CRISPRimmunity

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Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Target MGE spacer number	Prophage number
LR134463	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 21	0 crisprs	csa3	0	0
LR134443	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, chromosome: 1	0 crisprs	NA	0	0
LR134461	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 19	0 crisprs	NA	0	0
LR134451	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 9	1 crisprs	csa3	1	0
LR134450	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 8	0 crisprs	NA	0	0
LR134453	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 11	0 crisprs	NA	0	0
LR134464	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 22	0 crisprs	csa3,cas3	0	0
LR134446	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 4	1 crisprs	NA	1	0
LR134454	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 12	0 crisprs	NA	0	0
LR134466	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 24	0 crisprs	csa3	0	0
LR134459	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 17	0 crisprs	NA	0	0
LR134449	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 7	0 crisprs	NA	0	0
LR134468	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 26	0 crisprs	Cas9_archaeal	0	0
LR134447	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 5	0 crisprs	RT	0	0
LR134462	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 20	0 crisprs	NA	0	0
LR134456	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 14	0 crisprs	csa3	0	1
LR134455	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 13	0 crisprs	csa3	0	1
LR134444	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 2	0 crisprs	NA	0	0
LR134458	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 16	0 crisprs	NA	0	0
LR134445	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 3	0 crisprs	WYL,csa3	0	0
LR134465	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 23	2 crisprs	cas3,csa3,WYL	2	0
LR134448	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 6	0 crisprs	NA	0	0
LR134470	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 28	0 crisprs	NA	0	0
LR134460	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 18	0 crisprs	csa3,DEDDh	0	1
LR134452	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 10	0 crisprs	csa3,DEDDh,DinG	0	1
LR134457	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 15	0 crisprs	NA	0	0
LR134467	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 25	0 crisprs	NA	0	0
LR134469	Tsukamurella tyrosinosolvens strain NCTC13231 genome assembly, plasmid: 27	0 crisprs	cas3,csa3	0	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: LR134465_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

LR134465_1

214507-214610

Orphan

Consensus_repeat	Method
CGTCCCCCGCGCCGCGCCGAATCCCC	CRISPRCasFinder

1 spacers

The CRISPR arrays of LR134465_1

>merge|LR134465|1|214507-214610|CRISPRCasFinder
CGTCCCCCGCGCCGCGCCGAATCCCCACCCCGGCGTTCCGTCCCCCATCAGGCGCCGTTCCTCCGGTGGGGGCTCGAACGTCCCCCGCGCGGCGCCGAATCCCC

>LR134465|1|1|214507-214610|CRISPRCasFinder
CGTCCCCCGCGCCGCGCCGAATCCCC	ACCCCGGCGTTCCGTCCCCCATCAGGCGCCGTTCCTCCGGTGGGGGCTCGAA
CGTCCCCCGCGCGGCGCCGAATCCCC

Protein	Signature genes	Signature genes Name	Protein_function
LR134465.1\|VEI00262.1\|207208_207652_+\|Ribonuclease-HI	unknown	unknown	gnl\|CDD\|178927
LR134465.1\|VEI00264.1\|207648_208098_-\|Protein-of-uncharacterised-function-(DUF2510)	unknown	unknown	gnl\|CDD\|378480
LR134465.1\|VEI00288.1\|219236_220037_+\|PPOX-class-probable-F420-dependent-enzyme	unknown	unknown	gnl\|CDD\|372782
LR134465.1\|VEI00272.1\|211259_212360_-\|metal-dependent-hydrolase	unknown	unknown	gnl\|CDD\|293841
LR134465.1\|VEI00282.1\|215745_217254_+\|Acetyl-coenzyme-A-carboxylase-carboxyl-transferase-subunit-beta	unknown	unknown	gnl\|CDD\|223848
LR134465.1\|VEI00266.1\|208116_209259_-\|Uncharacterized-metallophosphoesterase-Cj0846	unknown	unknown	gnl\|CDD\|277331
LR134465.1\|VEI00278.1\|213134_214220_+\|Uncharacterized-oxidoreductase-CzcO	unknown	unknown	gnl\|CDD\|224983
LR134465.1\|VEI00298.1\|223010_224303_-\|Citrate-synthase-1	unknown	unknown	gnl\|CDD\|180164
LR134465.1\|VEI00292.1\|221811_222060_+\|Trafficking-protein-A	unknown	unknown	gnl\|CDD\|172484
LR134465.1\|VEI00280.1\|214869_215694_-\|Uncharacterized-oxidoreductase-MSMEG_2408	unknown	unknown	gnl\|CDD\|381357
LR134465.1\|VEI00274.1\|212361_213096_-\|Probable-enoyl-CoA-hydratase-echA6	unknown	unknown	gnl\|CDD\|236115
LR134465.1\|VEI00268.1\|209425_211012_-\|Uncharacterised-protein	unknown	unknown	gnl\|CDD\|238733
LR134465.1\|VEI00290.1\|220053_221667_-\|Uncharacterised-protein	unknown	unknown	gnl\|CDD\|223021
LR134465.1\|VEI00270.1\|211042_211249_-\|Uncharacterised-protein	unknown	unknown	gnl\|CDD\|379416
LR134465.1\|VEI00260.1\|206571_207171_-\|pyridoxamine-5'-phosphate-oxidase,-FMN-binding-family	unknown	unknown	gnl\|CDD\|334450
LR134465.1\|VEI00258.1\|205458_206562_+\|Beta-antigen	unknown	unknown	gnl\|CDD\|236090
LR134465.1\|VEI00286.1\|217894_219097_-\|Manganese-transport-protein-MntH	unknown	unknown	gnl\|CDD\|234815
LR134465.1\|VEI00296.1\|222599_222959_-\|FK506-binding-protein	unknown	unknown	gnl\|CDD\|223619
LR134465.1\|VEI00284.1\|217254_217779_-\|Uncharacterised-protein	unknown	unknown	gnl\|CDD\|379513
LR134465.1\|VEI00294.1\|222056_222485_+\|Probable-ribonuclease-FitB	unknown	unknown	gnl\|CDD\|350298

Protein	Function_ID	Function_description	E-value
LR134465.1\|VEI00262.1\|207208_207652_+\|Ribonuclease-HI	gnl\|CDD\|178927	PRK00203, rnhA, ribonuclease H; Reviewed.	1.58984e-95
LR134465.1\|VEI00264.1\|207648_208098_-\|Protein-of-uncharacterised-function-(DUF2510)	gnl\|CDD\|378480	pfam10708, DUF2510, Protein of unknown function (DUF2510). This is family of proteins conserved in Actinobacteria. Many members are annotated as putative membrane proteins but this could not be confirmed.	9.83016e-05
LR134465.1\|VEI00288.1\|219236_220037_+\|PPOX-class-probable-F420-dependent-enzyme	gnl\|CDD\|372782	pfam13883, Pyrid_oxidase_2, Pyridoxamine 5'-phosphate oxidase.	3.08358e-18
LR134465.1\|VEI00272.1\|211259_212360_-\|metal-dependent-hydrolase	gnl\|CDD\|293841	cd16283, RomA-like_MBL-fold, Enterobacter cloacae RomA and related proteins; MBL-fold metallo hydrolase domain. Derepression of the romA-ramA locus results in a multidrug-resistance phenotype. Members of this subgroup belong to the MBL-fold metallo-hydrolase superfamily which is comprised mainly of hydrolytic enzymes which carry out a variety of biological functions. The class B metal beta-lactamases (MBLs) from which this fold was named are only a small fraction of the activities which are included in this superfamily. Activities carried out by superfamily members include class B beta-lactamases, hydroxyacylglutathione hydrolases, AHL (acyl homoserine lactone) lactonases, persulfide dioxygenases, flavodiiron proteins, cleavage and polyadenylation specificity factors such as the Int9 and Int11 subunits of Integrator, Sdsa1-like and AtsA-like arylsulfatases, 5'-exonucleases human SNM1A and yeast Pso2p, ribonuclease J and ribonuclease Z, cyclic nucleotide phosphodiesterases, insecticide hydrolases, and proteins required for natural transformation competence. Classical members of the superfamily are di-, or less commonly mono-, zinc-ion-dependent hydrolases, however the diversity of biological roles is reflected in variations in the active site metallo-chemistry.	2.29864e-64
LR134465.1\|VEI00282.1\|215745_217254_+\|Acetyl-coenzyme-A-carboxylase-carboxyl-transferase-subunit-beta	gnl\|CDD\|223848	COG0777, AccD, Acetyl-CoA carboxylase beta subunit [Lipid metabolism].	7.80719e-92
LR134465.1\|VEI00266.1\|208116_209259_-\|Uncharacterized-metallophosphoesterase-Cj0846	gnl\|CDD\|277331	cd07385, MPP_YkuE_C, Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain. YkuE is an uncharacterized Bacillus subtilis protein with a C-terminal metallophosphatase domain and an N-terminal twin-arginine (RR) motif. An RR-signal peptide derived from the Bacillus subtilis YkuE protein can direct Tat-dependent secretion of agarase in Streptomyces lividans. This is an indication that YkuE is transported by the Bacillus subtilis Tat (Twin-arginine translocation) pathway machinery. YkuE belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordination.	1.65002e-71
LR134465.1\|VEI00278.1\|213134_214220_+\|Uncharacterized-oxidoreductase-CzcO	gnl\|CDD\|224983	COG2072, TrkA, Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism].	1.36211e-33
LR134465.1\|VEI00298.1\|223010_224303_-\|Citrate-synthase-1	gnl\|CDD\|180164	PRK05614, gltA, citrate synthase.	0
LR134465.1\|VEI00292.1\|221811_222060_+\|Trafficking-protein-A	gnl\|CDD\|172484	PRK13982, PRK13982, bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional.	1.66368e-12
LR134465.1\|VEI00280.1\|214869_215694_-\|Uncharacterized-oxidoreductase-MSMEG_2408	gnl\|CDD\|381357	cd19131, AKR_AKR5C2, Escherichia coli 2,5-diketo-D-gluconic acid reductase A (DkgA/YqhE) and similar proteins. Escherichia coli DkgA/YqhE is a founding member of aldo-keto reductase family 5 member C2 (AKR5C2). DkgA/YqhE (EC 1.1.1.274), also called 2,5-DKG reductase A, or 2,5-DKGR A, or 25DKGR-A, or AKR5C, catalyzes the reduction of 2,5-diketo-D-gluconic acid (25DKG) to 2-keto-L-gulonic acid (2KLG). It is also capable of stereoselective -keto ester reductions on ethyl acetoacetate and other 2-substituted derivatives.	1.34483e-151
LR134465.1\|VEI00274.1\|212361_213096_-\|Probable-enoyl-CoA-hydratase-echA6	gnl\|CDD\|236115	PRK07854, PRK07854, enoyl-CoA hydratase; Provisional.	5.73216e-85
LR134465.1\|VEI00268.1\|209425_211012_-\|Uncharacterised-protein	gnl\|CDD\|238733	cd01456, vWA_ywmD_type, VWA ywmD type:Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A domains. Not much is known about the function of the members of this subgroup. All members of this subgroup however have a conserved MIDAS motif. .	4.83456e-24
LR134465.1\|VEI00290.1\|220053_221667_-\|Uncharacterised-protein	gnl\|CDD\|223021	PHA03247, PHA03247, large tegument protein UL36; Provisional.	9.42067e-11
LR134465.1\|VEI00270.1\|211042_211249_-\|Uncharacterised-protein	gnl\|CDD\|379416	pfam14013, MT0933_antitox, MT0933-like antitoxin protein. This family of proteins contains the MT0933 protein, which has been identified as an antitoxin to /protein MT0934. This family of proteins is found in bacteria. Proteins in this family are typically between 61 and 90 amino acids in length.	2.27838e-05
LR134465.1\|VEI00260.1\|206571_207171_-\|pyridoxamine-5'-phosphate-oxidase,-FMN-binding-family	gnl\|CDD\|334450	pfam01243, Putative_PNPOx, Pyridoxamine 5'-phosphate oxidase. Family of domains with putative PNPOx function. Family members were predicted to encode pyridoxamine 5'-phosphate oxidase, based on sequence similarity. However, there is no experimental data to validate the predicted activity and purified proteins, such as yeast YLR456W and its paralogs, do not possess this activity, nor do they bind to flavin mononucleotide (FMN). To date, the only time functional oxidase activity has been experimentally demonstrated is when the sequences contain both pfam01243 and pfam10590. Moreover, some of the family members that contain both domains have been shown to be involved in phenazine biosynthesis. While some molecular function has been experimentally validated for the proteins containing both domains, the role performed by each domain on its own is unknown.	1.78782e-10
LR134465.1\|VEI00258.1\|205458_206562_+\|Beta-antigen	gnl\|CDD\|236090	PRK07764, PRK07764, DNA polymerase III subunits gamma and tau; Validated.	3.99693e-10
LR134465.1\|VEI00286.1\|217894_219097_-\|Manganese-transport-protein-MntH	gnl\|CDD\|234815	PRK00701, PRK00701, divalent metal cation transporter MntH.	4.71761e-150
LR134465.1\|VEI00296.1\|222599_222959_-\|FK506-binding-protein	gnl\|CDD\|223619	COG0545, FkpA, FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones].	6.08801e-40
LR134465.1\|VEI00284.1\|217254_217779_-\|Uncharacterised-protein	gnl\|CDD\|379513	pfam14230, DUF4333, Domain of unknown function (DUF4333). This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are typically between 140 and 255 amino acids in length. There are two completely conserved C residues that may be functionally important.	3.20482e-10
LR134465.1\|VEI00294.1\|222056_222485_+\|Probable-ribonuclease-FitB	gnl\|CDD\|350298	cd18731, PIN_NgFitB-like, VapC-like PIN domain of Neisseria gonorrhoeae FitB and related proteins. This subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Neisseria gonorrhoeae FitB toxin of the FitAB toxin/antitoxin (TA) system. This subfamily belongs to the VapC-like family of the PIN domain nuclease superfamily. VapC is the PIN-domain ribonuclease toxin from prokaryotic VapBC toxin-antitoxin (TA) systems. VapB is a transcription factor-like protein antitoxin acting as an inhibitor. In N. gonorrhoeae, FitA and FitB form a heterodimer: FitA is the DNA binding subunit and FitB contains a ribonuclease activity that is blocked by the presence of FitA. A tetramer of FitAB heterodimers binds DNA from the fitAB upstream promoter region with high affinity. This results in both sequestration of FitAB and repression of fitAB transcription. It is thought that FitAB release from the DNA and subsequent dissociation both slows N. gonorrhoeae replication and transcytosis by an as yet undefined mechanism. The toxin M. tuberculosis VapC is a structural homolog of N. gonorrhoeae FitB, but their antitoxin partners, VapB and FitA, respectively, differ structurally. The structural properties of the PIN (PilT N terminus) domain indicate its active center, consisting of three highly conserved catalytic residues which coordinate metal ions, in some members, additional metal coordinating residues can be found. Some members of the superfamily lack several of these key catalytic residues. The PIN active site is geometrically similar in the active center of structure-specific 5' nucleases, PIN-domain ribonucleases of eukaryotic rRNA editing proteins, and bacterial toxins of toxin-antitoxin (TA) operons.	6.22242e-54

