CRISPRimmunity

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Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Self targeting spacer number	Target MGE spacer number	Prophage number	Anti-CRISPR protein number
LR134490	Haemophilus influenzae strain NCTC11873 genome assembly, chromosome: 1	4 crisprs	DinG,DEDDh,csx1,csx16,cas6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas2,cas1,cas3,WYL,csa3	0	3	5	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: LR134490_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

LR134490_1

408472-408570

Orphan

Consensus_repeat	Method
ACGATTGTTTGATGGTGGGCTGAAGCCCACCCTACAA	CRISPRCasFinder

1 spacers

The CRISPR arrays of LR134490_1

>merge|LR134490|1|408472-408570|CRISPRCasFinder
ACGATTGTTTGATGGTGGGCTGAAGCCCACCCTACAACTACTGAAGCCCACCAAAATATCTCACGATTGTTTGTTGGTGGGCTGAAGCCCACCCTACAA

>LR134490|1|1|408472-408570|CRISPRCasFinder
ACGATTGTTTGATGGTGGGCTGAAGCCCACCCTACAA	CTACTGAAGCCCACCAAAATATCTC
ACGATTGTTTGTTGGTGGGCTGAAGCCCACCCTACAA

Protein	Signature genes	Signature genes Name	Protein_function
LR134490.1\|VEI53997.1\|415602_416421_+\|dehydroshikimate-reductase,-NAD(P)-binding	unknown	unknown	gnl\|CDD\|161904
LR134490.1\|VEI53967.1\|400276_400444_-\|Uncharacterised-protein	unknown	unknown	unknown
LR134490.1\|VEI53999.1\|416417_416981_+\|DNA-3-methyladenine-glycosylase	unknown	unknown	gnl\|CDD\|377025
LR134490.1\|VEI53995.1\|415047_415599_+\|ribosome-maturation-factor	unknown	unknown	gnl\|CDD\|182603
LR134490.1\|VEI53983.1\|404985_406644_-\|ABC-transporter,-ATP-binding-protein	unknown	unknown	gnl\|CDD\|224055
LR134490.1\|VEI53987.1\|408751_411757_+\|Hemoglobin-and-hemoglobin-haptoglobin-binding-protein-B	unknown	unknown	gnl\|CDD\|273808
LR134490.1\|VEI54005.1\|419084_419555_+\|pantetheine-phosphate-adenylyltransferase	unknown	unknown	gnl\|CDD\|234674
LR134490.1\|VEI53993.1\|414483_415032_+\|DNA-topoisomerase	unknown	unknown	gnl\|CDD\|223625
LR134490.1\|VEI53979.1\|403553_403874_+\|flavodoxin	unknown	unknown	gnl\|CDD\|226080
LR134490.1\|VEI53977.1\|403257_403566_+\|putative-HTH-type-transcriptional-regulator	unknown	unknown	gnl\|CDD\|238045
LR134490.1\|VEI53973.1\|401676_401895_-\|cell-division-protein-ZapB	unknown	unknown	gnl\|CDD\|225616
LR134490.1\|VEI53975.1\|402056_403058_+\|fructose-1,6-bisphosphatase-II	unknown	unknown	gnl\|CDD\|129430
LR134490.1\|VEI53985.1\|406636_408382_-\|ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|227321
LR134490.1\|VEI53969.1\|400708_401143_-\|D-tyr-tRNA(Tyr)-deacylase	unknown	unknown	gnl\|CDD\|235383
LR134490.1\|VEI53989.1\|412077_412374_+\|putative-HTH-type-transcriptional-regulator	unknown	unknown	gnl\|CDD\|376540
LR134490.1\|VEI53991.1\|412557_414474_+\|sugar-ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|236729
LR134490.1\|VEI54001.1\|416977_417742_-\|UDP-glucose-Lipooligosaccharide-beta-1-4-glucosyltransferase	unknown	unknown	gnl\|CDD\|133005
LR134490.1\|VEI53971.1\|401139_401580_-\|FMN-binding-protein-MioC	unknown	unknown	gnl\|CDD\|181608
LR134490.1\|VEI53981.1\|403870_404902_+\|Uncharacterized-protein-related-to-capsule-biosynthesis-enzymes	unknown	unknown	gnl\|CDD\|226080
LR134490.1\|VEI54003.1\|417804_419088_+\|3-deoxy-D-manno-octulosonic-acid-transferase	unknown	unknown	gnl\|CDD\|235589

