CRISPRimmunity

Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Self targeting spacer number	Target MGE spacer number	Prophage number	Anti-CRISPR protein number
NC_011263	Borrelia recurrentis A1 plasmid pl6, complete sequence	0 crisprs	NA	0	0	0	0
NC_011258	Borrelia recurrentis A1 plasmid pl37, complete sequence	1 crisprs	NA	0	1	0	0
NC_011260	Borrelia recurrentis A1 plasmid pl53, complete sequence	1 crisprs	NA	0	1	0	0
NC_011253	Borrelia recurrentis A1 plasmid pl33, complete sequence	1 crisprs	NA	2	2	0	0
NC_011246	Borrelia recurrentis A1 plasmid pl124, complete sequence	0 crisprs	cas14j	0	0	0	0
NC_011252	Borrelia recurrentis A1 plasmid pl23, complete sequence	0 crisprs	NA	0	0	0	0
NC_011244	Borrelia recurrentis A1, complete genome	0 crisprs	NA	0	0	0	0
NC_011255	Borrelia recurrentis A1 plasmid pl35, complete sequence	0 crisprs	NA	0	0	0	0

1. NC_011260

CRISPR-Cas detection and classification

Crispr_ID: NC_011260_1

• CRISPR_ID: NC_011260_1
• CRISPR_location: 31995-32083
• CRISPR_type: Orphan
• Repeat_type: NA
• Spacer_info: 1 spacers

Consensus repeat of NC_011260_1

Consensus_repeat	Method
CTAAAATCTGAAATCACCTCTAC	CRISPRCasFinder

spacers of NC_011260_1

>1.1|32018|43|NC_011260|CRISPRCasFinder
CAAGATAGAACTCAATAATAAAATTGATAAAGTAGAAGATAAG

CRISPR arrays and Neighbor proteins around NC_011260_1

CRISPR arrays

The CRISPR arrays of NC_011260_1

>merge|NC_011260|1|31995-32083|CRISPRCasFinder
CTAAAATCTGAAATCACCTCTACCAAGATAGAACTCAATAATAAAATTGATAAAGTAGAAGATAAGCTAAAATCTGAAATCATCTCTAC

>NC_011260|1|1|31995-32083|CRISPRCasFinder
CTAAAATCTGAAATCACCTCTAC	CAAGATAGAACTCAATAATAAAATTGATAAAGTAGAAGATAAG
CTAAAATCTGAAATCATCTCTAC

Neighbor Proteins Overview

Protein	Signature genes	Signature genes Name	Protein_function
NC_011260.1|WP_012539705.1|42974_44087_+|vlp-protein,-delta-subfamily	unknown	unknown	gnl|CDD|376417
NC_011260.1|WP_012539730.1|20103_20856_-|site-specific-integrase	unknown	unknown	gnl|CDD|271175
NC_011260.1|WP_012539698.1|33739_34501_-|ParA-family-protein	unknown	unknown	gnl|CDD|224113
NC_011260.1|WP_156768713.1|29751_29907_-|hypothetical-protein	unknown	unknown	unknown
NC_011260.1|WP_083764333.1|21869_22514_-|hypothetical-protein	unknown	unknown	unknown
NC_011260.1|WP_156768715.1|32487_32691_-|hypothetical-protein	unknown	unknown	unknown
NC_011260.1|WP_041178241.1|41926_42817_+|Variable-large-protein-18	unknown	unknown	gnl|CDD|376417
NC_011260.1|WP_156768714.1|29969_30140_+|hypothetical-protein	unknown	unknown	unknown
NC_011260.1|WP_041178252.1|36387_36735_-|hypothetical-protein	unknown	unknown	unknown
NC_011260.1|WP_156768717.1|38597_39194_+|hypothetical-protein	unknown	unknown	gnl|CDD|366644
NC_011260.1|WP_012539703.1|39439_40534_+|vlp-protein,-delta-subfamily	unknown	unknown	gnl|CDD|376417
NC_011260.1|WP_041178258.1|27274_27565_-|hypothetical-protein	unknown	unknown	gnl|CDD|376417
NC_011260.1|WP_155806533.1|24363_24696_-|hypothetical-protein	unknown	unknown	unknown
NC_011260.1|WP_012539699.1|34476_35052_-|DUF226-domain-containing-protein	unknown	unknown	gnl|CDD|308504
NC_011260.1|WP_012539695.1|28787_29780_-|vlp-protein,-delta-subfamily	unknown	unknown	gnl|CDD|376417
NC_011260.1|WP_156768719.1|25001_25211_+|hypothetical-protein	unknown	unknown	unknown
NC_011260.1|WP_012539700.1|35124_35808_-|hypothetical-protein	unknown	unknown	unknown
NC_011260.1|WP_012539731.1|21287_21707_-|Mlp-family-lipoprotein	unknown	unknown	gnl|CDD|308750
NC_011260.1|WP_012539589.1|40851_41463_+|vsp-protein	unknown	unknown	gnl|CDD|366644
NC_011260.1|WP_049752042.1|30386_31397_-|Variable-large-protein-5	unknown	unknown	gnl|CDD|376417

rpsblast for functional proteins

Protein	Function_ID	Function_description	E-value
NC_011260.1|WP_049752042.1|30386_31397_-|Variable-large-protein-5	gnl|CDD|376417	pfam00921, Lipoprotein_2, Borrelia lipoprotein. This family of lipoproteins is found in Borrelia spirochetes. The function of these proteins is uncertain.	9.7368e-65
NC_011260.1|WP_012539705.1|42974_44087_+|vlp-protein,-delta-subfamily	gnl|CDD|376417	pfam00921, Lipoprotein_2, Borrelia lipoprotein. This family of lipoproteins is found in Borrelia spirochetes. The function of these proteins is uncertain.	7.54931e-66
NC_011260.1|WP_012539730.1|20103_20856_-|site-specific-integrase	gnl|CDD|271175	cd00397, DNA_BRE_C, DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine based site-specific recombinases (integrases) that share the same fold in their catalytic domain containing conserved active site residues. The best-studied members of this diverse superfamily include Human topoisomerase I, the bacteriophage lambda integrase, the bacteriophage P1 Cre recombinase, the yeast Flp recombinase, and the bacterial XerD/C recombinases. Their overall reaction mechanism is essentially identical and involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. The enzymes differ in that topoisomerases cleave and then rejoin the same 5' and 3' termini, whereas a site-specific recombinase transfers a 5' hydroxyl generated by recombinase cleavage to a new 3' phosphate partner located in a different duplex region. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.	4.21614e-05
NC_011260.1|WP_012539698.1|33739_34501_-|ParA-family-protein	gnl|CDD|224113	COG1192, Soj, ATPases involved in chromosome partitioning [Cell division and chromosome partitioning].	3.87227e-50
NC_011260.1|WP_156768717.1|38597_39194_+|hypothetical-protein	gnl|CDD|366644	pfam01441, Lipoprotein_6, Lipoprotein. Members of this family are lipoproteins that are probably involved in evasion of the host immune system by pathogens.	3.3456e-50
NC_011260.1|WP_012539703.1|39439_40534_+|vlp-protein,-delta-subfamily	gnl|CDD|376417	pfam00921, Lipoprotein_2, Borrelia lipoprotein. This family of lipoproteins is found in Borrelia spirochetes. The function of these proteins is uncertain.	9.43493e-64
NC_011260.1|WP_012539589.1|40851_41463_+|vsp-protein	gnl|CDD|366644	pfam01441, Lipoprotein_6, Lipoprotein. Members of this family are lipoproteins that are probably involved in evasion of the host immune system by pathogens.	3.22084e-49
NC_011260.1|WP_012539699.1|34476_35052_-|DUF226-domain-containing-protein	gnl|CDD|308504	pfam02890, DUF226, Borrelia family of unknown function DUF226. This family of proteins are found in Borrelia. The proteins are about 190 amino acids long and have no known function.	3.82601e-36
NC_011260.1|WP_012539695.1|28787_29780_-|vlp-protein,-delta-subfamily	gnl|CDD|376417	pfam00921, Lipoprotein_2, Borrelia lipoprotein. This family of lipoproteins is found in Borrelia spirochetes. The function of these proteins is uncertain.	2.50608e-65
NC_011260.1|WP_012539731.1|21287_21707_-|Mlp-family-lipoprotein	gnl|CDD|308750	pfam03304, Mlp, Mlp lipoprotein family. The Mlp (for Multicopy Lipoprotein) family of lipoproteins is found in Borrelia species. This family were previously known as 2.9 lipoprotein genes. These surface expressed genes may represent new candidate vaccinogens for Lyme disease. Members of this family generally are downstream of four ORFs called A,B,C and D that are involved in hemolytic activity.	9.69462e-19
NC_011260.1|WP_041178258.1|27274_27565_-|hypothetical-protein	gnl|CDD|376417	pfam00921, Lipoprotein_2, Borrelia lipoprotein. This family of lipoproteins is found in Borrelia spirochetes. The function of these proteins is uncertain.	9.00818e-13
NC_011260.1|WP_041178241.1|41926_42817_+|Variable-large-protein-18	gnl|CDD|376417	pfam00921, Lipoprotein_2, Borrelia lipoprotein. This family of lipoproteins is found in Borrelia spirochetes. The function of these proteins is uncertain.	2.50466e-43

