2107..2126
+                     /label="terminator stem loop"
+     misc_feature    2136..2157
+                     /label="prefix"
+     misc_feature    2156..2190
+                     /label="BBa_J23119_prom"
+ORIGIN
+        1 tactagtagc ggccgctgca gtccggcaaa aaagggcaag gtgtcaccac cctgcccttt
+       61 ttctttaaaa ccgaaaagat tacttcgcgt tatgcaggct tcctcgctca ctgactcgct
+      121 gcgctcggtc gttcggctgc ggcgagcggt atcagctcac tcaaaggcgg taatacggtt
+      181 atccacagaa tcaggggata acgcaggaaa gaacatgtga gcaaaaggcc agcaaaaggc
+      241 caggaaccgt aaaaaggccg cgttgctggc gtttttccac aggctccgcc cccctgacga
+      301 gcatcacaaa aatcgacgct caagtcagag gtggcgaaac ccgacaggac tataaagata
+      361 ccaggcgttt ccccctggaa gctccctcgt gcgctctcct gttccgaccc tgccgcttac
+      421 cggatacctg tccgcctttc tcccttcggg aagcgtggcg ctttctcata gctcacgctg
+      481 taggtatctc agttcggtgt aggtcgttcg ctccaagctg ggctgtgtgc acgaaccccc
+      541 cgttcagccc gaccgctgcg ccttatccgg taactatcgt cttgagtcca acccggtaag
+      601 acacgactta tcgccactgg cagcagccac tggtaacagg attagcagag cgaggtatgt
+      661 aggcggtgct acagagttct tgaagtggtg gcctaactac ggctacacta gaagaacagt
+      721 atttggtatc tgcgctctgc tgaagccagt taccttcgga aaaagagttg gtagctcttg
+      781 atccggcaaa caaaccaccg ctggtagcgg tggttttttt gtttgcaagc agcagattac
+      841 gcgcagaaaa aaaggatctc aagaagatcc tttgatcttt tctacggggt ctgacgctca
+      901 gtggaacgaa aactcacgtt aagggatttt ggtcatgaga ttatcaaaaa ggatcttcac
+      961 ctagatcctt ttaaattaaa aatgaagttt taaatcaatc taaagtatat atgagtaaac
+     1021 ttggtctgac agttaccaat gcttaatcag tgaggcacct atctcagcga tctgtctatt
+     1081 tcgttcatcc atagttgcct gactccccgt cgtgtagata actacgatac gggagggctt
+     1141 accatctggc cccagtgctg caatgatacc gcgagaccca cgctcaccgg ctccagattt
+     1201 atcagcaata aaccagccag ccggaagggc cgagcgcaga agtggtcctg caactttatc
+     1261 cgcctccatc cagtctatta attgttgccg ggaagctaga gtaagtagtt cgccagttaa
+     1321 tagtttgcgc aacgttgttg ccattgctac aggcatcgtg gtgtcacgct cgtcgtttgg
+     1381 tatggcttca ttcagctccg gttcccaacg atcaaggcga gttacatgat cccccatgtt
+     1441 gtgcaaaaaa gcggttagct ccttcggtcc tccgatcgtt gtcagaagta agttggccgc
+     1501 agtgttatca ctcatggtta tggcagcact gcataattct cttactgtca tgccatccgt
+     1561 aagatgcttt tctgtgactg gtgagtactc aaccaagtca ttctgagaat agtgtatgcg
+     1621 gcgaccgagt tgctcttgcc cggcgtcaat acgggataat accgcgccac atagcagaac
+     1681 tttaaaagtg ctcatcattg gaaaacgttc ttcggggcga aaactctcaa ggatcttacc
+     1741 gctgttgaga tccagttcga tataacccac tcgtgcaccc aactgatctt cagcatcttt
+     1801 tactttcacc agcgtttctg ggtgagcaaa aacaggaagg caaaatgccg caaaaaaggg
+     1861 aataagggcg acacggaaat gttgaatact catactcttc ctttttcaat attattgaag
+     1921 catttatcag ggttattgtc tcatgagcgg atacatattt gaatgtattt agaaaaataa
+     1981 acaaataggg gttccgcgca catttccccg aaaagtgcca cctgacgtct aagaaaccat
+     2041 tattatcatg acattaacct ataaaaatag gcgtatcacg aggcagaatt tcagataaaa
+     2101 aaaatcctta gctttcgcta aggatgattt ctggaattcg cggccgcttc tagagttgac
+     2161 agctagctca gtcctaggta taatgctagc
+//

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/BioBrick_assembly_dataset/BBa_J23119_prom_flawed.gb	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,72 @@
+LOCUS       BBa_J23119_prom         2190 bp    DNA     circular UNK 01-JAN-1980
+DEFINITION  .
+ACCESSION   BBa_J23119_prom    
+VERSION     BBa_J23119_prom    
+KEYWORDS    .
+SOURCE      .
+  ORGANISM  .
+            .
+FEATURES             Location/Qualifiers
+     misc_feature    1..21
+                     /label="suffix"
+     misc_feature    22..93
+                     /label="E. coli his operon terminator"
+     stem_loop       30..64
+                     /label="terminator stem loop"
+     primer_bind     157..176
+                     /label="VR"
+     CDS             261..875
+                     /label="rep(pMB1) (rev)"
+     misc_feature    276
+                     /label="ORI"
+     CDS             1035..1895
+                     /label="ampR (rev)"
+     primer_bind     2018..2037
+                     /label="VF2"
+     misc_feature    2094..2097
+                     /label="end of terminator"
+     stem_loop       2107..2126
+                     /label="terminator stem loop"
+     misc_feature    2136..2157
+                     /label="prefix"
+     misc_feature    2156..2190
+                     /label="BBa_J23119_prom"
+ORIGIN
+        1 tactagtagc ggccgctgca gtccggcaaa aaagggcaag gtgtcaccac cctgcccttt
+       61 ttctttaaaa ccgaaaagat tacttcgcgt tatgcaggct tcctcgctca ctgactcgct
+      121 gcgctcggtc gttcggctgc ggcgagcggt atcagctcac tcaaaggcgg taatacggtt
+      181 atccacagaa tcaggggata acgcaggaaa gaacatgtga gcaaaaggcc agcaaaaggc
+      241 caggaaccgt aaaaaggccg cgttgctggc gtttttccac aggctccgcc cccctgacga
+      301 gcatcacaaa aatcgacgct caagtcagag gtggcgaaac ccgacaggac tataaagata
+      361 ccaggcgttt ccccctggaa gctccctcgt gcgctctcct gttccgaccc tgccgcttac
+      421 cggatacctg tccgcctttc tcccttcggg aagcgtggcg ctttctcata gctcacgctg
+      481 taggtatctc agttcggtgt aggtcgttcg ctccaagctg ggctgtgtgc acgaaccccc
+      541 cgttcagccc gaccgctgcg ccttatccgg taactatcgt cttgagtcca acccggtaag
+      601 acacgactta tcgccactgg cagcagccac tggtaacagg attagcagag cgaggtatgt
+      661 aggcggtgct acagagttct tgaagtggtg gcctaactac ggctacacta gaagaacagt
+      721 atttggtatc tgcgctctgc tgaagccagt taccttcgga aaaagagttg gtagctcttg
+      781 atccggcaaa caaaccaccg ctggtagcgg tggttttttt gtttgcaagc agcagattac
+      841 gcgcagaaaa aaaggatctc aagaagatcc tttgatcttt tctacggggt ctgacgctca
+      901 gtggaacgaa aactcacgtt aagggatttt ggtcatgaga ttatcaaaaa ggatcttcac
+      961 ctagatcctt ttaaattaaa aatgaagttt taaatcaatc taaagtatat atgagtaaac
+     1021 ttggtctgac agttaccaat gcttaatcag tgaggcacct atctcagcga tctgtctatt
+     1081 tcgttcatcc atagttgcct gactccccgt cgtgtagata actacgatac gggagggctt
+     1141 accatctggc cccagtgctg caatgatacc gcgagaccca cgctcaccgg ctccagattt
+     1201 atcagcaata aaccagccag ccggaagggc cgagcgcaga agtggtcctg caactttatc
+     1261 cgcctccatc cagtctatta attgttgccg ggaagctaga gtaagtagtt cgccagttaa
+     1321 tagtttgcgc aacgttgttg ccattgctac aggcatcgtg gtgtcacgct cgtcgtttgg
+     1381 tatggcttca ttcagctccg gttcccaacg atcaaggcga gttacatgat cccccatgtt
+     1441 gtgcaaaaaa gcggttagct ccttcggtcc tccgatcgtt gtcagaagta agttggccgc
+     1501 agtgttatca ctcatggtta tggcagcact gcataattct cttactgtca tgccatccgt
+     1561 aagatgcttt tctgtgactg gtgagtactc aaccaagtca ttctgagaat agtgtatgcg
+     1621 gcgaccgagt tgctcttgcc cggcgtcaat acgggataat accgcgccac atagcagaac
+     1681 tttaaaagtg ctcatcattg gaaaacgttc ttcggggcga aaactctcaa ggatcttacc
+     1741 gctgttgaga tccagttcga tataacccac tcgtgcaccc aactgatctt cagcatcttt
+     1801 tactttcacc agcgtttctg ggtgagcaaa aacaggaagg caaaatgccg caaaaaaggg
+     1861 aataagggcg acacggaaat gttgaatact catactcttc ctttttcaat attattgaag
+     1921 catttatcag ggttattgtc tcatgagcgg atacatattt gaatgtattt agaaaaataa
+     1981 acaaataggg gttccgcgca catttccccg aaaagtgcca cctgacgtct aagaaaccat
+     2041 tattatcatg acattaacct ataaaaatag gcgtatcacg aggcagaatt tcagataaaa
+     2101 aaaatcctta gctttcgcta aggatgattt ctggatttcg cggccgcttc tagagttgac
+     2161 agctagctca gtcctaggta taatgctagc
+//

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/BioBrick_assembly_dataset/BBa_J61048_term.gb	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,73 @@
+LOCUS       BBa_J61048_term         2268 bp    DNA     circular UNK 01-JAN-1980
+DEFINITION  .