Protein	Function_ID	Function_description	E-value
LR134490.1\|VEI53997.1\|415602_416421_+\|dehydroshikimate-reductase,-NAD(P)-binding	gnl\|CDD\|161904	TIGR00507, Shikimate_dehydrogenase, shikimate dehydrogenase. This model finds proteins from prokaryotes and functionally equivalent domains from larger, multifunctional proteins of fungi and plants. Below the trusted cutoff of 180, but above the noise cutoff of 20, are the putative shikimate dehydrogenases of Thermotoga maritima and Mycobacterium tuberculosis, and uncharacterized paralogs of shikimate dehydrogenase from E. coli and H. influenzae. The related enzyme quinate 5-dehydrogenase scores below the noise cutoff. A neighbor-joining tree, constructed with quinate 5-dehydrogenases as the outgroup, shows the Clamydial homolog as clustering among the shikimate dehydrogenases, although the sequence is unusual in the degree of sequence divergence and the presence of an additional N-terminal domain. [Amino acid biosynthesis, Aromatic amino acid family].	1.42804e-134
LR134490.1\|VEI53999.1\|416417_416981_+\|DNA-3-methyladenine-glycosylase	gnl\|CDD\|377025	pfam03352, Adenine_glyco, Methyladenine glycosylase. The DNA-3-methyladenine glycosylase I is constitutively expressed and is specific for the alkylated 3-methyladenine DNA.	2.10847e-115
LR134490.1\|VEI53995.1\|415047_415599_+\|ribosome-maturation-factor	gnl\|CDD\|182603	PRK10634, PRK10634, L-threonylcarbamoyladenylate synthase type 1 TsaC.	4.16429e-85
LR134490.1\|VEI53983.1\|404985_406644_-\|ABC-transporter,-ATP-binding-protein	gnl\|CDD\|224055	COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms].	7.11196e-126
LR134490.1\|VEI53987.1\|408751_411757_+\|Hemoglobin-and-hemoglobin-haptoglobin-binding-protein-B	gnl\|CDD\|273808	TIGR01786, hemoglobin-haptoglobin-binding_protein, TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein. This model represents a family of TonB-dependent outer membrane receptor/transporters acting on iron-containing proteins such as hemoglobin, transferrin and lactoferrin. Two subfamily models with a narrower scope are contained within this model, the heme/hemoglobin receptor family protein model (TIGR01785) and the transferrin/lactoferrin receptor family model (TIGR01776). Accessions which score above trusted to this model while not scoring above trusted to the more specific models are most likely to be hemoglobin transporters. Nearly all of the species containing trusted hits to this model have access to hemoglobin, transferrin or lactoferrin or related proteins in their biological niche. [Transport and binding proteins, Cations and iron carrying compounds, Transport and binding proteins, Porins].	1.41759e-80
LR134490.1\|VEI54005.1\|419084_419555_+\|pantetheine-phosphate-adenylyltransferase	gnl\|CDD\|234674	PRK00168, coaD, phosphopantetheine adenylyltransferase; Provisional.	6.13979e-89
LR134490.1\|VEI53993.1\|414483_415032_+\|DNA-topoisomerase	gnl\|CDD\|223625	COG0551, TopA, Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair].	3.04276e-29
LR134490.1\|VEI53979.1\|403553_403874_+\|flavodoxin	gnl\|CDD\|226080	COG3550, HipA, Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only].	3.52085e-24