Protein sequences

>NC_011260.1|WP_049752042.1|30386_31397_-|Variable-large-protein-5
MMGCNSGVLEAEQGKNKFLQSLVNVSNEFLNVFTSFWEMVGSVLGLNVNSKKSDVGKYFRTVQETVQGIKDGLNKIVNEMKEEKNPNAEATESAVKTLVESKLDKIIGGAKEASEAIGDASDPIGNVSDQNAGAVGIEVDKLVKGLKSIVDIVLKEGKNDAGDDKKASDGSTSRTSGNAGDGEAGKLFASANAGTAENAKKSAADAAKAVGAVTCADILQSMIEDNGEVVKLASSNAAVAAVNANKKDGVIAGGIALRAMAKDGKFAGSSDAASVDAKKTVKGAAVSALIKALDTLTVAIRKTVDLGLKNVKEAMKINANATSVLPDKDVSDAKNQ
>NC_011260.1|WP_156768714.1|29969_30140_+|hypothetical-protein
MAEQKLKIPVGLLFWYLLIHLNLNGNTIKNDTSHSDGKLKNLDVKDLPFSTTKPSK
>NC_011260.1|WP_156768713.1|29751_29907_-|hypothetical-protein
MLLIIDSCIDVVCCILLYFKDKLEEKKEVMQIENRIKRVVGVNDDDGGDGM
>NC_011260.1|WP_012539695.1|28787_29780_-|vlp-protein,-delta-subfamily
MMMMVVMGCNSGGVKDPEKVFLSEMVNLGKGFLEVFVSFGDMITGTLGIKAETKKSEIGGYFSKIAETMKEVREKLEKILEENGKYEKVREKVGEFIGKISKIEEGAKEASKGANGDIIGNAKKGEDAVAASKDSVVSLVKGIKAIVEIVLGEKEGNAGNNIITEDKKDIGKLFGKKDGDRAQEAEAAKVSTSIGAVSGADILKAIAKSKENPVTDSANGIEKATDAAEIAVVPSVDDKKEIKEDTAKKDAIIAAGIALRGMAKEGKFAAKKDEDKSAHAVNGAVSSAVNKVLSTLVIAIRNTVDKGLKEINEVLGEIKQGEGVEAKVSK
>NC_011260.1|WP_041178258.1|27274_27565_-|hypothetical-protein
MVAETLGIKADTKKEEIRKYFSKIENTVKIVKGKLSKILEEHGHYGKVKERVEEFIGKIGKIELVAKIAASGANGAGAIGVLLRMSLQRGCRFNKC
>NC_011260.1|WP_156768719.1|25001_25211_+|hypothetical-protein
MQYLCILYEYYSYKSSFIDFFICFLKKVAKKKEKNKEVKKIKEGKREEEVREYERGEKMRVRRVVKVVK
>NC_011260.1|WP_155806533.1|24363_24696_-|hypothetical-protein
MVIIVPNIQACNFNLLLSSILFNSISFLTISILLSSSVNLASILVSRSLISDFRLFSTVSILLSSSVNLISILIFKLFSTVSILVSSSLISAFKPRSNISSLRLKLLSKY
>NC_011260.1|WP_083764333.1|21869_22514_-|hypothetical-protein
MLYKKNILILCITLFLYGCNANKHKEPPIVLVNPSASIMSTEEKNKFYLLIYAFDILKQDKLLSKQDTLPSHQNVPTTEVTSLLNKYDRFRTWILDDAHVQEQKKLANSFHDAYTFLINKKNELASNQDIKQYIEGAFIYYSNDKYKGNHKYDPSLYGKIDSNDPNYVDLFFDNLITTVIGKYDTNEEIFQKLKEELQNKESDTYKRLLALWTN
>NC_011260.1|WP_012539731.1|21287_21707_-|Mlp-family-lipoprotein
MKITNFTLILLLLMSSCKQDNNTNKGIKSRNKRDLEQQVEAQKTPEEALREKLNDNQRKGLDFLKDALSNSESEFNKFLNADESKIKDALDHIQSELAKCTRDNAAEQKETFKQVVKGALQAGLDNFKSSADSTCGNNQ
>NC_011260.1|WP_012539730.1|20103_20856_-|site-specific-integrase
MKEYEILKAKIKELKKQNSILLKETRQYKKELLQTKSNTKSKSIPIRFYLNDKTIRLVKKSIDKLKQIDPISGWFVHILSITGCRGVEIQNIRLDDIVRETNNNSDVFYNLRVNVAKKRSNICIREVVISKSEFESIEEIHKLNFKNKGQDSRRTYLFQKSKHRFKDNRINISKISKQFKELLTKSRFKHPKSLHICRNIFIATLKSKGYNSFKIKELMKYASTSEIDNVYGLSKASKLKAYHDIKDGFK
>NC_011260.1|WP_156768715.1|32487_32691_-|hypothetical-protein
MLFIIIIIIIIIIIIDFLILRDKRIKGNDNAKKLKKTKDEDEGGNDFLGVFTFVGDMVDSVLKCIKF
>NC_011260.1|WP_012539698.1|33739_34501_-|ParA-family-protein
MDKKEPEIISIANIKGGVGKSVLTIIFSYILKDMGKKILAIDFDPQNSLTSYFFKYVKSLSKNNIYALLKERPNFNLDKYLTKIHEFIYLIPSHPNLHLFNKENTSYKELFLKHRLKNVLPDYNFDYVIIDTPPNLDSLLDNALNITDKLIIPIQVERFSVESLSILMKYIDKISMYVGKDIDISIVENQFMKNRNTFMNIENSIKDKYGKYIKGKIHFSNKIKVFANDLKEPNFKEAYYQECLESLRNILGI
>NC_011260.1|WP_012539699.1|34476_35052_-|DUF226-domain-containing-protein
MNCSLRRLKTKMIEIRLKDNKNDVFNEIEKIDKRTLYHTKIFNDFFAFGISKKEENKFFISLRNLFNKGKRSRFHLFSIKENIDDKFLGMFYGFKRLRKPIYFKYKNNNTKDIETVPMYKIYYIEFRFKRGSIFCYIRAIHSLTKKEKFNKNYAQNLLKRIINLEYEVYEFYNETPIAGGIITKWIKRNQK
>NC_011260.1|WP_012539700.1|35124_35808_-|hypothetical-protein
MKNTSHEVKIHTQPLKKYHNRYYKILSILKYFQKNLLRYNQTIILNALNRFLAKDELKIITLRTLRKDLALLCNKGIIKKTLLRLGEGNGSYIRYAVNKYSTNNLKRLLDDKQTIIEHDANEIYEFTKKTQQKYYLKNKRLNIHKHKNATKNVSHNITNNKEIKNKKNKKEKMKKIEKQTIDTNYMIKNVAKWKTMRYLDKIEENANKKRYEDSMIKTKEWLKNLKN
>NC_011260.1|WP_041178252.1|36387_36735_-|hypothetical-protein
MYIGFTSDALIASAIPSSCFTIAFRQGTKDFCSFEKINLYGSIKIETTSAIIKTIKSFLRIFTDLLTEVSLQLNPSYNQDLIYVSLFHNLILIKHLLLHDHVKVVLNKKIEIENS
>NC_011260.1|WP_156768717.1|38597_39194_+|hypothetical-protein
MGCNSGGVSGEGTGGDGKVRKGDGSVIDLKVVGEKIKSAVEFAGKVKEVHVLVKSVDELAKAIGKKIKDSDQELDALDGKNGSLMAGVFQIILTVKGGLTKLETDSSSVTEKIKTKITDAKTKSVNFLKKLQEKNTDLGKEDVSNADAEKAIDYVKQKDGDKGAKELGELNKAVDELLVSSNKIVSDAIAELVVKPIT
>NC_011260.1|WP_012539703.1|39439_40534_+|vlp-protein,-delta-subfamily
MKEKKGKGNIEESISEYREKGREKRSKRGLKGIMVLVMVMMGCNSGGVSGGVKDPEKVFLSEMVNLGKGFLDVFVSFGDMITGTLGIKADTKKSDIGKYFTDIEKTMISVKEKLQTEVAKNGNYVKIKEVVDQFITGTLDKIAEGAKKASSGAAGGAVLGSSVKNEDAAPGEVASVNALIEGIKTIVAVVLKNEGNADANKTTDDDKKDIGKLFSKASDNGSEAEAAKANASIGAVSGVDILQAIAKSDVVSAAGKDIDQAKDVAEIATAKNDSGTKETKQKDAVISGGIALRSMAKGGKFATKNEDKAVPAINGVAASAVGKTLSALIIAIRNTVDSELKKINEVLATVKQEDKSSEATASVQ
>NC_011260.1|WP_012539589.1|40851_41463_+|vsp-protein
MVVVMVMGCNSGGVSGGEEGQAKKGDGSVIDLKVVGEKIKSAVEFVEKVKEVHTLVKSVDELAKAIGKKVGAAGLGDIADHNGSLIAGAYSVIEAVDAKLATLAGKVGLSSDLSTKVNDAKVKSTAFLNKLKSSTAEFDKEGASDADSKKALLKDNADKTKGRDELDKLNTSIDILMASSKKELDDSIKNLIEEPVRPDTVGN
>NC_011260.1|WP_041178241.1|41926_42817_+|Variable-large-protein-18
MSGSLGFSVNKETKKNEVGEYFNKLGVKLGEASAELEKVAVKASADVDKEGVLNKGIRAAVDTAKTTLSGLKGHLESLEGIGGDKKVIDVAKNQNGVAASTEELKKAYKALKGIVEIATKQGVKEASASDVTLGQASIGVDAKSGAKVLTTGANAGAAVGEKAALIVSSVRGEEMLASIVNLTEDKAKKITANATAETTPLEFAVGGSTADNLAQDVVKAGAVAGGIALRALVKEGKLATHNDDNDYKAVQSSGVSAVNKLLVAVEKMVKKTVKNVIEGVKKEVDKARDPKASGNQ
>NC_011260.1|WP_012539705.1|42974_44087_+|vlp-protein,-delta-subfamily
MKKMKEEGIKGIRGIRGIKGKEELGKKEGRRNNRIVLGMMMVMMGCNSGGVSGGVRDPEKVFLSEMVNLGKGFLDVFVSFGDMITGTLGIKADTKKSEIGGYFTKIAETMKGVREKLGKILEENGKYEKVKEKVEEFIGEIGKIEAGAQEAAKGATGEAIGNAASAGHGATPANRESVVSLVKGIKIIVDVVLKGKGNAEATKTGDDKKDIGNLFADDNGKGDAKEENIAKASASIGAVIGADILQAIAKSKEDPKDYATDGIEKATDAAEIAIAKAVNAKKEIKEESAKKDAVIAAGIALRGMAKDGKFAANQSAKDANAVNGAVASAVNKVLSTLTIAIRNTVDLGLKEINKVLGEIKEGEGFEVKTN

