CRISPRimmunity

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Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Self targeting spacer number	Target MGE spacer number	Prophage number	Anti-CRISPR protein number
CP029552	Methylobacterium sp. 17Sr1-1 chromosome, complete genome	1 crisprs	cas3,RT,WYL,csa3,DEDDh	1	4	3	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: CP029552_3

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

CP029552_3

5751870-5752190

Orphan

I-E

Consensus_repeat	Method
GTGTTCCCCGCAGGCGCGGGGATGAACC	CRT
TGTTCCCCGCAGGCGCGGGGATGAACCG	PILER-CR
GTTCCCCGCAGGCGCGGGGATGAACCG	CRISPRCasFinder

5 spacers

The CRISPR arrays of CP029552_3

>merge|CP029552|3|5751870-5752190|CRT,PILER-CR,CRISPRCasFinder
GCGTTCCCCGCAGGCGCGGGGATGAACCGGACATCGTCGACCGGGGCAAGGACGCCCGCAAGTGTTCCCCGCAGGCGCGGGGATGAACCGCTGTAGCTGCCAAGCGACGGCATGTAGACGAGGTGTTCCCCGCAGGCGCGGGGATGAACCGTTCTGCGCCGACCGCCGCGTCGCGTGCTTCCGATGTTCCCCGCAGGCGCAGGGATGAACCCGCGGCGCGAACGTGATAGCTCGCCACCGTGCTGTGTTCCCCGCAGGCGCGGGGATGGGACGGCGGCAGAGTGACGGCCGGGTGTTCCCCGCATATGCGGGGATGAACCC

>CP029552|3|1|5751870-5752189|CRT
GCGTTCCCCGCAGGCGCGGGGATGAACC	GGACATCGTCGACCGGGGCAAGGACGCCCGCAA
GTGTTCCCCGCAGGCGCGGGGATGAACC	GCTGTAGCTGCCAAGCGACGGCATGTAGACGAG
GTGTTCCCCGCAGGCGCGGGGATGAACC	GTTCTGCGCCGACCGCCGCGTCGCGTGCTTCCG
ATGTTCCCCGCAGGCGCAGGGATGAACC	CGCGGCGCGAACGTGATAGCTCGCCACCGTGCT
GTGTTCCCCGCAGGCGCGGGGATGGGAC	GGCGGCAGAGTGACGGCCGG
GTGTTCCCCGCATATGCGGGGATGAACC

>CP029552|3|2|5751872-5752081|PILER-CR
GTTCCCCGCAGGCGCGGGGATGAACCGG	ACATCGTCGACCGGGGCAAGGACGCCCGCAAGT
GTTCCCCGCAGGCGCGGGGATGAACCGC	TGTAGCTGCCAAGCGACGGCATGTAGACGAGGT
GTTCCCCGCAGGCGCGGGGATGAACCGT	TCTGCGCCGACCGCCGCGTCGCGTGCTTCCGAT
GTTCCCCGCAGGCGCAGGGATGAACCC

>CP029552|3|2|5751872-5752190|CRISPRCasFinder
GTTCCCCGCAGGCGCGGGGATGAACCG	GACATCGTCGACCGGGGCAAGGACGCCCGCAAGT
GTTCCCCGCAGGCGCGGGGATGAACCG	CTGTAGCTGCCAAGCGACGGCATGTAGACGAGGT
GTTCCCCGCAGGCGCGGGGATGAACCG	TTCTGCGCCGACCGCCGCGTCGCGTGCTTCCGAT
GTTCCCCGCAGGCGCAGGGATGAACCC	GCGGCGCGAACGTGATAGCTCGCCACCGTGCTGT
GTTCCCCGCAGGCGCGGGGATGGGACG	GCGGCAGAGTGACGGCCGGGT
GTTCCCCGCATATGCGGGGATGAACCC

Protein	Signature genes	Signature genes Name	Protein_function
CP029552.1\|AWN54683.1\|5766595_5767369_-\|short-chain-dehydrogenase	unknown	unknown	gnl\|CDD\|187608
CP029552.1\|AWN54686.1\|5771143_5772490_-\|capsular-biosynthesis-protein	unknown	unknown	gnl\|CDD\|319749
CP029552.1\|AWN54675.1\|5748849_5749788_+\|EamA/RhaT-family-transporter	unknown	unknown	gnl\|CDD\|223769
CP029552.1\|AWN54671.1\|5745379_5746618_-\|adenylate-cyclase	unknown	unknown	gnl\|CDD\|371453
CP029552.1\|AWN54685.1\|5769728_5770814_-\|phytanoyl-CoA-dioxygenase	unknown	unknown	gnl\|CDD\|368580
CP029552.1\|AWN54679.1\|5756042_5756279_+\|Lrp/AsnC-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|366431
CP029552.1\|AWN54673.1\|5747557_5747863_-\|DUF1244-domain-containing-protein	unknown	unknown	gnl\|CDD\|226023
CP029552.1\|AWN55872.1\|5752275_5754543_+\|glycosyltransferase-family-2-protein	unknown	unknown	gnl\|CDD\|133027
CP029552.1\|AWN54681.1\|5764101_5765472_+\|8-amino-7-oxononanoate-synthase	unknown	unknown	gnl\|CDD\|99747
CP029552.1\|AWN54668.1\|5741664_5742951_-\|porin	unknown	unknown	gnl\|CDD\|369347
CP029552.1\|AWN54682.1\|5765717_5766566_-\|formyl-transferase	unknown	unknown	gnl\|CDD\|187712
CP029552.1\|AWN54669.1\|5743127_5744150_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|225926
CP029552.1\|AWN54676.1\|5750015_5751326_+\|glycerate-kinase	unknown	unknown	gnl\|CDD\|225254
CP029552.1\|AWN54672.1\|5747023_5747296_-\|DUF2312-domain-containing-protein	unknown	unknown	gnl\|CDD\|237474
CP029552.1\|AWN54670.1\|5744216_5745242_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|237057
CP029552.1\|AWN54680.1\|5756641_5764105_+\|beta-ketoacyl-synthase	unknown	unknown	gnl\|CDD\|225858
CP029552.1\|AWN54674.1\|5747936_5748698_-\|N-formylglutamate-amidohydrolase	unknown	unknown	gnl\|CDD\|226441
CP029552.1\|AWN54677.1\|5751297_5751753_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|368825
CP029552.1\|AWN54678.1\|5754628_5755933_+\|UDP-glucose-6-dehydrogenase	unknown	unknown	gnl\|CDD\|223936
CP029552.1\|AWN54684.1\|5767638_5769606_+\|capsular-biosynthesis-protein	unknown	unknown	gnl\|CDD\|226093