>LR134465.1|VEI00278.1|213134_214220_+|Uncharacterized-oxidoreductase-CzcO
MVGAGQAGLSAAYFLPRFGIENSIVLDHNAGPGGAWRQRWPSLTLRSANHVHDLPGWGLQDALGTECDDIPAATGVAQYFGEYEKRFGIDVHRPAHVASVSRCDGGYLVAGHGADGPFEYRAAAVINCTGTWDRPFWPTVAGAPSFRGTQLHAHDYRTAEPFAGKRVAVVGAGITAVQLLLEIAEVAETAWFTRREVQWDTTPFDPDKGRRAVARVEERVRAGLPPGSVVSVTGLPMTDAMRRGIEAGVLVRRPMFASLSPDGPLLADGTLVPADVILWCTGFRYSMDHLAPLNLRSPGGGIVMTGRLATEVAGEPRLHLLGYGPSASTIGANRAGREAARAIAEAVGVDASGAEGRPARE
>LR134465.1|VEI00274.1|212361_213096_-|Probable-enoyl-CoA-hydratase-echA6
MIGYTLEEKVAVIEFQRPEARNALNPEIMDGLEAAFDRAEADGVFVIVLTGQGTVFSAGADLRSGAVLDKNFMERVIRFYRRVEAMKQILVAAVNGPAVGAGVQMAMLADLRVLDPSATIAIPAAKLGVTIDKWTLRRLEDLVGGGHARGVLMAAQKIGAEKLLDLGFANAIGDREAALEFARGVAGLAPLSLQNYKALFKSDVAVEPLTEAEEARLHAVWDSEDLKEAIMARIEKRDPRFQGR
>LR134465.1|VEI00272.1|211259_212360_-|metal-dependent-hydrolase
MRLGTVVTFAAGAAAGIAGAAGLRAADGLKRSMGAQVDTVYTNTDPDSPHQRFDAAKIARGVVGRARHGLGAPSRPIPLAADPSPEQASDLAVTWFGHSSVLIEVDGFRILADPVWGERVSPSPTIGPARLHPVPVALSALPHIDAVIISHDHYDHLDLPTIDELTRDRDVPFCVPVGVGGHLRAWGVPEDRIVELDWDQAHTLTRDGRSVKVVCTEARHFSGRGLTRNSTQWASWSLVGPEHAVFFGGDTGFTERFKLVGDHFGPFDLTLLPIGAYDPLWPDVHTNPEEAVAIHAMIAKPGAPLVPVHWATFNLAFHDWSEPVERLLAAAEEAGVATIIPMPGGRVDGAGGAITPGTGDWWSTVR
>LR134465.1|VEI00270.1|211042_211249_-|Uncharacterised-protein
MDFKDLANKAKDALGKNPNIIDKAGDFIDGKTDGKYSAQVDKAQDAAKKFAGGQQGQQDQQGPQGQQQ
>LR134465.1|VEI00268.1|209425_211012_-|Uncharacterised-protein
MGRHDAPGESAPEKPRGRNLARLLLGAGLVAILVAGIVAIVGGKFAGCGATNTVTVMADPALAAAARSQASLASDRCTTIAVTEAPDRESAGRLAGGGADLWLAPSRLRADAVSAQLGRELPTTVVAGSPIVLAGTAIPQPASWSEAMTQATIRAVPADSPYADAPVAAAVAESSRPGAGAGDDQALNAVLAQYAQAAKRVSGEPVAAAAAEGGVVAVPEYAYLAEKKGRGELAAVVPKTGAPRDELLLAVAATGDRKAAATAAGERLTKAFTSADGLAALARDGLRGTALAEAPSGGVGAVTALPDPDRARLARAEQTYSTLAVPLKALVVVDTSGSMNEKVGDTTRIGMLASGFTKVVTQIPEANAVGLWTFALATNGGKDWTEVVPTARLSDKRGPTTQRQALLDGVNSLPGRVRGGTGLYDTTLAAYRQAVKDFDPAYSNSLILLSDGGNEKNGGTTLDELVAELKKLVDPARPVNIHTVGISKDADLPALKKIADATGGTAQSADTEQQMLADFVNAVAKRAK
>LR134465.1|VEI00266.1|208116_209259_-|Uncharacterized-metallophosphoesterase-Cj0846
MPTGVIGVLIVTLGSLALVQWRVVRGWSSRAARIAGTVAVVVAALLTLAAPVGLLAGNGRIDPDRVRWISAAGLTWLATVFYLLLTLLVLGVLWVLTRLVRLVRPGFDGAPLRRAVALVGVVGAVAATLYGLVEAATPRVTHTQVKLASMPAAFGPLKVALITDIHAGPVRTRGFVQGVVDRANAERPDLVLMAGDLIDGTVAQIGDDLTPLRDLRAPLGVFAVTGNHEYYAGDVVNWVQRWRDVGVTPLTNASARLERGGATVTLVGANDRTGKAPHEVDYDAAFAGVDPAGFTVAIAHEPLQGREFAKRGADLQVAGHTHGGQIWPFRYFVRLQQPALQGLESVDGMPVYTSRGAGAWGPPVRVAAPPEIAILELTAA
>LR134465.1|VEI00264.1|207648_208098_-|Protein-of-uncharacterised-function-(DUF2510)
MAIRASTDVGPVRVSVAPSTRARRTPAPARRVPVLKLPATRVPAGFALPRRADLPPPVAPAGWYPDPEDAARMRWWNGTKWTRRFADPGATPAAAPGTRVRARTADAPPRLRPARRPTKRRLLPNVEFSGPRGAQGPVRRRRTRRSERD
>LR134465.1|VEI00262.1|207208_207652_+|Ribonuclease-HI
MADEIVIYTDGACLGNPGPGGWGAVLRFGEHQKELYGAEKDTTNNRMELMGAISALEAITRPMPVVLYTDSSYVKNGITKWIAGWKRNGWKTSAKQPVKNAELWQRLEQAAAQYEIDWRWVKGHAGNEGNELADQLASRGAQEARDN
>LR134465.1|VEI00260.1|206571_207171_-|pyridoxamine-5'-phosphate-oxidase,-FMN-binding-family
MPNNHYHHLVFGDDALDRQRRNGSYVAYGRQLERGDDGPQALTDRELLMITRADQFCLATVTPQGWPYLQYRSGPAGFVQHDPATGRLGFIDVPGNNQFVTLGNLADDDRLAMFFVDYPRRVRLKVFGRGTVRETEDRRVIEIAVEAYDWNCQRSIIPRFDREYLKQLGEAYQKVAAEREAELQAEIDRLRARVAELEG
>LR134465.1|VEI00258.1|205458_206562_+|Beta-antigen
MPDSPPASASGATRITGLVLAVAGAVGFAVAAFATWYRVTAPLPDIARLGGLPSEIEARINGIGTVTMPAYDNLDVSSSVPNDVAWGGWAAIALAVAAVVAASAAAFGPATWRAVGAWGALACGVLGAALGLYAQLVPVGSQPVSVGGFTLQVDTAASVGPPIVWIAALPLLLGAVLLDRARRSAPAAAAPAAPQAPQLPASPFVPAAQIPGAPQPSAPRPSAAQQPGAPQPGPPMQPGAPMPPAPLPHGAPAPSNQQFPQADPTWARPVPPPMPAHTPPPLPAPTPAPAPDEHTRTAVAPVARRRPQPDWDRDWPGTVPPKPGPVTPSEQHTQVVKRPPRPVRVSPKPETEALPRRDPRFDSPTQP
>LR134465.1|VEI00280.1|214869_215694_-|Uncharacterized-oxidoreductase-MSMEG_2408
MTVPNVKLNNGTSIPQLGFGVWQVPDDGARDAVAEALRVGYRSIDTAKVYENEAGTGGAIAESGLARDEVFLTTKLWNSDQGLDETLRAFDASLERLGTDYVDLYLIHWPVPEYDRFVDTFKAFQQIRDSGRAKAIGVSNFRVEDLRRVIDETGETPAINQIELHPGLPQDELRAFHAEHGIATEAWSPLGQGESLTDAAVVEVAAAHGVTPAQAILRWHLQLGNVVIPKSVTPARIAENFDVFGFTLSDDEVARISAIEGKRIGPDPAVFNLH
>LR134465.1|VEI00282.1|215745_217254_+|Acetyl-coenzyme-A-carboxylase-carboxyl-transferase-subunit-beta
MAITAQDLIDAILDRGTFTSWDGPLPDVAPDAEYAAALQRARERSHHDEAVITGEGRIRGQRVALIACDFGFLGGSIGVAAAERIVTAVERATALRLPLLATPTSGGTRMQEGTVAFLQMVKISAAITLHKQSGLPYLVYLRDPTMGGVFASWGSLGHVTIAEPGARIGFLGPRVYEALRGEPFPDGVQTAEHLFERGLIDGVVPLRFVRLLAHRTLRVLAGAQDADPLAPHLGVREELAAADDDTPAWDSVRISREPGRPGVRAFLRHSATDRLPLSGTGEGETDHTLLLSLARVQGYPCVVVGQDTTRADGAAPPLLGPAALRAARRGMRLAAELNLPLVLVIDTWGAALSPEAEEGGLAGEVARSLSDLVTLTVPTVSVLLGQGTGGGALAMLPADRVLCAQHAWLAPLPPEGASAVMYRDAEHAAEMAERQRIRAADLLEDGVVDRVIPERPNAADEPTEFSRRVGLAVSDALAELSLIPDSIRISRRLDRYRFLGGR
>LR134465.1|VEI00284.1|217254_217779_-|Uncharacterised-protein
MGLRAVAVVVGGAGVAVAACWTMLSPTEVAQDQVESGTLAQVAAAPSDHLHCDGGLEAEVGAAQSCVLHRGGEEFAVQLRVTDVDGDRVHWDSTVSGVPRSGPRVAVGELEQRTREVLARERRVDAVTCEGGLAGTVGARQTCAMTASGHRHDVTVTVTTVDPARVQWGVTVGK
>LR134465.1|VEI00286.1|217894_219097_-|Manganese-transport-protein-MntH
MLLGPAFVAAIAYVDPGNVAANVTAGAKYGYLLVWVLVLANVMAVMIQYQSAKLGVVTGRSLPQVLGDRLPRRSRLAFWGQAELVAAATDIAEVIGGALALNLLFGVPLVWGGLIVGVISTALLVLADGRRQYRFELVIIGMLAIIVVGFLAGLIVAPPDGAAVLGGLVPRLQGTETVLLAASMLGATVMPHAIYLHSALVVDRHGAPPAEGAVERARRLLKVTRVDVVLALIIAGAVNIALLVLAASSLYGREGTDSIEGAHAAVRDALGPVVAGLFAVGLLASGLASTSVGSYAGGTIMAGLLRKRIPVVVRRLITMIPAIGVLAIGVPPTEALVISQVVLSFGIPFALLPLRRFTADRALMGEFADRAPLRWASAAAGALIVALNVALIYLTVTGAG
>LR134465.1|VEI00288.1|219236_220037_+|PPOX-class-probable-F420-dependent-enzyme
MTTRDHGDPGDAPTIAPPLTDVAEPRRPSAAEEARTVAASTNTATLGSLSSDGGPWASLVTYGLLGGDPVLCVSHMAEHGRNLARDPRASVSIVAPDASSDPLANARITLAGTVRRPEGEQLAAAREAHLAAVPAAKYYIDYSDFTVWLLEVERVRWVGGYGRMDSASRTDYAAAQPDPVTPHAAGAVRHLNDDHAAALLDMARQLGGYPDATAARCERADRYGLDLRVDTPRGWAVTRVGYLEPLGAPAELRQATVALARLAAGR
>LR134465.1|VEI00290.1|220053_221667_-|Uncharacterised-protein
MNRVKAGTAAVAVLSVAGLLAGCGKDAASDDSPVAFSPVTGDQYTENPGAFQTDGVVVPPKDVIMVGDPIPAQAAVNAGLPQGTITSTTNNTTVYYPPPPAVPGLAVAPQVAPPAPLSRPANTRPWQYTQPQIDAYRAICETGRWGSWIAGVEAQTQTCWTLYGRQLGVRPWTPDQPRPWHRPDYPRPWFDPGFRADVPIIWVYPRNWTRPRPQPIISVSITINIVSNPYRRVPPRFTDPYYPVWAVTPGRVVDVRDQGRILAPVYTVTSTTTTTTTTTVTAPVAPGVVLQPLPTSARITPLVALPGQAVPGNVNTDPAVTAPVAAALQGATVQAGSRSSVEDAIGTSVSVAVASPTTTAPRAGDATGTTTAGTSAAAGAGTTQGGTVTRPTGTSSAAPTATSGTSPQTIPPTSAAPTVPPTTITPPTVAPTTQAPTAAPTTVAPPVTVAPPTTTVAPKPTVAEPAPTTPPRVTPPATTQAPVVTPPPTTQAPVITPPRITTTVAPVPTTTVAPKPVAPKPTVAVPIPTTTTTPPPN
>LR134465.1|VEI00292.1|221811_222060_+|Trafficking-protein-A
MATLTIRNLPDHVRDRLRVRAAENGRSMEAEARMILEESLVEPGKVDLSWVEAFIEIGQKYGPIELPIPPREVEPFKTFDEL
>LR134465.1|VEI00294.1|222056_222485_+|Probable-ribonuclease-FitB
MIILDTNVLTALMQVENTERRVERWLRGVAEQSTVTSITRAEILSGIALLPRGNRRTALRDAADRAFASFPEALSFDHSSAAEYAAVLEIRKAAGRPISVQDAMIAAIARQTGAGLATRNTKDFDGLGLRLVDPWTAGPTGA
>LR134465.1|VEI00296.1|222599_222959_-|FK506-binding-protein
MTKPEIEFIEGPAPSELVIKDIVVGDGAEAQPGSVVDVHYVGVEFDSGEEFDSSWSRGESINFPLRSLIAGWQEGIPGMKVGGRRQLICPPALAYGPAGGGHRLSGKTLVFVIDLLGVK
>LR134465.1|VEI00298.1|223010_224303_-|Citrate-synthase-1
MSTDDNTANATVAYPGGQIELPIVKATEGADGIALGKFLAQSGYSTFDNGFVNTASCKSAITYIDGNAGILRYRGYPIEQLAEKSTFIEVSYLLIHGELPTPEQLAEFTAKIQRHTLLHEDLKLFFNGFPRNAHPMPVVSSAVNALSAYYPDSLDHNDPAQVELSTIRLLAKFPTICAYAYKKSVGQPFLYPDNSLSLVENFLRMTFGFPAEPYEVDPEIVKALDMLLILHADHEQNCSTSTVRLVGSSNANLFTSISGGINALWGPLHGGANQAVLEMLDDIKASGGDTTAFMNKVKNKEDGVKLMGFGHRVYKNYDPRAAIVKQTADRIFELLGVSDELLDIAKGLEDVALHDDYFIERKLYPNVDFYTGLIYRAMGFPTRMFTVLFALGRLPGWIAHWREMHEDPTTKIGRPQQIYTGSTARDYPGA

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Crispr_ID: LR134465_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

LR134465_2

222538-222620

Orphan

Consensus_repeat	Method
GAACTACTTGACGCCGAGCAGCTC	CRISPRCasFinder

1 spacers

The CRISPR arrays of LR134465_2

>merge|LR134465|2|222538-222620|CRISPRCasFinder
GAACTACTTGACGCCGAGCAGCTCATCACGGGGACGAGGCCCCGCGCCCGACGGAGGTGGAACTACTTGACGCCGAGCAGATC

>LR134465|2|2|222538-222620|CRISPRCasFinder
GAACTACTTGACGCCGAGCAGCTC	ATCACGGGGACGAGGCCCCGCGCCCGACGGAGGTG
GAACTACTTGACGCCGAGCAGATC

Protein	Signature genes	Signature genes Name	Protein_function
LR134465.1\|VEI00294.1\|222056_222485_+\|Probable-ribonuclease-FitB	unknown	unknown	gnl\|CDD\|350298
LR134465.1\|VEI00302.1\|225381_226044_-\|Bacterial-regulatory-proteins,-tetR-family	unknown	unknown	gnl\|CDD\|375435
LR134465.1\|VEI00286.1\|217894_219097_-\|Manganese-transport-protein-MntH	unknown	unknown	gnl\|CDD\|234815
LR134465.1\|VEI00314.1\|231219_232323_+\|Citrate-synthase-1	unknown	unknown	gnl\|CDD\|237070
LR134465.1\|VEI00316.1\|232326_233451_+\|Putative-phosphoserine-aminotransferase	unknown	unknown	gnl\|CDD\|130433
LR134465.1\|VEI00278.1\|213134_214220_+\|Uncharacterized-oxidoreductase-CzcO	unknown	unknown	gnl\|CDD\|224983
LR134465.1\|VEI00312.1\|230552_231173_-\|Pyridoxine/pyridoxamine-5'-phosphate-oxidase	unknown	unknown	gnl\|CDD\|235555
LR134465.1\|VEI00308.1\|227852_229079_-\|enterobactin-exporter-EntS	unknown	unknown	gnl\|CDD\|340863
LR134465.1\|VEI00292.1\|221811_222060_+\|Trafficking-protein-A	unknown	unknown	gnl\|CDD\|172484
LR134465.1\|VEI00280.1\|214869_215694_-\|Uncharacterized-oxidoreductase-MSMEG_2408	unknown	unknown	gnl\|CDD\|381357
LR134465.1\|VEI00274.1\|212361_213096_-\|Probable-enoyl-CoA-hydratase-echA6	unknown	unknown	gnl\|CDD\|236115
LR134465.1\|VEI00300.1\|224390_225278_-\|putative-aldose-1-epimerase	unknown	unknown	gnl\|CDD\|185699
LR134465.1\|VEI00290.1\|220053_221667_-\|Uncharacterised-protein	unknown	unknown	gnl\|CDD\|223021
LR134465.1\|VEI00298.1\|223010_224303_-\|Citrate-synthase-1	unknown	unknown	gnl\|CDD\|180164
LR134465.1\|VEI00282.1\|215745_217254_+\|Acetyl-coenzyme-A-carboxylase-carboxyl-transferase-subunit-beta	unknown	unknown	gnl\|CDD\|223848
LR134465.1\|VEI00288.1\|219236_220037_+\|PPOX-class-probable-F420-dependent-enzyme	unknown	unknown	gnl\|CDD\|372782
LR134465.1\|VEI00310.1\|229143_230556_+\|N-substituted-formamide-deformylase-precursor	unknown	unknown	gnl\|CDD\|238625
LR134465.1\|VEI00284.1\|217254_217779_-\|Uncharacterised-protein	unknown	unknown	gnl\|CDD\|379513
LR134465.1\|VEI00306.1\|227166_227826_-\|Serine/threonine-protein-kinase-pknE	unknown	unknown	gnl\|CDD\|239270
LR134465.1\|VEI00304.1\|226157_227075_+\|Rhamnolipids-biosynthesis-3-oxoacyl-[acyl-carrier-protein]-reductase	unknown	unknown	gnl\|CDD\|235737