LR134490.1\|VEI53977.1\|403257_403566_+\|putative-HTH-type-transcriptional-regulator	gnl\|CDD\|238045	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.	0.000139969
LR134490.1\|VEI53981.1\|403870_404902_+\|Uncharacterized-protein-related-to-capsule-biosynthesis-enzymes	gnl\|CDD\|226080	COG3550, HipA, Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only].	2.91969e-87
LR134490.1\|VEI53975.1\|402056_403058_+\|fructose-1,6-bisphosphatase-II	gnl\|CDD\|129430	TIGR00330, Fructose-16-bisphosphatase_class_2, fructose-1,6-bisphosphatase, class II. This model represents GlpX, one of three classes of bacterial fructose-1,6-bisphosphatases. This form is homodimeric and Mn2+-dependent, and only very distantly related to the class I fructose-1,6-bisphosphatase, the product of the fbp gene, which is homotetrameric and Mg2+-dependent. A third class is found as one of two types in Bacillus subtilis. In E. coli, GlpX is found in the glpFKX operon together with a glycerol update protein and glycerol kinase. [Energy metabolism, Pentose phosphate pathway].	0
LR134490.1\|VEI53985.1\|406636_408382_-\|ABC-transporter-ATP-binding-protein	gnl\|CDD\|227321	COG4988, CydD, ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones].	0
LR134490.1\|VEI53969.1\|400708_401143_-\|D-tyr-tRNA(Tyr)-deacylase	gnl\|CDD\|235383	PRK05273, PRK05273, D-tyrosyl-tRNA(Tyr) deacylase; Provisional.	3.98886e-97
LR134490.1\|VEI53991.1\|412557_414474_+\|sugar-ABC-transporter-ATP-binding-protein	gnl\|CDD\|236729	PRK10636, PRK10636, putative ABC transporter ATP-binding protein; Provisional.	0
LR134490.1\|VEI54001.1\|416977_417742_-\|UDP-glucose-Lipooligosaccharide-beta-1-4-glucosyltransferase	gnl\|CDD\|133005	cd02511, Beta4Glucosyltransferase, UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide. UDP-glucose: lipooligosaccharide (LOS) beta-1-4-glucosyltransferase catalyzes the addition of the first residue, glucose, of the lacto-N-neotetrase structure to HepI of the LOS inner core. LOS is the major constituent of the outer leaflet of the outer membrane of gram-positive bacteria. It consists of a short oligosaccharide chain of variable composition (alpha chain) attached to a branched inner core which is lined in turn to lipid A. Beta 1,4 glucosyltransferase is required to attach the alpha chain to the inner core.	1.06263e-95
LR134490.1\|VEI53973.1\|401676_401895_-\|cell-division-protein-ZapB	gnl\|CDD\|225616	COG3074, COG3074, Uncharacterized protein conserved in bacteria [Function unknown].	7.07035e-14
LR134490.1\|VEI53971.1\|401139_401580_-\|FMN-binding-protein-MioC	gnl\|CDD\|181608	PRK09004, PRK09004, FMN-binding protein MioC; Provisional.	7.89274e-89
LR134490.1\|VEI53989.1\|412077_412374_+\|putative-HTH-type-transcriptional-regulator	gnl\|CDD\|376540	pfam01381, HTH_3, Helix-turn-helix. This large family of DNA binding helix-turn helix proteins includes Cro and CI. Within Neisseria gonorrhoeae NGO_0477, the full protein fold incorporates a helix-turn-helix motif, but the function of this member is unlikely to be that of a DNA-binding regulator, the function of most other members, so is not necessarily characteristic of the whole family.	4.09836e-10
LR134490.1\|VEI54003.1\|417804_419088_+\|3-deoxy-D-manno-octulosonic-acid-transferase	gnl\|CDD\|235589	PRK05749, PRK05749, 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed.	0