+ACCESSION   BBa_J61048_term      
+VERSION     BBa_J61048_term      
+KEYWORDS    .
+SOURCE      .
+  ORGANISM  .
+            .
+FEATURES             Location/Qualifiers
+     misc_feature    1..21
+                     /label="suffix"
+     misc_feature    22..93
+                     /label="E. coli his operon terminator"
+     stem_loop       30..64
+                     /label="terminator stem loop"
+     primer_bind     157..176
+                     /label="VR"
+     CDS             261..875
+                     /label="rep(pMB1) (rev)"
+     misc_feature    276
+                     /label="ORI"
+     CDS             1035..1895
+                     /label="ampR (rev)"
+     primer_bind     2018..2037
+                     /label="VF2"
+     misc_feature    2094..2097
+                     /label="end of terminator"
+     stem_loop       2107..2126
+                     /label="terminator stem loop"
+     misc_feature    2136..2157
+                     /label="prefix"
+     misc_feature    2156..2268
+                     /label="BBa_J61048_term"
+ORIGIN
+        1 tactagtagc ggccgctgca gtccggcaaa aaagggcaag gtgtcaccac cctgcccttt
+       61 ttctttaaaa ccgaaaagat tacttcgcgt tatgcaggct tcctcgctca ctgactcgct
+      121 gcgctcggtc gttcggctgc ggcgagcggt atcagctcac tcaaaggcgg taatacggtt
+      181 atccacagaa tcaggggata acgcaggaaa gaacatgtga gcaaaaggcc agcaaaaggc
+      241 caggaaccgt aaaaaggccg cgttgctggc gtttttccac aggctccgcc cccctgacga
+      301 gcatcacaaa aatcgacgct caagtcagag gtggcgaaac ccgacaggac tataaagata
+      361 ccaggcgttt ccccctggaa gctccctcgt gcgctctcct gttccgaccc tgccgcttac
+      421 cggatacctg tccgcctttc tcccttcggg aagcgtggcg ctttctcata gctcacgctg
+      481 taggtatctc agttcggtgt aggtcgttcg ctccaagctg ggctgtgtgc acgaaccccc
+      541 cgttcagccc gaccgctgcg ccttatccgg taactatcgt cttgagtcca acccggtaag
+      601 acacgactta tcgccactgg cagcagccac tggtaacagg attagcagag cgaggtatgt
+      661 aggcggtgct acagagttct tgaagtggtg gcctaactac ggctacacta gaagaacagt
+      721 atttggtatc tgcgctctgc tgaagccagt taccttcgga aaaagagttg gtagctcttg
+      781 atccggcaaa caaaccaccg ctggtagcgg tggttttttt gtttgcaagc agcagattac
+      841 gcgcagaaaa aaaggatctc aagaagatcc tttgatcttt tctacggggt ctgacgctca
+      901 gtggaacgaa aactcacgtt aagggatttt ggtcatgaga ttatcaaaaa ggatcttcac
+      961 ctagatcctt ttaaattaaa aatgaagttt taaatcaatc taaagtatat atgagtaaac
+     1021 ttggtctgac agttaccaat gcttaatcag tgaggcacct atctcagcga tctgtctatt
+     1081 tcgttcatcc atagttgcct gactccccgt cgtgtagata actacgatac gggagggctt
+     1141 accatctggc cccagtgctg caatgatacc gcgagaccca cgctcaccgg ctccagattt
+     1201 atcagcaata aaccagccag ccggaagggc cgagcgcaga agtggtcctg caactttatc
+     1261 cgcctccatc cagtctatta attgttgccg ggaagctaga gtaagtagtt cgccagttaa
+     1321 tagtttgcgc aacgttgttg ccattgctac aggcatcgtg gtgtcacgct cgtcgtttgg
+     1381 tatggcttca ttcagctccg gttcccaacg atcaaggcga gttacatgat cccccatgtt
+     1441 gtgcaaaaaa gcggttagct ccttcggtcc tccgatcgtt gtcagaagta agttggccgc
+     1501 agtgttatca ctcatggtta tggcagcact gcataattct cttactgtca tgccatccgt
+     1561 aagatgcttt tctgtgactg gtgagtactc aaccaagtca ttctgagaat agtgtatgcg
+     1621 gcgaccgagt tgctcttgcc cggcgtcaat acgggataat accgcgccac atagcagaac
+     1681 tttaaaagtg ctcatcattg gaaaacgttc ttcggggcga aaactctcaa ggatcttacc
+     1741 gctgttgaga tccagttcga tataacccac tcgtgcaccc aactgatctt cagcatcttt
+     1801 tactttcacc agcgtttctg ggtgagcaaa aacaggaagg caaaatgccg caaaaaaggg
+     1861 aataagggcg acacggaaat gttgaatact catactcttc ctttttcaat attattgaag
+     1921 catttatcag ggttattgtc tcatgagcgg atacatattt gaatgtattt agaaaaataa
+     1981 acaaataggg gttccgcgca catttccccg aaaagtgcca cctgacgtct aagaaaccat
+     2041 tattatcatg acattaacct ataaaaatag gcgtatcacg aggcagaatt tcagataaaa
+     2101 aaaatcctta gctttcgcta aggatgattt ctggaattcg cggccgcttc tagagccggc
+     2161 ttatcggtca gtttcacctg atttacgtaa aaacccgctt cggcgggttt ttgcttttgg
+     2221 aggggcagaa agatgaatga ctgtccacga cgctataccc aaaagaaa
+//

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/BioBrick_assembly_dataset/BBa_K611094_bar.gb	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,74 @@
+LOCUS       BBa_K611094_br          2180 bp    DNA     circular UNK 01-JAN-1980
+DEFINITION  .
+ACCESSION   BBa_K611094_br     
+VERSION     BBa_K611094_br     
+KEYWORDS    .
+SOURCE      .
+  ORGANISM  .
+            .