Protein	Function_ID	Function_description	E-value
LR134465.1\|VEI00294.1\|222056_222485_+\|Probable-ribonuclease-FitB	gnl\|CDD\|350298	cd18731, PIN_NgFitB-like, VapC-like PIN domain of Neisseria gonorrhoeae FitB and related proteins. This subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Neisseria gonorrhoeae FitB toxin of the FitAB toxin/antitoxin (TA) system. This subfamily belongs to the VapC-like family of the PIN domain nuclease superfamily. VapC is the PIN-domain ribonuclease toxin from prokaryotic VapBC toxin-antitoxin (TA) systems. VapB is a transcription factor-like protein antitoxin acting as an inhibitor. In N. gonorrhoeae, FitA and FitB form a heterodimer: FitA is the DNA binding subunit and FitB contains a ribonuclease activity that is blocked by the presence of FitA. A tetramer of FitAB heterodimers binds DNA from the fitAB upstream promoter region with high affinity. This results in both sequestration of FitAB and repression of fitAB transcription. It is thought that FitAB release from the DNA and subsequent dissociation both slows N. gonorrhoeae replication and transcytosis by an as yet undefined mechanism. The toxin M. tuberculosis VapC is a structural homolog of N. gonorrhoeae FitB, but their antitoxin partners, VapB and FitA, respectively, differ structurally. The structural properties of the PIN (PilT N terminus) domain indicate its active center, consisting of three highly conserved catalytic residues which coordinate metal ions, in some members, additional metal coordinating residues can be found. Some members of the superfamily lack several of these key catalytic residues. The PIN active site is geometrically similar in the active center of structure-specific 5' nucleases, PIN-domain ribonucleases of eukaryotic rRNA editing proteins, and bacterial toxins of toxin-antitoxin (TA) operons.	6.22242e-54
LR134465.1\|VEI00302.1\|225381_226044_-\|Bacterial-regulatory-proteins,-tetR-family	gnl\|CDD\|375435	pfam17929, TetR_C_34, Tetracyclin repressor-like, C-terminal domain. TetR family regulators are involved in the transcriptional control of multidrug efflux pumps, pathways for the biosynthesis of antibiotics, response to osmotic stress and toxic chemicals, control of catabolic pathways, differentiation processes, and pathogenicity. The TetR proteins identified in overm ultiple genera of bacteria and archaea share a common helix-turn-helix (HTH) structure in their DNA-binding domain. However, TetR proteins can work in different ways: they can bind a target operator directly to exert their effect (e.g. TetR binds Tet(A) gene to repress it in the absence of tetracycline), or they can be involved in complex regulatory cascades in which the TetR protein can either be modulated by another regulator or TetR can trigger the cellular response. TetR regulates the expression of the membrane-associated tetracycline resistance protein, TetA, which exports the tetracycline antibiotic out of the cell before it can attach to the ribosomes and inhibit protein synthesis. TetR blocks transcription from the genes encoding both TetA and TetR in the absence of antibiotic. The C-terminal domain is multi-helical and is interlocked in the homodimer with the helix-turn-helix (HTH) DNA-binding domain. This entry represents the C-terminal domain present in putative TetR family transcriptional regulators found in bacteria.	4.77198e-19
LR134465.1\|VEI00286.1\|217894_219097_-\|Manganese-transport-protein-MntH	gnl\|CDD\|234815	PRK00701, PRK00701, divalent metal cation transporter MntH.	4.71761e-150
LR134465.1\|VEI00314.1\|231219_232323_+\|Citrate-synthase-1	gnl\|CDD\|237070	PRK12350, PRK12350, citrate synthase 2; Provisional.	0
LR134465.1\|VEI00316.1\|232326_233451_+\|Putative-phosphoserine-aminotransferase	gnl\|CDD\|130433	TIGR01366, Putative_phosphoserine_aminotransferase_PSAT., phosphoserine aminotransferase, putative. This model represents a putative variant form of the serine biosynthesis enzyme phosphoserine aminotransferase, as found in Mycobacterium tuberculosis and related high-GC Gram-positive bacteria. [Amino acid biosynthesis, Serine family].	0
LR134465.1\|VEI00278.1\|213134_214220_+\|Uncharacterized-oxidoreductase-CzcO	gnl\|CDD\|224983	COG2072, TrkA, Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism].	1.36211e-33
LR134465.1\|VEI00312.1\|230552_231173_-\|Pyridoxine/pyridoxamine-5'-phosphate-oxidase	gnl\|CDD\|235555	PRK05679, PRK05679, pyridoxal 5'-phosphate synthase.	2.57483e-104
LR134465.1\|VEI00308.1\|227852_229079_-\|enterobactin-exporter-EntS	gnl\|CDD\|340863	cd06173, MFS_MefA_like, Macrolide efflux protein A and similar proteins of the Major Facilitator Superfamily of transporters. This family is composed of Streptococcus pyogenes macrolide efflux protein A (MefA) and similar transporters, many of which remain uncharacterized. Some members may be multidrug resistance (MDR) transporters, which are drug/H+ antiporters (DHAs) that mediate the efflux of a variety of drugs and toxic compounds, conferring resistance to these compounds. MefA confers resistance to 14-membered macrolides including erythromycin and to 15-membered macrolides. It functions as an efflux pump to regulate intracellular macrolide levels. The MefA-like family belongs to the Major Facilitator Superfamily (MFS) of membrane transport proteins, which are thought to function through a single substrate binding site, alternating-access mechanism involving a rocker-switch type of movement.	7.34805e-52
LR134465.1\|VEI00292.1\|221811_222060_+\|Trafficking-protein-A	gnl\|CDD\|172484	PRK13982, PRK13982, bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional.	1.66368e-12
LR134465.1\|VEI00280.1\|214869_215694_-\|Uncharacterized-oxidoreductase-MSMEG_2408	gnl\|CDD\|381357	cd19131, AKR_AKR5C2, Escherichia coli 2,5-diketo-D-gluconic acid reductase A (DkgA/YqhE) and similar proteins. Escherichia coli DkgA/YqhE is a founding member of aldo-keto reductase family 5 member C2 (AKR5C2). DkgA/YqhE (EC 1.1.1.274), also called 2,5-DKG reductase A, or 2,5-DKGR A, or 25DKGR-A, or AKR5C, catalyzes the reduction of 2,5-diketo-D-gluconic acid (25DKG) to 2-keto-L-gulonic acid (2KLG). It is also capable of stereoselective -keto ester reductions on ethyl acetoacetate and other 2-substituted derivatives.	1.34483e-151
LR134465.1\|VEI00274.1\|212361_213096_-\|Probable-enoyl-CoA-hydratase-echA6	gnl\|CDD\|236115	PRK07854, PRK07854, enoyl-CoA hydratase; Provisional.	5.73216e-85
LR134465.1\|VEI00300.1\|224390_225278_-\|putative-aldose-1-epimerase	gnl\|CDD\|185699	cd09022, Aldose_epim_Ec_YihR, Aldose 1-epimerase, similar to Escherichia coli YihR. Proteins similar to Escherichia coli YihR are uncharacterized members of aldose-1-epimerase superfamily. Aldose 1-epimerases or mutarotases are key enzymes of carbohydrate metabolism, catalyzing the interconversion of the alpha- and beta-anomers of hexose sugars such as glucose and galactose. This interconversion is an important step that allows anomer specific metabolic conversion of sugars. Studies of the catalytic mechanism of the best known member of the family, galactose mutarotase, have shown a glutamate and a histidine residue to be critical for catalysis; the glutamate serves as the active site base to initiate the reaction by removing the proton from the C-1 hydroxyl group of the sugar substrate, and the histidine as the active site acid to protonate the C-5 ring oxygen.	7.81654e-116
LR134465.1\|VEI00290.1\|220053_221667_-\|Uncharacterised-protein	gnl\|CDD\|223021	PHA03247, PHA03247, large tegument protein UL36; Provisional.	9.42067e-11
LR134465.1\|VEI00298.1\|223010_224303_-\|Citrate-synthase-1	gnl\|CDD\|180164	PRK05614, gltA, citrate synthase.	0
LR134465.1\|VEI00282.1\|215745_217254_+\|Acetyl-coenzyme-A-carboxylase-carboxyl-transferase-subunit-beta	gnl\|CDD\|223848	COG0777, AccD, Acetyl-CoA carboxylase beta subunit [Lipid metabolism].	7.80719e-92
LR134465.1\|VEI00288.1\|219236_220037_+\|PPOX-class-probable-F420-dependent-enzyme	gnl\|CDD\|372782	pfam13883, Pyrid_oxidase_2, Pyridoxamine 5'-phosphate oxidase.	3.08358e-18
LR134465.1\|VEI00310.1\|229143_230556_+\|N-substituted-formamide-deformylase-precursor	gnl\|CDD\|238625	cd01300, YtcJ_like, YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling.	5.84837e-93
LR134465.1\|VEI00284.1\|217254_217779_-\|Uncharacterised-protein	gnl\|CDD\|379513	pfam14230, DUF4333, Domain of unknown function (DUF4333). This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are typically between 140 and 255 amino acids in length. There are two completely conserved C residues that may be functionally important.	3.20482e-10
LR134465.1\|VEI00306.1\|227166_227826_-\|Serine/threonine-protein-kinase-pknE	gnl\|CDD\|239270	cd02972, DsbA_family, DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a 27-kDa outer membrane protein, and similar proteins. Members of this family contain a redox active CXXC motif (except GSTK and HCCA isomerase) imbedded in a TRX fold, and an alpha helical insert of about 75 residues (shorter in DsbC and DsbG) relative to TRX. DsbA is involved in the oxidative protein folding pathway in prokaryotes, catalyzing disulfide bond formation of proteins secreted into the bacterial periplasm. DsbC and DsbG function as protein disulfide isomerases and chaperones to correct non-native disulfide bonds formed by DsbA and prevent aggregation of incorrectly folded proteins.	9.83964e-08
LR134465.1\|VEI00304.1\|226157_227075_+\|Rhamnolipids-biosynthesis-3-oxoacyl-[acyl-carrier-protein]-reductase	gnl\|CDD\|235737	PRK06197, PRK06197, short chain dehydrogenase; Provisional.	0