Protein	Function_ID	Function_description	E-value
CP029552.1\|AWN54683.1\|5766595_5767369_-\|short-chain-dehydrogenase	gnl\|CDD\|187608	cd05350, SDR_c6, classical (c) SDR, subgroup 6. These proteins are members of the classical SDR family, with a canonical active site tetrad and a fairly well conserved typical Gly-rich NAD-binding motif. SDRs are a functionally diverse family of oxidoreductases that have a single domain with a structurally conserved Rossmann fold (alpha/beta folding pattern with a central beta-sheet), an NAD(P)(H)-binding region, and a structurally diverse C-terminal region. Classical SDRs are typically about 250 residues long, while extended SDRS are approximately 350 residues. Sequence identity between different SDR enzymes are typically in the 15-30% range, but the enzymes share the Rossmann fold NAD-binding motif and characteristic NAD-binding and catalytic sequence patterns. These enzymes have a 3-glycine N-terminal NAD(P)(H)-binding pattern (typically, TGxxxGxG in classical SDRs and TGxxGxxG in extended SDRs), while substrate binding is in the C-terminal region. A critical catalytic Tyr residue (Tyr-151, human 15-hydroxyprostaglandin dehydrogenase (15-PGDH) numbering), is often found in a conserved YXXXK pattern. In addition to the Tyr and Lys, there is often an upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or additional Ser, contributing to the active site. Substrates for these enzymes include sugars, steroids, alcohols, and aromatic compounds. The standard reaction mechanism is a proton relay involving the conserved Tyr and Lys, as well as Asn (or Ser). Some SDR family members, including 17 beta-hydroxysteroid dehydrogenase contain an additional helix-turn-helix motif that is not generally found among SDRs.	9.94398e-55
CP029552.1\|AWN54686.1\|5771143_5772490_-\|capsular-biosynthesis-protein	gnl\|CDD\|319749	cd16441, beta_Kdo_transferase_KpsS, beta-3-deoxy-D-manno-oct-2-ulosonic acid (Kdo)-transferase KpsS. KpsS is a beta-3-deoxy-D-manno-oct-2-ulosonic acid (Kdo)-transferase. It is part of the ATP-binding cassette transporter dependent capsular polysaccharides (CPSs) synthesis pathway, one of two CPS synthesis pathways present in Escherichia coli. The poly-Kdo linker is thought to be the common feature of CPSs synthesized via this pathway. CPSs are high-molecular-mass cell-surface polysaccharides that are important virulence factors for many pathogenic bacteria.	8.52825e-147
CP029552.1\|AWN54675.1\|5748849_5749788_+\|EamA/RhaT-family-transporter	gnl\|CDD\|223769	COG0697, RhaT, Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only].	1.48857e-11
CP029552.1\|AWN54671.1\|5745379_5746618_-\|adenylate-cyclase	gnl\|CDD\|371453	pfam11294, DUF3095, Protein of unknown function (DUF3095). Some members in this bacterial family of proteins are annotated as adenylyl cyclase however this cannot be confirmed. Currently no function is known.	2.07369e-166
CP029552.1\|AWN54685.1\|5769728_5770814_-\|phytanoyl-CoA-dioxygenase	gnl\|CDD\|368580	pfam05721, PhyH, Phytanoyl-CoA dioxygenase (PhyH). This family is made up of several eukaryotic phytanoyl-CoA dioxygenase (PhyH) proteins, ectoine hydroxylases and a number of bacterial deoxygenases. PhyH is a peroxisomal enzyme catalyzing the first step of phytanic acid alpha-oxidation. PhyH deficiency causes Refsum's disease (RD) which is an inherited neurological syndrome biochemically characterized by the accumulation of phytanic acid in plasma and tissues.	1.20837e-08
CP029552.1\|AWN54679.1\|5756042_5756279_+\|Lrp/AsnC-family-transcriptional-regulator	gnl\|CDD\|366431	pfam01037, AsnC_trans_reg, Lrp/AsnC ligand binding domain. The l-leucine-responsive regulatory protein (Lrp/AsnC) family is a family of similar bacterial transcription regulatory proteins. The family is named after two E. coli proteins involved in regulating amino acid metabolism. This entry corresponds to the usually C-terminal regulatory ligand binding domain. Structurally this domain has a dimeric alpha/beta barrel fold.	5.92321e-08
CP029552.1\|AWN54673.1\|5747557_5747863_-\|DUF1244-domain-containing-protein	gnl\|CDD\|226023	COG3492, COG3492, Uncharacterized protein conserved in bacteria [Function unknown].	1.01905e-47
CP029552.1\|AWN55872.1\|5752275_5754543_+\|glycosyltransferase-family-2-protein	gnl\|CDD\|133027	cd04184, GT2_RfbC_Mx_like, Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis. The rfbC gene encodes a predicted protein of 1,276 amino acids, which is required for O-antigen biosynthesis in Myxococcus xanthus. It is a subfamily of Glycosyltransferase Family GT2, which includes diverse families of glycosyl transferases with a common GT-A type structural fold, which has two tightly associated beta/alpha/beta domains that tend to form a continuous central sheet of at least eight beta-strands. These are enzymes that catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds.	5.66683e-117
CP029552.1\|AWN54681.1\|5764101_5765472_+\|8-amino-7-oxononanoate-synthase	gnl\|CDD\|99747	cd06454, KBL_like, KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS), 8-amino-7-oxononanoate synthase (AONS), and 2-amino-3-ketobutyrate CoA ligase (KBL). SPT is responsible for the condensation of L-serine with palmitoyl-CoA to produce 3-ketodihydrospingosine, the reaction of the first step in sphingolipid biosynthesis. ALAS is involved in heme biosynthesis; it catalyzes the synthesis of 5-aminolevulinic acid from glycine and succinyl-coenzyme A. AONS catalyses the decarboxylative condensation of l-alanine and pimeloyl-CoA in the first committed step of biotin biosynthesis. KBL catalyzes the second reaction step of the metabolic degradation pathway for threonine converting 2-amino-3-ketobutyrate, to glycine and acetyl-CoA. The members of this CD are widely found in all three forms of life.	2.3143e-143
CP029552.1\|AWN54668.1\|5741664_5742951_-\|porin	gnl\|CDD\|369347	pfam07396, Porin_O_P, Phosphate-selective porin O and P. This family represents a conserved region approximately 400 residues long within the bacterial phosphate-selective porins O and P. These are anion-specific porins, the binding site of which has a higher affinity for phosphate than chloride ions. Porin O has a higher affinity for polyphosphates, while porin P has a higher affinity for orthophosphate. In P. aeruginosa, porin O was found to be expressed only under phosphate-starvation conditions during the stationary growth phase.	5.92376e-41
CP029552.1\|AWN54682.1\|5765717_5766566_-\|formyl-transferase	gnl\|CDD\|187712	cd08369, FMT_core, Formyltransferase, catalytic core domain. Formyltransferase, catalytic core domain. The proteins of this superfamily contain a formyltransferase domain that hydrolyzes the removal of a formyl group from its substrate as part of a multistep transfer mechanism, and this alignment model represents the catalytic core of the formyltransferase domain. This family includes the following known members; Glycinamide Ribonucleotide Transformylase (GART), Formyl-FH4 Hydrolase, Methionyl-tRNA Formyltransferase, ArnA, and 10-Formyltetrahydrofolate Dehydrogenase (FDH). Glycinamide Ribonucleotide Transformylase (GART) catalyzes the third step in de novo purine biosynthesis, the transfer of a formyl group to 5'-phosphoribosylglycinamide. Formyl-FH4 Hydrolase catalyzes the hydrolysis of 10-formyltetrahydrofolate (formyl-FH4) to FH4 and formate. Methionyl-tRNA Formyltransferase transfers a formyl group onto the amino terminus of the acyl moiety of the methionyl aminoacyl-tRNA, which plays important role in translation initiation. ArnA is required for the modification of lipid A with 4-amino-4-deoxy-l-arabinose (Ara4N) that leads to resistance to cationic antimicrobial peptides (CAMPs) and clinical antimicrobials such as polymyxin. 10-formyltetrahydrofolate dehydrogenase (FDH) catalyzes the conversion of 10-formyltetrahydrofolate, a precursor for nucleotide biosynthesis, to tetrahydrofolate. Members of this family are multidomain proteins. The formyltransferase domain is located at the N-terminus of FDH, Methionyl-tRNA Formyltransferase and ArnA, and at the C-terminus of Formyl-FH4 Hydrolase. Prokaryotic Glycinamide Ribonucleotide Transformylase (GART) is a single domain protein while eukaryotic GART is a trifunctional protein that catalyzes the second, third and fifth steps in de novo purine biosynthesis.	2.55647e-27
CP029552.1\|AWN54669.1\|5743127_5744150_+\|hypothetical-protein	gnl\|CDD\|225926	COG3391, COG3391, Uncharacterized conserved protein [Function unknown].	5.33586e-08
CP029552.1\|AWN54676.1\|5750015_5751326_+\|glycerate-kinase	gnl\|CDD\|225254	COG2379, GckA, Putative glycerate kinase [Carbohydrate transport and metabolism].	6.246e-153
CP029552.1\|AWN54672.1\|5747023_5747296_-\|DUF2312-domain-containing-protein	gnl\|CDD\|237474	PRK13694, PRK13694, hypothetical protein; Provisional.	2.19459e-32
CP029552.1\|AWN54670.1\|5744216_5745242_-\|hypothetical-protein	gnl\|CDD\|237057	PRK12323, PRK12323, DNA polymerase III subunit gamma/tau.	9.48733e-11
CP029552.1\|AWN54680.1\|5756641_5764105_+\|beta-ketoacyl-synthase	gnl\|CDD\|225858	COG3321, COG3321, Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism].	0
CP029552.1\|AWN54674.1\|5747936_5748698_-\|N-formylglutamate-amidohydrolase	gnl\|CDD\|226441	COG3931, COG3931, Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism].	1.21041e-94
CP029552.1\|AWN54677.1\|5751297_5751753_+\|hypothetical-protein	gnl\|CDD\|368825	pfam06282, DUF1036, Protein of unknown function (DUF1036). This family consists of several hypothetical bacterial proteins of unknown function.	1.39299e-58
CP029552.1\|AWN54678.1\|5754628_5755933_+\|UDP-glucose-6-dehydrogenase	gnl\|CDD\|223936	COG1004, Ugd, Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane].	0
CP029552.1\|AWN54684.1\|5767638_5769606_+\|capsular-biosynthesis-protein	gnl\|CDD\|226093	COG3563, KpsC, Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane].	7.8719e-155