+FEATURES             Location/Qualifiers
+     misc_feature    1..21
+                     /label="suffix"
+     misc_feature    22..93
+                     /label="E. coli his operon terminator"
+     stem_loop       30..64
+                     /label="terminator stem loop"
+     primer_bind     157..176
+                     /label="VR"
+     CDS             261..875
+                     /label="rep(pMB1) (rev)"
+     misc_feature    276
+                     /label="ORI"
+     CDS             1035..1895
+                     /label="ampR (rev)"
+     primer_bind     2018..2037
+                     /label="VF2"
+     misc_feature    2094..2097
+                     /label="end of terminator"
+     stem_loop       2107..2126
+                     /label="terminator stem loop"
+     misc_feature    2136..2157
+                     /label="prefix"
+     misc_feature    2156..2180
+                     /label="Barcode"
+     misc_feature    2156..2180
+                     /label="BBa_K611094_br"
+ORIGIN
+        1 tactagtagc ggccgctgca gtccggcaaa aaagggcaag gtgtcaccac cctgcccttt
+       61 ttctttaaaa ccgaaaagat tacttcgcgt tatgcaggct tcctcgctca ctgactcgct
+      121 gcgctcggtc gttcggctgc ggcgagcggt atcagctcac tcaaaggcgg taatacggtt
+      181 atccacagaa tcaggggata acgcaggaaa gaacatgtga gcaaaaggcc agcaaaaggc
+      241 caggaaccgt aaaaaggccg cgttgctggc gtttttccac aggctccgcc cccctgacga
+      301 gcatcacaaa aatcgacgct caagtcagag gtggcgaaac ccgacaggac tataaagata
+      361 ccaggcgttt ccccctggaa gctccctcgt gcgctctcct gttccgaccc tgccgcttac
+      421 cggatacctg tccgcctttc tcccttcggg aagcgtggcg ctttctcata gctcacgctg
+      481 taggtatctc agttcggtgt aggtcgttcg ctccaagctg ggctgtgtgc acgaaccccc
+      541 cgttcagccc gaccgctgcg ccttatccgg taactatcgt cttgagtcca acccggtaag
+      601 acacgactta tcgccactgg cagcagccac tggtaacagg attagcagag cgaggtatgt
+      661 aggcggtgct acagagttct tgaagtggtg gcctaactac ggctacacta gaagaacagt
+      721 atttggtatc tgcgctctgc tgaagccagt taccttcgga aaaagagttg gtagctcttg
+      781 atccggcaaa caaaccaccg ctggtagcgg tggttttttt gtttgcaagc agcagattac
+      841 gcgcagaaaa aaaggatctc aagaagatcc tttgatcttt tctacggggt ctgacgctca
+      901 gtggaacgaa aactcacgtt aagggatttt ggtcatgaga ttatcaaaaa ggatcttcac
+      961 ctagatcctt ttaaattaaa aatgaagttt taaatcaatc taaagtatat atgagtaaac
+     1021 ttggtctgac agttaccaat gcttaatcag tgaggcacct atctcagcga tctgtctatt
+     1081 tcgttcatcc atagttgcct gactccccgt cgtgtagata actacgatac gggagggctt
+     1141 accatctggc cccagtgctg caatgatacc gcgagaccca cgctcaccgg ctccagattt
+     1201 atcagcaata aaccagccag ccggaagggc cgagcgcaga agtggtcctg caactttatc
+     1261 cgcctccatc cagtctatta attgttgccg ggaagctaga gtaagtagtt cgccagttaa
+     1321 tagtttgcgc aacgttgttg ccattgctac aggcatcgtg gtgtcacgct cgtcgtttgg
+     1381 tatggcttca ttcagctccg gttcccaacg atcaaggcga gttacatgat cccccatgtt
+     1441 gtgcaaaaaa gcggttagct ccttcggtcc tccgatcgtt gtcagaagta agttggccgc
+     1501 agtgttatca ctcatggtta tggcagcact gcataattct cttactgtca tgccatccgt
+     1561 aagatgcttt tctgtgactg gtgagtactc aaccaagtca ttctgagaat agtgtatgcg
+     1621 gcgaccgagt tgctcttgcc cggcgtcaat acgggataat accgcgccac atagcagaac
+     1681 tttaaaagtg ctcatcattg gaaaacgttc ttcggggcga aaactctcaa ggatcttacc
+     1741 gctgttgaga tccagttcga tataacccac tcgtgcaccc aactgatctt cagcatcttt
+     1801 tactttcacc agcgtttctg ggtgagcaaa aacaggaagg caaaatgccg caaaaaaggg
+     1861 aataagggcg acacggaaat gttgaatact catactcttc ctttttcaat attattgaag
+     1921 catttatcag ggttattgtc tcatgagcgg atacatattt gaatgtattt agaaaaataa
+     1981 acaaataggg gttccgcgca catttccccg aaaagtgcca cctgacgtct aagaaaccat
+     2041 tattatcatg acattaacct ataaaaatag gcgtatcacg aggcagaatt tcagataaaa
+     2101 aaaatcctta gctttcgcta aggatgattt ctggaattcg cggccgcttc tagagcgctg
+     2161 atagtgctag tgtagatcgc
+//

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/BioBrick_assembly_dataset/hierarchical_biobrick.csv	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,4 @@
+construct,parts,
+C1_prom_barcode,BBa_K611094_bar,BBa_J23119_prom
+C2_gfp_term,BBa_E0040_GFP,BBa_J61048_term
+C3_final,C1_prom_barcode,C2_gfp_term

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/Gibson_assembly_dataset/gibson_assembly.csv	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,6 @@