>LR134465.1|VEI00294.1|222056_222485_+|Probable-ribonuclease-FitB
MIILDTNVLTALMQVENTERRVERWLRGVAEQSTVTSITRAEILSGIALLPRGNRRTALRDAADRAFASFPEALSFDHSSAAEYAAVLEIRKAAGRPISVQDAMIAAIARQTGAGLATRNTKDFDGLGLRLVDPWTAGPTGA
>LR134465.1|VEI00292.1|221811_222060_+|Trafficking-protein-A
MATLTIRNLPDHVRDRLRVRAAENGRSMEAEARMILEESLVEPGKVDLSWVEAFIEIGQKYGPIELPIPPREVEPFKTFDEL
>LR134465.1|VEI00290.1|220053_221667_-|Uncharacterised-protein
MNRVKAGTAAVAVLSVAGLLAGCGKDAASDDSPVAFSPVTGDQYTENPGAFQTDGVVVPPKDVIMVGDPIPAQAAVNAGLPQGTITSTTNNTTVYYPPPPAVPGLAVAPQVAPPAPLSRPANTRPWQYTQPQIDAYRAICETGRWGSWIAGVEAQTQTCWTLYGRQLGVRPWTPDQPRPWHRPDYPRPWFDPGFRADVPIIWVYPRNWTRPRPQPIISVSITINIVSNPYRRVPPRFTDPYYPVWAVTPGRVVDVRDQGRILAPVYTVTSTTTTTTTTTVTAPVAPGVVLQPLPTSARITPLVALPGQAVPGNVNTDPAVTAPVAAALQGATVQAGSRSSVEDAIGTSVSVAVASPTTTAPRAGDATGTTTAGTSAAAGAGTTQGGTVTRPTGTSSAAPTATSGTSPQTIPPTSAAPTVPPTTITPPTVAPTTQAPTAAPTTVAPPVTVAPPTTTVAPKPTVAEPAPTTPPRVTPPATTQAPVVTPPPTTQAPVITPPRITTTVAPVPTTTVAPKPVAPKPTVAVPIPTTTTTPPPN
>LR134465.1|VEI00288.1|219236_220037_+|PPOX-class-probable-F420-dependent-enzyme
MTTRDHGDPGDAPTIAPPLTDVAEPRRPSAAEEARTVAASTNTATLGSLSSDGGPWASLVTYGLLGGDPVLCVSHMAEHGRNLARDPRASVSIVAPDASSDPLANARITLAGTVRRPEGEQLAAAREAHLAAVPAAKYYIDYSDFTVWLLEVERVRWVGGYGRMDSASRTDYAAAQPDPVTPHAAGAVRHLNDDHAAALLDMARQLGGYPDATAARCERADRYGLDLRVDTPRGWAVTRVGYLEPLGAPAELRQATVALARLAAGR
>LR134465.1|VEI00286.1|217894_219097_-|Manganese-transport-protein-MntH
MLLGPAFVAAIAYVDPGNVAANVTAGAKYGYLLVWVLVLANVMAVMIQYQSAKLGVVTGRSLPQVLGDRLPRRSRLAFWGQAELVAAATDIAEVIGGALALNLLFGVPLVWGGLIVGVISTALLVLADGRRQYRFELVIIGMLAIIVVGFLAGLIVAPPDGAAVLGGLVPRLQGTETVLLAASMLGATVMPHAIYLHSALVVDRHGAPPAEGAVERARRLLKVTRVDVVLALIIAGAVNIALLVLAASSLYGREGTDSIEGAHAAVRDALGPVVAGLFAVGLLASGLASTSVGSYAGGTIMAGLLRKRIPVVVRRLITMIPAIGVLAIGVPPTEALVISQVVLSFGIPFALLPLRRFTADRALMGEFADRAPLRWASAAAGALIVALNVALIYLTVTGAG
>LR134465.1|VEI00284.1|217254_217779_-|Uncharacterised-protein
MGLRAVAVVVGGAGVAVAACWTMLSPTEVAQDQVESGTLAQVAAAPSDHLHCDGGLEAEVGAAQSCVLHRGGEEFAVQLRVTDVDGDRVHWDSTVSGVPRSGPRVAVGELEQRTREVLARERRVDAVTCEGGLAGTVGARQTCAMTASGHRHDVTVTVTTVDPARVQWGVTVGK
>LR134465.1|VEI00282.1|215745_217254_+|Acetyl-coenzyme-A-carboxylase-carboxyl-transferase-subunit-beta
MAITAQDLIDAILDRGTFTSWDGPLPDVAPDAEYAAALQRARERSHHDEAVITGEGRIRGQRVALIACDFGFLGGSIGVAAAERIVTAVERATALRLPLLATPTSGGTRMQEGTVAFLQMVKISAAITLHKQSGLPYLVYLRDPTMGGVFASWGSLGHVTIAEPGARIGFLGPRVYEALRGEPFPDGVQTAEHLFERGLIDGVVPLRFVRLLAHRTLRVLAGAQDADPLAPHLGVREELAAADDDTPAWDSVRISREPGRPGVRAFLRHSATDRLPLSGTGEGETDHTLLLSLARVQGYPCVVVGQDTTRADGAAPPLLGPAALRAARRGMRLAAELNLPLVLVIDTWGAALSPEAEEGGLAGEVARSLSDLVTLTVPTVSVLLGQGTGGGALAMLPADRVLCAQHAWLAPLPPEGASAVMYRDAEHAAEMAERQRIRAADLLEDGVVDRVIPERPNAADEPTEFSRRVGLAVSDALAELSLIPDSIRISRRLDRYRFLGGR
>LR134465.1|VEI00280.1|214869_215694_-|Uncharacterized-oxidoreductase-MSMEG_2408
MTVPNVKLNNGTSIPQLGFGVWQVPDDGARDAVAEALRVGYRSIDTAKVYENEAGTGGAIAESGLARDEVFLTTKLWNSDQGLDETLRAFDASLERLGTDYVDLYLIHWPVPEYDRFVDTFKAFQQIRDSGRAKAIGVSNFRVEDLRRVIDETGETPAINQIELHPGLPQDELRAFHAEHGIATEAWSPLGQGESLTDAAVVEVAAAHGVTPAQAILRWHLQLGNVVIPKSVTPARIAENFDVFGFTLSDDEVARISAIEGKRIGPDPAVFNLH
>LR134465.1|VEI00278.1|213134_214220_+|Uncharacterized-oxidoreductase-CzcO
MVGAGQAGLSAAYFLPRFGIENSIVLDHNAGPGGAWRQRWPSLTLRSANHVHDLPGWGLQDALGTECDDIPAATGVAQYFGEYEKRFGIDVHRPAHVASVSRCDGGYLVAGHGADGPFEYRAAAVINCTGTWDRPFWPTVAGAPSFRGTQLHAHDYRTAEPFAGKRVAVVGAGITAVQLLLEIAEVAETAWFTRREVQWDTTPFDPDKGRRAVARVEERVRAGLPPGSVVSVTGLPMTDAMRRGIEAGVLVRRPMFASLSPDGPLLADGTLVPADVILWCTGFRYSMDHLAPLNLRSPGGGIVMTGRLATEVAGEPRLHLLGYGPSASTIGANRAGREAARAIAEAVGVDASGAEGRPARE
>LR134465.1|VEI00274.1|212361_213096_-|Probable-enoyl-CoA-hydratase-echA6
MIGYTLEEKVAVIEFQRPEARNALNPEIMDGLEAAFDRAEADGVFVIVLTGQGTVFSAGADLRSGAVLDKNFMERVIRFYRRVEAMKQILVAAVNGPAVGAGVQMAMLADLRVLDPSATIAIPAAKLGVTIDKWTLRRLEDLVGGGHARGVLMAAQKIGAEKLLDLGFANAIGDREAALEFARGVAGLAPLSLQNYKALFKSDVAVEPLTEAEEARLHAVWDSEDLKEAIMARIEKRDPRFQGR
>LR134465.1|VEI00298.1|223010_224303_-|Citrate-synthase-1
MSTDDNTANATVAYPGGQIELPIVKATEGADGIALGKFLAQSGYSTFDNGFVNTASCKSAITYIDGNAGILRYRGYPIEQLAEKSTFIEVSYLLIHGELPTPEQLAEFTAKIQRHTLLHEDLKLFFNGFPRNAHPMPVVSSAVNALSAYYPDSLDHNDPAQVELSTIRLLAKFPTICAYAYKKSVGQPFLYPDNSLSLVENFLRMTFGFPAEPYEVDPEIVKALDMLLILHADHEQNCSTSTVRLVGSSNANLFTSISGGINALWGPLHGGANQAVLEMLDDIKASGGDTTAFMNKVKNKEDGVKLMGFGHRVYKNYDPRAAIVKQTADRIFELLGVSDELLDIAKGLEDVALHDDYFIERKLYPNVDFYTGLIYRAMGFPTRMFTVLFALGRLPGWIAHWREMHEDPTTKIGRPQQIYTGSTARDYPGA
>LR134465.1|VEI00300.1|224390_225278_-|putative-aldose-1-epimerase
MSVQPGFTIAAGGYVAEIARTGAGLRGLRRDGVALTEEWPLGEKPPLSAGLVLAPWPGRTEDGLYTWDGEVYRLAVTHPDTGTANHGLVRAVDWDDVEIAGDAVTLVLDVGHHPGWPFDLHLRIRYSVAENGLTCTFEARNDGDRDLPFAVGFHTYLRVGDDPVDACTLELGAGRWQPLDGRLLPDGPPHTVDGTAYDYRAPRALDGVQIDTPFTDVARSTVVRGPTGETELWTAPSLPWAQVFIADPVNGNGYPGRGRAVAVEPMSAPGNALHTGTDVIRLAPGARWGTEWGIR
>LR134465.1|VEI00302.1|225381_226044_-|Bacterial-regulatory-proteins,-tetR-family
MGFQRARSAEQRQERRETILAAAAGMLREMPVAALTLSELSRRVGLAKSNVLRYFESREEVLLEVLMRSATACIVELDEAWAADGLGDAPLPERIEAFAAVYARVAAAHPDLLDLVSAQASVLERNVSTDAIVRFKRAALAGLDVLGGVLARAIPELGDHAPAVGSLMLTLSGAVYAQSEQSRLCESAYLVDPALAVFRVELVPALQSAVATAIAGTLAR
>LR134465.1|VEI00304.1|226157_227075_+|Rhamnolipids-biosynthesis-3-oxoacyl-[acyl-carrier-protein]-reductase
MSWTENDAPTQAGRVAVVTGANTGLGFETARVLAQKGAEVVLAVRDTEKGADAARRITSVAPGATVRVQRLDLGSLASVREAAAELRESTPRVDLLINNAGVMYPPKQTTTDGFELQFGTNHLGHFAWTAQVLDLLLDVPGSRVVTVASIAHRIRAAIHFDDLQWERSYERVAAYGQSKLSNLLFHYELQRRLSARASGENSTVALAAHPGIADTELVRNLPSVLQKAQALAPLFSHDAQHGALPQLRAATDPGALGGQYYGPDGLGERRGAPKVVASSEQSYDLDLQRRLWAVSEELTGVAFPV
>LR134465.1|VEI00306.1|227166_227826_-|Serine/threonine-protein-kinase-pknE
MHRGISVVVAVLVALLALSGCARTVAGTAVAAPSGDAGTTAGADQGAVRVGTGGPTITVYLDFLCPACKNFETTYGADITAAVRGGRLTVEYRPVSFLDRRSASGDYSSRALAAFLQVGRGGTDATLGFLTSMFLSQPQEGGTSDLTDAEIATIAGASGTVDAAVAKIREGTTGIDGKAVGAANLKLLTAAGGTGTPTVLHDGAQVPLTDSTWLQKIVG
>LR134465.1|VEI00308.1|227852_229079_-|enterobactin-exporter-EntS
MPRLLADTRPLQNPDYRRLWWTGIVTVIGAQLTAVAVPAQIYAITGSSAYVGLTGVFGLVPLVIFGLWGGAIADALDRRLVIIGTTLGLAGTALMLALLPDNVWLILGAFSLQQAFFGVNQPTRSAIYARLVPPAQLPAANSLNMTVMQFGAIAGPMLGAPLIPIIGVHWLYALDAASLMVTLWAVWKLPSIKAEDKGQSLGLRSVIDGFRYLAGHKVLLMSFVVDIIAMVFGMPRALFPQIAHENFGDPIEGGWVFGALFAAMSVGAVLGGVLSGWTSRVARQGLAVIVMIVLWGLAIGGFGVAAHFGWLWAALVLLALGGAADMFSAAFRTTMLQEAATDDVRGRLQGVFTVVVAGGPRIGDALHGAAAASAGAAMAAAGGGVLVIVFTVLAAFAVPAFVRYRVLR
>LR134465.1|VEI00310.1|229143_230556_+|N-substituted-formamide-deformylase-precursor
MRLARARIDGDALVDVDVDGGRIVALSPTGATRPAGDVLDLDGRRLIPGLWDEHVHVRTWAVSTRRIDVRSATGPEEVAALVRAALPAAEPGLPVVAAGMRDGLWGGAPSRRLLDEIAPDVPVMVVSSDLHSSWSNAALGRLLGIELDETGVLREAASFAAATRVESLVADRADAWVLEALGRLGRRGVVGLVDLDFDDAVGAWERRPAPPVRIDAGVYPQHLEAAEARGAGTGAPINGLARVGPLKVITDGSLGTRTAYCHAPYPGTTGRGVLEVPPDRLVELLRRGAALGLTPAIHAIGDAANALALDAFAEAGVRGRIEHAQLLTETDLARMAALRIGASIQPEHMLDDRGLVARFWGDRAADAFRVGSLVAAGVDVVLGSDAPVTPLDPWFAISAAVTRSRDGDPPWQPWEAIDAETALRLSARTRIAVGEPADLVALGADPTPERLRAMPVDLTMVAGGITHAGF
>LR134465.1|VEI00312.1|230552_231173_-|Pyridoxine/pyridoxamine-5'-phosphate-oxidase
MREKYDGDSFDLRPEDLAGGWVPLWQSWFDEAVAAGAPEPNAMVLATVDETGLPATRTVLCKGLDERGVVFYTNYGSDKARAVEANPVAAVTFPWIAIHRQVHVRGSVTKVTPAETAAYWAERPRGSQLGAWASDQSRPVASRAAMAERFAEVEARFEGRDVPVPPEWGGYRIAPQVVEFWQGRENRVHNRVRLVAPEYVAVRLQP
>LR134465.1|VEI00314.1|231219_232323_+|Citrate-synthase-1
MTEIPGGLEGVVAFSTEIAEPDKQGGVLRYRGVDVADLVRDRVTYGQVWGLLVDGEFGNPLPAAEPFPLPIHSGDVRVDAQAGLAMLGPLWGFEPLLDIDDATARENLARASVMTLSFVAQSARGLERPAVPQRIIDQSPTITHRFMTRWHGEPDPDHVRAIDAYWVAAAEHGLNTSTLTARVIASTGADVSTALSGAVGALSGPLHGGAPSRVLPMLDEVVRTDDPRGVVTARLDRGEKIMGFGHRIYRAEDPRAGVLRSVARDLHAPRYEAAAALEREANALFAERRPDRAISTNVEFWAAVILDYAGVPPRMMPAMFTCARTAGWCAHILEQKRADKLIRPSAQYTGHGPRQPEDVPGWDTIRI
>LR134465.1|VEI00316.1|232326_233451_+|Putative-phosphoserine-aminotransferase
MTIEIPAALKPVDGRFGCGPSKVRPEQLQSLVDTGASVFGTSHRQAPVKNVVGRVREGLKDLFSLPEGYEVVLGNGGTTAFWDAAAFGLIRERSQHFTYGEFSNKFASVAKGNPFIGDPVVVSSDPGSAPELVADGAVDLIGWAHNETSTGVAVPVSRLAGSENALIAIDATSGAGGLPVNVADTDVYYFAPQKCFAADGGLWVALMSPAALARVEEIKASGRYTPEFLSLPIAVDNSSKNQTYNTPALATLLLFADQIEWMNGNGGLDWAVGRTKDSSDRLYQWAEASEFATPFVADPALRSQVVGTIDFDEKIDAAAVAKTLRANGIVDTEPYRKLGRNQLRIGMFPAIDPDDVTALTKCIDFVVERVSADA

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
LR134465_1	1.1\|214533\|52\|LR134465\|CRISPRCasFinder	214533-214584	52	NZ_LR134465	Tsukamurella tyrosinosolvens strain NCTC13231 plasmid 23, complete sequence	214533-214584	0	1.0
LR134465_2	2.1\|222562\|35\|LR134465\|CRISPRCasFinder	222562-222596	35	NZ_LR134465	Tsukamurella tyrosinosolvens strain NCTC13231 plasmid 23, complete sequence	222562-222596	0	1.0

1. spacer 1.1|214533|52|LR134465|CRISPRCasFinder matches to NZ_LR134465 (Tsukamurella tyrosinosolvens strain NCTC13231 plasmid 23, complete sequence) position: , mismatch: 0, identity: 1.0

accccggcgttccgtcccccatcaggcgccgttcctccggtgggggctcgaa	CRISPR spacer
accccggcgttccgtcccccatcaggcgccgttcctccggtgggggctcgaa	Protospacer
****************************************************

2. spacer 2.1|222562|35|LR134465|CRISPRCasFinder matches to NZ_LR134465 (Tsukamurella tyrosinosolvens strain NCTC13231 plasmid 23, complete sequence) position: , mismatch: 0, identity: 1.0

atcacggggacgaggccccgcgcccgacggaggtg	CRISPR spacer
atcacggggacgaggccccgcgcccgacggaggtg	Protospacer
***********************************

Prophage detection

Region	Region Position	Protein_number	Hit_taxonomy	Key_proteins	Att_site	Prophage annotation

Anti-CRISPR protein detection

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

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CRISPR-Cas detection and classification

Crispr_ID: LR134446_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

LR134446_1

69971-70066

Orphan

Consensus_repeat	Method
CGATGTGGCTGGTGGGTGCGGACAAGCCCGCCTGAC	CRISPRCasFinder

1 spacers

The CRISPR arrays of LR134446_1

>merge|LR134446|1|69971-70066|CRISPRCasFinder
CGATGTGGCTGGTGGGTGCGGACAAGCCCGCCTGACGCCCGGCAGCGTTCCCCCTATCCCCCGATGGGCTGGTGGGTGCGGACAAGCCCGCCTGAC

>LR134446|1|1|69971-70066|CRISPRCasFinder
CGATGTGGCTGGTGGGTGCGGACAAGCCCGCCTGAC	GCCCGGCAGCGTTCCCCCTATCCC
CCGATGGGCTGGTGGGTGCGGACAAGCCCGCCTGAC

Protein	Signature genes	Signature genes Name	Protein_function
LR134446.1\|VEH88894.1\|61820_62507_-\|Uncharacterised-protein	unknown	unknown	unknown
LR134446.1\|VEH88892.1\|60797_61817_+\|Phthiodiolone/phenolphthiodiolone-dimycocerosates-ketoreductase	unknown	unknown	gnl\|CDD\|274647
LR134446.1\|VEH88920.1\|75620_76844_-\|Steroid-C27-monooxygenase	unknown	unknown	gnl\|CDD\|225035
LR134446.1\|VEH88888.1\|55891_59086_-\|Regulatory-protein-AfsR	unknown	unknown	gnl\|CDD\|226418
LR134446.1\|VEH88924.1\|78255_79242_+\|Cholesterol-dehydrogenase	unknown	unknown	gnl\|CDD\|187539
LR134446.1\|VEH88922.1\|77090_78251_+\|Putative-acyltransferase-Rv0859	unknown	unknown	gnl\|CDD\|181145
LR134446.1\|VEH88898.1\|63018_64122_-\|Nitronate-monooxygenase	unknown	unknown	gnl\|CDD\|224981
LR134446.1\|VEH88902.1\|65112_66666_-\|Long-chain-fatty-acid--CoA-ligase	unknown	unknown	gnl\|CDD\|235731
LR134446.1\|VEH88900.1\|64241_65036_+\|Carnitinyl-CoA-dehydratase	unknown	unknown	gnl\|CDD\|181122
LR134446.1\|VEH88890.1\|59171_60752_-\|Putative-succinate-semialdehyde-dehydrogenase-[NADP(+)]-2	unknown	unknown	gnl\|CDD\|236501
LR134446.1\|VEH88926.1\|79330_80236_-\|Putative-short-chain-type-dehydrogenase/reductase-Rv0148	unknown	unknown	gnl\|CDD\|236099
LR134446.1\|VEH88914.1\|71682_72654_+\|Poly(3-hydroxybutyrate)-depolymerase	unknown	unknown	gnl\|CDD\|226040
LR134446.1\|VEH88904.1\|66794_67757_+\|Predicted-nucleic-acid-binding-protein-containing-a-Zn-ribbon	unknown	unknown	gnl\|CDD\|224462
LR134446.1\|VEH88912.1\|70835_71591_+\|Creatinine-amidohydrolase	unknown	unknown	gnl\|CDD\|376872
LR134446.1\|VEH88928.1\|80264_81017_-\|Glucose-1-dehydrogenase	unknown	unknown	gnl\|CDD\|236116
LR134446.1\|VEH88910.1\|70146_70839_+\|L-lactate-utilization-operon-repressor	unknown	unknown	gnl\|CDD\|225097
LR134446.1\|VEH88896.1\|62516_63014_-\|Uncharacterized-stress-protein-(general-stress-protein-26)	unknown	unknown	gnl\|CDD\|274679
LR134446.1\|VEH88918.1\|74397_75630_+\|Uncharacterised-protein	unknown	unknown	gnl\|CDD\|235906
LR134446.1\|VEH88916.1\|72650_74204_+\|Aminobenzoyl-glutamate-transport-protein	unknown	unknown	gnl\|CDD\|225525
LR134446.1\|VEH88906.1\|67753_68833_+\|lipid-transfer-protein	unknown	unknown	gnl\|CDD\|181173