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NC_011260_1	1.1|32018|43|NC_011260|CRISPRCasFinder	32018-32060	43	NC_011258	Borrelia recurrentis A1 plasmid pl37, complete sequence	16401-16443	0	1.0
NC_011260_1	1.1|32018|43|NC_011260|CRISPRCasFinder	32018-32060	43	NC_011260	Borrelia recurrentis A1 plasmid pl53, complete sequence	32018-32060	0	1.0
NC_011260_1	1.1|32018|43|NC_011260|CRISPRCasFinder	32018-32060	43	NC_011249	Borrelia duttonii Ly plasmid pl36, complete sequence	26666-26708	10	0.767

1. spacer 1.1|32018|43|NC_011260|CRISPRCasFinder matches to NC_011258 (Borrelia recurrentis A1 plasmid pl37, complete sequence) position: , mismatch: 0, identity: 1.0

caagatagaactcaataataaaattgataaagtagaagataag	CRISPR spacer
caagatagaactcaataataaaattgataaagtagaagataag	Protospacer
*******************************************

2. spacer 1.1|32018|43|NC_011260|CRISPRCasFinder matches to NC_011260 (Borrelia recurrentis A1 plasmid pl53, complete sequence) position: , mismatch: 0, identity: 1.0

caagatagaactcaataataaaattgataaagtagaagataag	CRISPR spacer
caagatagaactcaataataaaattgataaagtagaagataag	Protospacer
*******************************************

3. spacer 1.1|32018|43|NC_011260|CRISPRCasFinder matches to NC_011249 (Borrelia duttonii Ly plasmid pl36, complete sequence) position: , mismatch: 10, identity: 0.767

caagatagaactcaataataaaattgataaagtagaagataag	CRISPR spacer
agaaaataatttcaatagtaaaattgataaaatagaagataag	Protospacer
 .*.*  .* .******.*************.***********

2. NC_011258

CRISPR-Cas detection and classification

Crispr_ID: NC_011258_1

• CRISPR_ID: NC_011258_1
• CRISPR_location: 16378-16466
• CRISPR_type: Orphan
• Repeat_type: NA
• Spacer_info: 1 spacers

Consensus repeat of NC_011258_1

Consensus_repeat	Method
CTAAAATCTGAAATCACCTCTAC	CRISPRCasFinder

spacers of NC_011258_1

>1.1|16401|43|NC_011258|CRISPRCasFinder
CAAGATAGAACTCAATAATAAAATTGATAAAGTAGAAGATAAG

CRISPR arrays and Neighbor proteins around NC_011258_1

CRISPR arrays

The CRISPR arrays of NC_011258_1

>merge|NC_011258|1|16378-16466|CRISPRCasFinder
CTAAAATCTGAAATCACCTCTACCAAGATAGAACTCAATAATAAAATTGATAAAGTAGAAGATAAGCTAAAATCTGAAATCATCTCTAC

>NC_011258|1|1|16378-16466|CRISPRCasFinder
CTAAAATCTGAAATCACCTCTAC	CAAGATAGAACTCAATAATAAAATTGATAAAGTAGAAGATAAG
CTAAAATCTGAAATCATCTCTAC

Neighbor Proteins Overview

Protein	Signature genes	Signature genes Name	Protein_function
NC_011258.1|WP_041178252.1|20770_21118_-|hypothetical-protein	unknown	unknown	unknown
NC_011258.1|WP_012539695.1|13170_14163_-|vlp-protein,-delta-subfamily	unknown	unknown	gnl|CDD|376417
NC_011258.1|WP_012539705.1|27358_28471_+|vlp-protein,-delta-subfamily	unknown	unknown	gnl|CDD|376417
NC_011258.1|WP_012539698.1|18122_18884_-|ParA-family-protein	unknown	unknown	gnl|CDD|224113
NC_011258.1|WP_012539690.1|6190_7024_-|FAD-dependent-thymidylate-synthase	unknown	unknown	gnl|CDD|234847
NC_011258.1|WP_012539699.1|18859_19435_-|DUF226-domain-containing-protein	unknown	unknown	gnl|CDD|308504
NC_011258.1|WP_012539694.1|10545_11742_+|ferrous-iron-transporter-A	unknown	unknown	unknown
NC_011258.1|WP_156768714.1|14352_14523_+|hypothetical-protein	unknown	unknown	unknown
NC_011258.1|WP_041178241.1|26310_27201_+|Variable-large-protein-18	unknown	unknown	gnl|CDD|376417
NC_011258.1|WP_156768713.1|14134_14290_-|hypothetical-protein	unknown	unknown	unknown
NC_011258.1|WP_012539693.1|9821_10415_+|hypothetical-protein	unknown	unknown	unknown
NC_011258.1|WP_156768712.1|8347_9274_+|P12-family-lipoprotein	unknown	unknown	unknown
NC_011258.1|WP_041178248.1|3707_4097_-|hypothetical-protein	unknown	unknown	unknown
NC_011258.1|WP_012539591.1|28748_29330_+|vsp-protein	unknown	unknown	gnl|CDD|366644
NC_011258.1|WP_012539700.1|19507_20191_-|hypothetical-protein	unknown	unknown	unknown
NC_011258.1|WP_012539703.1|23822_24917_+|vlp-protein,-delta-subfamily	unknown	unknown	gnl|CDD|376417
NC_011258.1|WP_156768715.1|16870_17074_-|hypothetical-protein	unknown	unknown	unknown
NC_011258.1|WP_049752037.1|14769_15780_-|Variable-large-protein-5	unknown	unknown	gnl|CDD|376417
NC_011258.1|WP_156768717.1|22980_23577_+|hypothetical-protein	unknown	unknown	gnl|CDD|366644
NC_011258.1|WP_041178250.1|7262_8045_-|hypothetical-protein	unknown	unknown	unknown

rpsblast for functional proteins

Protein	Function_ID	Function_description	E-value
NC_011258.1|WP_049752037.1|14769_15780_-|Variable-large-protein-5	gnl|CDD|376417	pfam00921, Lipoprotein_2, Borrelia lipoprotein. This family of lipoproteins is found in Borrelia spirochetes. The function of these proteins is uncertain.	6.1547e-65
NC_011258.1|WP_012539705.1|27358_28471_+|vlp-protein,-delta-subfamily	gnl|CDD|376417	pfam00921, Lipoprotein_2, Borrelia lipoprotein. This family of lipoproteins is found in Borrelia spirochetes. The function of these proteins is uncertain.	7.54931e-66
NC_011258.1|WP_012539690.1|6190_7024_-|FAD-dependent-thymidylate-synthase	gnl|CDD|234847	PRK00847, thyX, FAD-dependent thymidylate synthase; Reviewed.	9.1396e-83
NC_011258.1|WP_041178241.1|26310_27201_+|Variable-large-protein-18	gnl|CDD|376417	pfam00921, Lipoprotein_2, Borrelia lipoprotein. This family of lipoproteins is found in Borrelia spirochetes. The function of these proteins is uncertain.	2.50466e-43
NC_011258.1|WP_012539703.1|23822_24917_+|vlp-protein,-delta-subfamily	gnl|CDD|376417	pfam00921, Lipoprotein_2, Borrelia lipoprotein. This family of lipoproteins is found in Borrelia spirochetes. The function of these proteins is uncertain.	9.43493e-64
NC_011258.1|WP_012539698.1|18122_18884_-|ParA-family-protein	gnl|CDD|224113	COG1192, Soj, ATPases involved in chromosome partitioning [Cell division and chromosome partitioning].	3.87227e-50
NC_011258.1|WP_012539695.1|13170_14163_-|vlp-protein,-delta-subfamily	gnl|CDD|376417	pfam00921, Lipoprotein_2, Borrelia lipoprotein. This family of lipoproteins is found in Borrelia spirochetes. The function of these proteins is uncertain.	2.50608e-65
NC_011258.1|WP_012539591.1|28748_29330_+|vsp-protein	gnl|CDD|366644	pfam01441, Lipoprotein_6, Lipoprotein. Members of this family are lipoproteins that are probably involved in evasion of the host immune system by pathogens.	1.27605e-59
NC_011258.1|WP_156768717.1|22980_23577_+|hypothetical-protein	gnl|CDD|366644	pfam01441, Lipoprotein_6, Lipoprotein. Members of this family are lipoproteins that are probably involved in evasion of the host immune system by pathogens.	3.3456e-50
NC_011258.1|WP_012539699.1|18859_19435_-|DUF226-domain-containing-protein	gnl|CDD|308504	pfam02890, DUF226, Borrelia family of unknown function DUF226. This family of proteins are found in Borrelia. The proteins are about 190 amino acids long and have no known function.	3.82601e-36