+construct, parts,,,,
+construct_1,Frag_1,Frag_2,Frag_3,Frag_4,Frag_5
+construct_2,Frag_1,Frag_2,Frag_3,Frag_4b,Frag_5
+construct_3,Frag_1,Frag_2,Frag_3,Frag_4c,Frag_5b
+construct_4,Frag_1,Frag_2,Frag_3,Frag_4,
+construct_5,Frag_1,Frag_2,Frag_3,Frag_4,Frag_4b

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/Gibson_assembly_dataset/gibson_sequences.fa	Wed Jun 11 09:32:59 2025 +0000
@@ -0,0 +1,347 @@
+>expected_sequence
+CTCCACCTGCGTCTATCGTACAGTGCTAAAATGGCAGCAGATAGTGAAACTTCCGCTAAG
+CTAGCCCCTCAGGGTACACTGCACCGAGGCGTGCTGTCAATACTTGATTAAGTCGGGTTG
+TCGGGGACCTGCCGTCACGCTTCCGAGTGTATATCCGGATTTAGTTGACGTCATACAGAG
+GCACTAAGAAGAATAAACGCTTACCTCCAGCAATCGTGTAGTGTCAGGTGTACGTTCTCC
+CTTGCGCCGTTCGGCAAGCGTCCGGTGTCGGGCTGCAAGGAATAAATCTTTATGGACCAG
+AGGGGCTTGTTTCCTCATATGGGTGCGTGCACTTATACGATTCAAAGGTGGATATGGCCG
+CATAACACGTAGCCAGGCTATAGTCCCGCGGCCTAATTCCTTCGAGTGCGGGTGCCTGTT
+TTTGTTTTTCCTTTACGACACGAACCGCTCTAACCTGCTCTATTTCGCCACGTTCCAGTG
+AACCTCTTAGCCTACCGCCCACGTACGGTGGGACGCGTCGAGCAGTTAAGGTACTGTGGA
+GAAATCGTTCAATATTAGAAAACAGGCGGTGTACGAATTACTGTGTCCCGGTGTTGCCCG
+TTTAACGGCTGCCGTGGTCATACCGTGAGGCACCACGAGGGGATGCTACGCAACATGCGA
+GGTGTAATCAGCAGGGAAGATCCCGGGGATCGAAAGCGGTCCGCGATTTGCGACCGATAT
+GCATAAGGTGTCATTTATATTACACCTACGACACTGGTACCGGCTCACAGCCAAATGCAC
+AGTCTCAAGATAGAATTCGCAAAAATTAGGCTTATCGGGCGCTTACTCTTTGTTACACTT
+CTGGTCTGTGAGTGACGCCCTGTGTCCCATCACTGCATGTGAGGATGCGTGTACTGCACC
+TGTGAATTACAGACGTTTCCCTACCAGGGCGCTACGTTATAATGTTCGGTTGCAACCCTC
+TATAGGGTGATCTCGACATACCACTATGGTTTGCGCGTCTCGGGTGCTTTTGGCGAGGGC
+CAGGTACGGCGGTGAGACAGCGTATTTTGCGAATAGGGTATTCGGACGCACGGTGTATAG
+CTCTTGGAAAACGACTCTTCGACGGGCGTGTAGAAGTAGCCAAGCAGTTCGGTTGTTATC
+ACTAAATGCGGACCATGTGCAGCCGTTTAGGAGAGGAGTCTGCAATGGATCAGCTGGTCA
+GATTGTACCACTCGGTTGAGCCTAAGGCACTTCAGGTGCTCGGATTGTAATGAACCCTCA
+GGTTACGCCGTTGCGCTGAGATCCCACAAGCCATAAGCAATGAGAATCGAGCAGCTATCG
+AATTACGCAGCACTTGCTGATGAACTGGGTGCACCTAAAGCGCCCGATAAAACGGAGGGA
+GTGAGGTAACTACTACATTGCGAGTAGTGCGAGGGGCCTCCGAGACTACATTAGAGCAGC
+CATGCCGAATACGACAAAATCTATAGCCTTGCGAACGTAGGGGACTGATTTATGGACAAC
+AGGACCGAAACAAGTTGGAGCCACAACGGAGCTATGGACGTTTTCACTATTGATGGGTGG
+CTTGCGTCCGCATCCCAGGTTTCTCTGGTTAATTTTCATGACGATTCTTTGTGGTACGAT
+CCAGGCATAAGATAGGGCACCTAACCCGATACTGTGAACTTATATGACGGCTGAACATGC
+CCTAATAGTCTGCCAAAAGGGAAACCTATAACGGCTCTAAACGGGCCCCGGGTACGTAAC
+AGCAATGTTCCTGTCCACCAAGGCGTTTTTAGTAACCGCCGATCGATCTCGATCGAATTC
+CGTTTTACGCCCCAGATCGCAGCTCCCTTGACAGTGTCAGTTGAATCCCCATTCTAGGTT
+TCCTGATAAAACTAAGTACGGGGACGCATCAGTCGAAAGCAATCACAGATAATAGATATC
+TTGAGCAGAAAGACGTCTTCACGAATCAGGAGCGAGTGTCCCCTTTGAAAGTGCGGGCAA
+CAATAGGTGTGAGGTTTCACGGTTGCTTGATCAGTAGCTGTTCACTCTCTCGCAGGCCTA
+CATAGTGAGGTGGTGAGATTGTTCAGGTCTGTCTCCTGCGCGGTTGTCGAGCCCCGTCGG
+GCACGCTAACAAGGACAGGAATTCGGGTCGTCAAATAACAATTTACGTCATCGCATCCCT
+CAAGGGTAAGGCGTGATCTCCATCTCGGTTCCCAATTGGTCATTGTGATAGCCACACTGC
+AGTTACCGAAGGCGATTTTATACTACCCTGATAAGTGCTCGCAGCCCCTCCTCCCTAATA
+ATGTAACGACGAGCATTAACCCAGGAGTATTTCTCACGTTGCTCGTGCCCAGCCAAGGCG
+ATCAACGCAGACCGGATAGCGTTAGCTAGCCCACGGGTAAAAGCGATTGTTGTACTCTTT
+CATATGAATACAGCACTCGCGAATGCAAGCCTACGTCGGCTCGATTCTCTTCCTCACCAC
+ACTGGAGGCGATGATCTAGCCCGTCTTTCACCCCGTACCTTTATACTCGGCCGCGTATTT
+CTCCACCGGGAGCTCTGCCTACCAAAGCGTCGTACGCCCAGGAAGCCGTTTCCTTTATCC
+TCCCTCATGTCTCAACGCGCGAGCATCGGAGAGTACGCGAAATCGACTGTCTGGCCAACA
+CTGGACAGACGCGCGAGACGCTGATAAACCCCCATTTTCGTGGGGTTAGTAAATCGGTGG
+CTTCAAACGGTTCGATCGCTCGCACGAGCATTAGTCAGGAGTATGATTGCGCATCATCTC
+TACTCCGTACTAGGTTCTGTAGCTCAGGATCTCCGGGGGGATCAAGCTTTTATGTCCCGC
+GGGATTAGAAGATATCCATCCATATGTTTACTTTGATGCGGGTCCGAGCTCTCTATGATG
+CTGCTTTGACAAAATGTGGAAAGCCTCAGCGACCGCTCTGGGGTCAAAGCTCTACGACAC
+GTTGATGCTAAACAAGTTGGACTACTAAGCAAATGAAGCGGAAGAGATACTGAGCGCTCT
+CTCTATGACTTTCGCTATATGGCGACGTGCGAAAAACGCGATTTGGCCGAAATCTCAAAT
+AATAATGCAATGTGTTGGCTAAGCTCGGGCAAACTCAGGATGTGACCTAGTACCCTCTGC
+CCCGTGAGTACCCATACCCAATCAAGCCAGCCCAATTCGCGATAGGTACAGATAAGCCTT
+ACTCGTCCCGATCCTTGACTAAAACACTCATCCTCGATAGTACGTGCCTTGTAGAGTCCG
+ACGGCCATAGGTAAACGACCAGTTAGTGTCGTAGGGTCCTCCACTTTAGCTACGATTGCA
+ACTCCCTTACCTTCGTGCCGGCGCGCTCCTCTTGCTACCATCACGCTTCAAATCGGGTGG
+AAGACCAACTGATGAATGAGGGTGCAGACCCCAGTGGAGCATAATACGATGCGCCCACGA
+TACTCTAGAGCCACGCGTCGACGTTCGTAAGATGTCCCGGGCCCGTGGGTGGCCACATCG
+GCCGCCCATCCTTGTGTCTTCCGATAAGTACTCCCTTTCAAGGACTCTCCGATACCGGCT
+TAGAACACGAACGGACAACGCTTTCAGCGCTGAGAAATGACGGCTGCTTCAACCAGAACG
+ATACAGCCTTCTTTGCTAGATAGCCTCTAGTGTCAGCCACCAAGTCCGCCACCTAATCCT