Protein	Function_ID	Function_description	E-value
LR134446.1\|VEH88892.1\|60797_61817_+\|Phthiodiolone/phenolphthiodiolone-dimycocerosates-ketoreductase	gnl\|CDD\|274647	TIGR03559, F420_Rv3520c, probable F420-dependent oxidoreductase, Rv3520c family. Members of this protein family are predicted to be oxidoreductases dependent on coenzyme F420. The family includes a single member in Mycobacterium tuberculosis (Rv3520c/MT3621) but four in Mycobacterium smegmatis. Prediction that this family is F420-dependent is based primarily on Partial Phylogenetic Profiling vs. F420 biosynthesis. [Unknown function, Enzymes of unknown specificity].	2.8559e-147
LR134446.1\|VEH88890.1\|59171_60752_-\|Putative-succinate-semialdehyde-dehydrogenase-[NADP(+)]-2	gnl\|CDD\|236501	PRK09407, gabD2, succinic semialdehyde dehydrogenase; Reviewed.	0
LR134446.1\|VEH88920.1\|75620_76844_-\|Steroid-C27-monooxygenase	gnl\|CDD\|225035	COG2124, CypX, Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism].	2.34194e-81
LR134446.1\|VEH88888.1\|55891_59086_-\|Regulatory-protein-AfsR	gnl\|CDD\|226418	COG3903, COG3903, Predicted ATPase [General function prediction only].	5.63295e-44
LR134446.1\|VEH88924.1\|78255_79242_+\|Cholesterol-dehydrogenase	gnl\|CDD\|187539	cd05228, AR_FR_like_1_SDR_e, uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs. This subgroup contains proteins of unknown function related to aldehyde reductase and flavonoid reductase of the extended SDR-type. Aldehyde reductase I (aka carbonyl reductase) is an NADP-binding SDR; it has an NADP-binding motif consensus that is slightly different from the canonical SDR form and lacks the Asn of the extended SDR active site tetrad. Aldehyde reductase I catalyzes the NADP-dependent reduction of ethyl 4-chloro-3-oxobutanoate to ethyl (R)-4-chloro-3-hydroxybutanoate. The related flavonoid reductases act in the NADP-dependent reduction of flavonoids, ketone-containing plant secondary metabolites. Extended SDRs are distinct from classical SDRs. In addition to the Rossmann fold (alpha/beta folding pattern with a central beta-sheet) core region typical of all SDRs, extended SDRs have a less conserved C-terminal extension of approximately 100 amino acids. Extended SDRs are a diverse collection of proteins, and include isomerases, epimerases, oxidoreductases, and lyases; they typically have a TGXXGXXG cofactor binding motif. SDRs are a functionally diverse family of oxidoreductases that have a single domain with a structurally conserved Rossmann fold, an NAD(P)(H)-binding region, and a structurally diverse C-terminal region. Sequence identity between different SDR enzymes is typically in the 15-30% range; they catalyze a wide range of activities including the metabolism of steroids, cofactors, carbohydrates, lipids, aromatic compounds, and amino acids, and act in redox sensing. Classical SDRs have an TGXXX[AG]XG cofactor binding motif and a YXXXK active site motif, with the Tyr residue of the active site motif serving as a critical catalytic residue (Tyr-151, human 15-hydroxyprostaglandin dehydrogenase numbering). In addition to the Tyr and Lys, there is often an upstream Ser and/or an Asn, contributing to the active site; while substrate binding is in the C-terminal region, which determines specificity. The standard reaction mechanism is a 4-pro-S hydride transfer and proton relay involving the conserved Tyr and Lys, a water molecule stabilized by Asn, and nicotinamide. Atypical SDRs generally lack the catalytic residues characteristic of the SDRs, and their glycine-rich NAD(P)-binding motif is often different from the forms normally seen in classical or extended SDRs. Complex (multidomain) SDRs such as ketoreductase domains of fatty acid synthase have a GGXGXXG NAD(P)-binding motif and an altered active site motif (YXXXN). Fungal type ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.	7.5001e-72
LR134446.1\|VEH88922.1\|77090_78251_+\|Putative-acyltransferase-Rv0859	gnl\|CDD\|181145	PRK07850, PRK07850, steroid 3-ketoacyl-CoA thiolase.	0
LR134446.1\|VEH88898.1\|63018_64122_-\|Nitronate-monooxygenase	gnl\|CDD\|224981	COG2070, COG2070, Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only].	2.75272e-62
LR134446.1\|VEH88902.1\|65112_66666_-\|Long-chain-fatty-acid--CoA-ligase	gnl\|CDD\|235731	PRK06188, PRK06188, acyl-CoA synthetase; Validated.	0
LR134446.1\|VEH88900.1\|64241_65036_+\|Carnitinyl-CoA-dehydratase	gnl\|CDD\|181122	PRK07799, PRK07799, crotonase/enoyl-CoA hydratase family protein.	1.18851e-171
LR134446.1\|VEH88926.1\|79330_80236_-\|Putative-short-chain-type-dehydrogenase/reductase-Rv0148	gnl\|CDD\|236099	PRK07791, PRK07791, short chain dehydrogenase; Provisional.	9.28528e-165
LR134446.1\|VEH88914.1\|71682_72654_+\|Poly(3-hydroxybutyrate)-depolymerase	gnl\|CDD\|226040	COG3509, LpqC, Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism].	2.45007e-38
LR134446.1\|VEH88904.1\|66794_67757_+\|Predicted-nucleic-acid-binding-protein-containing-a-Zn-ribbon	gnl\|CDD\|224462	COG1545, COG1545, Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only].	3.54986e-40
LR134446.1\|VEH88912.1\|70835_71591_+\|Creatinine-amidohydrolase	gnl\|CDD\|376872	pfam02633, Creatininase, Creatinine amidohydrolase. Creatinine amidohydrolase (EC:3.5.2.10), or creatininase, catalyzes the hydrolysis of creatinine to creatine.	1.18974e-73
LR134446.1\|VEH88928.1\|80264_81017_-\|Glucose-1-dehydrogenase	gnl\|CDD\|236116	PRK07856, PRK07856, SDR family oxidoreductase.	2.40482e-133
LR134446.1\|VEH88910.1\|70146_70839_+\|L-lactate-utilization-operon-repressor	gnl\|CDD\|225097	COG2186, FadR, Transcriptional regulators [Transcription].	4.06986e-39
LR134446.1\|VEH88896.1\|62516_63014_-\|Uncharacterized-stress-protein-(general-stress-protein-26)	gnl\|CDD\|274679	TIGR03618, Rv1155_F420, PPOX class probable F420-dependent enzyme. A Genome Properties metabolic reconstruction for F420 biosynthesis shows that slightly over 10 percent of all prokaryotes with fully sequenced genomes, including about two thirds of the Actinomyces, make F420. The Partial Phylogenetic Profiling algorithm identifies this members of this protein family as high-scoring proteins to the F420 biosynthesis profile. A member of this family, Rv1155, was crytallized after expression in Escherichia coli, which does not synthesize F420; the crystal structure shown to resemble FMN-binding proteins, but with a recognizable empty cleft corresponding to, yet differing profounding from, the FMN site of pyridoxine 5'-phosphate oxidase. We propose that this protein family consists of F420-binding enzymes. [Unknown function, Enzymes of unknown specificity].	9.98747e-28
LR134446.1\|VEH88918.1\|74397_75630_+\|Uncharacterised-protein	gnl\|CDD\|235906	PRK07003, PRK07003, DNA polymerase III subunit gamma/tau.	1.42853e-05
LR134446.1\|VEH88916.1\|72650_74204_+\|Aminobenzoyl-glutamate-transport-protein	gnl\|CDD\|225525	COG2978, AbgT, Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism].	4.54294e-154
LR134446.1\|VEH88906.1\|67753_68833_+\|lipid-transfer-protein	gnl\|CDD\|181173	PRK07937, PRK07937, lipid-transfer protein; Provisional.	0