Protein sequences

>NC_011258.1|WP_049752037.1|14769_15780_-|Variable-large-protein-5
MMGCNSGVLEAEQGKNKFLQSLVNVSNEFLNVFTSFWEMVGSVLGLNVNSKKSDVGKYFRTVQETVQGIKDGLNKIVNEMKEEKNPNAEATESAVKTLVESKLDKIIGGAKEASEAIGDASDPIGNVSDQNAGAVGIEVDKLVKGLKSIVDIVLKEGKNDAGDDKKASDGSTSRTGGNAGDGEAGKLFASANAGTAENAKKSAADAAKAVGAVTCADILQSMIEDNGEVVKLASSNAAVAAVNANKKDGVIAGGIALRAMAKDGKFAGSSDAASVDAKKTVKGAAVSALIKALDTLTVAIRKTVDLGLKNVKEAMKINANATSVLPDKDVSDAKNQ
>NC_011258.1|WP_156768714.1|14352_14523_+|hypothetical-protein
MAEQKLKIPVGLLFWYLLIHLNLNGNTIKNDTSHSDGKLKNLDVKDLPFSTTKPSK
>NC_011258.1|WP_156768713.1|14134_14290_-|hypothetical-protein
MLLIIDSCIDVVCCILLYFKDKLEEKKEVMQIENRIKRVVGVNDDDGGDGM
>NC_011258.1|WP_012539695.1|13170_14163_-|vlp-protein,-delta-subfamily
MMMMVVMGCNSGGVKDPEKVFLSEMVNLGKGFLEVFVSFGDMITGTLGIKAETKKSEIGGYFSKIAETMKEVREKLEKILEENGKYEKVREKVGEFIGKISKIEEGAKEASKGANGDIIGNAKKGEDAVAASKDSVVSLVKGIKAIVEIVLGEKEGNAGNNIITEDKKDIGKLFGKKDGDRAQEAEAAKVSTSIGAVSGADILKAIAKSKENPVTDSANGIEKATDAAEIAVVPSVDDKKEIKEDTAKKDAIIAAGIALRGMAKEGKFAAKKDEDKSAHAVNGAVSSAVNKVLSTLVIAIRNTVDKGLKEINEVLGEIKQGEGVEAKVSK
>NC_011258.1|WP_012539694.1|10545_11742_+|ferrous-iron-transporter-A
MKFKTRYLSLGLLFSFISCDLIFDDKIKEKSLILFDKVNAVLDTSGQSVENVRSPKQKRKIVKKRLSTSGKKSANSNLAQDVLSDDITSGLQYDVKRDNAHMQKGLVLKDSLEKNDVFLNEKDLNVILSNTTSEFSKEDIQKQKYQDIESKNSITEISTGYNLDSHSRVVNGVLTSLNGESGELKETIESNAIEVNFTIDSDLGPKHISGSNTIAYTDIVEEEDYDQYYWEDDEDSWEDKELLKEEVRLDNRYKSYLESVRYNVDSAIDTIDKIYNNYILFSTKQTQMYSTRLNSVTKAKAKEEAKYFIKEKLERDLKTLLNYIQVSAKTATNFVYIKEIHAKQKLDKLEIEMKSLISKVQGQSNSYEAYKAIVSSILQMKDSLKIVQSSTDKNGPWY
>NC_011258.1|WP_012539693.1|9821_10415_+|hypothetical-protein
MNFVYSRVVLIFCIICFASCGLLKTKNKSRLLQDLKNIDLKSDWKDNLKLNNDELGILTFFIDALKDELPKTRASAAHFNIYLKGDLSKVEEYVKRFFLKLHDKGKVKELLGYIKYGRDNSPNVEGRDEDLGMDAKEHYRIEVRLASVFDKYFMFLNPPSSGPSAAPSAKVPFVGRDPENEVFNEIKRVCYEYRGSH
>NC_011258.1|WP_156768712.1|8347_9274_+|P12-family-lipoprotein
MKKNVLLSAFMLTLLFLLSCDLDVLNSLLIEAREKFLDENKNNKGLHLKDENQKDQEDVIIGFEGHKSMQQVVPGVGGQPVVSMKPVNSEISVLRWYPYNQEEKIEIKEEDLIPSTEDEKRAQAEIEKVKSVFKDFNFDQLIEEARKLKDEYVQLESSFYDTLLKLQSKIGSYRPLNRNSRIKKQELIRIKKQELMQVYNQLNNERNDIDMLMIKVDSGFNDRSSARYFFEKSQKTLKEAITERLKNERRNRWAKKGNIDVIARRARSEAESSLNQLESASSKIGEVMERKEEIEELIEGAKSVLGGF
>NC_011258.1|WP_041178250.1|7262_8045_-|hypothetical-protein
MKRRYYLLICTLSVLMMLYCKNGRNNSEATDSILARDQSNKAETKPITPEEAYFELEIGVELLKDSLNFKPEVFDEYSFKDIFEIALGERNTEEFRHSVYYNLKYDTQTLNNLKTIADILMSKSNSDVKNFVLLIESLSHLPSYEFEVIDEQGKILNNNTLTALASSKDLEGLNELADMLYNMILQREQRFLTIQEIIKDASKSDTKEILLKKIEPLIKLDVMLNDKNCNNVKLCLDSKTLSDFPNKISDKVNNLMQQMK
>NC_011258.1|WP_012539690.1|6190_7024_-|FAD-dependent-thymidylate-synthase
MNFKIEKENLLNIEHKVLDKGFIKLVDFMGSDERIIQAARISYRGESIKREDRELIDYLIRNEHTSPLEQVVFTFYIKAPIFVARQWMRHRTARINEVSSSYSLIREEFYVPLEENMNTQNVTDNQDNKKTECEFREEILNNLKENQKSSYKLYQNMINHNISKEISRIVLPLSLYTEWYWQIDLNNLFHFIKLRSALNASKEVAEHSSKEMREYAKVLLEIIEKIVPIATKSFKNHILKGCKLSYEEIVAIADALDISKLKLDANALKRLQDKLNI
>NC_011258.1|WP_041178248.1|3707_4097_-|hypothetical-protein
MLEGYFPPSTQYEELMLPETNKPFSFEKLDFVTYEVYSKNVNLHSLLTENTKNLRIVRINKANHLYNNLVKNIKNFILNLNKGRNLLAKRKVNLTNYNNVLLDKSKLASGIMITNFNDDGTKLFIKKFL
>NC_011258.1|WP_156768715.1|16870_17074_-|hypothetical-protein
MLFIIIIIIIIIIIIDFLILRDKRIKGNDNAKKLKKTKDEDEGGNDFLGVFTFVGDMVDSVLKCIKF
>NC_011258.1|WP_012539698.1|18122_18884_-|ParA-family-protein
MDKKEPEIISIANIKGGVGKSVLTIIFSYILKDMGKKILAIDFDPQNSLTSYFFKYVKSLSKNNIYALLKERPNFNLDKYLTKIHEFIYLIPSHPNLHLFNKENTSYKELFLKHRLKNVLPDYNFDYVIIDTPPNLDSLLDNALNITDKLIIPIQVERFSVESLSILMKYIDKISMYVGKDIDISIVENQFMKNRNTFMNIENSIKDKYGKYIKGKIHFSNKIKVFANDLKEPNFKEAYYQECLESLRNILGI
>NC_011258.1|WP_012539699.1|18859_19435_-|DUF226-domain-containing-protein
MNCSLRRLKTKMIEIRLKDNKNDVFNEIEKIDKRTLYHTKIFNDFFAFGISKKEENKFFISLRNLFNKGKRSRFHLFSIKENIDDKFLGMFYGFKRLRKPIYFKYKNNNTKDIETVPMYKIYYIEFRFKRGSIFCYIRAIHSLTKKEKFNKNYAQNLLKRIINLEYEVYEFYNETPIAGGIITKWIKRNQK
>NC_011258.1|WP_012539700.1|19507_20191_-|hypothetical-protein
MKNTSHEVKIHTQPLKKYHNRYYKILSILKYFQKNLLRYNQTIILNALNRFLAKDELKIITLRTLRKDLALLCNKGIIKKTLLRLGEGNGSYIRYAVNKYSTNNLKRLLDDKQTIIEHDANEIYEFTKKTQQKYYLKNKRLNIHKHKNATKNVSHNITNNKEIKNKKNKKEKMKKIEKQTIDTNYMIKNVAKWKTMRYLDKIEENANKKRYEDSMIKTKEWLKNLKN
>NC_011258.1|WP_041178252.1|20770_21118_-|hypothetical-protein
MYIGFTSDALIASAIPSSCFTIAFRQGTKDFCSFEKINLYGSIKIETTSAIIKTIKSFLRIFTDLLTEVSLQLNPSYNQDLIYVSLFHNLILIKHLLLHDHVKVVLNKKIEIENS
>NC_011258.1|WP_156768717.1|22980_23577_+|hypothetical-protein
MGCNSGGVSGEGTGGDGKVRKGDGSVIDLKVVGEKIKSAVEFAGKVKEVHVLVKSVDELAKAIGKKIKDSDQELDALDGKNGSLMAGVFQIILTVKGGLTKLETDSSSVTEKIKTKITDAKTKSVNFLKKLQEKNTDLGKEDVSNADAEKAIDYVKQKDGDKGAKELGELNKAVDELLVSSNKIVSDAIAELVVKPIT
>NC_011258.1|WP_012539703.1|23822_24917_+|vlp-protein,-delta-subfamily
MKEKKGKGNIEESISEYREKGREKRSKRGLKGIMVLVMVMMGCNSGGVSGGVKDPEKVFLSEMVNLGKGFLDVFVSFGDMITGTLGIKADTKKSDIGKYFTDIEKTMISVKEKLQTEVAKNGNYVKIKEVVDQFITGTLDKIAEGAKKASSGAAGGAVLGSSVKNEDAAPGEVASVNALIEGIKTIVAVVLKNEGNADANKTTDDDKKDIGKLFSKASDNGSEAEAAKANASIGAVSGVDILQAIAKSDVVSAAGKDIDQAKDVAEIATAKNDSGTKETKQKDAVISGGIALRSMAKGGKFATKNEDKAVPAINGVAASAVGKTLSALIIAIRNTVDSELKKINEVLATVKQEDKSSEATASVQ
>NC_011258.1|WP_041178241.1|26310_27201_+|Variable-large-protein-18
MSGSLGFSVNKETKKNEVGEYFNKLGVKLGEASAELEKVAVKASADVDKEGVLNKGIRAAVDTAKTTLSGLKGHLESLEGIGGDKKVIDVAKNQNGVAASTEELKKAYKALKGIVEIATKQGVKEASASDVTLGQASIGVDAKSGAKVLTTGANAGAAVGEKAALIVSSVRGEEMLASIVNLTEDKAKKITANATAETTPLEFAVGGSTADNLAQDVVKAGAVAGGIALRALVKEGKLATHNDDNDYKAVQSSGVSAVNKLLVAVEKMVKKTVKNVIEGVKKEVDKARDPKASGNQ
>NC_011258.1|WP_012539705.1|27358_28471_+|vlp-protein,-delta-subfamily
MKKMKEEGIKGIRGIRGIKGKEELGKKEGRRNNRIVLGMMMVMMGCNSGGVSGGVRDPEKVFLSEMVNLGKGFLDVFVSFGDMITGTLGIKADTKKSEIGGYFTKIAETMKGVREKLGKILEENGKYEKVKEKVEEFIGEIGKIEAGAQEAAKGATGEAIGNAASAGHGATPANRESVVSLVKGIKIIVDVVLKGKGNAEATKTGDDKKDIGNLFADDNGKGDAKEENIAKASASIGAVIGADILQAIAKSKEDPKDYATDGIEKATDAAEIAIAKAVNAKKEIKEESAKKDAVIAAGIALRGMAKDGKFAANQSAKDANAVNGAVASAVNKVLSTLTIAIRNTVDLGLKEINKVLGEIKEGEGFEVKTN
>NC_011258.1|WP_012539591.1|28748_29330_+|vsp-protein
MGCNSGGVGEGSQAKATKADGSVIDLKVVSKKIKDAVEFAEKVKEVHVLVKSVDELAKAIGKKIDANGSLAAEAGQNGSLIAGVHSVISAVNTKLKGLETTDNISDELKGKIVAVETEGKAFLDKLKSGNAELGKKDASDDDTKKAIDRIGKKDGDKGVAELIKLNTAIDALLKLSTDAVEASIGELTVKPAV