>CP029552.1|AWN54677.1|5751297_5751753_+|hypothetical-protein
MTSASSWLADFPPLRRAVLPALVLALLGAGPARADLRMCNMTGSRIGIALGYRDSGGWVTEGWWNLSAKGCETLLKGALAARYYYVFAVDYDRGGEWSGRSLMCTRDREFTIRGVEDCLARGYDRNGFFEVDTGEQKSWTIQLTDPGRAGP
>CP029552.1|AWN54676.1|5750015_5751326_+|glycerate-kinase
MTDARSQATPAAETRALLLRLLDAGVTAAHPRGCLVPHLPPVPAGRLVILGAGKAGASMAALAERHYRSQGVDPARIAGLAVARHGYGEPAGVIEVVEAGHPVPDEAGIAATQRALDLAAAAGPDDLVLVLLSGGGSANWIAPAGALTLSEKQGITRALLRSGAAIDEINCVRKHLSRIKGGRLAQAARNAGRILTLAISDVPRDDPAVIASGPTVPDPTTLADARAICLRRGIPLPPSAEALLNDPPNESPKPGDPAFAHSEFRIIARPVDALNAAAAAAQAAGYEPVLLGADLEGEAREVAQQQAGLAREMAAAGRKAALISGGELTVTIRGEGQGGPNQEYALALALALDGAPGICALSADTDGTDGGRGEATDPAGALIDPTTLARAAAAGLDARASLGENDSTPFFDRLGDLVRPGPTRTNVNDLRIILVG
>CP029552.1|AWN54675.1|5748849_5749788_+|EamA/RhaT-family-transporter
MSRTPLPGLAASAGPAADLGPAIAALVAGALAMGLSPVLVRFVSPEIGPFASAFWRVALALPALYGWMRWEEARAPHLRRALTPSVLLAGLVFSGDLLFWHLAILGTTVANATFFATTAPVFVVLFAWIGLRRRPAGRTLVGLLVCLLGGASLVGQSVQVDPARLAGDRDGVITAIFFSLYFLTVERARARGLGAARVTFVASCITALVLLGAVAVLETRPMLPHSVSAAFGLLALALVSHAGGQGLLAVALGRLPAGFSSLVIFLEAVAAAILAWILLGEALGPLQVLGGGLILAGIAVARPRRSSRTAEL
>CP029552.1|AWN54674.1|5747936_5748698_-|N-formylglutamate-amidohydrolase
MTAPATPPPPQPVETIPGDPACGLLLLCDHASNAVPPDLADLGVARPHFERHIAYDIGAAAVTRSLARRLGAPALLTTFSRLIIDPNRGRTDPTLVMRLSDGAIVPGNARIGPAGVAERLARFYDPYDRAIDAAVGAAMEAGAPPAIVTVHSFTPAWRGVARPWHVGILWDRDDRLAGPLIAGLRADPAGFTVGDNQPYGGGLPGDTIDRHALARGLPNALIEIRQDLIGDEAGAEDWAARFAALLGPLVARA
>CP029552.1|AWN54673.1|5747557_5747863_-|DUF1244-domain-containing-protein
MDGIDETTRTELEAAVFRRLVSHLQGRTDVQNIDLMNLAGFCRNCLSNWLKDAADARGLGLTKDQSREHVYGMPYDEWKARHQNEASPEQAAAFAARAEKH
>CP029552.1|AWN54672.1|5747023_5747296_-|DUF2312-domain-containing-protein
MNAHSMPDADVASSGVAAEELKQFIERIERLEEEKAGLQGDIKDVMLELKGRGFDVKAVRTILRLRKKDHSERQEEEAILELYMQALGMA
>CP029552.1|AWN54671.1|5745379_5746618_-|adenylate-cyclase
METITPSEPTGFRYADLTPATDFLSILDDASYRPVPEGWWVAVTDVVDSTGAIAAGRYRAVNFVGAAVIAALRNALGRREVPFVFGGDGASVLVAPDEEEAARAALAATAAWSRDAMGLSLRAALVPVAAIRAAGHAVEVARYAPSPDVAYAMFMGGGLAFAERALKQGLYAVAAAPAGTVPDLTGLTCRFEPAKARHGLILSILVVAAEGADRIAARAAIADVVRLAAEAPARGHPLPPGAPALRWPPAGFAHEVRARGPLWGSLSLRHLHLLGATLVAHLIFRFGLGLGGFSAPRYLDELVANADFRKYDDGLRMTVDCGLDLAARIEARLEAAEAAGLVRFGLHRQAAALTTCITPVAALRDHVHFVDGEDGGYARAAQALKAKDWKANDAAGRATGANPGTESARAPV
>CP029552.1|AWN54670.1|5744216_5745242_-|hypothetical-protein
MNDAVWTAEATEKAVALWIDGRDPAEIAGVIGTTVADVIGRVAQAALARQQAKAAEKAAAAKPAAPAAPARVEPVARIEPVKAEPAQAVARAEPPKAEAPKAAPRILPSRILTADAAPVAAKPAPVKAAAPAKPAPGKPEAAPVAKPAPEKPAAKPVVAPPAPRVEAPVMSARALEEATRAFLAANMAPSRKAAPAAKAAPAARPAAVAQPAAPRAPAPQGGEAPARPVAPSVQAVRETAPEFAPAPAMTAPLLAEPAEGGSIVALPMSRRVPAVAADGGDGVLFLKAGLLDCTFPLWSDGDGTAIESKRVCGCRVLTGKRWCRTHYATVFEPPKRPMRAA
>CP029552.1|AWN54669.1|5743127_5744150_+|hypothetical-protein
MPPAIDRRTCLSGLAALALTTGAARAQSGQAGRSDTLLVMEKGDHALSFYELASGRRTGRVELPGEYPHEFAVDRAGARAYAALYGAKSSTTPGPGGDAVYVVDLATRSLARTIACAPFRRLHGLRLDAKDRLFVLSEDRDVLLGFDAPDRAERPDRAVATGGLKGHLFSLSRDGETAYIANILSNTVSRVRPFAPAEAPRLAATGLWPEGNALSPDESTLYVANRRSATLTALATEAMTVTRTLPTRGDVVRVDCGPEGDLILANYAERSLSLLDSALKEVAVVPLGAAPVALARHPSSPLAFAALEDDRIAVVDLEGRRVQGTLATGREPDVMVVLPG
>CP029552.1|AWN54668.1|5741664_5742951_-|porin
MSHRTCTPSRPSWPLAVLLLASATLPAAAVEGMPGPFGERLTIDDKGITLKFPDDAATLRIGGRLQLDFGTGRVQQRGFGTVFDTPIAVRRSWIESYLTLGKELELAFQYDFAEPNRPINDAVVAYKGFKDVIVAIGNMKEPFSLNQLISDNNTLFTERSLADAFAPARNFGLAIGTHGDQWTAVTSVFGGNINNAAIGDQGIASTTRVTYAPWLSKDGYEVLHFGLAGSYRSLPNDGSPLTLSSRSEAFLFARQFVSTGSIRDASSIGRVGLEAAWQTGPFRLQAEYILTEVGRFGGAPSFTFQGGYIQAGLLLNSKGRRYTLAPRYATEYAVFGGVEVAEAQRVSRGGTGVFELGLRYSAIDLDDRTIRGGIEQDFTAGINWYPDRNIRFVFDYVRSHTSPSPASLNFNRRTVDADVFIGRAQLYW