+TCGCCGAGGGTCAAAGCTTCTGACCATCCAATTGTTAGGCACTCTTGGAACCTTGCAAGT
+ACCTGATCATGCAGAAAATGGACTTGCCCGGAGCATATTCATTATAAGTACCATTCACGG
+CAGGTTATAGTATGCGTTGACGCGGGGTGATACGGTAATGCAAGTAACCATCGGGCCGCG
+GTATGCACATAGAAGGGTGTTTGACTTGGTTTCTTACAGTGCAACTGCATATGTGGACCG
+CCATTCCAAGTGAAAGGATACGAAGGGAGGTTTCGGACTGCTATCCAGAGCATGGAAAGC
+CTTCAAGGTGGTGCGCACTGGAATAGTGACTCGGGGATTGTATGTCGAGCCGCGTCCAGT
+CTTTCCTATACTTATGCGAGCAAATAGACCGAGTGGAACTTGATTGCATCAGCCGAATCA
+CGATGAAAACTCAGCTTACAATTCGTAAGCACTTCAAATATATGCCCGGAAAATCGCCGT
+CCAGTGACTTGTAATAGCTCCAGGGTCAGTAGCGCTGCCCTGGCCGAACCAGGTGACGGT
+TACGTGGACCTCACAGTATCAATGTTGCAGTGCGCCACCAGATTAAGCTGGCCGTGTCAT
+GGTGAACAACCGTGATAAAAGAACGGGAGTATGAGAGTGCCACCCAAGAGTGGTACTCCA
+GGATTCGGAAAGGGGAGGGGGCTTTTCCTGCTTAACAACCTTCCTCGGCACGGTCTAAGC
+GTCTCACTCGTCCTAAACTCTACCATCATGCAGCTAGGCGAAAGTATAACTTTAGGGTCT
+ATCAGGATGAGCTATCTGTACCACGGTGATGAGATAAGTAGGGGGTGCGCTAGGGTCGTT
+CGTGTTTTCATCGTCTATAGTACCTATTTCTCGTCTTCCATTAGCGCATACGGCCATCTC
+GCGGCGGCTACGTCAGCCAGCGTCAACCCCAAGTCACTAATTTCCGTTATTATAGGTGTA
+GCTCATAACTTCTTCTGCCGACCAAGCCAAAAGCTTTGCGGCAGCTGCAAGGCCACGTTA
+GGCTCTCGGACGGCAGATATTTATTAATAACACCACTGGGTTCCAGCTCTTAACGCACTT
+CCCTTCACTGGATCACCTGTACGCCCATAAGCTAAGCCTGAAGCCACGGCCTCAATCGTG
+GACATTACTCTTAGCAAATCCACATTACCATGTCACCAATCCCCGAACCCCGCGCCGACC
+TAAGGCGGGGTACCTCGTGCACGGCAGCATCGAGGGAAATATATTACAAAAGACGCGGCG
+ATCCAACGGTTGATAAAAACAGTTCCGTGGAAGGCGGACGTGTGCTTAGCGCATGCTTCT
+CACCGAGTGACAGCACCGATTCCATCTCGCTAGCACGCCGATGAGCCTCGCTGTGGGACT
+ATGGTCCAGCCTATGCTTAACTAGGCAGAACAGAGAGTATGGTGGTCCTCGGTAAGGTCG
+ATTTGGTGGCACTCGCAAGATACGCGGGTTATTAGTAGAGCGCAGTCAGGGCCCATCGCC
+AGCATTTGCATGCTCGCCGTACGCTATCCTTGTACTACGGTTCCTCAGTGGCTATAAAGG
+AATGTCACAACTCCATTAGCCCCTTTTGTTCAGCGCTTAGTCATGGTGGGACTGACTCAC
+CGAGACTACATACGGATTGTGCCCGCAGAGACATGCCTTTCATGCTGGGGTTTTGTAAGC
+AGCTCCACGGGGTAGTGTCACCATGCCTTCGACCTATGCTTATGAAACCCGAGGTAATGC
+GGCAGGATCCCGTGGATCCTACGCTTAGCCTGTTTAAGCCATCGTTCTCCTCGGCCCCCA
+GCCAGCGCGTATTCCGCGCATTCCTCCGAGTGCGTATCGCGCAAACCACAAGATACCTCT
+CAACGACTAGCGGTGAACCACCAAGCTTGACATACGTGCCCCTTCGGAAACGTTATTAGT
+GGTCCTGAGTGGTACGTCCCGAGTATACGGGGCAGCGATAGTAACGCTACAAATAGCTAG
+GCGAGGTTGCGATACCTGAATGAATATCCAACAGTGGCAACGAGACGCTTAGAAAGGGAA
+ACTACATACCAGTTCAATCCGGGATGACTTCAAAAGGGTATGTTTGTTTTGAAGCGAAGC
+TTTGGTTGTCATTCAGTTCCTAGAGTTTACGGCGCTGATATGGCTCTAGGAGTCCAGTGA
+ATTCGTCAGCATAAGCCCCACATCGTAGGAAATTGCCCGGTCGTCGGTCTAGCAAATGCT
+CGGTAAACTGGGAGTGTACTAACACCATGTCGTGGTAACCCGGTGGACCGGCTACTAGAG
+ACATATTTATTCATGCTCAGTTGAACCTGTTTCGAGGGGGCCGAGTTAACATAAAGTGAT
+TAGTCACAGCGCATTAAGATAGAACAGGGATATAGCTCGTTGCATCCATAAATTGCCCAC
+CGTAGGGAGAACGCCGTTGGAAAATGAGAGTTAGGCGATGAGCGGTTGTCGCCCGCACAG
+ACAAAGGATGCCTTTATAAATAGTAGCGGCCTTGTCTGCACCAGACGTTTGTGGGTCGAC
+GTGCTATTCTAGCCAAAAGCAAAATGTATCATACTACAGGCAATAGGCCCTATGCTGACC
+AAACTTGGGGACCCTTGCGCCTTCTCTCTTACGCATAACATGCATAGGTACCTCTACTCA
+TCAGGCAGGGCGGCGTGAGGTCACTATGGCTCAAGATGTGTACGACTAAAGAAAGGTTTA
+TGCTCCTTCCCCAAGGACGCATTTGGGACTGCTACTTGCCCCTAGCGAATTCACTAGGAT
+TTTTGTAGAACCATGAGCGCCCTATCCGATAGCACAGAGACAATGCTACAAGCAACTGTG
+CATGCGCTCGATCGCCGTGCATTAATACGTATTATAGCGTATCGTGTACGCTAATATCTT
+AGTGCACCGCACGCTGGTTGGATACAATTCCGTGAAATAATTCCTGCTTACACAGGGGCT
+TTCTGGCGCATGGCTGTGTCTGGATGTTTGTGATAAGAGGCTCCATGAACCCGGCGGGAA
+ATGAGGGGAAACCCCGGGGAGCAACGACACTAAGCCTGGCAGTTGTTCAGATAGGACGCT
+TTTGTCAGTGGGCGGTTTTGCATCCACTAACTATCATAAACGACACAACGTCGAATGATC
+ATCGGCGGTTTGCATGTAGAGACAGCTCCTGCAACACCATACCGGCTCGTGGAATTACGC
+TGTGCGCCGGCCCTCATTCGATTGTGTCCAGCGTCGGCGCGAATGATGATTGAGATGTGC
+TTCGGCTCAGAGCGTGCACAGGTAGTTCTCCCCCCTTACCTAGCTGATCCAGCAATTCCA
+CGCTGGCCCGCGCGTCCTTGGGTAACACTGGATCTGTACCCAAATACACCGTCGTGATTG
+TTAACTACCGTATGGCGGTTACGATCGAGTGACACTATTATTAGACCGCTACTCCAAGTC
+CCAACTTTTCATCGCCATACAGAAGAGAACGAGAAAGTCGAAGAGTTATAGCGTGTACAC
+TTCTGATTAGCTAACGAATCGATGCGTACAGCATACTCGAGCAACTTTATGGGTCGTCTG
+TCTCCTTGTACCCCGCTTGACGAGGATGTGTTTGTAGGCGGCTTGGATATCGGCAGTGTA
+TCCGCATGGTCAAACACTTTAGCCCGACCGGTGCTCAAGGTCGAAATCCTAATATAGATT
+GGGATAGGACCCGTCCATTACTAGGCGACATTCGCAGTCACGAGCCCGCACGGGGTGCCT
+CAACACGGTGACACTCAATTCGCCGGCACTGAGTACGACGATCGTGATTGCCATACCGTC
+ATGTTTTGTGTTACCCCTGATAAGAAGCGCAGATATGGCACGGGGGCAGAGGGCGGAGTA
+GACCCATGCAAAACTCTAGCCTCTGGGCAGCATGATCGACGTAGAACGCCGTTGTGACTC
+ACTAGTTTCAGTTATGATGTTCAGCCAAGAATCCTCCATTTTGACGTGAACCTTCTCCCT
+TTACACCTTGAAGCTGCAATATTAAGTCGACCCTTTAAGTTGCCTTGTCTTGGTCTAGAG
+CCCGCAGCTCACCGATAAAATGAGCAGTCAATTTTAGCGGCGGTTGTCCAGGTTACATGC