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NC_011258_1	1.1|16401|43|NC_011258|CRISPRCasFinder	16401-16443	43	NC_011258	Borrelia recurrentis A1 plasmid pl37, complete sequence	16401-16443	0	1.0
NC_011258_1	1.1|16401|43|NC_011258|CRISPRCasFinder	16401-16443	43	NC_011260	Borrelia recurrentis A1 plasmid pl53, complete sequence	32018-32060	0	1.0
NC_011258_1	1.1|16401|43|NC_011258|CRISPRCasFinder	16401-16443	43	NC_011249	Borrelia duttonii Ly plasmid pl36, complete sequence	26666-26708	10	0.767

1. spacer 1.1|16401|43|NC_011258|CRISPRCasFinder matches to NC_011258 (Borrelia recurrentis A1 plasmid pl37, complete sequence) position: , mismatch: 0, identity: 1.0

caagatagaactcaataataaaattgataaagtagaagataag	CRISPR spacer
caagatagaactcaataataaaattgataaagtagaagataag	Protospacer
*******************************************

2. spacer 1.1|16401|43|NC_011258|CRISPRCasFinder matches to NC_011260 (Borrelia recurrentis A1 plasmid pl53, complete sequence) position: , mismatch: 0, identity: 1.0

caagatagaactcaataataaaattgataaagtagaagataag	CRISPR spacer
caagatagaactcaataataaaattgataaagtagaagataag	Protospacer
*******************************************

3. spacer 1.1|16401|43|NC_011258|CRISPRCasFinder matches to NC_011249 (Borrelia duttonii Ly plasmid pl36, complete sequence) position: , mismatch: 10, identity: 0.767

caagatagaactcaataataaaattgataaagtagaagataag	CRISPR spacer
agaaaataatttcaatagtaaaattgataaaatagaagataag	Protospacer
 .*.*  .* .******.*************.***********

3. NC_011255

4. NC_011253

CRISPR-Cas detection and classification

Crispr_ID: NC_011253_1

• CRISPR_ID: NC_011253_1
• CRISPR_location: 22762-22979
• CRISPR_type: Orphan
• Repeat_type: NA
• Spacer_info: 2 spacers

Consensus repeat of NC_011253_1

Consensus_repeat	Method
AAAATTAGATATTAAAGAACTTGATATTAAGATAGATACTGTTGAAAATAACTTA	PILER-CR

spacers of NC_011253_1

>1.1|22817|32|NC_011253|PILER-CR
AATAATAAAATCGACAGAGTAAGGGACGAATT
>1.2|22904|32|NC_011253|PILER-CR
AATAATAAAATCGACAGAGTAAGGAACGAATT

CRISPR arrays and Neighbor proteins around NC_011253_1

CRISPR arrays

The CRISPR arrays of NC_011253_1

>merge|NC_011253|1|22762-22979|PILER-CR
TTACAGAACTTGATATTAAGATAGATACTGTTGAAAATAACTTAAATAATAAAATCGACAGAGTAAGGGACGAATTAAAATTAGATATTAAAGAACTTGATATTAAGATAGATACTGTTGAAAATAACTTAAATAATAAAATCGACAGAGTAAGGAACGAATTAAAATTAGATATTAAAGAACTTGATATTAAGATAGATACTGTTGAAAATAACTTA

>NC_011253|1|1|22762-22979|PILER-CR
TTACAGAACTTGATATTAAGATAGATACTGTTGAAAATAACTTAAATAATAAAAT	CGACAGAGTAAGGGACGAATTAAAATTAGATA
TTAAAGAACTTGATATTAAGATAGATACTGTTGAAAATAACTTAAATAATAAAAT	CGACAGAGTAAGGAACGAATTAAAATTAGATA
TTAAAGAACTTGATATTAAGATAGATACTGTTGAAAATAACTTA

Neighbor Proteins Overview

Protein	Signature genes	Signature genes Name	Protein_function
NC_011253.1|WP_012539580.1|9759_10512_+|ParA-family-protein	unknown	unknown	gnl|CDD|224113
NC_011253.1|WP_012539591.1|31361_31943_+|vsp-protein	unknown	unknown	gnl|CDD|366644
NC_011253.1|WP_041178238.1|25792_26233_+|hypothetical-protein	unknown	unknown	unknown
NC_011253.1|WP_012539582.1|13335_14223_+|hypothetical-protein	unknown	unknown	unknown
NC_011253.1|WP_041178241.1|28923_29814_+|Variable-large-protein-18	unknown	unknown	gnl|CDD|376417
NC_011253.1|WP_083764329.1|26646_27531_+|vlp-protein,-delta-subfamily	unknown	unknown	gnl|CDD|376417
NC_011253.1|WP_083764328.1|11550_12366_+|vlp-protein,-beta-subfamily	unknown	unknown	gnl|CDD|376417
NC_011253.1|WP_012539581.1|10534_11134_+|chromosome-replication/partitioning-protein	unknown	unknown	gnl|CDD|376591
NC_011253.1|WP_041178235.1|8553_9198_+|hypothetical-protein	unknown	unknown	unknown
NC_011253.1|WP_156768703.1|29980_31084_+|hypothetical-protein	unknown	unknown	gnl|CDD|376417
NC_011253.1|WP_012539589.1|27848_28460_+|vsp-protein	unknown	unknown	gnl|CDD|366644
NC_011253.1|WP_012539586.1|20210_20918_-|hypothetical-protein	unknown	unknown	unknown
NC_011253.1|WP_012539585.1|17193_18240_+|vlp-protein,-delta-subfamily	unknown	unknown	gnl|CDD|376417
NC_011253.1|WP_012539583.1|14438_14969_-|hypothetical-protein	unknown	unknown	unknown
NC_011253.1|WP_012539584.1|15781_16375_+|hypothetical-protein	unknown	unknown	unknown
NC_011253.1|WP_012539579.1|9181_9784_+|DUF226-domain-containing-protein	unknown	unknown	gnl|CDD|308504