>CP029552.1|AWN55872.1|5752275_5754543_+|glycosyltransferase-family-2-protein
MRSVVRAAPEVRGPVTAQTPSPVAPPHAPLRASLRLGRGRTVARDFARLRLEFGAQGLRLDVADLGLGARWVSIAFKDENYGAFSRVELTAIVDGPEGPQGTGLSERAFGHGRFTWLGRLPAGTTALTLTPMLGEAALSIAEFTVTVRSRLALVGRAALRRPVLTAQALMWRAVGKRVRSQHRLARALVPPGLTGYDTWVRHFDTLSEADRARIAAEVALWRDPPPISVVMPVYNPGVKVLEEALRSVREQLYPHWELCIADDASTDPAVPRLLARAAAEEPRIRVVRRPENGHIAAATNTALGLARGAYIAFMDHDDVLPAHALYEVAKAIRREPDLDLIYSDEDKIDADGRRFEPHFKGDWNPELLYGQNYLNHLTVVRRSLVEAVGGLRTGFEGSQDHDLLLRLSDRLDPARVRHLPVILYHWRTAIGSGTFSDAFLARAEAARLRALEELVARRGWPHRVERGPLGFNRLVRALPDPAPRVSVVIPTKDRAELLRVVLDGLLARTDYPDIEVVVVDNGSTEPAAKGLLAEAGADPRVRVLSRPGAFNFSGLSNDGAAAASGPLLLFLNNDIEVREPGWLAEMASIAVEPAVGAVGAKLSYPDGTLQHGGVVLGVGGVAGHSHPDIGPDDPGYFGRMVLAQEVSAVTGACLMIRREVFEAVGRFDAERLAVAFNDIDLCLRVRKAGYSVIWTPHAALTHHESKSRGKEDTPEKRARFEAEVATMTERWGPELRNDPYYNPNLARAKALFRLW
>CP029552.1|AWN54678.1|5754628_5755933_+|UDP-glucose-6-dehydrogenase
MRVAMVGAGYVGLVSGACFADFGHTVVCVDTAPEKIAALNDGRIPIYEPGLDALVAENVRQSRLSFTTDLGRAVAGADAVFIAVGTPSRRGDGFADLSYVYQAARDIAGAVTGPTVVVTKSTVPVGTGDEVERIVREARPEIAIAVASNPEFLREGAAIADFKRPDRIVIGADDPQAASVVSELYRPLYLNHAPILVTSRRTAELTKYAANAFLATKITFINEIADLCEQVGADVQEVARGIGLDNRIGRKFLHAGPGYGGSCFPKDTLALVKTAQDAGSPVRLVETVVAVNDQRKRAMARKVVAACGGSVRGKRIAVLGLTFKPNTDDMRDAPSLAIIAGLQDAGATVAAYDPEGVEQAQALLNHVDYAADPYACASGAHALVIVTEWDAFRALDLKRLHAAMAEPILVDLRNVYRPEDARRHGFAYASIGRP
>CP029552.1|AWN54679.1|5756042_5756279_+|Lrp/AsnC-family-transcriptional-regulator
MQTFFVEIKCRLGKTYTVASALADREIASEIYSTAGHYDVLAKFHVDDGVDIGHFVAEHVQTIADIQDTRTIITFKAF
>CP029552.1|AWN54680.1|5756641_5764105_+|beta-ketoacyl-synthase
MTQRPDIAIIGRACRLPGASGVDSLWQMLIEGRCAVSRIPEDRWSLERMGHPRAQERGKSYTWAAGVIDDPWSFDPSVFGISPREAEQMDPQQRLLLELTWEALESAGLRPSAVAGSPIGVFVGASSLDYGNLRVLDAASGDAYAATGNTLSILSNRISYIFDLKGPSFTLDTACSSSLVALDAAVAAIASGRIDTAVVAGVNLLVSPFNFVSFSNASMLSRTGLCQAFSASADGYVRAEGGVVLVLQSAAAAARNGATVRGVIAASKVNSDGRTTGISLPSGYAQGALLEEIYREAGVSLDAIAFMEAHGTGTPVGDPIEAGAIGNKLGRGRSTPLPIGSIKTNIGHTEPVSGLAGLLKASLALEHDLLPPSLHSAELNPAIPFDELNLAVNRELRPLPRTAKERFAGVNSFGFGGTNAHVILTDPILTDPAPVAASVAPAAQRTPEVLLVSAQTKAALADLAQDYATRLDGADAAEIARVAAAAAHRRERLPVRAAIPLRDLGTEDVAEVLRNVAEGEETPAAVVATAVERAGGVAFVYSGNGSQWAGMGRDAYALNPVFRARFDEADALFRPLAGWSLKDALFADDLEERLALTSVSQPLIFAIEAASTAALKAVGLAPTAIVGHSVGEIGAAEAAGILTLEQAVKVIFYRSKHQEATRGLGTMAVLLAPVEEVQAFLADYPELDIAAYNSPKAVTVAGPVAAIDAAMKALARKRRRGRKLDLDYAFHGRLMNPIEAPLRRDLAGLKPSAGTVPLASTVTGDVLDGTAFDAGYWWRNIREPVRFSAAVQAAAQAGARIFVEVGPRPTLLPHIGDCLEPLGLDAATVGVLPKKTLATDPFRRALAASLAAGAAVDEALAFGADPAGSVALPHYPWQRKVFRLPETTEATNPASARPYHPLIGTRQGPDGLEWLAHLDVATVPELDDHRIDGQAILPGAGFAEMALAVGREIVRSESVTLADLEIQQPMVFAEDAVREVLCRFSPGANLVQILSRPRLSQAPWQLHAVAKLVEGETPPPARLTGRDAAALPSETTVEGEALYARARASGLGFGPSFRQVARSARLDDATIVSDLVPAEASTRYGLVPARLDSCFHGLILLFADLLGEAASRAYVPIRFGEIRLVRPGAAIARAVIRTRRCNERSILADFTLVDEAGEVIATLREGRFQALRMKAGNDLDAFAIRQFTELATEPTAIALEPQPAIAALVRRQAGSVTATAEAGLGAGHMLLEGWATSLADCLARGLAVGGVVDVAASRRLPAALRPWLTNQLLALEVSGLAEASGDGRWRLRADVTLPAPDEIMRWIAADHPELSAELLLCADLGAVVSRILAGTLSDAPSLPQAALDAFSLRGATVRASADAVMRLLSDSAASLPRDRALRLLQVGFGPLSAQVATFAGLHEARLTVFEADRRLAERARLALPSGVTIVEDPATLGLAAFDAVLASDVLHRGSRDLLTPLAASLAAGGLFAAVEPGASLFRDMVFGLDPGWFETAGEVPVGRLDDVAGWQRSLSAVGLVKVAADRAVTRNGNDLLLLAEAPPRPKAAAGQTFAFVIGSEDEFAAETASSLATLLVASGVHVSIILDSEASLRELERETPDTVVYLAGAFNRGGEPAERLRERCLGLKRCVEHLGSRPTRLWVVCPGATRDRGGLACGVEAGVWAFTRTLANEVASLDVRRIDLSTAIPSKRAAERLRDLILSGTPETEIVVDDNATRVVRFSQGARPARRSGPAAPAARLERSTTGGLNEMHWGPAERVAPGAGQIEIAVEATGLNFRDVLWALSMLPEEILEDGFAGPRLGLECAGRVAAVGAGVTAFKPGDRVVAFAQSGFSTHIVVPEMVVAAAPQGLSPEAAATTPVAFLTAYYGLVTLARLKAGEWVLVHGGAGGVGLAALQIARMRGARVIATAGSNEKRALVKALGAEHVLDSRSLAFVDDIRRITGDGVDVVLNSLFGEAMERSLNALKPFGRFVELGKRDYVANTHIGLRPFRRNLSYFGVDLDQLLQFQPEEGKRLFREVMALFTDGSLKALPYQPFAAEEVSDAFRLMQQSGHVGKIVIAPPKAGTIPAETTKPFVVAPDRVHLVTGGLGGFGIEAARWLADQGARHIALVGRTAPTGEAALSAIADLKARGVAVQVESCDITDRAAVQRLIARVEAKGVKLAGIIHGAMVLQDGLIANLDPAALEAVIAPKVIGAGHLDALTRDRALDYFVLFSSATTFIGNPGQGSYVAANGFMEGLARQRRRLGLPALAVAWGAIGDVGVLARNKAVMETLAGRVGVTPVDARKSLDLMAEALGVQGAAPDDAVIAIAAMHWGKARERLATLRSPSYASLGSEQQAEAGGQAAISIAGLLRAHDLDDVRKTVADAIVEDIARILRLPKDDISRVRQLSEIGLDSLMGVELGASLQERFGLDAPPSGVSSGQTVTELADTLIQSVAAPVDDSAAAVLSLSQRHGGAEAADAATLQSLQVLVEQNSQDIKVITQ
>CP029552.1|AWN54681.1|5764101_5765472_+|8-amino-7-oxononanoate-synthase
MSSGSSHGAGGREALAGFVAARLGKAPVRPAPARPAPKPALAQAQSFDSLPAYKELKLQRSAADLIGLGNPFFRVHDAKAGATTRIDGRAFTNFSSYDYLGLNGHPEVNAAAQGALAEYGTSSSASRIVAGERPGHLTLEKAIAAHYGTEACVVMVSGHATNVATIAALLEPGDVIYHDALIHNSVVTGAQLSGAQRRSFAHNDLQALESLLHATRHEHRRALIVIEGLYSMDGDAPDLAGVVALKERYGAWLMVDDAHGLGVLGQDGHGLHEHCDVPPGSVDIWMGTLSKTLSSCGGYIAGAGALVELLKCTAGGFVYSVGLSPPLAAAATASLALMRREPERVARLRRNGALFLACARERGLDTGTSLGLAVVPVILGDSLKAVTLSDRLFKRGINVQPIIHPAVPERSSRLRFFITSEHTPEQIRETVTVLADELDELNQGGSLVERLMSRRA
>CP029552.1|AWN54682.1|5765717_5766566_-|formyl-transferase
MRIALFTLEALPNARAVRRFVADHAERIAFVGLSDPERPSTGGLTGQVRRHLARSGPGFLPYLAVNFGLPDLTRGLAPATQALSGSRDVPEATPLRTLCRRLGLPHATLTDVNGPETTGLLRQHGADLILSFHFDQIFDAATLAAAPKGGLNVHPSLLPRHRGPVPTLHALLEDRPDFGVTVHRLAPAIDAGGILAQAPVPLPDGVTASRAAVLLHEAGRPLLEGVLAEAERAGALPEGRSVPVLPYCGFPTPAQLRDLKRRGRKLVDAGDLREALSLSLKP
>CP029552.1|AWN54683.1|5766595_5767369_-|short-chain-dehydrogenase
MPVILITGASSGIGAALAQHYAAPGTTLVLNARGPARLETVAEACRRKGAAVETRTLDVRDRDGVRAWIDDVAGRIGLDLVIANAGVNGGHPDGGLETEETALLVYDVNLMGALNVALPAVALMAARGSGQIALISSLAAYAPLPDAPAYSGTKAALLAHGLALREKLAPKGVRMNVVCPGYVKTAMGADYEGWRPLEMSAEAAAKRIAKGLARDEAVVAFPAALAAAARGAGLIPESWRRLGMRGFSFRMSERQQR
>CP029552.1|AWN54684.1|5767638_5769606_+|capsular-biosynthesis-protein
MDRGKLKRLWPRMPSESEGPGPRRSRRLGSEPTSRRVRLSDRWDEGFLRLGDARPERALSYIIDGLGIHYDATAPSELEVMLEEGGWESDELIARAQAGIARLRAGRLSLDNDSRRRDLPARTDPTRRRVVIVDQAVGDPTVGFGLAGASAFAAMLAAAAADAPEAERLVVMDPAARIGRRGHIDAAMAEAAGARLVGDPVTAWSVAEGCDRVYVVSAHAGFEAALAGTPVTCFGLPFYAGWGFTDDRLHLPRRTRRRKAADVFAAAYLVCSRYFDPYTGAPARFEDAVAILDLVASRWRENAVPTLCVGFSAWKRDWITRTLSAPGHRPVVRRGDAPLTVGELAEVRRVVTWASRMPAGTEEACRAAGVPLLRMEDGFLRSIGLGVALRPGASHVLDATGVYYDATGPSDLERLLETGTFSPDLLARAAALREAVVAARVSKYNVGSNAMPAMPRPGPVVLVAGQVENDASIRLGGTTVSGNAALLRLARERNPGAVIAFKPHPDVEAGLRPGWVPPDELAAHADVVLRDVSAIDAIEAADRVEVATSLIGFEALLRGKAVTTHGLPFYAGWGLTDNPGCPRRTRRLTLDELVAGALILYPRYVDPRTGLPCPPEVLVQRLAEGDPELARRAVTPEALLKQVWSVIWRRVLRRG
>CP029552.1|AWN54685.1|5769728_5770814_-|phytanoyl-CoA-dioxygenase
MSSISTSPAAPSLARGAVRALGAAVRAPLWLAGVAGADKSFAKNPILGSPALNRLGLHAGRVRLAARMAEQRRARMAHRLEPADRTAFDRDGIVIKRDFLDPDAFAALKAEIYGRPFEARELRQGQAVQRMVPLGGRALAELPHLRALVEHPALRALTHYAASRAGEPVTYLQTVLAEPDGPNDPQTALHADTFHATTKGWFFLHDVAEEDGPFTYVPGSHRLTPERLAWERAQSIAARGAANGHHAAGSFRITEAELAGLGYGPPVRVAVPGNTLVIADTFGFHARAPSLRASTRVTVHTYIRRNPFLPWTGLDPKALPGLRGRELALYLGLQDIQRRLTGRGAPWRPVGAVAIDAPART
>CP029552.1|AWN54686.1|5771143_5772490_-|capsular-biosynthesis-protein
MRADPARNVEPARQAVRPGARQVFLFLQGPVTPYFARVADALEARGHRCLRVNLCFGDWLFWRRAGGVNFRGTRETWPAFIADLIDREGVTDLMLLGEQRYYHKVAIAAAKARGLNVTVTDFGYLRPDWITLERDGMSGDSCFPKDPEAVMALAAKAPEPDLVPRYRDSFWLQAVWDMGYHLMSNWLWWLYPGYKSHQVHHPALVYMGTGLHILRAKRTGPRGDALVRRLREAGTTYYVLPLQMENDFQLRAYSPFFDLKTPIHAVIRSFSEHAPAESRLLVKIHPLDPGIRNWARIVRRSAVKWGVSDRVDFVDGGDLGAMLEGCRGVVTVNSTVGLWSMRANKPTMTLGAAIYDIQGLTYQGALETFWTKAEPPRRELWDAFIKAIVANIQIRGVYYKGEGLAAAVEATASRLDLTQGAWLEVRSRARTAPEAGDDLPGIEALQNA