>LR134490.1|VEI53985.1|406636_408382_-|ABC-transporter-ATP-binding-protein
MMIDKRLINTVADSKKWIGVTVLWNWVALVGGIISAVVFSYILQAAYFHELSPLSAVILGILLIAALALRAFAGKKSVQASYFASTKVKHELRSLIYRKLASMPLNQVNQQSTSSIIQVASEGVEQLEIYFGRYLPQLFYSLLAPLTLFAFLIFFSFKTAVILLICVPLIPMSIIAVNKIAKKLLAKYWSIYVGLGSSFLDNLQGLITLKIYQDDAYKAKAMDKEAEHFRKITMKVLTMQLNSVSLMDLLAYGGAAIGILTALLQFQNAQLSVLGVILFILLSSEFFIPLRLLGSFFHVAMNGKAASDKIFTLLDTPVETQQSAVDFEVKNNVQVEIKDLHFSYSEEKPAITGLDLSILPNQLTVFVGKSGCGKSTLVSLLMGFNQAQQGEILFNGQNALNTDRTSFYQKVSLVSHSSYVFKGTLRENMTMAKIDATDEQIYACLEQVNLAQFVRENGGLDMQLLSRGANLSGGQIQRLALARALLHNAELYIFDEATSNIDVESEEIILQFIQQFKQQKTIVMISHRLANAVNADCINVLDQGKLIEQGTHETLMAKQGAYAEMFQQQKDLEQIREVANA
>LR134490.1|VEI53983.1|404985_406644_-|ABC-transporter,-ATP-binding-protein
MRKNGFVVMGHLLKLVTPLAHIMAFTITMGTLGFLAAIFIMVLGAMGLVNLLNFDTHLSFSGILTALIVLAVARGALRYLEQMSGHYIAFKLLALLRDKVFSSLRRLAFVKLQDKQAGQLVSLVTNDIELLEVFYAHTIAPIMIAFFTSAILLLVFAHLSGWFVLVALAAYLTVGVILPIITTKLAREDGRRYRELVGEMNDFFLDSVRGMKEIQLFGYAKQRLDEIQQRSQKIDTAFERIKDQEAKVRVYTEVAVSVFNIIMLFTGLILFSLDKIDFAAFLIGVILLMSSYGPVIALSNLSSNLLQTLASGERVLSLLAEEPELKDVESAVDLKEVSRIDVENVNFAYGEEQILSDVSLSVKKGEILGIHGRSGSGKSTLLKLLMRFYDPKSGSIKINGETLPNINTRSLRDNMAYITQQTYIFNETIEENIRLARRDATLEEIMEAAKKASIHDFILSLPQGYQTKMTELGGNLSDGEKQRIGIARAFLHNAPIILLDEPTSNLDSLNEAMILKSLLDVKAEKLIILVSHRQSTMAICDQVIGIENGRMS
>LR134490.1|VEI53981.1|403870_404902_+|Uncharacterized-protein-related-to-capsule-biosynthesis-enzymes
MNFCRILLKPLKKNEALSGYSAEGLHYLTGNKNFNPELPFSRQEFITVKPQKQQGMSISGFQPKLQLIIEDEHFDSVNQQGNYILKPSPEEYPFLAENEHATMRIMKELGFDVPENGLVSFAGEQNHKEFAFVIKRFDRDKQQKPMHQEQLDGAMNIRDKYGKIGADNEQYVSYEQIAKFILQHTENHLAQQREIFRRIIYAYLLGNNDLHLRNFSFIYPKNSHPKLAPIYDFVSVSPYPEIFNSTLLALPLLAREEGNATLAKGFNTQYGEYIGDDFVEFGENIGLNKNVIIQKLIPEIIQEKEKVEQIYSQSFMPQPHIDCVLKTYRKRLALLNVLHEPEL
>LR134490.1|VEI53979.1|403553_403874_+|flavodoxin