+ACTTTGGGCTGGAACCGCGTTACGTTTGGAGTACTTAGAAGTGTCGTAGGCATAGGAGAG
+CCGAAACTTGATATTGGGTCTAGTTAGTGCTCTACCCCGCTTCGGATCCGTAATAGTGAT
+GTTGCATGAGACGCTTGCCTCAAGGCGACATACGGTGGCGGTTGCTGGAAATGACGCCCC
+ACCCCGTGATAATTTGGGGACGAGCCGCACGATAACTTCTGCCAGCGACCGCCCCTCCCA
+CGTCCGATGGTGATTCCGAA
+>Frag_1
+CTCCACCTGCGTCTATCGTACAGTGCTAAAATGGCAGCAGATAGTGAAACTTCCGCTAAG
+CTAGCCCCTCAGGGTACACTGCACCGAGGCGTGCTGTCAATACTTGATTAAGTCGGGTTG
+TCGGGGACCTGCCGTCACGCTTCCGAGTGTATATCCGGATTTAGTTGACGTCATACAGAG
+GCACTAAGAAGAATAAACGCTTACCTCCAGCAATCGTGTAGTGTCAGGTGTACGTTCTCC
+CTTGCGCCGTTCGGCAAGCGTCCGGTGTCGGGCTGCAAGGAATAAATCTTTATGGACCAG
+AGGGGCTTGTTTCCTCATATGGGTGCGTGCACTTATACGATTCAAAGGTGGATATGGCCG
+CATAACACGTAGCCAGGCTATAGTCCCGCGGCCTAATTCCTTCGAGTGCGGGTGCCTGTT
+TTTGTTTTTCCTTTACGACACGAACCGCTCTAACCTGCTCTATTTCGCCACGTTCCAGTG
+AACCTCTTAGCCTACCGCCCACGTACGGTGGGACGCGTCGAGCAGTTAAGGTACTGTGGA
+GAAATCGTTCAATATTAGAAAACAGGCGGTGTACGAATTACTGTGTCCCGGTGTTGCCCG
+TTTAACGGCTGCCGTGGTCATACCGTGAGGCACCACGAGGGGATGCTACGCAACATGCGA
+GGTGTAATCAGCAGGGAAGATCCCGGGGATCGAAAGCGGTCCGCGATTTGCGACCGATAT
+GCATAAGGTGTCATTTATATTACACCTACGACACTGGTACCGGCTCACAGCCAAATGCAC
+AGTCTCAAGATAGAATTCGCAAAAATTAGGCTTATCGGGCGCTTACTCTTTGTTACACTT
+CTGGTCTGTGAGTGACGCCCTGTGTCCCATCACTGCATGTGAGGATGCGTGTACTGCACC
+TGTGAATTACAGACGTTTCCCTACCAGGGCGCTACGTTATAATGTTCGGTTGCAACCCTC
+TATAGGGTGATCTCGACATACCACTATGGTTTGCGCGTCTCGGGTGCTTTTGGCGAGGGC
+CAGGTACGGCGGTGAGACAGCGTATTTTGCGAATAGGGTATTCGGACGCACGGTGTATAG
+CTCTTGGAAAACGACTCTTCGACGGGCGTGTAGAAGTAGCCAAGCAGTTCGGTTGTTATC
+ACTAAATGCGGACCATGTGCAGCCGTTTAGGAGAGGAGTCTGCAATGGATCAGCTGGTCA
+GATTGTACCACTCGGTTGAGCCTAAGGCACTTCAGGTGCTCGGATTGTAATGAACCCTCA
+GGTTACGCCGTTGCGCTGAGATCCCACAAGCCATAAGCAATGAGAATCGAGCAGCTATCG
+AATTACGCAGCACTTGCTGATGAACTGGGTGCACCTAAAGCGCCCGATAAAACGGAGGGA
+GTGAGGTAACTACTACATTGCGAGTAGTGCGAGGGGCCTCCGAGACTACATTAGAGCAGC
+CATGCCGAATACGACAAAATCTATAGCCTTGCGAACGTAGGGGACTGATTTATGGACAAC
+AGGACCGAAACAAGTTGGAGCCACAACGGAGCTATGGACGTTTTCACTATTGATGGGTGG
+CTTGCGTCCGCATCCCAGGTTTCTCTGGTTAATTTTCATGACGATTCTTTGTGGTACGAT
+CCAGGCATAAGATAGGGCACCTAACCCGATACTGTGAACTTATATGACGGCTGAACATGC
+CCTAATAGTCTGCCAAAAGGGAAACCTATAACGGCTCTAAACGGGCCCCGGGTACGTAAC
+AGCAATGTTCCTGTCCACCAAGGCGTTTTTAGTAACCGCCGATCGATCTCGATCGAATTC
+CGTTTTACGC
+>Frag_2
+GATCGAATTCCGTTTTACGCCCCAGATCGCAGCTCCCTTGACAGTGTCAGTTGAATCCCC
+ATTCTAGGTTTCCTGATAAAACTAAGTACGGGGACGCATCAGTCGAAAGCAATCACAGAT
+AATAGATATCTTGAGCAGAAAGACGTCTTCACGAATCAGGAGCGAGTGTCCCCTTTGAAA
+GTGCGGGCAACAATAGGTGTGAGGTTTCACGGTTGCTTGATCAGTAGCTGTTCACTCTCT
+CGCAGGCCTACATAGTGAGGTGGTGAGATTGTTCAGGTCTGTCTCCTGCGCGGTTGTCGA
+GCCCCGTCGGGCACGCTAACAAGGACAGGAATTCGGGTCGTCAAATAACAATTTACGTCA
+TCGCATCCCTCAAGGGTAAGGCGTGATCTCCATCTCGGTTCCCAATTGGTCATTGTGATA
+GCCACACTGCAGTTACCGAAGGCGATTTTATACTACCCTGATAAGTGCTCGCAGCCCCTC
+CTCCCTAATAATGTAACGACGAGCATTAACCCAGGAGTATTTCTCACGTTGCTCGTGCCC
+AGCCAAGGCGATCAACGCAGACCGGATAGCGTTAGCTAGCCCACGGGTAAAAGCGATTGT
+TGTACTCTTTCATATGAATACAGCACTCGCGAATGCAAGCCTACGTCGGCTCGATTCTCT
+TCCTCACCACACTGGAGGCGATGATCTAGCCCGTCTTTCACCCCGTACCTTTATACTCGG
+CCGCGTATTTCTCCACCGGGAGCTCTGCCTACCAAAGCGTCGTACGCCCAGGAAGCCGTT
+TCCTTTATCCTCCCTCATGTCTCAACGCGCGAGCATCGGAGAGTACGCGAAATCGACTGT
+CTGGCCAACACTGGACAGACGCGCGAGACGCTGATAAACCCCCATTTTCGTGGGGTTAGT
+AAATCGGTGGCTTCAAACGGTTCGATCGCTCGCACGAGCATTAGTCAGGAGTATGATTGC
+GCATCATCTCTACTCCGTACTAGGTTCTGTAGCTCAGGATCTCCGGGGGGATCAAGCTTT
+TATGTCCCGCGGGATTAGAAGATATCCATCCATATGTTTACTTTGATGCGGGTCCGAGCT
+CTCTATGATGCTGCTTTGACAAAATGTGGAAAGCCTCAGCGACCGCTCTGGGGTCAAAGC
+TCTACGACACGTTGATGCTAAACAAGTTGGACTACTAAGCAAATGAAGCGGAAGAGATAC
+TGAGCGCTCTCTCTATGACTTTCGCTATATGGCGACGTGCGAAAAACGCGATTTGGCCGA
+AATCTCAAATAATAATGCAATGTGTTGGCTAAGCTCGGGCAAACTCAGGATGTGACCTAG
+TACCCTCTGCCCCGTGAGTACCCATACCCAATCAAGCCAGCCCAATTCGCGATAGGTACA
+GATAAGCCTTACTCGTCCCGATCCTTGACTAAAACACTCATCCTCGATAGTACGTGCCTT
+GTAGAGTCCGACGGCCATAGGTAAACGACCAGTTAGTGTCGTAGGGTCCTCCACTTTAGC
+TACGATTGCAACTCCCTTACCTTCGTGCCGGCGCGCTCCTCTTGCTACCATCACGCTTCA
+AATCGGGTGGAAGACCAACTGATGAATGAGGGTGCAGACCCCAGTGGAGCATAATACGAT
+GCGCCCACGATACTCTAGAGCCACGCGTCGACGTTCGTAAGATGTCCCGGGCCCGTGGGT
+GGCCACATCGGCCGCCCATCCTTGTGTCTTCCGATAAGTACTCCCTTTCAAGGACTCTCC
+GATACCGGCTTAGAACACGAACGGACAACGCTTTCAGCGCTGAGAAATGACGGCTGCTTC
+AACCAGAACGATACAGCCTT
+>Frag_3
+AACCAGAACGATACAGCCTTCTTTGCTAGATAGCCTCTAGTGTCAGCCACCAAGTCCGCC
+ACCTAATCCTTCGCCGAGGGTCAAAGCTTCTGACCATCCAATTGTTAGGCACTCTTGGAA
+CCTTGCAAGTACCTGATCATGCAGAAAATGGACTTGCCCGGAGCATATTCATTATAAGTA