rpsblast for functional proteins

Protein	Function_ID	Function_description	E-value
NC_011253.1|WP_012539580.1|9759_10512_+|ParA-family-protein	gnl|CDD|224113	COG1192, Soj, ATPases involved in chromosome partitioning [Cell division and chromosome partitioning].	6.1374e-49
NC_011253.1|WP_012539591.1|31361_31943_+|vsp-protein	gnl|CDD|366644	pfam01441, Lipoprotein_6, Lipoprotein. Members of this family are lipoproteins that are probably involved in evasion of the host immune system by pathogens.	1.27605e-59
NC_011253.1|WP_156768703.1|29980_31084_+|hypothetical-protein	gnl|CDD|376417	pfam00921, Lipoprotein_2, Borrelia lipoprotein. This family of lipoproteins is found in Borrelia spirochetes. The function of these proteins is uncertain.	7.39249e-66
NC_011253.1|WP_012539589.1|27848_28460_+|vsp-protein	gnl|CDD|366644	pfam01441, Lipoprotein_6, Lipoprotein. Members of this family are lipoproteins that are probably involved in evasion of the host immune system by pathogens.	3.22084e-49
NC_011253.1|WP_012539585.1|17193_18240_+|vlp-protein,-delta-subfamily	gnl|CDD|376417	pfam00921, Lipoprotein_2, Borrelia lipoprotein. This family of lipoproteins is found in Borrelia spirochetes. The function of these proteins is uncertain.	5.50305e-63
NC_011253.1|WP_041178241.1|28923_29814_+|Variable-large-protein-18	gnl|CDD|376417	pfam00921, Lipoprotein_2, Borrelia lipoprotein. This family of lipoproteins is found in Borrelia spirochetes. The function of these proteins is uncertain.	2.50466e-43
NC_011253.1|WP_083764329.1|26646_27531_+|vlp-protein,-delta-subfamily	gnl|CDD|376417	pfam00921, Lipoprotein_2, Borrelia lipoprotein. This family of lipoproteins is found in Borrelia spirochetes. The function of these proteins is uncertain.	7.1201e-57
NC_011253.1|WP_083764328.1|11550_12366_+|vlp-protein,-beta-subfamily	gnl|CDD|376417	pfam00921, Lipoprotein_2, Borrelia lipoprotein. This family of lipoproteins is found in Borrelia spirochetes. The function of these proteins is uncertain.	2.1301e-19
NC_011253.1|WP_012539579.1|9181_9784_+|DUF226-domain-containing-protein	gnl|CDD|308504	pfam02890, DUF226, Borrelia family of unknown function DUF226. This family of proteins are found in Borrelia. The proteins are about 190 amino acids long and have no known function.	2.21943e-37
NC_011253.1|WP_012539581.1|10534_11134_+|chromosome-replication/partitioning-protein	gnl|CDD|376591	pfam01672, Plasmid_parti, Putative plasmid partition protein. This family consists of conserved hypothetical proteins from Borrelia burgdorferi the lyme disease spirochaete, some of which are putative plasmid partition proteins.	2.75673e-24

Protein sequences

>NC_011253.1|WP_012539586.1|20210_20918_-|hypothetical-protein
MNKNKSILILYITLFLYGCDTDKFDNKLQTQSATRFTTEQKLTTQRPNVIMQKSTIHASQKPMLSSEEKDKFKLLKYALDMDLKAYQQNYTNPKAEEVANIYKNIINWISNNLNIEEQKDLINSFSHVYTFIKNKLNNNPNMDIIQYVEDAYYNFQDDEYKKEHTYDSKLYGKPHGANHNSITMFFYLIKVNAIERQPNLQDNEEFYKNAIQKIKNELQDKTSDSYKYSLALWKD
>NC_011253.1|WP_012539585.1|17193_18240_+|vlp-protein,-delta-subfamily
MKREKKGEGKVRVVILMVMMIVMGCNSGGVKDPEKVFLSEMVNLGKGFLDVFVSFGDMITETLGIKVETKKSEIGAYFSKIENTMKVVKGKLSKILEEHGSYEKVKEKVEGFIGKISKSEEGAKEAASGASGEEAIGNATTAGHGATPASKDAVVSLVKGIKAIVGVVLKDNEGSADANKTGDDKKDIGNLFVNDAGKGEAKEENIAKAAASIGVVSGADILKAIAKSKENPNIDTTNGIEKATDAAEIAVAKAVNDKKEIKEVTAKKDAVIAGGIALRGMAKDGKFAVKNEDKSANAVNGAVASAVNKVLSTLTIAIRNTVDLGLKEINKVLGEIKQGEGAVAKVNE
>NC_011253.1|WP_012539584.1|15781_16375_+|hypothetical-protein
MDFMCNRVVLVFCIVCFISCGFLETKNKTRLLQNLENIDLKSDWKDNLKLSNDELGILTFFVNALKDELSKAHISADHFNIHLKGDLSKVEGYVKRFFLKLNDKDKVRELLGYIKYGIDNPPNVEGRDVYVGMDAKEHYRLERRLASVFDNYFMLLNPPSSEPFADSSAKVPFIGGDPEDKMFNDIKSVCYEYRGSH
>NC_011253.1|WP_012539583.1|14438_14969_-|hypothetical-protein
MNKFLGVSFILLFLGCDGKEFTASKRNKVFSGDNVQNHNKVNDLSIELSLNVDEKKTLNFFIETLKDEYAKTTSSTNMHFKRTVNDINKIEEYLEQFFLELKDNAKAKELLRIVKDTKENPGVGGLETVKSSIAGAFDNFFGATPEPISHKSKSISTFESIKTACDAYKAKTAKQA
>NC_011253.1|WP_012539582.1|13335_14223_+|hypothetical-protein
MQKKFSLFNIMIVFGLIIGCSTDVQPSSVLKDQKYFGDQTLVSSDQGYLYSDLSRVDETEKLYQDIVSRGRKYFKKFKVKRENFALKKAQFDESIIIKVKKRYPLVVKCEDCIYAGLNYSEEAISDLVSILNKLLSGPIGEIMPYRNDRVACVFYLLKILQDIERFTREVVCSDDSYVSDSNLLNVHRLFISLDIINKDNMLKSKLATIKFALNIFIKKRNKFIRLIIENIKEINKQENVDEIVKLININMRSWDNNGKIFKKMYSFNTSSKSLYSLHDFIKNQTIDLNNQFIIK
>NC_011253.1|WP_083764328.1|11550_12366_+|vlp-protein,-beta-subfamily
MGDGLKSTKDKLDELSKKIVATPNADTKGVEAVIQGSSAIITKLITSVTKLADFVGNAEITDGIDAAGSAPVEEVSVKAFIEGIKSIVETVENSGVKIEKGNAGVVVTNENGPKALVHNVRATAGDATKLAAEVAKADPWAMIDKIKNAKTKNAAPAANDDAGQLATATNVANNDGTAATNADLAAAVALKAMIKGGKFNQPAQNEDGALKAAVSSAVNKVLGILDVILRKVINLEINKIKEAINGIKYSDTLGINIPESDTIQTPATKKL
>NC_011253.1|WP_012539581.1|10534_11134_+|chromosome-replication/partitioning-protein
MKNVVLSNRVLHDNKDVKLINLKQESLIRYNELKEKLKQNARKEIYYKVENIRILKEIKDNEYYKLDGHKHFDSFIKDYRMAKTQVYAYLRLANAMEKGILAEQYIIENGINESLAIIKNKKTIKIKKIRRGSINSLSFKLKNQASYDFYKNNVKFIAFMLDTIFLNDRNYLQKLFQKYSNLHLDKKVVNIADLLEKFQ
>NC_011253.1|WP_012539580.1|9759_10512_+|ParA-family-protein
MDRKKPEVITIASIKGGVGKSTSAIIFATLLSKKYKVLLVDIDTQASTTSYYHEKLIENDIDVVNINIYRVLNETLDINDSIVNIDNNLDFIPSYIHLHKFIREAIPLKELRLKECLFFLQNEYDYVVLDTNPSLDATLANALICSGYIIVPMTAEKWAVESLELIEFYMKELRINLPIFILITRFKNNNTHKELLEYIQSKRGFLGFIHEREDLNKRISKNDVFDLNKDYIKDYGSALESFLTKKLIVR
>NC_011253.1|WP_012539579.1|9181_9784_+|DUF226-domain-containing-protein
MKETNKLLTEFERKNVICQLKNLESKPKKNFNDSFSKIEKEDARTIYHTKIFNDLFAFGVNRREEDKFFVALRGVFNSDKKSTFRLFSIEKEEDRFLGMFYGFKRLKTSFILRYKDDTKKSDVTTKIYKPYYIEFRFKKGSIFCYIKAIHSLIKKEKFTKKYVQTLLERIMKLEDEVYKFYNKRLPDGGIVTKWIEKNQR
>NC_011253.1|WP_041178235.1|8553_9198_+|hypothetical-protein
MHTSQKIQNYTQLSKKYQIRYYKIVSIIRYFQKNTIKYNQTIILNTLNRFLTKDELKIITLRTLRKDLALLCNKGIIQKTLLRLGEGNGSYIRYTVNKYSQNNLKRFIENKQDIIEHDANAIYKFTKETQKKYFKNIGYKTYKSKNVTKNVSHNIINNKDINIKDTKDINLLISNTSKWKTMRYLDKIEENKNKKRYEEAIIKTKKWLESERNK
>NC_011253.1|WP_041178238.1|25792_26233_+|hypothetical-protein
MEYMQMEPVITRQMVLNELVKVGINRDIADDLSYRYYKNELTTKDLQYLESNFKFKLEILERGLKADIKELDNKIDIVENNLNNKIDKVRDELKSDISLVRKDMEVNKMELNSKLKLHAWMFGTIITINVGIFLALMSMLYALFIK
>NC_011253.1|WP_083764329.1|26646_27531_+|vlp-protein,-delta-subfamily
MEVFVSFGDMITGTLGIKADTKKSDIGKYFTDIEKTMISVKEKLQTEVAKNGNYVKIKEVVDQFITGTLDKIAEGAKKASSGAAGGAVLGSSVKNEDAAPGEVASVNALIEGIKTIVAVVLKNEGNADANKTTDDDKKDIGKLFSKASDNGSEAEAAKANASIGAVSGVDILQAIAKSDVVSAAGKDIDQAKDVAEIATAKNDSGTKETKQKDAVISGGIALRSMAKGGKFATKNEDKAVPAINGVAASAVGKTLSALIIAIRNTVDSELKKINEVLATVKQEDKSSEATASVQ
>NC_011253.1|WP_012539589.1|27848_28460_+|vsp-protein
MVVVMVMGCNSGGVSGGEEGQAKKGDGSVIDLKVVGEKIKSAVEFVEKVKEVHTLVKSVDELAKAIGKKVGAAGLGDIADHNGSLIAGAYSVIEAVDAKLATLAGKVGLSSDLSTKVNDAKVKSTAFLNKLKSSTAEFDKEGASDADSKKALLKDNADKTKGRDELDKLNTSIDILMASSKKELDDSIKNLIEEPVRPDTVGN
>NC_011253.1|WP_041178241.1|28923_29814_+|Variable-large-protein-18
MSGSLGFSVNKETKKNEVGEYFNKLGVKLGEASAELEKVAVKASADVDKEGVLNKGIRAAVDTAKTTLSGLKGHLESLEGIGGDKKVIDVAKNQNGVAASTEELKKAYKALKGIVEIATKQGVKEASASDVTLGQASIGVDAKSGAKVLTTGANAGAAVGEKAALIVSSVRGEEMLASIVNLTEDKAKKITANATAETTPLEFAVGGSTADNLAQDVVKAGAVAGGIALRALVKEGKLATHNDDNDYKAVQSSGVSAVNKLLVAVEKMVKKTVKNVIEGVKKEVDKARDPKASGNQ
>NC_011253.1|WP_156768703.1|29980_31084_+|hypothetical-protein
MKEEGIKGIRGIRGIKGKEELGKKEGRRNNRIVLGMMMVMMGCNSGGVSGGVRDPEKVFLSEMVNLGKGFLDVFVSFGDMITGTLGIKADTKKSEIGGYFTKIAETMKGVREKLGKILEENGKYEKVKEKVEEFVGEIGKIEAGAQEAAKGATGEAIGNAASAGHGATPANRESVVSLVKGIKIIVDVVLKGKGNAEATKTGDDKKDIGNLFADDNGKGDAKEENIAKASASIGAVIGADILQAIAKSKEDPKDYATDGIEKATDAAEIAIAKAVNAKKEIKEESAKKDAVIAAGIALRGMAKDGKFAANQSAKDANAVNGAVASAVNKVLSTLTIAIRNTVDLGLKEINKVLGEIKEGEGFEVKTN
>NC_011253.1|WP_012539591.1|31361_31943_+|vsp-protein
MGCNSGGVGEGSQAKATKADGSVIDLKVVSKKIKDAVEFAEKVKEVHVLVKSVDELAKAIGKKIDANGSLAAEAGQNGSLIAGVHSVISAVNTKLKGLETTDNISDELKGKIVAVETEGKAFLDKLKSGNAELGKKDASDDDTKKAIDRIGKKDGDKGVAELIKLNTAIDALLKLSTDAVEASIGELTVKPAV