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity
CP029552_3	3.5\|5752142\|20\|CP029552\|CRT	5752142-5752161	20	CP029552.1	360133-360152	2	0.9

1. spacer 3.5|5752142|20|CP029552|CRT matches to position: 360133-360152, mismatch: 2, identity: 0.9

ggcggcagagtgacggccgg	CRISPR spacer
ggcggcggagtgacgggcgg	Protospacer
******.********* ***

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
CP029552_4	4.1\|5998822\|28\|CP029552\|CRISPRCasFinder	5998822-5998849	28	NZ_AP014705	Methylobacterium aquaticum strain MA-22A plasmid pMaq22A_1p, complete sequence	416981-417008	2	0.929
CP029552_4	4.1\|5998822\|28\|CP029552\|CRISPRCasFinder	5998822-5998849	28	NC_017771	Deinococcus gobiensis I-0 plasmid P3, complete sequence	701-728	6	0.786
CP029552_4	4.1\|5998822\|28\|CP029552\|CRISPRCasFinder	5998822-5998849	28	NZ_CP021817	Sinorhizobium meliloti strain M270 plasmid accessoryC, complete sequence	88128-88155	6	0.786
CP029552_3	3.3\|5752020\|33\|CP029552\|CRT	5752020-5752052	33	NZ_CP020399	Burkholderia multivorans strain FDAARGOS_246 plasmid unnamed, complete sequence	274909-274941	7	0.788
CP029552_4	4.1\|5998822\|28\|CP029552\|CRISPRCasFinder	5998822-5998849	28	NZ_CP018231	Rhizobium leguminosarum strain Vaf-108 plasmid unnamed3	254855-254882	7	0.75
CP029552_4	4.1\|5998822\|28\|CP029552\|CRISPRCasFinder	5998822-5998849	28	NZ_CP023065	Sinorhizobium sp. CCBAU 05631 plasmid pSS05631a, complete sequence	640945-640972	7	0.75
CP029552_4	4.1\|5998822\|28\|CP029552\|CRISPRCasFinder	5998822-5998849	28	NC_000914	Sinorhizobium fredii NGR234 plasmid pNGR234a, complete sequence	342326-342353	7	0.75
CP029552_4	4.1\|5998822\|28\|CP029552\|CRISPRCasFinder	5998822-5998849	28	NZ_CP016292	Rhizobium leguminosarum strain Vaf10 plasmid unnamed4, complete sequence	210895-210922	7	0.75
CP029552_4	4.1\|5998822\|28\|CP029552\|CRISPRCasFinder	5998822-5998849	28	NC_010865	Sinorhizobium meliloti plasmid pSmeSM11b, complete sequence	140500-140527	7	0.75
CP029552_4	4.1\|5998822\|28\|CP029552\|CRISPRCasFinder	5998822-5998849	28	NC_015592	Sinorhizobium meliloti AK83 plasmid pSINME02, complete sequence	5784-5811	7	0.75
CP029552_4	4.1\|5998822\|28\|CP029552\|CRISPRCasFinder	5998822-5998849	28	NZ_CP023072	Sinorhizobium fredii CCBAU 83666 plasmid pSF83666a, complete sequence	63236-63263	7	0.75
CP029552_4	4.1\|5998822\|28\|CP029552\|CRISPRCasFinder	5998822-5998849	28	NZ_CP021213	Sinorhizobium meliloti RU11/001 plasmid pSmeRU11a, complete sequence	1543-1570	7	0.75
CP029552_4	4.1\|5998822\|28\|CP029552\|CRISPRCasFinder	5998822-5998849	28	NZ_CP021214	Sinorhizobium meliloti RU11/001 plasmid pSmeRU11b, complete sequence	49794-49821	7	0.75
CP029552_4	4.1\|5998822\|28\|CP029552\|CRISPRCasFinder	5998822-5998849	28	NZ_CP021216	Sinorhizobium meliloti RU11/001 plasmid pSmeRU11d, complete sequence	92901-92928	7	0.75
CP029552_3	3.8\|5752022\|33\|CP029552\|PILER-CR	5752022-5752054	33	NZ_CP020399	Burkholderia multivorans strain FDAARGOS_246 plasmid unnamed, complete sequence	274910-274942	8	0.758
CP029552_3	3.11\|5752021\|34\|CP029552\|CRISPRCasFinder	5752021-5752054	34	NZ_CP020399	Burkholderia multivorans strain FDAARGOS_246 plasmid unnamed, complete sequence	274910-274943	9	0.735

1. spacer 4.1|5998822|28|CP029552|CRISPRCasFinder matches to NZ_AP014705 (Methylobacterium aquaticum strain MA-22A plasmid pMaq22A_1p, complete sequence) position: , mismatch: 2, identity: 0.929

tgccgcaggcggctctggcggatttccg	CRISPR spacer
tgccccaggcggcgctggcggatttccg	Protospacer
**** ******** **************

2. spacer 4.1|5998822|28|CP029552|CRISPRCasFinder matches to NC_017771 (Deinococcus gobiensis I-0 plasmid P3, complete sequence) position: , mismatch: 6, identity: 0.786

tgccgcaggcggctctggcggatttccg	CRISPR spacer
gccagcaggcggcgctggcggagttcca	Protospacer
  * ********* ******** ****.

3. spacer 4.1|5998822|28|CP029552|CRISPRCasFinder matches to NZ_CP021817 (Sinorhizobium meliloti strain M270 plasmid accessoryC, complete sequence) position: , mismatch: 6, identity: 0.786

tgccgcaggcggctctggcggatttccg	CRISPR spacer
tgctggaggcggctctggcggatggcat	Protospacer
***.* *****************  *

4. spacer 3.3|5752020|33|CP029552|CRT matches to NZ_CP020399 (Burkholderia multivorans strain FDAARGOS_246 plasmid unnamed, complete sequence) position: , mismatch: 7, identity: 0.788

gttctgcgccgaccgccgcgtcgcgtgcttccg	CRISPR spacer
ggtcgacgtcgaccgccgcgccgcgtgcttctc	Protospacer
* ** .**.***********.**********.

5. spacer 4.1|5998822|28|CP029552|CRISPRCasFinder matches to NZ_CP018231 (Rhizobium leguminosarum strain Vaf-108 plasmid unnamed3) position: , mismatch: 7, identity: 0.75

tgccgcaggcggctctggcggatttccg	CRISPR spacer
tgctggaggcggctctggcggatgggat	Protospacer
***.* *****************

6. spacer 4.1|5998822|28|CP029552|CRISPRCasFinder matches to NZ_CP023065 (Sinorhizobium sp. CCBAU 05631 plasmid pSS05631a, complete sequence) position: , mismatch: 7, identity: 0.75

tgccgcaggcggctctggcggatttccg	CRISPR spacer
tgctggaggcggctctggcggatgggat	Protospacer
***.* *****************

7. spacer 4.1|5998822|28|CP029552|CRISPRCasFinder matches to NC_000914 (Sinorhizobium fredii NGR234 plasmid pNGR234a, complete sequence) position: , mismatch: 7, identity: 0.75

tgccgcaggcggctctggcggatttccg	CRISPR spacer
tgctggaggcggctctggcggatgggat	Protospacer
***.* *****************

8. spacer 4.1|5998822|28|CP029552|CRISPRCasFinder matches to NZ_CP016292 (Rhizobium leguminosarum strain Vaf10 plasmid unnamed4, complete sequence) position: , mismatch: 7, identity: 0.75

tgccgcaggcggctctggcggatttccg	CRISPR spacer
tgctggaggcggctctggcggatgggat	Protospacer
***.* *****************

9. spacer 4.1|5998822|28|CP029552|CRISPRCasFinder matches to NC_010865 (Sinorhizobium meliloti plasmid pSmeSM11b, complete sequence) position: , mismatch: 7, identity: 0.75

tgccgcaggcggctctggcggatttccg	CRISPR spacer
tgctggaggcggctctggcggatgggat	Protospacer
***.* *****************

10. spacer 4.1|5998822|28|CP029552|CRISPRCasFinder matches to NC_015592 (Sinorhizobium meliloti AK83 plasmid pSINME02, complete sequence) position: , mismatch: 7, identity: 0.75

tgccgcaggcggctctggcggatttccg	CRISPR spacer
tgctggaggcggctctggcggatgggat	Protospacer
***.* *****************

11. spacer 4.1|5998822|28|CP029552|CRISPRCasFinder matches to NZ_CP023072 (Sinorhizobium fredii CCBAU 83666 plasmid pSF83666a, complete sequence) position: , mismatch: 7, identity: 0.75

tgccgcaggcggctctggcggatttccg	CRISPR spacer
tgctggaggcggctctggcggatgggat	Protospacer
***.* *****************