>LR134446.1|VEH88906.1|67753_68833_+|lipid-transfer-protein
MSTRTCTDPDGSVAVVGYAATPWLRAAQTTTNGVEMLIPLFADVFAQTGLTKSDIGFWCSGSSDYLAGRAFSFIAAIDSIGAVPPINESHVEMDAAWALYEAWVKIRTGEIDTALVYGFGKSSAGVLRRTLTMQLDPYTVAPLWPDSVSVAALQARAGIDSGAWTEADMAAVAARNLSDATANPAAQVSRTVDAETLLEEPLWADPLRRHDIAPVTDGAAVAILASADRAREIRENPAFITGLEHRIDSPALGSRDLTRSPSTTAAARAAGADGVQLAELHAPFTHQELILRSAIGLGDDVRINPSGGALVGNPMFSAGLARIGEAARAVWNGDAERVLAHATGGHALQQNLIAVMEAK
>LR134446.1|VEH88904.1|66794_67757_+|Predicted-nucleic-acid-binding-protein-containing-a-Zn-ribbon
MTAETQTLSAPMHLSFDYTRSLGPVLGAFMTNLRERRIVGTRDAAGRVHVPPLEFDPDTTAALTEIVPVSDTGTVTSWSWNAHPVDGQPFDRPFAYALIRLDGADTALLHAVDVAGPEDISTGMRVHARWAAETTGAIGDITHFVPGEGDGVPEVAAPSGEPIEVLVTPVALRLEHSASVPETRYLQALAEGRLLGQRCGTCGNVYVPPRNACPIDGIPTTEEVDLPDTGVVTTFCVVNVPFQGQRIKPPYVAAYVLIDGADIPFLHLVLGCDPSEVRMGMRVRAVWKPREEWTESPGNISHFEPTGEPDAPYSSYEKHL
>LR134446.1|VEH88902.1|65112_66666_-|Long-chain-fatty-acid--CoA-ligase
MDDLHREPLAGDILLGSLAAYPDRVAVHVTGADGDSVLSYAQVRDEVSRYAQAYASVGLGVGSPVAMLSGNRHEVLIAQSANLITGVRFAALHPMGSLDDHVYVMEDAGIETLIYDPRLYEQRAAELRERVPGLKTLLSLGPTETGVDLTAVAAGFEPGPLAAHTADPSSTASLAYTGGTTGKSKGVMLSYSGGAALLRIQRTEWEWPEEIRFLVCAPLSHAGGAFWNPTSMSGGSMVVLPRFEPEAVLAAIEKYRITATMLVPTMIYALLDHPKFDEYDLSSLETVFYGASAISPTRLTEAIDRIGPVFFQFYGQAECPMTISVLRRGDHDPSKPERLASCGKPVPWVNVALLDDDGRPVEPGAPGEICVRGPLVMQGYLNKPEQTAEATEHGWLHTGDVGRFDDEGYLYIVDRKKDMVVTGGFNVFPREVEDVISTHPSVASVAVIGVPDDKWGEAVKAVVVPRAGATVDVEELRDLVRDRKGAVYTPKTVDLVESIPVSPLGKPDKKALRAQYA
>LR134446.1|VEH88900.1|64241_65036_+|Carnitinyl-CoA-dehydratase
MTDAPHALVEQRGHTLLITMNRPERKNALTGEMLQILSDAWDRIDDDPEIRSAVLTGAGGAFCAGADLKNMAKSNPGEAMKEGSAFDPARIPGLIKGRRPGKPLIAAVEGAAIAGGTEILQGTDIRVAGESAKFGVSEARWSLYPMGGSAVRLPRQIPYTVAADLLLTGRHITAAEAKEYGLIGHVVPDGGALDKALELAELINANGPLAVQAMLRTMRATEGMHEEEAFKVDAKEGLPVFLSRDAKEGPRAFAEKRTPVFEGR
>LR134446.1|VEH88898.1|63018_64122_-|Nitronate-monooxygenase
MRTPLCEDLGIQYPVIAFTPSEHVAAAVSRAGGLGVLGCVRFNDPDELDAVLDWMDANTDGRPYGVDIVMPNKVPTEGSAGDLTELIPAEHRAFVERTLRELGVPELPDGAAGAGVLGWLHSVARSHVDVALKHRISLIANALGSPPKDVIDAAHEHGVKVAALAGRAKHARAHVDNGVDIVIAQGYEAGGHTGEIGSMVLLPEIVDEVGGDATVVAAGGIGSGRQIAAALTLGAEGVWMGSYWLTTTEYLETHTKSQTMQDALVAATSADTVRTRIFSGKPARLLKTRWTEAWEQPGAPLALPMPLQNLLVGEAHSRIHASGDPSVVAMPVGQIVGRMNAVRPVAEIMAELVGEFEDAVDRLNLAR
>LR134446.1|VEH88896.1|62516_63014_-|Uncharacterized-stress-protein-(general-stress-protein-26)
MGTNQRGQIQMTEAEIEDFLERSRTATIATLGASGAPHLVAMWYAVIDGDLWIETKAKSQKVVNLRRNPVMSASIEAGQSYDQLRGVTVEGTAEIVEDEATVRAVCEQVYERYFGPYSDELKPAIDEMMKKRVAVRLRGDRVRSWDHRKLGMPGLPVAGSTAAYL
>LR134446.1|VEH88894.1|61820_62507_-|Uncharacterised-protein
MPGSHAQPEDPEGFVEISPCVGGLVRTWSDDGATRLWSVPDDAWLREVQATGRIGRVSRKEGRYREAARLSEADGALLVRPRVPLRADDGSLTMEAQSIALAPEKRPSRSTFEDFREVLTRAVEHCAATDEYLVVERGARDAGREPFCLFAVLPAGAEPGVFVTVVETAPPPRESDLWAPYVDEWDRTATISAPSGPETVATAPTVMIEAISRWDADPWDLAFTFGRR
>LR134446.1|VEH88892.1|60797_61817_+|Phthiodiolone/phenolphthiodiolone-dimycocerosates-ketoreductase
MVNDLNLGINLGYWTRGPEDHTAAVVAADELGYDYVFTAEAYGSDAFSTLAWYGSRTKRIKLGTAVAQIPARTPTATAMHALTIDGLSGGRMVLGLGASGPQVAEGWYGNPFPKPLARTREYVDIVRQVIAREEPVTSAGPHYPLPLPGGTGLGKPLKSIALPVRPRIPIFLGAEGPKNVALSTEIADGWLPLFVDPQQVEAVFGASLAGRSADFEIAATVSVIVSDDLDAALTQAKIPLAFYIGGMGHKSTNFHLDLIGRLGFADAAVAVQEKFLAGDRAGAIAAVPDELADSIALLGPIDRIAERLALWRDSPVTTVLFSGVRDEPTLRALVEAARG
>LR134446.1|VEH88890.1|59171_60752_-|Putative-succinate-semialdehyde-dehydrogenase-[NADP(+)]-2
MASPTQIDSTLPARVTDELIERLTALVVADGSREPFTMSEVFTGAATGALPQSTPSDVVAAFATAREAQRQWAQRPLEERLAVFRRLHELILENNELLVDLIQSGTGKNRRMAFEESCDVPMVISHYLKSAPKLLRSRRRGGPVPVVSNSVELHRPKGVIGVIAPWNFPFAMALSDAIPALIAGNGVVLKPDNKTALAALYGVELLRRAGAPEGLFQVVCGQGPDVGPALIDESDFVMFTGSSATGVTVGERAGRNLIGCSLELGGKNPMIVLDDVDLDEAIPSAIFAVFANAGQACMHIERMYVHERIYDEFSRRFVAAAGALKLGATYDFEPDMGSLASPDQLRRVSAHVEDARAKGATVLCGGRERTDVGPAFYAPTILTGVTPDMHLASAETFGPVVALFRYSSDDEAIRLANDTRYGLNASVWGKDLRRAARIGAQLEAGNVNVNDGFAASFASKGTPSGGWKASGVGVRHGDAGLLKYTDTTNLATLKQQVYNPRPGQSYEQYAQQTKQVLRWMRKLRIR
>LR134446.1|VEH88888.1|55891_59086_-|Regulatory-protein-AfsR
MIGVLGPVVAGGRPVPGVRARRLLVALVLADGRPVSADRLVDEVWGDAPPKSPHAALHTQISRVRAIVRPAALEAVAGGYRLDADTDLARAEAALRDAGDEADALRLWRGVPGDDLDDGGPADELARRAAAVFDRLEARVAAAALTAGDYAAAAAIAERRIAADALDEPARVVLMRALAGAGRVAEALAAYADLRRTSITELGTEPGDEATRLHRDLLDDAAPAPSTSGRAAAVGIPAEITPLIGRDTELAELVRLVGEVRVVTVLGPGGVGKTRIAEAVGAAVADAGTAVYYVPLAAVRSAEGVLPAISRVLGLAESDLGADGMPRRTIRDLGARVLETLGRRRCLVVLDNCEQVVDACADVVADLVAGAPGVSVLATSRSPLQIRAERVHPLPVLATAGASSAAVELFVQRARAVRPGVPLPEAAVAELCRRLDGLPLAIELAAARVRTLSVEEITDRLEQRFALLRSTDRSAPDRHRTLHAVIDWSWELLEPDAQLTLRRLCRFPAGVDAAAAAAATGLDSVALDDALISLANQSLVHVAESGGRTRYRMLETVREFGEERLSEAPPAADGTPEGTVVDRAMASWAATLAAGMWREYRSVGGHAVIGRLAEDLENLAFVLRGAVDALVAGDRAALWTVIRVFPLLAGLWSMRSLHAQVQELGIRIVDALPDPRAALAAGLTDEDRELWQATVLAACAAPGADPKARHVVRGRTMIRRLHRPERTLLDAVDYFCAAFLQSSVFGLLRLVLAGVTAPADDVRLHAHAARMNLRENGGDLSGALADSEAIAAIGGPGDAWTEAMLAMSTASIFGQQARWEEAERRYRTAAEKLASIGADEDAKQATAYLVASLCSLGRLDEAEALHRTLQGPWAPSDPDPDGGPEAVAAMMIGTAELARLRGAPDAGLYRRAGELLVRRIPNGSRDPGGEMLVAIALLGVVACGAPETGGELVSALIAGDEAMFGVTGYWDLPQAATMALAVGARLAAVDPASEEAATMVGLARRLGARQDYPVMFETMRRLAVPPAGASAEAWRAETERIAGLSRSRAVSLLRDTTAALRRRA
>LR134446.1|VEH88910.1|70146_70839_+|L-lactate-utilization-operon-repressor
MNQTTGSLSERIADGIVEIVRTEELQPGDALASSRQLAERFGVTTPTVREALRRLEAIDVVRFRHGSGTYVGDGVRRRVIGNPHAPRGDLRAALELADARLALEPSIAALAARHRSDADLARLAAATDNALRPPAGVASPDLHFHVVLAQASGNRLLGETIESLLESRRLDQVEIRHQYADRPRDHAEHLGLVNAVRDRDEHLAESLARDHLQHIRNAVADALAAQEAGR
>LR134446.1|VEH88912.1|70835_71591_+|Creatinine-amidohydrolase
MTNRLASMTSAEARHAAAAGPVVLLAAGALEQHGPGMPLGTDTVRAEAVTARVADELGDAVVVGPTIPVGVSPHHRGFAGTMTLSTATFAAVLTEYVDSLAHHGFRRFLVVNGHGGNNAVLGTTAQDLLRTHPDVELAWVGVSALAKDAVARLGVSEVHGHCGESETAQMLHVAPDLVRSELLEPGTTTLAQMEPVARLSRTPDFNLALAWERLSPNGVLGDPTRVSAEDGRRIIDESVANLTRLVREWRA
>LR134446.1|VEH88914.1|71682_72654_+|Poly(3-hydroxybutyrate)-depolymerase
MQNRRTTRWAALLAAAAVATVSAPAGAQPASAPRPAHQPRCDGAGDVRPGTTAVRTVASGDRLRSYRIHVPQGSDGRTPLPVVVAYHGRGSTGAELQEYSGLSALPAIAVFPEGVVGTGGGERQAWQGAPYAAPGVDDVAFTRDLLDDIERRACVDRDRIYATGKSNGAGLVNLLACRLPDRLAAIAPVAAAVYPGANAGCDGATPKPVLIMHGDADATIPYGGDADRGLPAIDRWAGQWAARAACAAEPRTENLAEDVLLTRYRGCGNTPVEMITVRGGGHTWPGALAYSGGGYVTQSVRATTLAWSFFENKRLAPSNGGIR
>LR134446.1|VEH88916.1|72650_74204_+|Aminobenzoyl-glutamate-transport-protein
MTAPDSLEQPPVAPERLPRIIRAMGVIERVGNALPHPFWLFWILAAILGVVSAVMAALDVSVVSPADGKEVVVRNLFSGDGLAMAASTMVENFAGFPPMATIVVVIMGVAIAERSGFLATGMKAGVSRVPASWVIFAVAFTGTVSHVASAAAYVILVPLGGLAFRAVGKSPILGIVVAYTSIASGYDASPVPTPNDAIFAGITQAAARVIDPDAVVTPVSNWYFNIGSSLLLAIVITLVTKLVLAKRPDLDADPDADLSDMGTLALEPAERRALRLAGATLVGILLITALIMLPAGSPLRGDNGSITDSPFMEGIAGFVAVLFGATGVVYGVIAGTIRKPADVPALMAQGVKQMAPVLVLFFAIAQFLAYFDWTHIGDVLAVEAAELIKNSGVPVAVVFLLVLGLLTVVNIMVTSGSAMWSIAAPVLVPMLMLVSIPAETTQALFRIADSGSTAVTPMSPYFIMALGFLQQYRKKAGIGTLASYTLPLAIAMTVSWTALFFVWWGLGIPLGPGAPVR
>LR134446.1|VEH88918.1|74397_75630_+|Uncharacterised-protein
MGARSAAEPIARVIRVPPTANASRPATGTITGRTIASPPPTASAVHALSRSGAHTTRRAHGLASATLPTSATPAHAPAPKSISTNGIHPADSTSSTGTARKVSAPKVPAFTSAVRPSSDAVRPARSATSSARREGRSPPPGSIGPAARIARKGGTHSAATDQNRARHPAAAPTRAPAGTPATMATVVPASSSDSARARRSGPTAAAATVNATARKPALANAATTRVPSSTGRDAVSAPTTCAAANTARKPSRAARGGHRRANVAVAGAPRTIPAAKAETRLPAADGATDRSVASAGSTPASMNSEVPIAKTARARNRTSRGTEDSWDEGNEDIVSGRRGRLGPADQRTTARLCTGPTAGPATPTSCDSGVLTSATLAPGRRRAPPDNAAPRTRRSPRDVPGASQRMCAYS
>LR134446.1|VEH88920.1|75620_76844_-|Steroid-C27-monooxygenase
MSVHFPAGFDFTSPDLWSERRPEAEFAELRRSAPVWWQDIPPGTTGFDDGGFWVVSKLEDIKAISRNPKQYSNWENGAIVRFGPEIEREQIDMQRMLLLNMDPPQHTKTRRIISRGFTPKAVQSLHDALAERAEQIVHEARKAGGGDFVEQVASELPLQAIAELLGVPQEDRKKLFDWSNSMMAYDDPEFEGDYLTAMTEFTGYSWNLAEERRKCPMDDIVTTLVQADIDGDGLGSDEFAFFVLLLAVAGNETTRNAISHGMKAFVDYPEQWEIYKEQRPRTAPDEIVRWATPVSVFQRTALEDVQLGEQTIKKGQRVALFYASANFDEDAFEDPYTFNILRDPNPHVGFGGSGTHHCVGANLARLEMDLMFKAIADVMPNLRELEPPQRLRSGWLNGIKHWKVAYE
>LR134446.1|VEH88922.1|77090_78251_+|Putative-acyltransferase-Rv0859
MGIPVIVDAVRSPIGKRGGWLSGLHPAELLGGTVSALLDHAGVDPDRVEQIIGGNVTQAGEQAGNITRTAWLNAGLPEMTGATTIDAQCGSAQQATGLIAGLIATDAIEVGISCGVESMSRIPLGANRPEGLGNSRPPSWTIDMPNQFLAAERIAERRGLTREDIDAFGLASQRKALQAWQEGRFDREVVSLKAPAMADGAPTGETIEVSRDQGPRESTAEGLAKLKPMLDGGRHTAGTSSQVSDGAAAVLLMDSDRAAALGLTPRARIVSQALVGGEPYYHLDGPIRATERVLERSGRALSDIDLFEVNEAFASVVLSWQQVIGPDPDKVNVNGGAIALGHPVGSTGARLITTALHELERRDASTALIAMCCGGAMATGTIIERI
>LR134446.1|VEH88924.1|78255_79242_+|Cholesterol-dehydrogenase
MRVAVTGAAGFVGGNLLQQLVEQGHEVVAIDRTSSPHAPDGVRWVQASVLEPGEMRAALDGVEVVYHLVAMITLRMQDEAAWRLNTEGVRVVARAALDAGVRKMVHLSSIHAFDQDLVDVIDETAPRSERPEIPVYDRSKWAGEQELRKVVDDGLDATVCNPTGVWGPADHGAALSRLNRLAHTAARGRMPAFVSKAGFDLVDVRDVATGVMLAAEKGRTGENYLLGGEFAPIIDAMRLSAQAAGKAGPRVAVPIGALAAIMPVLEPINARLGSDVLSKAALGPLFASPLVDISKARNELGYAPRSMATTATELVRFFAESGRLGAKA
>LR134446.1|VEH88926.1|79330_80236_-|Putative-short-chain-type-dehydrogenase/reductase-Rv0148
MTGIVDGRVVIVTGAGRGIGRAHALAYAAEGAAVVVNDYGVGLDGADASSGPAQQVVDEIRAAGGRAIANASDVADWDGAQALVRSAIDEFGRLDVLVNNAGFLRDRMLVNMSEAEWDAVTRVHLKGHFAMLRHAAAYWRDESKAGRQPDARVVNTSSGAGLLGSVGQGNYAAAKAGIAEMTIQAAAEMGRYGITVNAIAPAARTRMTEVTFADDMAAPEGGFDAMAPENVSPLVVWLGSTESADVTGRVFEVEGGKVSVAQGWRHGPQRDKGARWAPSELGEVVRGLLDEAQAPEPVYGA
>LR134446.1|VEH88928.1|80264_81017_-|Glucose-1-dehydrogenase
MVLVTGGVRGIGAGIARVFLRQGATVVVCARREPERPVEADGAVAEFVAADVREPDQVEVLVRGIVERHGRLDVLVNNAGGAPFSDAATASPRFHDKVVGLNLLSPLLVAQHANAVMQEAGAGAIVNVSSVSATRPSPGTAAYGAAKAGLDSLTGSLAVEWAPAVRVNALDVGMVRTEAAEQHYGDDAGIAAIGATVPLGRLADPEEVGACAAFLASPLASYVTGATLLVHGGGERPAFLAAATASRGAR

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
LR134446_1	1.1\|70007\|24\|LR134446\|CRISPRCasFinder	70007-70030	24	NZ_LR134446	Tsukamurella tyrosinosolvens strain NCTC13231 plasmid 4, complete sequence	70007-70030	0	1.0

1. spacer 1.1|70007|24|LR134446|CRISPRCasFinder matches to NZ_LR134446 (Tsukamurella tyrosinosolvens strain NCTC13231 plasmid 4, complete sequence) position: , mismatch: 0, identity: 1.0

gcccggcagcgttccccctatccc	CRISPR spacer
gcccggcagcgttccccctatccc	Protospacer
************************

Prophage detection

Region	Region Position	Protein_number	Hit_taxonomy	Key_proteins	Att_site	Prophage annotation

Anti-CRISPR protein detection

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

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CRISPR-Cas detection and classification

Crispr_ID: LR134451_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

LR134451_1

102886-102971

Orphan

Consensus_repeat	Method
GGCGGTGGGGGACTGCACGCTCGACGT	CRISPRCasFinder

1 spacers

The CRISPR arrays of LR134451_1

>merge|LR134451|1|102886-102971|CRISPRCasFinder
GGCGGTGGGGGACTGCACGCTCGACGTGTAGGTCCGGAGCCGTCCCCCTTGCATCTCCGGGCGGTGGGGGACTGCACGCTCGACGT

>LR134451|1|1|102886-102971|CRISPRCasFinder
GGCGGTGGGGGACTGCACGCTCGACGT	GTAGGTCCGGAGCCGTCCCCCTTGCATCTCCG
GGCGGTGGGGGACTGCACGCTCGACGT

Protein	Signature genes	Signature genes Name	Protein_function
LR134451.1\|VEH91273.1\|111333_111870_+\|Peptide-methionine-sulfoxide-reductase-MsrA	unknown	unknown	gnl\|CDD\|237597
LR134451.1\|VEH91265.1\|106340_107759_+\|Stearoyl-CoA-9-desaturase	unknown	unknown	gnl\|CDD\|239583
LR134451.1\|VEH91249.1\|98615_99179_-\|Uncharacterised-protein	unknown	unknown	gnl\|CDD\|237030
LR134451.1\|VEH91253.1\|100691_101234_+\|Uncharacterised-protein	unknown	unknown	unknown
LR134451.1\|VEH91263.1\|105020_106307_+\|Stearoyl-CoA-9-desaturase	unknown	unknown	gnl\|CDD\|225779
LR134451.1\|VEH91261.1\|104421_104763_-\|Uncharacterised-protein	unknown	unknown	unknown
LR134451.1\|VEH91237.1\|92687_93080_-\|Probable-ribonuclease-VapC19	unknown	unknown	gnl\|CDD\|350308
LR134451.1\|VEH91275.1\|111871_112759_-\|Putative-ribosome-biogenesis-GTPase-RsgA	unknown	unknown	gnl\|CDD\|224084
LR134451.1\|VEH91239.1\|93073_93328_-\|Putative-antitoxin-VapB19	unknown	unknown	unknown
LR134451.1\|VEH91269.1\|109199_110756_-\|Carboxylesterase	unknown	unknown	gnl\|CDD\|365897
LR134451.1\|VEH91251.1\|99287_100691_+\|Probable-diacyglycerol-O-acyltransferase-tgs3	unknown	unknown	gnl\|CDD\|274360
LR134451.1\|VEH91255.1\|101265_101700_+\|META-domain	unknown	unknown	gnl\|CDD\|377111
LR134451.1\|VEH91247.1\|97868_98549_-\|1-acyl-sn-glycerol-3-phosphate-acyltransferase	unknown	unknown	gnl\|CDD\|153251
LR134451.1\|VEH91245.1\|97192_97864_-\|Uncharacterised-protein	unknown	unknown	unknown
LR134451.1\|VEH91267.1\|107819_109187_+\|NADPH-ferredoxin-reductase-fprA	unknown	unknown	gnl\|CDD\|215457
LR134451.1\|VEH91259.1\|103080_104343_+\|Stearoyl-CoA-9-desaturase	unknown	unknown	gnl\|CDD\|225779
LR134451.1\|VEH91241.1\|93605_94331_+\|ribosome-hibernation-promoting-factor-HPF	unknown	unknown	gnl\|CDD\|224461
LR134451.1\|VEH91277.1\|112867_114157_-\|3-phosphoshikimate-1-carboxyvinyltransferase	unknown	unknown	gnl\|CDD\|235037
LR134451.1\|VEH91271.1\|110791_111271_+\|Uncharacterized-N-acetyltransferase-YsnE	unknown	unknown	gnl\|CDD\|366181
LR134451.1\|VEH91243.1\|94410_97164_+\|preprotein-translocase-subunit-SecA	unknown	unknown	gnl\|CDD\|237259