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity
NC_011253_1	1.1|22817|32|NC_011253|PILER-CR	22817-22848	32	NC_011253.1	22980-23011	1	0.969
NC_011253_1	1.1|22817|32|NC_011253|PILER-CR	22817-22848	32	NC_011253.1	23067-23098	1	0.969
NC_011253_1	1.1|22817|32|NC_011253|PILER-CR	22817-22848	32	NC_011253.1	26039-26070	2	0.938
NC_011253_1	1.1|22817|32|NC_011253|PILER-CR	22817-22848	32	NC_011255.1	6650-6681	2	0.938
NC_011253_1	1.2|22904|32|NC_011253|PILER-CR	22904-22935	32	NC_011253.1	22980-23011	2	0.938
NC_011253_1	1.2|22904|32|NC_011253|PILER-CR	22904-22935	32	NC_011253.1	23067-23098	2	0.938

1. spacer 1.1|22817|32|NC_011253|PILER-CR matches to position: 22980-23011, mismatch: 1, identity: 0.969

aataataaaatcgacagagtaagggacgaatt	CRISPR spacer
aataataaaatcgacaaagtaagggacgaatt	Protospacer
****************.***************

2. spacer 1.1|22817|32|NC_011253|PILER-CR matches to position: 23067-23098, mismatch: 1, identity: 0.969

aataataaaatcgacagagtaagggacgaatt	CRISPR spacer
aataataaaatcgacaaagtaagggacgaatt	Protospacer
****************.***************

3. spacer 1.1|22817|32|NC_011253|PILER-CR matches to position: 26039-26070, mismatch: 2, identity: 0.938

aataataaaatcgacagagtaagggacgaatt	CRISPR spacer
aataacaaaatcgacaaagtaagggacgaatt	Protospacer
*****.**********.***************

4. spacer 1.1|22817|32|NC_011253|PILER-CR matches to position: 6650-6681, mismatch: 2, identity: 0.938

aataataaaatcgacagagtaagggacgaatt	CRISPR spacer
aataacaaaatcgacaaagtaagggacgaatt	Protospacer
*****.**********.***************

5. spacer 1.2|22904|32|NC_011253|PILER-CR matches to position: 22980-23011, mismatch: 2, identity: 0.938

aataataaaatcgacagagtaaggaacgaatt	CRISPR spacer
aataataaaatcgacaaagtaagggacgaatt	Protospacer
****************.*******.*******

6. spacer 1.2|22904|32|NC_011253|PILER-CR matches to position: 23067-23098, mismatch: 2, identity: 0.938

aataataaaatcgacagagtaaggaacgaatt	CRISPR spacer
aataataaaatcgacaaagtaagggacgaatt	Protospacer
****************.*******.*******

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NC_011253_1	1.1|22817|32|NC_011253|PILER-CR	22817-22848	32	NC_011253	Borrelia recurrentis A1 plasmid pl33, complete sequence	22806-22837	0	1.0
NC_011253_1	1.2|22904|32|NC_011253|PILER-CR	22904-22935	32	NC_011253	Borrelia recurrentis A1 plasmid pl33, complete sequence	22893-22924	0	1.0
NC_011253_1	1.1|22817|32|NC_011253|PILER-CR	22817-22848	32	NC_011253	Borrelia recurrentis A1 plasmid pl33, complete sequence	22893-22924	1	0.969
NC_011253_1	1.1|22817|32|NC_011253|PILER-CR	22817-22848	32	NC_011253	Borrelia recurrentis A1 plasmid pl33, complete sequence	22980-23011	1	0.969
NC_011253_1	1.1|22817|32|NC_011253|PILER-CR	22817-22848	32	NC_011253	Borrelia recurrentis A1 plasmid pl33, complete sequence	23067-23098	1	0.969
NC_011253_1	1.1|22817|32|NC_011253|PILER-CR	22817-22848	32	NC_011261	Borrelia duttonii Ly plasmid pl26, complete sequence	10300-10331	1	0.969
NC_011253_1	1.2|22904|32|NC_011253|PILER-CR	22904-22935	32	NC_011253	Borrelia recurrentis A1 plasmid pl33, complete sequence	22806-22837	1	0.969
NC_011253_1	1.1|22817|32|NC_011253|PILER-CR	22817-22848	32	NC_011253	Borrelia recurrentis A1 plasmid pl33, complete sequence	26039-26070	2	0.938
NC_011253_1	1.1|22817|32|NC_011253|PILER-CR	22817-22848	32	NC_011255	Borrelia recurrentis A1 plasmid pl35, complete sequence	6650-6681	2	0.938
NC_011253_1	1.1|22817|32|NC_011253|PILER-CR	22817-22848	32	NC_011245	Borrelia duttonii Ly plasmid pl28, complete sequence	11925-11956	2	0.938
NC_011253_1	1.1|22817|32|NC_011253|PILER-CR	22817-22848	32	NC_011265	Borrelia duttonii Ly plasmid pl27, complete sequence	6696-6727	2	0.938
NC_011253_1	1.2|22904|32|NC_011253|PILER-CR	22904-22935	32	NC_011253	Borrelia recurrentis A1 plasmid pl33, complete sequence	22980-23011	2	0.938
NC_011253_1	1.2|22904|32|NC_011253|PILER-CR	22904-22935	32	NC_011253	Borrelia recurrentis A1 plasmid pl33, complete sequence	23067-23098	2	0.938
NC_011253_1	1.2|22904|32|NC_011253|PILER-CR	22904-22935	32	NC_011261	Borrelia duttonii Ly plasmid pl26, complete sequence	10300-10331	2	0.938
NC_011253_1	1.1|22817|32|NC_011253|PILER-CR	22817-22848	32	NC_011255	Borrelia recurrentis A1 plasmid pl35, complete sequence	26281-26312	3	0.906
NC_011253_1	1.1|22817|32|NC_011253|PILER-CR	22817-22848	32	NC_011245	Borrelia duttonii Ly plasmid pl28, complete sequence	11979-12010	3	0.906
NC_011253_1	1.1|22817|32|NC_011253|PILER-CR	22817-22848	32	NC_011251	Borrelia duttonii Ly plasmid pl41, complete sequence	23978-24009	3	0.906
NC_011253_1	1.1|22817|32|NC_011253|PILER-CR	22817-22848	32	NC_011251	Borrelia duttonii Ly plasmid pl41, complete sequence	31160-31191	3	0.906
NC_011253_1	1.1|22817|32|NC_011253|PILER-CR	22817-22848	32	NC_011262	Borrelia duttonii Ly plasmid pl31, complete sequence	21137-21168	3	0.906
NC_011253_1	1.1|22817|32|NC_011253|PILER-CR	22817-22848	32	NC_011262	Borrelia duttonii Ly plasmid pl31, complete sequence	28354-28385	3	0.906
NC_011253_1	1.1|22817|32|NC_011253|PILER-CR	22817-22848	32	NC_008442	Borrelia duttonii plasmid DNA, complete sequence, strain: Ly	30425-30456	3	0.906