12. spacer 4.1|5998822|28|CP029552|CRISPRCasFinder matches to NZ_CP021213 (Sinorhizobium meliloti RU11/001 plasmid pSmeRU11a, complete sequence) position: , mismatch: 7, identity: 0.75

tgccgcaggcggctctggcggatttccg	CRISPR spacer
tgctggaggcggctctggcggatgggat	Protospacer
***.* *****************

13. spacer 4.1|5998822|28|CP029552|CRISPRCasFinder matches to NZ_CP021214 (Sinorhizobium meliloti RU11/001 plasmid pSmeRU11b, complete sequence) position: , mismatch: 7, identity: 0.75

tgccgcaggcggctctggcggatttccg	CRISPR spacer
tgctggaggcggctctggcggatgggat	Protospacer
***.* *****************

14. spacer 4.1|5998822|28|CP029552|CRISPRCasFinder matches to NZ_CP021216 (Sinorhizobium meliloti RU11/001 plasmid pSmeRU11d, complete sequence) position: , mismatch: 7, identity: 0.75

tgccgcaggcggctctggcggatttccg	CRISPR spacer
tgctggaggcggctctggcggatgggat	Protospacer
***.* *****************

15. spacer 3.8|5752022|33|CP029552|PILER-CR matches to NZ_CP020399 (Burkholderia multivorans strain FDAARGOS_246 plasmid unnamed, complete sequence) position: , mismatch: 8, identity: 0.758

ttctgcgccgaccgccgcgtcgcgtgcttccga	CRISPR spacer
gtcgacgtcgaccgccgcgccgcgtgcttctcg	Protospacer
 ** .**.***********.**********. .

16. spacer 3.11|5752021|34|CP029552|CRISPRCasFinder matches to NZ_CP020399 (Burkholderia multivorans strain FDAARGOS_246 plasmid unnamed, complete sequence) position: , mismatch: 9, identity: 0.735

ttctgcgccgaccgccgcgtcgcgtgcttccgat	CRISPR spacer
gtcgacgtcgaccgccgcgccgcgtgcttctcga	Protospacer
 ** .**.***********.**********. .

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

3203718 : 3272341

Tupanvirus(22.22%)

transposase,tRNA

The bacterium proteins that are colored denote the protein is present at specific phage-related keywords (such as 'capsid', 'head', 'integrase', 'plate', 'tail', 'fiber', 'coat', 'transposase', 'portal', 'terminase', 'protease' or 'lysin' and 'tRNA')

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AWN52679.1\|3203718_3204429_+\|tRNA	Ala-tRNA(Pro) hydrolase	NA	NA	NA	NA
AWN52680.1\|3210223_3210907_+	adenylyl-sulfate kinase	A0A2K9L4R9	Tupanvirus	1.1e-21	36.7
AWN52681.1\|3211007_3211223_+	hypothetical protein	NA	NA	NA	NA
AWN52682.1\|3211226_3211466_-	hypothetical protein	NA	NA	NA	NA
AWN52683.1\|3211768_3213346_+	gamma-glutamyltransferase	NA	NA	NA	NA
AWN52684.1\|3213356_3214109_+	2-keto-4-pentenoate hydratase	NA	NA	NA	NA
AWN52685.1\|3214142_3214547_-	alkylhydroperoxidase	NA	NA	NA	NA
AWN52686.1\|3214604_3216101_-	dihydropyrimidinase	NA	NA	NA	NA
AWN55630.1\|3216453_3217398_+	MBL fold metallo-hydrolase	NA	NA	NA	NA
AWN52687.1\|3217431_3217773_-	hypothetical protein	NA	NA	NA	NA
AWN55631.1\|3217769_3218012_-	DUF4926 domain-containing protein	NA	NA	NA	NA
AWN52688.1\|3218080_3218740_-	hypothetical protein	NA	NA	NA	NA
AWN52689.1\|3218801_3219191_-	transcriptional regulator, XRE family protein	NA	NA	NA	NA
AWN52690.1\|3219244_3219898_-	class II aldolase	NA	NA	NA	NA
AWN52691.1\|3219890_3221237_-	MFS transporter	NA	NA	NA	NA
AWN52692.1\|3221233_3221950_-	NADP oxidoreductase	NA	NA	NA	NA
AWN52693.1\|3221939_3222848_-	aldo/keto reductase	NA	NA	NA	NA
AWN52694.1\|3222966_3224214_-	cytochrome P450	NA	NA	NA	NA
AWN52695.1\|3224210_3225434_-	ABC transporter permease	NA	NA	NA	NA
AWN55632.1\|3225781_3226234_+	hypothetical protein	NA	NA	NA	NA
AWN52696.1\|3226222_3227569_-\|transposase	IS4 family transposase	NA	NA	NA	NA
AWN52697.1\|3227673_3229029_-	flagellar biosynthesis protein FlgA	NA	NA	NA	NA
AWN52698.1\|3229163_3229595_+	bleomycin resistance family protein	NA	NA	NA	NA
AWN55633.1\|3229828_3231679_-	potassium transporter Kup	A7J6G4	Paramecium_bursaria_Chlorella_virus	2.6e-68	33.1
AWN52699.1\|3231977_3233039_+	NAD-dependent dehydratase	NA	NA	NA	NA
AWN52700.1\|3233169_3235551_+	methyl-accepting chemotaxis protein	A0A2H4J162	uncultured_Caudovirales_phage	1.5e-12	62.5
AWN52701.1\|3235612_3235798_-	hypothetical protein	NA	NA	NA	NA
AWN52702.1\|3235860_3236640_-	hydratase	NA	NA	NA	NA
AWN52703.1\|3236636_3237455_-	3-oxoacyl-ACP reductase	Q06VL0	Trichoplusia_ni_ascovirus	2.9e-16	32.5
AWN52704.1\|3237616_3238288_+	dimethylmenaquinone methyltransferase	NA	NA	NA	NA
AWN52705.1\|3238277_3238919_-	hypothetical protein	NA	NA	NA	NA
AWN52706.1\|3238923_3239904_-	amidase	A0A1V0S8X7	Catovirus	2.9e-10	28.4
AWN52707.1\|3240014_3240926_+	3-keto-5-aminohexanoate cleavage protein	NA	NA	NA	NA
AWN52708.1\|3241043_3243875_-	hypothetical protein	A0A1V0SGX0	Hokovirus	3.3e-46	35.1
AWN52709.1\|3244013_3244427_-	DUF3830 domain-containing protein	NA	NA	NA	NA
AWN52710.1\|3244466_3245753_-	allantoate amidohydrolase	NA	NA	NA	NA
AWN52711.1\|3245787_3246879_+	LysR family transcriptional regulator	NA	NA	NA	NA
AWN52712.1\|3246975_3248103_+	D-alanine--D-alanine ligase A	NA	NA	NA	NA
AWN52713.1\|3248402_3249521_+	aminotransferase	NA	NA	NA	NA
AWN52714.1\|3249728_3251534_-	glucans biosynthesis glucosyltransferase MdoH	NA	NA	NA	NA
AWN55634.1\|3251660_3252509_+	dehydrogenase	NA	NA	NA	NA
AWN52715.1\|3252520_3252922_+	hypothetical protein	NA	NA	NA	NA
AWN52716.1\|3252921_3253977_+	glycosyl transferase family 1	NA	NA	NA	NA
AWN52717.1\|3253973_3254831_+	SAM-dependent methyltransferase	NA	NA	NA	NA
AWN52718.1\|3255955_3256198_-	transcriptional regulator	NA	NA	NA	NA
AWN52719.1\|3256870_3257107_+	hypothetical protein	NA	NA	NA	NA
AWN52720.1\|3257087_3258257_+	hypothetical protein	NA	NA	NA	NA
AWN52721.1\|3263141_3264243_+\|transposase	IS3 family transposase	S5WIU1	Leptospira_phage	1.2e-49	41.4
AWN55635.1\|3264982_3266809_-	glutamine--fructose-6-phosphate transaminase (isomerizing)	A7IW18	Paramecium_bursaria_Chlorella_virus	1.1e-106	41.0
AWN52722.1\|3266869_3267853_-	UDP-glucose 4-epimerase GalE	A0A2K9L5H6	Tupanvirus	8.1e-45	36.6
AWN52723.1\|3268184_3268772_-\|transposase	IS630 family transposase	NA	NA	NA	NA
AWN52724.1\|3268772_3269258_-\|transposase	transposase	NA	NA	NA	NA
AWN55636.1\|3269672_3269936_-	nodulation protein	NA	NA	NA	NA
AWN52725.1\|3270070_3271423_+\|transposase	IS701 family transposase	NA	NA	NA	NA
AWN52726.1\|3271525_3272341_+\|transposase	IS5 family transposase	NA	NA	NA	NA