Protein	Function_ID	Function_description	E-value
LR134451.1\|VEH91273.1\|111333_111870_+\|Peptide-methionine-sulfoxide-reductase-MsrA	gnl\|CDD\|237597	PRK14054, PRK14054, peptide-methionine (S)-S-oxide reductase.	1.8909e-105
LR134451.1\|VEH91265.1\|106340_107759_+\|Stearoyl-CoA-9-desaturase	gnl\|CDD\|239583	cd03506, Delta6-FADS-like, The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases are required for the synthesis of highly unsaturated fatty acids (HUFAs), which are mainly esterified into phospholipids and contribute to maintaining membrane fluidity. While HUFAs may be required for cold tolerance in bacteria, plants and fish, the primary role of HUFAs in mammals is cell signaling. These enzymes are described as front-end desaturases because they introduce a double bond between the pre-exiting double bond and the carboxyl (front) end of the fatty acid. Various substrates are involved, with both acyl-coenzyme A (CoA) and acyl-lipid desaturases present in this CD. Acyl-lipid desaturases are localized in the membranes of cyanobacterial thylakoid, plant endoplasmic reticulum (ER), and plastid; and acyl-CoA desaturases are present in ER membrane. ER-bound plant acyl-lipid desaturases and acyl-CoA desaturases require cytochrome b5 as an electron donor. Most of the eukaryotic desaturase domains have an adjacent N-terminal cytochrome b5-like domain. This domain family has extensive hydrophobic regions that would be capable of spanning the membrane bilayer at least twice. Comparison of sequences also reveals the existence of three regions of conserved histidine cluster motifs that contain the residues: HXXXH, HXX(X)HH, and Q/HXXHH. These histidine residues are reported to be catalytically essential and proposed to be the ligands for the iron atoms contained within the homolog, stearoyl CoA desaturase.	2.43952e-47
LR134451.1\|VEH91249.1\|98615_99179_-\|Uncharacterised-protein	gnl\|CDD\|237030	PRK12270, kgd, multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine pyrophosphate-binding subunit/dihydrolipoyllysine-residue succinyltransferase subunit.	0.00974334
LR134451.1\|VEH91263.1\|105020_106307_+\|Stearoyl-CoA-9-desaturase	gnl\|CDD\|225779	COG3239, DesA, Fatty acid desaturase [Lipid metabolism].	4.06293e-39
LR134451.1\|VEH91237.1\|92687_93080_-\|Probable-ribonuclease-VapC19	gnl\|CDD\|350308	cd18741, PIN_VapC4-5_FitB-like, uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily. The PIN_VapC4-5_FitB-like subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Mycobacterium tuberculosis VapC4 and VapC5 ribonuclease toxins of the VapBC toxin/antitoxin (TA) system, and Neisseria gonorrhoeae FitB toxin of the FitAB TA system. This subfamily belongs to the VapC-like family of the PIN domain nuclease superfamily. VapC is the PIN-domain ribonuclease toxin from prokaryotic VapBC toxin-antitoxin (TA) systems. VapB is a transcription factor-like protein antitoxin acting as an inhibitor. Other members of the VapC-like nuclease family include eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. The structural properties of the PIN (PilT N terminus) domain indicate its active center, consisting of three highly conserved catalytic residues which coordinate metal ions, in some members, additional metal coordinating residues can be found. Some members of the superfamily lack several of these key catalytic residues. The PIN active site is geometrically similar in the active center of structure-specific 5' nucleases, PIN-domain ribonucleases of eukaryotic rRNA editing proteins, and bacterial toxins of toxin-antitoxin (TA) operons.	3.85308e-44
LR134451.1\|VEH91275.1\|111871_112759_-\|Putative-ribosome-biogenesis-GTPase-RsgA	gnl\|CDD\|224084	COG1162, COG1162, Predicted GTPases [General function prediction only].	5.91475e-88
LR134451.1\|VEH91243.1\|94410_97164_+\|preprotein-translocase-subunit-SecA	gnl\|CDD\|237259	PRK12904, PRK12904, preprotein translocase subunit SecA; Reviewed.	0
LR134451.1\|VEH91251.1\|99287_100691_+\|Probable-diacyglycerol-O-acyltransferase-tgs3	gnl\|CDD\|274360	TIGR02946, Putative_diacyglycerol_O-acyltransferase_Mb3115, acyltransferase, WS/DGAT/MGAT. This bacteria-specific protein family includes a characterized, homodimeric, broad specificity acyltransferase from Acinetobacter sp. strain ADP1, active as wax ester synthase, as acyl coenzyme A:diacylglycerol acyltransferase, and as acyl-CoA:monoacylglycerol acyltransferase. [Unknown function, Enzymes of unknown specificity].	5.08792e-123
LR134451.1\|VEH91255.1\|101265_101700_+\|META-domain	gnl\|CDD\|377111	pfam03724, META, META domain. Small domain family found in proteins of of unknown function. Some are secreted and implicated in motility in bacteria. Also occurs in Leishmania spp. as an essential gene. Over-expression in L.amazonensis increases virulence. A pair of cysteine residues show correlated conservation, suggesting that they form a disulphide bond.	1.16114e-11
LR134451.1\|VEH91247.1\|97868_98549_-\|1-acyl-sn-glycerol-3-phosphate-acyltransferase	gnl\|CDD\|153251	cd07989, LPLAT_AGPAT-like, Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like. Lysophospholipid acyltransferase (LPLAT) superfamily member: acyltransferases of de novo and remodeling pathways of glycerophospholipid biosynthesis which catalyze the incorporation of an acyl group from either acylCoAs or acyl-acyl carrier proteins (acylACPs) into acceptors such as glycerol 3-phosphate, dihydroxyacetone phosphate or lyso-phosphatidic acid. Included in this subgroup are such LPLATs as 1-acyl-sn-glycerol-3-phosphate acyltransferase (AGPAT, PlsC), Tafazzin (product of Barth syndrome gene), and similar proteins.	3.40906e-39
LR134451.1\|VEH91269.1\|109199_110756_-\|Carboxylesterase	gnl\|CDD\|365897	pfam00135, COesterase, Carboxylesterase family.	1.32976e-86
LR134451.1\|VEH91259.1\|103080_104343_+\|Stearoyl-CoA-9-desaturase	gnl\|CDD\|225779	COG3239, DesA, Fatty acid desaturase [Lipid metabolism].	1.45466e-45
LR134451.1\|VEH91267.1\|107819_109187_+\|NADPH-ferredoxin-reductase-fprA	gnl\|CDD\|215457	PLN02852, PLN02852, ferredoxin-NADP+ reductase.	8.0686e-142
LR134451.1\|VEH91277.1\|112867_114157_-\|3-phosphoshikimate-1-carboxyvinyltransferase	gnl\|CDD\|235037	PRK02427, PRK02427, 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional.	4.75415e-170
LR134451.1\|VEH91271.1\|110791_111271_+\|Uncharacterized-N-acetyltransferase-YsnE	gnl\|CDD\|366181	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions such as Elp3-related proteins.	8.30813e-16
LR134451.1\|VEH91241.1\|93605_94331_+\|ribosome-hibernation-promoting-factor-HPF	gnl\|CDD\|224461	COG1544, COG1544, Ribosome-associated protein Y (PSrp-1) [Translation, ribosomal structure and biogenesis].	7.34187e-27

>LR134451.1|VEH91255.1|101265_101700_+|META-domain
MTVRGARYAAALLVGAGVAASAPAASAAPVPLIGTQWRFESSGVARTAPVKYTGSPAYFSIDGTRGGGNDGCNVFGMNVEVKGDRATFSGLFSTLRMCYVPGAGVQFGKAFAGPRTVTVTGNRLRVSDGPRGYWNFVANGPAKK
>LR134451.1|VEH91253.1|100691_101234_+|Uncharacterised-protein
MTVRVYVPSTLAGLQVLQRDGELFPLGGTVFGVTPALREAYTSGDDEELAEAAMRQAARASLRLLAVEEPDPADGAGAEGDGAAPDPVRRVVITADVPAAKERPDLDDAVLKVTEPIRLTNVLAVHVDVSEAERAVTRAAQVVDAADLGDEDAELAVGDAEDHDLAWYATQELPFLLELL
>LR134451.1|VEH91251.1|99287_100691_+|Probable-diacyglycerol-O-acyltransferase-tgs3
MKGRLGQSDAEFYALENSTTPTHVGSLVILGRPDEGLEYERLLATIEERLAEVPRYRQKVRTVPLGIARPVWVEDRDFDITYHVRVSALPQPGSDDQLHDLVARLNSRPLDRERPLWEVYLIEGLADDRLAVFSKTHLALVDGRANVDLMQLLLTDSPHTPEPPEDLWMGQHEPSDGELVMGAVIDMLSRPKRTAAMIQGVVGEVAESITGLQEDAANVIERASSLVRARTAVTPVRSLNVPISRSRRFAVARMDLDEFRRLRAAYGCTVNDLLLSVIAGGLRTWLISRGEPISAGTEVRVLEPIAVDDVGLGVGEQVRAYIVRLPVAESNAVVRMRQIAHGAAAQVDRNRQVAARALAASGGFTPPTLHALGARTAMSVSPRSFNTLVTNAPGPQAPVYLSGIEVQQVYPVPPLIANQVVSIGITSYNGTVYIGLNADRDGMWDVISMTEFLYEALDEIAASAKGE
>LR134451.1|VEH91249.1|98615_99179_-|Uncharacterised-protein
MGAIILAADGARARAPRTPEPGFVVLRAPDAEPPARPLSLVRAARAAPPLPAPSDPAPPEPVALPGPVAAVHPDAHRFVLSTLRPVFEVLDRRRPAKHLTAIATATVVDVLRTLAETGPAGTVSGWGNVHVGTPRALAQRARRRPRGPEVGAEIFLTYTRGERVLAAAGRVEAAAGRWRWVAFTTAA
>LR134451.1|VEH91247.1|97868_98549_-|1-acyl-sn-glycerol-3-phosphate-acyltransferase
MSLSSLRAAFRYRVARHLLIGPALWAWGRPEYTGLENIPRNGPVILAANHLAISDSFYVVQSARRPVSFLAKADYFTEPGLKGKFKKVFFSGMGQIPVDRRGGSVSAPALEAATKIVEDGGAWGIHPEGTRSPDGRLYKGKTGAVRVALATGTPIIPIALGRTDNRTRKNFWKSRVTVDVLPPLDLSDASLDDQESIRRATDRLMDVIGEHTGQTRVPEYAKKGGK
>LR134451.1|VEH91245.1|97192_97864_-|Uncharacterised-protein
MSALRQAFWFALLGAAVALLGATDSGGAWSLEDGTYLAADGWLVSGGHTRAGVIGAAAGAVTGLVLWAVGVRPRGREDDRIGTVALAGLLGAAVGLSPVLAFVGFSFAGAVSAPSTPVILAIYAAGGLLAYGAALAAVGRALRALGDAHVRATVRTLAWALPLGAALATAAGVAAAATTDFSTTTATWIRAVIAALAVVAATLAAGRALAVRTARGAAPADPA
>LR134451.1|VEH91243.1|94410_97164_+|preprotein-translocase-subunit-SecA
MVLSKVLRFGEGRMVKRLDGLASYVESLNDEYEALSDEKLQAKTEIFKKRLEKGETLDEILPEAFATAREAAWRVLGQKPYHVQIMGAGALHQGDIAEMKTGEGKTLTSVMAAYANALTGKGVHLVTTNDYLAKRDADWMGRVHRFLGLEVDCILAGQDPDRRRTAYSADITYGTNNEFGFDYLRDNMAHSEEELVQRGHNYAIVDEVDSILIDEARTPLIISGPADASSKWYTEFARIVPLMEKDVHYEVDIRKKTIGVNEAGVELVEDQLGIENLYDATNSLLVSYLNNAIKAKELYERDKDYIVRSGEVLIVDEFTGRVLAGRRFNEGMHQALEAKENVEIQAENQTLATITLQNYFRLYDKLSGMTGTAETEAAELHQIYKLGVIPIPTNKPMIRKDQTDLIYKTEEAKFAAIVEDIAERHEAGQPVLIGTTSVERSEYLSRQLERKKIPHTVLNAKFHEQEAAIIAKAGTPGAVTVATNMAGRGTDVVLGGNPDILADLALRERGLDPVTTPEEYEAAWDETIEQVKKESKDAGDDVRDAGGLYVLGTERHESRRIDNQLRGRSGRQGDPGESRFYLSLGDELMRRFNGAQIEAWMNRVNLPDDVPIDNKFVSRAIRSAQTQVEQQNFEIRKNVLKYDDVQNEQRKVIYDERRKILRGEDLFDQVNHMTDDVVSAYVDAATSTGYVEDWDLDELWTALKTLYPIELDWKQVVGEDENGDRDEITSGELKDVLLKDIHAAYDKHQEGIEKAAGEGTMRQVERSVLLSVLDQKWREHLYEMDYLKEGIGLRQIAQRDPVVEYQREGYDMFNGMLEGLKEESVATLFKVQVQEPEEGAPAADGAEAPAQAQVSSPVAEPDPEKITLSGPSEQGDLTEISQNADEPQGSRSKRRAAKREADKAAQKAAAARGKHRR
>LR134451.1|VEH91241.1|93605_94331_+|ribosome-hibernation-promoting-factor-HPF
MTLLSPRDTNRAHATPNVEVDPFREPSHVTDERDKDYLTPNAPVAIDGRNVEVPEHFRVYLGDKLARLEKFRTTITLFEVSLFHEPNPRQSKQCQRLELTVRGKGGVARAEAAAENFYAAFETALSRLQSRLRKASDRKKVHYGNRTPVSVAEATAPSALPDAPAASEADDDPYAALVEDHLPGQIVRIKDHPGTPMTVDDALSQMELVGHDFFLFFDKEAEKPSVVYRRKAFDYGLLRLT
>LR134451.1|VEH91239.1|93073_93328_-|Putative-antitoxin-VapB19
MSHRTQITLEDAQYVRLLAESRASGLGLAELIRRAVDLTYGGTDADAFDAALDQSFGTWGSDGPDGEEFVEAIRPARIDRFARW
>LR134451.1|VEH91237.1|92687_93080_-|Probable-ribonuclease-VapC19
MVTGPPILLDTSIFIDTLRGRREARDRLSDARREGRRLVASVLTRTEVLGGMRASEKSSTAALLAVFEWIDVSEEIADAAGSLARRYRASHSGIDIADYVIAATAAVAGADLWTRNVKHFPMFDGLEPPY
>LR134451.1|VEH91259.1|103080_104343_+|Stearoyl-CoA-9-desaturase
MAITDIPEYAHLTEADVETLGAELDAIRRDIEAVRGESDVQYLQRTIAAQRGLEVAGRLMLLGAHKRGFWWGSAATLGLAKIIENMELGHNIMHGQWDWMNDPEVHSTTWEWDNAGTSRLWKHTHNYVHHKYTNVLDMDDDVGYKTLRVTRDQPWTPFNSGNLVYNTILMLLFEYGVAIQHLELGRAATKWKKSWFDREGFKADASDVGRKIGRQVLKDYVAAPLVGVPFGGKRGWRKALTAMITANVIRNIWTNAVIFCGHFPDGAEKFTKQDVDNETQAEWYLRQMLGSANLSGGPVIDFLSGNLSYQIEHHLFPDLPSNRLAEIGVRVRALCEKYDLPYTIGPLHVQYYKSWRTIAKLSLPDKYLRDTADDAPETASEAMFAGTEYAEPRIDERSGRRFGLKAARAAVHARRGSRRP
>LR134451.1|VEH91261.1|104421_104763_-|Uncharacterised-protein
MNTSITRRHRILTAAAGTAVAAGAVLGGLALAGTASAAPGIDPSTLQKCTAFINADGTPKPDRPNACLPVDPFTEPGLTLAQRKALVNTDSGTRAGGSAQADIAALEAKFGGK
>LR134451.1|VEH91263.1|105020_106307_+|Stearoyl-CoA-9-desaturase
MAITDIAEYAHLTDADIEALGAELDALRREIEESRGEEDAKYIRRVIKSQRIAETAGRVFGLGAGMKGWKGKAAWAASAACLSYAKVIENNELGHNIMHGQWDWMNDPEIHSTNWEWDSASDGKFWRHTHNYMHHKYTNVTDMDDDIGYGILRVTRDQPWEPYMLFNPIYNFTLMIGFQYGKAVQHLELMNAMKAALNGGEQYANYDWEEFRSRLKVVLTKIAKQTAKDYVLFPAMAVPFTGARGYKKAASANYVANTVRDVWDHMTIFCGHFPDDAEKFTIEDIENETLPEWYLRQMLGTANFEGSDALHFITGHLGRQIEHHLYPDLPSNRYNYINSRLVEICEKYDLPYNSGPMWKQYAESWRTIIKLSLPDKYLKATVDDAPETHSNKRFYDENGKTTVVKGEIDADGNRRGLRSHVEELAAAK
>LR134451.1|VEH91265.1|106340_107759_+|Stearoyl-CoA-9-desaturase
MAITDVGEYAHLDDADIEHLALELDAIRAEVEASRGERDARYIRGVIRAQRALEAAGRLTILGSKSRWFWAAGAGMLGVAKIIENMELGHNVMHGQWDWMNDPEIHSTTWEWDMACPGAHWKHSHNFLHHKYTNVVGKDLDVGYGVLRVTRDEQWQAKRSAQFLNNLFLGLTFEWGIALHDIELAEAIAGNKPWPQTRKQLRELGVKASRQLGKDFLLYPAISKAVGGSFGRTLSANLTANVVRNIWTYVVIFCGHFPDGAEKFTTESIVDETPGEWYLRQMLGSANISGGPAMDFMTGNLSYQIEHHMFPDLPSNRLSEIAVKVRVICEKYDIPYTEGPLLRQYYLSQRTIAKLSLPDRWLRATSDDAPETASELRFSAVRERLQHAQEAAQDRLALAQEAAHDRLAHAQENAHERLVHAREAAHAAQEEVERVGLRSAIAEAARHKVEQKRLEVEAKRSRRARRRRSGVA
>LR134451.1|VEH91267.1|107819_109187_+|NADPH-ferredoxin-reductase-fprA
MKPLRVAIVGSGPSGFFAAGNLLEQDDIEVQVDVFDRLPTPFGLVRYGVAPDHPAIKSVTKIFDRTAQHENFRYFGNVEVATDIQASELAQWYDAVIYAIGASGGRRLEVDGAWLPGNHPSSDFVGWYNGHPDRRDLDVDLGVERAVVIGNGNVALDAARILVTDTDKLSGTDMAEHALDALHGSSVREVVVLGRRGAEQAAFTPSEVAELGKLPGVDVIVDPADVPAEDKERDKARPPVERNNLKQLRKLAAQEPTGADRRIVLKFLRSVVGIGGDDRVRTVSVATNELVAGDDGCVEAQPTGTVAEHRAGLVIHAVGYHGTPIPGIPFDTERGVFRNADSRIVGYDGAPLPGHYVVGWIKRGPSGVIPTNRDCARDTVSVLLADVAAGKLARSQFDGAQVEKLIVDRVPNLVEYDGWMAIDAHETALAEEDDRPRVKLTSVDAMIDAAQAAAE
>LR134451.1|VEH91269.1|109199_110756_-|Carboxylesterase
MSVAEERPEVRIDTGVVWGRWRPTVGGPAGVSATRSAEFLGIPFAEAPVGGLRFGAPVPRSPWDGVLDAGAYGATAQRGDPGVVLIPEPSIPGDGTLNVNVFTPSPEHSDGAGLPVLVWIHGGGYFAGSPASPWYDGRNFNRDGVVTVTVSYRLGFDGFGWIEDAPSNRGVRDWLLALDWVQRNIAAFGGDPARVTLAGQSAGGGAVLTLLGMEAAQHLFSRAIVMSGVLAAASSDRAEAFGRDVARRAGVDPTLAGMATVPEERLLRLQRKATSIDLPGLRAAFTHGLPLGPTVDGDLLPQGTIAALRSGVGADKPVLIGATDDEFTRLFVDAPLKYLMPLLPTAAILALLAVPRALRADYLTANPDVLARGRGALAGRLLSDAMFRVTVPRIADFRAATPGAAPIWTYRFSWTSGPSGIAGHCLDVPFFFDCLDGPAIEPLAGPRPPQALADQVHGAAVTFVTDGAPGWPASTATAPISRVFDVPVRDVPDAYASARPLLTHSRHAVPRTSAGEAR
>LR134451.1|VEH91271.1|110791_111271_+|Uncharacterized-N-acetyltransferase-YsnE
MDTSITRADFADPALAAFLAAHHADMAPTAPPESQHALGLEELRAPHVRLWTLHDDGALVGTVALAEVEPGHEELKSMRTAPKARGRGIGRRLLTHALDDALARGVQRISLETGSQDFFAPARALYAAHGFVPCPPFGHYVDDPNSTYLTRTVGVPSES
>LR134451.1|VEH91273.1|111333_111870_+|Peptide-methionine-sulfoxide-reductase-MsrA
MTDNGTITTVPGRETAVLAGGCFWGMQDLIRKQPGIEETRVGYTGGANDHATYRNHPGHAEAVEIVFDPAKTSYRDVLEFFFQIHDPSTKDRQGNDVGSSYRSAIFPLSDEQERVARDTIADVDASGLWPGKAVTTIEAAAPFWQAEPEHQDYLEKYPDGYTCHFPRPGWKLPKRASA
>LR134451.1|VEH91275.1|111871_112759_-|Putative-ribosome-biogenesis-GTPase-RsgA
MVVSVDRGRWGCALDGDPERIIVAMRARELGRSPIVVGDSVGVVGDLTGRKDTLARIVRVDERKTVLRRTADDTDPYERIVVANAQQLLIVTALADPPPRTGFVERTLIAAYAGGLTPVLCLTKGDLADAAEFTAAFADLDLTVISAGRGDPLDEAHELLTGRLTALIGHSGVGKSTLVNRLVPDANRATGVVSGVGKGRHTSTQSVALWLPDGGWVVDTPGIRSFGLAHISTDDVIAAFPDLDDAVQDCPRGCTHLGPPADPECALDRLDGTAHRRAMAVRGLLTDLTATPDWA
>LR134451.1|VEH91277.1|112867_114157_-|3-phosphoshikimate-1-carboxyvinyltransferase
MCKDVRVEQLELWPAPFAAGPVTGTVALPGSKSITNRAYVLAAQAPSRSTLTNALRSRDTDLMARALETLGARVDFLTDTTVAVTGGDLHGGDVDCGLAGTVMRFLPPLAAGARGTVAFDGDPQARARPLGTVLDALRGLGARIDGDGLPFTVHGDGPIRGGTVTIDASASSQFVSGLLLSGPGFAEGVTVHHDGKPVPSMPHIEMTVDMLRAAGAEVDTSEANTWRVAPGGLRAHDWTVEPDLSNATVFLAAAAVTGGAVTVPHWNPQSTQPGVQFADILSAMGAEVSHADGALTARGTGALQGVDWDLRDIGELTPTVAALAALADTPSHLRGIAHLRGHETDRLAALTAEITALGGRCAETEDGLRIEPATLHGGVWHSYADHRMSTAGAILGLVTAGVQVEDIAATSKTMPDFPALWHALLGGGS