1. spacer 1.1|22817|32|NC_011253|PILER-CR matches to NC_011253 (Borrelia recurrentis A1 plasmid pl33, complete sequence) position: , mismatch: 0, identity: 1.0

aataataaaatcgacagagtaagggacgaatt	CRISPR spacer
aataataaaatcgacagagtaagggacgaatt	Protospacer
********************************

2. spacer 1.2|22904|32|NC_011253|PILER-CR matches to NC_011253 (Borrelia recurrentis A1 plasmid pl33, complete sequence) position: , mismatch: 0, identity: 1.0

aataataaaatcgacagagtaaggaacgaatt	CRISPR spacer
aataataaaatcgacagagtaaggaacgaatt	Protospacer
********************************

3. spacer 1.1|22817|32|NC_011253|PILER-CR matches to NC_011253 (Borrelia recurrentis A1 plasmid pl33, complete sequence) position: , mismatch: 1, identity: 0.969

aataataaaatcgacagagtaagggacgaatt	CRISPR spacer
aataataaaatcgacagagtaaggaacgaatt	Protospacer
************************.*******

4. spacer 1.1|22817|32|NC_011253|PILER-CR matches to NC_011253 (Borrelia recurrentis A1 plasmid pl33, complete sequence) position: , mismatch: 1, identity: 0.969

aataataaaatcgacagagtaagggacgaatt	CRISPR spacer
aataataaaatcgacaaagtaagggacgaatt	Protospacer
****************.***************

5. spacer 1.1|22817|32|NC_011253|PILER-CR matches to NC_011253 (Borrelia recurrentis A1 plasmid pl33, complete sequence) position: , mismatch: 1, identity: 0.969

aataataaaatcgacagagtaagggacgaatt	CRISPR spacer
aataataaaatcgacaaagtaagggacgaatt	Protospacer
****************.***************

6. spacer 1.1|22817|32|NC_011253|PILER-CR matches to NC_011261 (Borrelia duttonii Ly plasmid pl26, complete sequence) position: , mismatch: 1, identity: 0.969

aataataaaatcgacagagtaagggacgaatt	CRISPR spacer
aataataaaatcgacaaagtaagggacgaatt	Protospacer
****************.***************

7. spacer 1.2|22904|32|NC_011253|PILER-CR matches to NC_011253 (Borrelia recurrentis A1 plasmid pl33, complete sequence) position: , mismatch: 1, identity: 0.969

aataataaaatcgacagagtaaggaacgaatt	CRISPR spacer
aataataaaatcgacagagtaagggacgaatt	Protospacer
************************.*******

8. spacer 1.1|22817|32|NC_011253|PILER-CR matches to NC_011253 (Borrelia recurrentis A1 plasmid pl33, complete sequence) position: , mismatch: 2, identity: 0.938

aataataaaatcgacagagtaagggacgaatt	CRISPR spacer
aataacaaaatcgacaaagtaagggacgaatt	Protospacer
*****.**********.***************

9. spacer 1.1|22817|32|NC_011253|PILER-CR matches to NC_011255 (Borrelia recurrentis A1 plasmid pl35, complete sequence) position: , mismatch: 2, identity: 0.938

aataataaaatcgacagagtaagggacgaatt	CRISPR spacer
aataacaaaatcgacaaagtaagggacgaatt	Protospacer
*****.**********.***************

10. spacer 1.1|22817|32|NC_011253|PILER-CR matches to NC_011245 (Borrelia duttonii Ly plasmid pl28, complete sequence) position: , mismatch: 2, identity: 0.938

aataataaaatcgacagagtaagggacgaatt	CRISPR spacer
aataataaaatcgacaaggtaagggacgaatt	Protospacer
****************..**************

11. spacer 1.1|22817|32|NC_011253|PILER-CR matches to NC_011265 (Borrelia duttonii Ly plasmid pl27, complete sequence) position: , mismatch: 2, identity: 0.938

aataataaaatcgacagagtaagggacgaatt	CRISPR spacer
aataacaaaatcgacaaagtaagggacgaatt	Protospacer
*****.**********.***************

12. spacer 1.2|22904|32|NC_011253|PILER-CR matches to NC_011253 (Borrelia recurrentis A1 plasmid pl33, complete sequence) position: , mismatch: 2, identity: 0.938

aataataaaatcgacagagtaaggaacgaatt	CRISPR spacer
aataataaaatcgacaaagtaagggacgaatt	Protospacer
****************.*******.*******

13. spacer 1.2|22904|32|NC_011253|PILER-CR matches to NC_011253 (Borrelia recurrentis A1 plasmid pl33, complete sequence) position: , mismatch: 2, identity: 0.938

aataataaaatcgacagagtaaggaacgaatt	CRISPR spacer
aataataaaatcgacaaagtaagggacgaatt	Protospacer
****************.*******.*******

14. spacer 1.2|22904|32|NC_011253|PILER-CR matches to NC_011261 (Borrelia duttonii Ly plasmid pl26, complete sequence) position: , mismatch: 2, identity: 0.938

aataataaaatcgacagagtaaggaacgaatt	CRISPR spacer
aataataaaatcgacaaagtaagggacgaatt	Protospacer
****************.*******.*******

15. spacer 1.1|22817|32|NC_011253|PILER-CR matches to NC_011255 (Borrelia recurrentis A1 plasmid pl35, complete sequence) position: , mismatch: 3, identity: 0.906

aataataaaatcgacagagtaagggacgaatt	CRISPR spacer
gataataaaattgacaaagtaagggacgaatt	Protospacer
.**********.****.***************

16. spacer 1.1|22817|32|NC_011253|PILER-CR matches to NC_011245 (Borrelia duttonii Ly plasmid pl28, complete sequence) position: , mismatch: 3, identity: 0.906

aataataaaatcgacagagtaagggacgaatt	CRISPR spacer
gataacaaaatcgacaaagtaagggacgaatt	Protospacer
.****.**********.***************

17. spacer 1.1|22817|32|NC_011253|PILER-CR matches to NC_011251 (Borrelia duttonii Ly plasmid pl41, complete sequence) position: , mismatch: 3, identity: 0.906

aataataaaatcgacagagtaagggacgaatt	CRISPR spacer
gataacaaaatcgacaaagtaagggacgaatt	Protospacer
.****.**********.***************

18. spacer 1.1|22817|32|NC_011253|PILER-CR matches to NC_011251 (Borrelia duttonii Ly plasmid pl41, complete sequence) position: , mismatch: 3, identity: 0.906

aataataaaatcgacagagtaagggacgaatt	CRISPR spacer
gataacaaaatcgacaaagtaagggacgaatt	Protospacer
.****.**********.***************

19. spacer 1.1|22817|32|NC_011253|PILER-CR matches to NC_011262 (Borrelia duttonii Ly plasmid pl31, complete sequence) position: , mismatch: 3, identity: 0.906

aataataaaatcgacagagtaagggacgaatt	CRISPR spacer
gataacaaaatcgacaaagtaagggacgaatt	Protospacer
.****.**********.***************

20. spacer 1.1|22817|32|NC_011253|PILER-CR matches to NC_011262 (Borrelia duttonii Ly plasmid pl31, complete sequence) position: , mismatch: 3, identity: 0.906

aataataaaatcgacagagtaagggacgaatt	CRISPR spacer
gataacaaaatcgacaaagtaagggacgaatt	Protospacer
.****.**********.***************

21. spacer 1.1|22817|32|NC_011253|PILER-CR matches to NC_008442 (Borrelia duttonii plasmid DNA, complete sequence, strain: Ly) position: , mismatch: 3, identity: 0.906

aataataaaatcgacagagtaagggacgaatt	CRISPR spacer
gataacaaaatcgacaaagtaagggacgaatt	Protospacer
.****.**********.***************