+CCATTCACGGCAGGTTATAGTATGCGTTGACGCGGGGTGATACGGTAATGCAAGTAACCA
+TCGGGCCGCGGTATGCACATAGAAGGGTGTTTGACTTGGTTTCTTACAGTGCAACTGCAT
+ATGTGGACCGCCATTCCAAGTGAAAGGATACGAAGGGAGGTTTCGGACTGCTATCCAGAG
+CATGGAAAGCCTTCAAGGTGGTGCGCACTGGAATAGTGACTCGGGGATTGTATGTCGAGC
+CGCGTCCAGTCTTTCCTATACTTATGCGAGCAAATAGACCGAGTGGAACTTGATTGCATC
+AGCCGAATCACGATGAAAACTCAGCTTACAATTCGTAAGCACTTCAAATATATGCCCGGA
+AAATCGCCGTCCAGTGACTTGTAATAGCTCCAGGGTCAGTAGCGCTGCCCTGGCCGAACC
+AGGTGACGGTTACGTGGACCTCACAGTATCAATGTTGCAGTGCGCCACCAGATTAAGCTG
+GCCGTGTCATGGTGAACAACCGTGATAAAAGAACGGGAGTATGAGAGTGCCACCCAAGAG
+TGGTACTCCAGGATTCGGAAAGGGGAGGGGGCTTTTCCTGCTTAACAACCTTCCTCGGCA
+CGGTCTAAGCGTCTCACTCGTCCTAAACTCTACCATCATGCAGCTAGGCGAAAGTATAAC
+TTTAGGGTCTATCAGGATGAGCTATCTGTACCACGGTGATGAGATAAGTAGGGGGTGCGC
+TAGGGTCGTTCGTGTTTTCATCGTCTATAGTACCTATTTCTCGTCTTCCATTAGCGCATA
+CGGCCATCTCGCGGCGGCTACGTCAGCCAGCGTCAACCCCAAGTCACTAATTTCCGTTAT
+TATAGGTGTAGCTCATAACTTCTTCTGCCGACCAAGCCAAAAGCTTTGCGGCAGCTGCAA
+GGCCACGTTAGGCTCTCGGACGGCAGATATTTATTAATAACACCACTGGGTTCCAGCTCT
+TAACGCACTTCCCTTCACTGGATCACCTGTACGCCCATAAGCTAAGCCTGAAGCCACGGC
+CTCAATCGTGGACATTACTCTTAGCAAATCCACATTACCATGTCACCAATCCCCGAACCC
+CGCGCCGACCTAAGGCGGGGTACCTCGTGCACGGCAGCATCGAGGGAAATATATTACAAA
+AGACGCGGCGATCCAACGGTTGATAAAAACAGTTCCGTGGAAGGCGGACGTGTGCTTAGC
+GCATGCTTCTCACCGAGTGACAGCACCGATTCCATCTCGCTAGCACGCCGATGAGCCTCG
+CTGTGGGACTATGGTCCAGCCTATGCTTAACTAGGCAGAACAGAGAGTATGGTGGTCCTC
+GGTAAGGTCGATTTGGTGGCACTCGCAAGATACGCGGGTTATTAGTAGAGCGCAGTCAGG
+GCCCATCGCCAGCATTTGCATGCTCGCCGTACGCTATCCTTGTACTACGGTTCCTCAGTG
+GCTATAAAGGAATGTCACAACTCCATTAGCCCCTTTTGTTCAGCGCTTAGTCATGGTGGG
+ACTGACTCACCGAGACTACATACGGATTGTGCCCGCAGAGACATGCCTTTCATGCTGGGG
+TTTTGTAAGCAGCTCCACGGGGTAGTGTCACCATGCCTTCGACCTATGCTTATGAAACCC
+GAGGTAATGCGGCAGGATC
+>Frag_4
+AGGTAATGCGGCAGGATCCCGTGGATCCTACGCTTAGCCTGTTTAAGCCATCGTTCTCCT
+CGGCCCCCAGCCAGCGCGTATTCCGCGCATTCCTCCGAGTGCGTATCGCGCAAACCACAA
+GATACCTCTCAACGACTAGCGGTGAACCACCAAGCTTGACATACGTGCCCCTTCGGAAAC
+GTTATTAGTGGTCCTGAGTGGTACGTCCCGAGTATACGGGGCAGCGATAGTAACGCTACA
+AATAGCTAGGCGAGGTTGCGATACCTGAATGAATATCCAACAGTGGCAACGAGACGCTTA
+GAAAGGGAAACTACATACCAGTTCAATCCGGGATGACTTCAAAAGGGTATGTTTGTTTTG
+AAGCGAAGCTTTGGTTGTCATTCAGTTCCTAGAGTTTACGGCGCTGATATGGCTCTAGGA
+GTCCAGTGAATTCGTCAGCATAAGCCCCACATCGTAGGAAATTGCCCGGTCGTCGGTCTA
+GCAAATGCTCGGTAAACTGGGAGTGTACTAACACCATGTCGTGGTAACCCGGTGGACCGG
+CTACTAGAGACATATTTATTCATGCTCAGTTGAACCTGTTTCGAGGGGGCCGAGTTAACA
+TAAAGTGATTAGTCACAGCGCATTAAGATAGAACAGGGATATAGCTCGTTGCATCCATAA
+ATTGCCCACCGTAGGGAGAACGCCGTTGGAAAATGAGAGTTAGGCGATGAGCGGTTGTCG
+CCCGCACAGACAAAGGATGCCTTTATAAATAGTAGCGGCCTTGTCTGCACCAGACGTTTG
+TGGGTCGACGTGCTATTCTAGCCAAAAGCAAAATGTATCATACTACAGGCAATAGGCCCT
+ATGCTGACCAAACTTGGGGACCCTTGCGCCTTCTCTCTTACGCATAACATGCATAGGTAC
+CTCTACTCATCAGGCAGGGCGGCGTGAGGTCACTATGGCTCAAGATGTGTACGACTAAAG
+AAAGGTTTATGCTCCTTCCCCAAGGACGCATTTGGGACTGCTACTTGCCCCTAGCGAATT
+CACTAGGATTTTTGTAGAACCATGAGCGCCCTATCCGATAGCACAGAGACAATGCTACAA
+GCAACTGTGCATGCGCTCGATCGCCGTGCATTAATACGTATTATAGCGTATCGTGTACGC
+TAATATCTTAGTGCACCGCACGCTGGTTGGATACAATTCCGTGAAATAATTCCTGCTTAC
+ACAGGGGCTTTCTGGCGC
+>Frag_4b
+AGGTAATGCGGCAGGATCCCGTGGATCCTACGCTTAGCCTGTTACCCCCCCCGTTCTCCT
+CGGCCCCCAGCCAGCGCGTATTCCGCGCATTCCTCCGAGTGCGTATCGCGCAAACCACAA
+GATACCTCTCAACGACTAGCGGTGAACCACCAAGCTTGACATACGTGCCCCTTCGGAAAC
+GTTATTAGTGGTCCTGAGTGGTACGTCCCGAGTATACGGGGCAGCGATAGTAACGCTACA
+AATAGCTAGACCGACGACAAACACAGCACTGAATATCCAACAGTGGCAACGAGACGCTTA
+GAAAGGGAAACTACATACCAGTTCAATCCGGGATGACTTCAAAAGGGTATGTTTGTTTTG
+AAGCGAAGCTTTGGTTGTCATTCAGTTCCTAGAGTTTACGGCGCTGATATGGCTCTAGGA
+GTCCAGTGAATTCGTCAGCATAAGCCCCACATCGTAGGAAATTGCCCGGTCGTCGGTCTA
+GCAAATGCTCGGTAAACTGGGAGTGTACTAACACCATGTCGTGGTAACCCGGTGGACCGG
+CTACTAGAGACATATTTATTCATGCTCAGTTGAACCTGTTTCGAGGGGGCCGAGTTAACA
+TAAAGTGATTAGTCACAGCGCATTAAGATAGAACAGGGATATAGCTCGTTGCATCCATAA
+ATTGCCCACCGTAGGGAGAACGCCGTTGGAAAATGAGAGTTAGGCGATGAGCGGTTGTCG
+CCCGCACAGACAAAGGATGCCTTTATAAATAGTAGCGGCCTTGTCTGCACCAGACGTTTG
+TGGGTCGACGTGCTATTCTAGCCAAAAGCAAAATGTATCATACTACAGGCAATAGGCCCT
+ATGCTGACCAAACTTGGGGACCCTTGCGCCTTCTCTCTTACGCATAACATGCATAGGTAC
+CTCTACTCATCAGGCAGGGCGGCGTGAGGTCACTATGGCTCAAGATGTGTACGACTAAAG
+AAAGGTTTATGCTCCTTCCCCAAGGACGCATTTGGGACTGCTACTTGCCCCTAGCGAATT
+CACTAGGATTTTTGTAGAACCATGAGCGCCCTATCCGATAGCACAGAGACAATGCTACAA
+GCAACTGTGCATGCGCTCGATCGCCGTGCATTAATACGTATTATAGCGTATCGTGTACGC
+TAATATCTTAGTGCACCGCACGCTGGTTGGATACAATTCCGTGAAATAATTCCTGCTTAC
+ACAGGGGCTTTCTGGCGC
+>Frag_4c
+AGGTAATGCGGCAGGATCCCGTGGATCCTACGCTTAGCCTGTTAGGGGGGGGGTTCTCCT