You can click texts colored in the table to view more detailed information

Click the colored protein region to show detailed information

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
LR134451_1	1.1\|102913\|32\|LR134451\|CRISPRCasFinder	102913-102944	32	NZ_LR134451	Tsukamurella tyrosinosolvens strain NCTC13231 plasmid 9, complete sequence	102913-102944	0	1.0
LR134451_1	1.1\|102913\|32\|LR134451\|CRISPRCasFinder	102913-102944	32	NZ_CP014678	Kozakia baliensis strain DSM 14400 plasmid pKB14400_4, complete sequence	15861-15892	7	0.781

1. spacer 1.1|102913|32|LR134451|CRISPRCasFinder matches to NZ_LR134451 (Tsukamurella tyrosinosolvens strain NCTC13231 plasmid 9, complete sequence) position: , mismatch: 0, identity: 1.0

gtaggtccggagccgtcccccttgcatctccg	CRISPR spacer
gtaggtccggagccgtcccccttgcatctccg	Protospacer
********************************

2. spacer 1.1|102913|32|LR134451|CRISPRCasFinder matches to NZ_CP014678 (Kozakia baliensis strain DSM 14400 plasmid pKB14400_4, complete sequence) position: , mismatch: 7, identity: 0.781

gtaggtccggagccgtcccccttgcatctccg	CRISPR spacer
taccgtccggagccgtccccgttgcatcggcg	Protospacer
    **************** *******  **

Prophage detection

Region	Region Position	Protein_number	Hit_taxonomy	Key_proteins	Att_site	Prophage annotation

Anti-CRISPR protein detection

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

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

129017 : 135849

Natrialba_phage(16.67%)

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
VEH94943.1\|129017_129932_+	Sporulation initiation inhibitor protein soj	Q8JL10	Natrialba_phage	2.1e-23	32.3
VEH94948.1\|129934_130975_+	Probable chromosome-partitioning protein parB	S5VSZ7	Leptospira_phage	7.6e-09	36.4
VEH94952.1\|130981_131704_+	Uncharacterised protein	NA	NA	NA	NA
VEH94956.1\|131773_132967_-	N-acetylmuramoyl-L-alanine amidase LytC precursor	A0A0F6YQN9	Mycobacterium_phage	9.9e-05	41.8
VEH94962.1\|133069_133393_-	MPT46	A0A1J0GW78	Streptomyces_phage	8.0e-26	56.3
VEH94966.1\|133432_134389_-	Thioredoxin reductase	A0A2I2L5E1	Orpheovirus	2.1e-69	49.5
VEH94970.1\|134489_135107_-	Uncharacterised protein	NA	NA	NA	NA
VEH94974.1\|135216_135849_-	RNA polymerase sigma factor CnrH	A0A0F6TH34	Sinorhizobium_phage	5.1e-08	30.9

Anti-CRISPR protein detection

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

5. LR134455

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

210777 : 218794

Gordonia_phage(50.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
VEH94187.1\|210777_211752_-	Uncharacterised protein	A0A159B6T7	Tsukamurella_phage	5.6e-38	35.4
VEH94189.1\|211748_212285_-	Uncharacterised protein	NA	NA	NA	NA
VEH94191.1\|212316_213252_-	Site-specific DNA methylase	A0A1D8KSG4	Synechococcus_phage	2.9e-15	28.6
VEH94193.1\|213248_213497_-	Uncharacterised protein	NA	NA	NA	NA
VEH94195.1\|213496_213667_-	Uncharacterised protein	NA	NA	NA	NA
VEH94197.1\|213666_213927_-	Uncharacterised protein	NA	NA	NA	NA
VEH94199.1\|213959_214403_-	Uncharacterised protein	A0A1B3AYE5	Gordonia_phage	5.5e-25	48.9
VEH94201.1\|214399_215011_-	Uncharacterised protein	A0A1B3AYD6	Gordonia_phage	2.1e-51	55.0
VEH94203.1\|215026_215488_-	Uncharacterised protein	A0A159B6S9	Tsukamurella_phage	2.2e-37	65.0
VEH94205.1\|215487_215904_-	Uncharacterised protein	NA	NA	NA	NA
VEH94207.1\|215900_216281_-	Uncharacterised protein	NA	NA	NA	NA
VEH94209.1\|216309_216585_-	Uncharacterised protein	NA	NA	NA	NA
VEH94211.1\|216615_216861_-	Uncharacterised protein	NA	NA	NA	NA
VEH94213.1\|217159_218794_-	Modification methylase BanI	A0A142KA64	Gordonia_phage	2.6e-64	33.1

Anti-CRISPR protein detection

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

6. LR134460

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

345912 : 358271

Staphylococcus_phage(25.0%)

tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
VEH98266.1\|345912_346449_+	Peptide deformylase	A0A2I7QLT9	Vibrio_phage	2.9e-20	41.9
VEH98268.1\|346448_347384_+\|tRNA	Methionyl-tRNA formyltransferase	A4JWM2	Burkholderia_virus	2.0e-05	25.9
VEH98270.1\|347380_348739_+	Ribosomal RNA small subunit methyltransferase B	NA	NA	NA	NA
VEH98272.1\|348817_349765_-	LGFP repeat	A0A1I9SA50	Rhodococcus_phage	1.7e-07	29.8
VEH98274.1\|349970_350636_+	Ribulose-phosphate 3-epimerase	NA	NA	NA	NA
VEH98276.1\|350638_351631_+	Riboflavin biosynthesis protein RibD	A0A1V0SE20	Indivirus	1.1e-25	31.2
VEH98278.1\|351890_352523_+	Riboflavin synthase alpha chain	A0A2H4PQS5	Staphylococcus_phage	4.7e-30	37.0
VEH98280.1\|352525_353773_+	Riboflavin biosynthesis protein ribBA	A0A2H4PQS2	Staphylococcus_phage	6.1e-90	45.4
VEH98282.1\|353769_354249_+	6,7-dimethyl-8-ribityllumazine synthase	A0A2I2L4Y7	Orpheovirus	2.7e-09	30.3
VEH98284.1\|354245_354692_+	6,7-dimethyl-8-ribityllumazine synthase 2	NA	NA	NA	NA
VEH98286.1\|354749_355202_+	Protein of uncharacterised function (DUF2581)	NA	NA	NA	NA
VEH98288.1\|355206_356694_-	Succinate-semialdehyde dehydrogenase [NADP(+)]	NA	NA	NA	NA
VEH98290.1\|356690_358271_-	Alcohol dehydrogenase [acceptor]	A0A1V0S9J5	Catovirus	2.1e-55	30.2

Anti-CRISPR protein detection

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

7. LR134452

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

79454 : 106964

Agrobacterium_phage(18.18%)

tRNA,protease

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
VEH92314.1\|79454_80039_-\|protease	ATP-dependent Clp protease proteolytic subunit	A0A2I7SAC1	Vibrio_phage	4.4e-14	27.6
VEH92316.1\|80035_80653_-\|protease	ATP-dependent Clp protease proteolytic subunit 2	A0A248SJ97	Salicola_phage	1.2e-22	35.3
VEH92318.1\|80754_81816_-	P-aminobenzoate N-oxygenase AurF	NA	NA	NA	NA
VEH92320.1\|81932_82379_+	Predicted integral membrane protein	NA	NA	NA	NA
VEH92322.1\|82404_83541_-	Glutamate 5-kinase	A0A1X9I5D0	Streptococcus_phage	2.5e-42	36.9
VEH92324.1\|83537_84998_-	GTP-binding protein obg	NA	NA	NA	NA
VEH92326.1\|85122_85386_-	50S ribosomal protein L27	NA	NA	NA	NA
VEH92328.1\|85432_85744_-	50S ribosomal protein L21	NA	NA	NA	NA
VEH92330.1\|85891_89020_-	Ribonuclease G	NA	NA	NA	NA
VEH92332.1\|89340_89754_-	Nucleoside diphosphate kinase	D2E8E1	Anguillid_herpesvirus	5.3e-30	51.5
VEH92334.1\|89773_90175_-	Uncharacterised protein	NA	NA	NA	NA
VEH92336.1\|90171_91590_-	Folylpolyglutamate synthase	NA	NA	NA	NA
VEH92338.1\|91586_94298_-\|tRNA	Valine--tRNA ligase	A0A1V0SK04	Klosneuvirus	4.4e-141	39.0
VEH92340.1\|94408_96028_+	Uncharacterized ABC transporter ATP-binding protein HI_1252	A0A2H4UUX5	Bodo_saltans_virus	2.4e-17	21.3
VEH92342.1\|96105_97383_-\|protease	ATP-dependent Clp protease ATP-binding subunit ClpX	G3M9Z9	Bacillus_virus	1.1e-142	59.3
VEH92344.1\|97567_98236_-\|protease	ATP-dependent Clp protease proteolytic subunit 1	A0A223W000	Agrobacterium_phage	2.6e-34	41.5
VEH92346.1\|98252_98846_-\|protease	ATP-dependent Clp protease proteolytic subunit 1	A0A223W000	Agrobacterium_phage	2.8e-40	46.7
VEH92348.1\|98982_100395_-	Trigger factor	NA	NA	NA	NA
VEH92350.1\|100588_100972_+	Predicted membrane protein	NA	NA	NA	NA
VEH92352.1\|101075_101597_+	Spermidine N(1)-acetyltransferase	NA	NA	NA	NA
VEH92354.1\|101711_102467_+	Predicted membrane protein	NA	NA	NA	NA
VEH92356.1\|102426_102954_-	HxlR-like helix-turn-helix	NA	NA	NA	NA
VEH92358.1\|103042_103744_+	Uncharacterized oxidoreductase SAV2478	NA	NA	NA	NA
VEH92360.1\|103938_104199_+	Uncharacterised protein	NA	NA	NA	NA
VEH92362.1\|104265_105603_+	Inner membrane metabolite transport protein yhjE	Q6JIH2	Burkholderia_virus	7.6e-38	30.4
VEH92364.1\|105686_106964_+\|protease	ATP-dependent zinc metalloprotease FtsH 2	E5EQ50	Micromonas_sp._RCC1109_virus	6.9e-20	30.2

Anti-CRISPR protein detection

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