DBSCAN-SWA_2

3670295 : 3682092

Bacillus_phage(33.33%)

tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AWN53024.1\|3670295_3672899_+	hybrid sensor histidine kinase/response regulator	W8CYM9	Bacillus_phage	4.0e-06	34.2
AWN53025.1\|3672966_3673209_+	hypothetical protein	NA	NA	NA	NA
AWN53026.1\|3673220_3673676_+	hypothetical protein	NA	NA	NA	NA
AWN53027.1\|3673787_3674879_+	recombinase RecA	A0A0S2MVG1	Bacillus_phage	5.5e-119	60.5
AWN53028.1\|3674943_3675357_-	hypothetical protein	NA	NA	NA	NA
AWN53029.1\|3675545_3678209_+\|tRNA	alanine--tRNA ligase	A0A1V0SK38	Klosneuvirus	5.5e-80	35.9
AWN53030.1\|3678632_3679187_+	dTDP-4-dehydrorhamnose 3,5-epimerase	A0A1D8EQH2	Escherichia_phage	4.0e-25	37.8
AWN53031.1\|3679230_3680283_+	dTDP-glucose 4,6-dehydratase	A0A1D7XFE8	Escherichia_phage	2.6e-89	49.9
AWN53032.1\|3680287_3681187_+	dTDP-4-dehydrorhamnose reductase	NA	NA	NA	NA
AWN53033.1\|3681201_3682092_+	glucose-1-phosphate thymidylyltransferase	I7I009	Enterobacteria_phage	2.2e-94	56.6

DBSCAN-SWA_3

6188280 : 6226647

Rhodobacter_phage(18.75%)

capsid,tail,portal,integrase,tRNA,head,terminase

attL 6189173:6189189|attR 6196035:6196051

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AWN55025.1\|6188280_6188784_-\|tRNA	tRNA (N6-threonylcarbamoyladenosine(37)-N6)-methyltransferase TrmO	NA	NA	NA	NA
AWN55026.1\|6188987_6189989_-	asparaginase	NA	NA	NA	NA
6189173:6189189	attL	NA	NA	NA	NA
AWN55027.1\|6190243_6191413_-\|integrase	site-specific integrase	NA	NA	NA	NA
AWN55028.1\|6191253_6191583_-	hypothetical protein	NA	NA	NA	NA
AWN55029.1\|6191584_6192139_-	hypothetical protein	A0A142F2K6	Mycobacterium_phage	4.5e-08	34.5
AWN55030.1\|6192349_6192577_+	hypothetical protein	NA	NA	NA	NA
AWN55031.1\|6192673_6193726_-	hypothetical protein	Q8W6F2	Sinorhizobium_phage	2.0e-81	47.4
AWN55032.1\|6194773_6195178_-	hypothetical protein	NA	NA	NA	NA
AWN55033.1\|6195174_6195693_-	hypothetical protein	B0VK83	Azospirillum_phage	7.8e-39	48.5
AWN55034.1\|6195943_6196516_-	hypothetical protein	B3VD64	Enterobacteria_phage	1.8e-12	33.1
6196035:6196051	attR	NA	NA	NA	NA
AWN55035.1\|6196515_6197301_-	hypothetical protein	B0VK86	Azospirillum_phage	4.3e-41	47.4
AWN55036.1\|6197267_6197570_-	hypothetical protein	NA	NA	NA	NA
AWN55037.1\|6197569_6197773_-	hypothetical protein	NA	NA	NA	NA
AWN55038.1\|6197772_6198060_-	hypothetical protein	NA	NA	NA	NA
AWN55039.1\|6198990_6199767_-	hypothetical protein	A0A141GF24	Brucella_phage	1.9e-28	33.1
AWN55040.1\|6199852_6200104_+	hypothetical protein	NA	NA	NA	NA
AWN55041.1\|6200166_6200436_+	hypothetical protein	NA	NA	NA	NA
AWN55042.1\|6200610_6201111_-	hypothetical protein	NA	NA	NA	NA
AWN55043.1\|6201125_6201521_+	hypothetical protein	NA	NA	NA	NA
AWN55044.1\|6201517_6201877_+	hypothetical protein	NA	NA	NA	NA
AWN55045.1\|6201873_6202143_+	hypothetical protein	NA	NA	NA	NA
AWN55046.1\|6202187_6202427_+	hypothetical protein	NA	NA	NA	NA
AWN55047.1\|6203210_6203849_+	hypothetical protein	NA	NA	NA	NA
AWN55048.1\|6203901_6204516_+	hypothetical protein	NA	NA	NA	NA
AWN55049.1\|6204659_6204857_-	hypothetical protein	NA	NA	NA	NA
AWN55050.1\|6204964_6205300_+	hypothetical protein	NA	NA	NA	NA
AWN55051.1\|6205289_6205484_+	hypothetical protein	NA	NA	NA	NA
AWN55052.1\|6205492_6205744_+	hypothetical protein	NA	NA	NA	NA
AWN55053.1\|6205890_6206523_+	hypothetical protein	NA	NA	NA	NA
AWN55054.1\|6206452_6208549_+\|terminase	terminase	A0A2H4JIC6	uncultured_Caudovirales_phage	1.3e-111	39.0
AWN55916.1\|6208560_6208818_+	hypothetical protein	NA	NA	NA	NA
AWN55917.1\|6208880_6210437_+\|portal	phage portal protein	A0A1B2LRR5	Wolbachia_phage	3.3e-109	43.1
AWN55055.1\|6210439_6211342_+	peptidase S49	I3ULZ8	Rhodobacter_phage	6.5e-49	45.0
AWN55056.1\|6211414_6211999_+	hypothetical protein	NA	NA	NA	NA
AWN55057.1\|6212002_6212383_+\|head	head decoration protein	NA	NA	NA	NA
AWN55058.1\|6212389_6213445_+\|capsid	major capsid protein E	Q9JMM2	Wolbachia_phage	4.1e-79	48.1
AWN55918.1\|6213570_6213891_+	hypothetical protein	NA	NA	NA	NA
AWN55059.1\|6213887_6214250_+	hypothetical protein	NA	NA	NA	NA
AWN55060.1\|6214246_6214912_+	hypothetical protein	NA	NA	NA	NA
AWN55061.1\|6214926_6215505_+	hypothetical protein	NA	NA	NA	NA
AWN55062.1\|6215504_6216107_+	hypothetical protein	NA	NA	NA	NA
AWN55063.1\|6216117_6216552_+	hypothetical protein	G8DH50	Emiliania_huxleyi_virus	1.8e-20	41.3
AWN55064.1\|6216569_6217511_+	hypothetical protein	G8DH51	Emiliania_huxleyi_virus	1.3e-79	51.6
AWN55065.1\|6217755_6218172_+	hypothetical protein	G8DH52	Emiliania_huxleyi_virus	1.4e-09	36.8
AWN55066.1\|6218412_6222303_+\|tail	tail length tape measure protein	A0A0K2QJE7	Achromobacter_phage	1.0e-18	23.4
AWN55067.1\|6222299_6222725_+	hypothetical protein	NA	NA	NA	NA
AWN55068.1\|6222936_6223656_+	hypothetical protein	M4SRS7	Rhodobacter_phage	5.2e-25	46.6
AWN55069.1\|6223788_6226647_+\|tail	phage tail protein	G8GWG0	Rhodobacter_phage	5.3e-153	37.2

Anti-CRISPR protein detection

Acr ID	Acr position	Acr size	Homology with known anti	Neighbor HTH/AcRanker	Neighbor Aca	In prophage	Protospacer in prophage