+CGGCCCCCAGCCAGCGCGTATTCCGCGCATTCCTCCGAGTGCGTATCGCGCAAACCACAA
+GATACCTCTCAACGACTAGCGGTGAACCACCAAGCTTGACATACGTGCCCCTTCGGAAAC
+GTTATTAGTGGTCCTGAGTGGTACGTCCCGAGTATACGGGGCAGCGATAGTAACGCTACA
+AATAGCTAGACCGACGACAAACACAGCACTGAATATCCAACAGTGGCAACGAGACGCTTA
+GAAAGGGAAACTACATACCAGTTCAATCCGGGATGACTTCAAAAGGGTATGTTTGTTTTG
+AAGCGAAGCTTTGGTTGTCATTCAGTTCCTAGAGTTTACGGCGCTGATATGGCTCTAGGA
+GTCCAGTGAATTCGTCAGCATAAGCCCCACATCGTAGGAAATTGCCCGGTCGTCGGTCTA
+GCAAATGCTCGGTAAACTGGGAGTGTACTAACACCATGTCGTGGTAACCCGGTGGACCGG
+CTACTAGAGACATATTTATTCATGCTCAGTTGAACCTGTTTCGAGGGGGCCGAGTTAACA
+TAAAGTGATTAGTCACAGCGCATTAAGATAGAACAGGGATATAGCTCGTTGCATCCATAA
+ATTGCCCACCGTAGGGAGAACGCCGTTGGAAAATGAGAGTTAGGCGATGAGCGGTTGTCG
+CCCGCACAGACAAAGGATGCCTTTATAAATAGTAGCGGCCTTGTCTGCACCAGACGTTTG
+TGGGTCGACGTGCTATTCTAGCCAAAAGCAAAATGTATCATACTACAGGCAATAGGCCCT
+ATGCTGACCAAACTTGGGGACCCTTGCGCCTTCTCTCTTACGCATAACATGCATAGGTAC
+CTCTACTCATCAGGCAGGGCGGCGTGAGGTCACTATGGCTCAAGATGTGTACGACTAAAG
+AAAGGTTTATGCTCCTTCCCCAAGGACGCATTTGGGACTGCTACTTGCCCCTAGCGAATT
+CACTAGGATTTTTGTAGAACCATGAGCGCCCTATCCGATAGCACAGAGACAATGCTACAA
+GCAACTGTGCATGCGCTCGATCGCCGTGCATTAATACGTATTATAGCGTATCGTGTACGC
+TAATATCTTAGTGCACCGCACGCTGGTTGGATACAATTCCGTGAAATAATTCCTGCTTAC
+ACAGGGGCTTTCTGGCGC
+>Frag_5
+ACAGGGGCTTTCTGGCGCATGGCTGTGTCTGGATGTTTGTGATAAGAGGCTCCATGAACC
+CGGCGGGAAATGAGGGGAAACCCCGGGGAGCAACGACACTAAGCCTGGCAGTTGTTCAGA
+TAGGACGCTTTTGTCAGTGGGCGGTTTTGCATCCACTAACTATCATAAACGACACAACGT
+CGAATGATCATCGGCGGTTTGCATGTAGAGACAGCTCCTGCAACACCATACCGGCTCGTG
+GAATTACGCTGTGCGCCGGCCCTCATTCGATTGTGTCCAGCGTCGGCGCGAATGATGATT
+GAGATGTGCTTCGGCTCAGAGCGTGCACAGGTAGTTCTCCCCCCTTACCTAGCTGATCCA
+GCAATTCCACGCTGGCCCGCGCGTCCTTGGGTAACACTGGATCTGTACCCAAATACACCG
+TCGTGATTGTTAACTACCGTATGGCGGTTACGATCGAGTGACACTATTATTAGACCGCTA
+CTCCAAGTCCCAACTTTTCATCGCCATACAGAAGAGAACGAGAAAGTCGAAGAGTTATAG
+CGTGTACACTTCTGATTAGCTAACGAATCGATGCGTACAGCATACTCGAGCAACTTTATG
+GGTCGTCTGTCTCCTTGTACCCCGCTTGACGAGGATGTGTTTGTAGGCGGCTTGGATATC
+GGCAGTGTATCCGCATGGTCAAACACTTTAGCCCGACCGGTGCTCAAGGTCGAAATCCTA
+ATATAGATTGGGATAGGACCCGTCCATTACTAGGCGACATTCGCAGTCACGAGCCCGCAC
+GGGGTGCCTCAACACGGTGACACTCAATTCGCCGGCACTGAGTACGACGATCGTGATTGC
+CATACCGTCATGTTTTGTGTTACCCCTGATAAGAAGCGCAGATATGGCACGGGGGCAGAG
+GGCGGAGTAGACCCATGCAAAACTCTAGCCTCTGGGCAGCATGATCGACGTAGAACGCCG
+TTGTGACTCACTAGTTTCAGTTATGATGTTCAGCCAAGAATCCTCCATTTTGACGTGAAC
+CTTCTCCCTTTACACCTTGAAGCTGCAATATTAAGTCGACCCTTTAAGTTGCCTTGTCTT
+GGTCTAGAGCCCGCAGCTCACCGATAAAATGAGCAGTCAATTTTAGCGGCGGTTGTCCAG
+GTTACATGCACTTTGGGCTGGAACCGCGTTACGTTTGGAGTACTTAGAAGTGTCGTAGGC
+ATAGGAGAGCCGAAACTTGATATTGGGTCTAGTTAGTGCTCTACCCCGCTTCGGATCCGT
+AATAGTGATGTTGCATGAGACGCTTGCCTCAAGGCGACATACGGTGGCGGTTGCTGGAAA
+TGACGCCCCACCCCGTGATAATTTGGGGACGAGCCGCACGATAACTTCTGCCAGCGACCG
+CCCCTCCCACGTCCGATGGTGATTCCGAACTCCACCTGCGTCTATCGT
+>Frag_5b
+ACAGGGGCTTTCTGGCGCATGGCTGTGTCTGGAAAAAAAAAAAAAAAAAAAACATGAACC
+CGGCGGGAAATGAGGGGAAACCCCGGGGAGCAACGACACTAAGCCTGGCAGTTGTTCAGA
+TAGGACGCTTTTGTCAGTGGGCGGTTTTGCATCCACTAACTATCATAAACGACACAACGT
+CGAATGATCATCGGCGGTTTGCATGTAGAGACAGCTCCTGCAACACCATACCGGCTCGTG
+GAATTACGCTGTGCGCCGGCCCTCATTCGATTGTGTCCAGCGTCGGCGCGAATGATGATT
+GAGATGTGCTTCGGCTCAGAGCGTGCACAGGTAGTTCTCCCCCCTTACCTAGCTGATCCA
+GCAATTCCACGCTGGCCCGCGCGTCCTTGGGTAACACTGGATCTGTACCCAAATACACCG
+TCGTGATTGTTAACTACCGTATGGCGGTTACGATCGAGTGACACTATTATTAGACCGCTA
+CTCCAAGTCCCAACTTTTCATCGCCATACAGAAGAGAACGAGAAAGTCGAAGAGTTATAG
+CGTGTACACTTCTGATTAGCTAACGAATCGATGCGTACAGCATACTCGAGCAACTTTATG
+GGTCGTCTGTCTCCTTGTACCCCGCTTGACGAGGATGTGTTTGTAGGCGGCTTGGATATC
+GGCAGTGTATCCGCATGGTCAAACACTTTAGCCCGACCGGTGCTCAAGGTCGAAATCCTA
+ATATAGATTGGGATAGGACCCGTCCATTACTAGGCGACATTCGCAGTCACGAGCCCGCAC
+GGGGTGCCTCAACACGGTGACACTCAATTCGCCGGCACTGAGTACGACGATCGTGATTGC
+CATACCGTCATGTTTTGTGTTACCCCTGATAAGAAGCGCAGATATGGCACGGGGGCAGAG
+GGCGGAGTAGACCCATGCAAAACTCTAGCCTCTGGGCAGCATGATCGACGTAGAACGCCG
+TTGTGACTCACTAGTTTCAGTTATGATGTTCAGCCAAGAATCCTCCATTTTGACGTGAAC
+CTTCTCCCTTTACACCTTGAAGCTGCAATATTAAGTCGACCCTTTAAGTTGCCTTGTCTT
+GGTCTAGAGCCCGCAGCTCACCGATAAAATGAGCAGTCAATTTTAGCGGCGGTTGTCCAG
+GTTACATGCACTTTGGGCTGGAACCGCGTTACGTTTGGAGTACTTAGAAGTGTCGTAGGC
+ATAGGAGAGCCGAAACTTGATATTGGGTCTAGTTAGTGCTCTACCCCGCTTCGGATCCGT
+AATAGTGATGTTGCATGAGACGCTTGCCTCAAGGCGACATACGGTGGCGGTTGCTGGAAA
+TGACGCCCCACCCCGTGATAATTTGGGGACGAGCCGCACGATAACTTCTGCCAGCGACCG
+CCCCTCCCACGTCCGATGGTGATTCCGAACTCCACCTGCGTCTATCGT
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