MRNLVRSGKVFLYGEFIGLLREDHHGFHFSYNPDYQGIPLSLSFPIEQSPFHSDTLFPYFASLVPEGWLKHKYALHQRIDESDMFRFLLNNGENMLGAVQIQEEKQ
>LR134490.1|VEI53977.1|403257_403566_+|putative-HTH-type-transcriptional-regulator
MNNLSAQLENQIDELKKLQKSVITYEQAQRQQLYAGKITDLKAFGKMLNDKRKSLGIELSMLELQTGVSISTLNRLFQDPSQVRFTTVFLVAQTLGVSLCAI
>LR134490.1|VEI53975.1|402056_403058_+|fructose-1,6-bisphosphatase-II
MNRALAIEFSRVTEAAALAAYTWLGRGDKNAADDAAVKAMRYMLNLIHMDAEIVIGEGEIDEAPMLYVGEKVGSGLGELVSIAVDPIDGTRMTAMGQSNAISVLAAGGKNTFLKAPDMYMEKLVVGSNVKGIIDLNLPLEQNLRRIASKLGKSLSDLTVMVLAKPRHDAVIKQIHNLGAKVLAIPDGDVAGSVLCCLPDAEVDLLYGIGGAPEGVAAAAAIRALGGDMQARLIPRNEVKSDTEENKKIAANEIQRCAALGVKVNEVLKLEDLVRDDNLVFTATGITNGDLLKGISRKGNLASTETILIRGKSRTIRKIQSIHYLDDLYKILNI
>LR134490.1|VEI53973.1|401676_401895_-|cell-division-protein-ZapB
MSLEILDQLEEKIKQAVETIQLLQLEVEELKEKNAESQRNIENLQTENEQLKNEHRNWQEHIRSLLGKFDNV
>LR134490.1|VEI53971.1|401139_401580_-|FMN-binding-protein-MioC
MHICILSGSTLGGAEYVAEHLNDVLETQGFSTALFHGPNLSDIENEKIWLIVTSTHGAGELPDNLKPLFDELANSQKDFSDVRFAVVGLGSSDYDTFCYAADKVEQTLQAKSAVKICETLKIDVLNVDDQESYAEEWLPSFIEGLK
>LR134490.1|VEI53969.1|400708_401143_-|D-tyr-tRNA(Tyr)-deacylase
MIALIQRVSQAKVDVNGETIGQIGKGLLVLLGVEKEDNQEKADKLAEKVLNYRIFSDENDKMNLNVQQVQGELLIVSQFTLAADTQKGLRPSFSKGASPALANELYEYFIQKCGEKLPVSTGQFAADMQVSLTNDGPVTFWLNV
>LR134490.1|VEI53967.1|400276_400444_-|Uncharacterised-protein
MSDNSPPNPIGKLHSATPNGANFLSCTETFSFIVCIINYKLTVQEYGMPFLWLKL
>LR134490.1|VEI53987.1|408751_411757_+|Hemoglobin-and-hemoglobin-haptoglobin-binding-protein-B
MTNFRLNVLAYSVMLGLTAGVAYAAQPTNQPTNQPTNQPTNQPTNQPTNQPTNQPTNQPTNQDSNLSEQLEQINVSGSTENSDTKTPPKIAETVKTAKTLEREQANNIKDIVKYETGVTVVEAGRFGQSGFAIRGVDENRVAINIDGLRQAETLSSQGFKELFEGYGNFNNTRNGAEIETLKEVNITKGANSIKSGSGSLGGSVIYKTKDARDYLLNKDYYVSYKKGYATENNQSFNTLTLAGRYKKFDALVVTTSRNGHELENYDYKNANSLTQGKKREKADPYKIEQDSTLLKLSFNPTENHRFTLAADLYEHRSRGQDLSYTLKYLKTLDLPEDDSRHTNDKTKRRNISFSYENFSQTPFWDTLKITFSKQKIKTRARTDEYCDAGVRYCAGTDNPAGLKLTDRKITRRDGTELQFEKSTSDSTYDDFDKFIDTGNQVINGKLARKRSSETWYDCLIFDCENKIKVFKGEKPYGPKGKLEEVELKKEKINGKTFARVKDADNKTFSIFPSSPGYLERLWQERDLDTNTQQLNLDLTKDFKTWRVEHNLQYGSSYNTTMKRMVNRAGNDATDVQWWAERTLGTKKPWWSSKEIPETCEDASWNPNLCPRVDPEFSYLLPIKTKEKSVYLFDNVVITDYLSFDLGYRYDNIHYQPKYKHGVTPKLPDDIVKGLFIPLNGKNNNDEVIKKNVQQNIDYIAKQNKKYKAHSYSFASTIDPTSFLRLQLKYSKGFRAPTSDEMYFTFKHPDFTILPNTNLKPEIAKTKEIAFTLHNDDWGFISTSLFKTNYKNFIDLIFKEKRNFAVGDRGGSTLPFSLYQNINRDSAVVKGIEINSKVFLGKMAKFMDGFNLSYKYTYQKGRMNGNIPMNAIQPKTMVYGLGYDHPSQKFGFNFYATHVATKNPEDTYNMFYKEEGKTDSTIKWRSKSYTILDLIGYVQPIKNLTIRAGVYNLTNRKYITWDSARSIRSFGTSNVIEQTTGLGINRFYAPGRNYKMSVQFEF
>LR134490.1|VEI53989.1|412077_412374_+|putative-HTH-type-transcriptional-regulator
MNKISPLGSNWNEFEQQIFNEEEIRESNLRVALIKELITSRQQLGISQKQLETLSGVKQPMIARIEKGQTNPQLETLLKLLAPLGKTLSIVPLRVKNA
>LR134490.1|VEI53991.1|412557_414474_+|sugar-ABC-transporter-ATP-binding-protein
MIIFSNLSLKRGQTELLENASATINPKQKVGLVGKNGCGKSSLFALLKKELTPEGGEVNYPSNWRVSWVNQETPALDISAIDYVIQGDREYRRLQQELEQANERNDGNAIARIHGQLETLDAWTIQSRAASLLHGLGFSQEETTQPVKAFSGGWRMRLNLAQALLCPSDLLLLDEPTNHLDLDAVIWLERWLVQYQGTLVLISHDRDFLDPIVTKILHIENQKLNEYTGDYSSFEVQRATKLAQQTAMYRQQQQKISHLQKYIDRFKAKATKAKQAQSRMKALERMELIAPAYVDNPFTFEFRPPQSLPNPLVMIEQASAGYGCGESAVEILSKIKLNLVPGSRIGLLGKNGAGKSTLIKLLAGELTALSGTAQLAKGVQLGYFAQHQLDTLRADESALWHMQKLAPEQTEQQVRDYLGSFAFHGDKVNQAVKSFSGGEKARLVLALIVWQRPNLLLLDEPTNHLDLDMRQALTEALVDYEGSLVVVSHDRHLLRNTVEEFYLVHDKKVEEFKGDLEDYQKWLNEQNSTSENKVSEKVGDNENSVQNRKEQKRREAELRQQTAPLRKKITQLEEKMNKFSSELANIENQLADAELYNAENKEKLTALLAQQVDVKKALDDVETEWMTAQEELEGMLQA
>LR134490.1|VEI53993.1|414483_415032_+|DNA-topoisomerase
MNQSLFHHSKQQEYCPQCGAPLQIKQGKKGLFLGCSAYPECDYLRPLQRVEHKVLKTLDEICPKCGNLLQLKQGSFGMFIGCSHYPECDFVVREESESEEKIACPECKTGHLISRRGRQGKIFYGCDNFPKCKFSLPTKPYAVSCPTCHFPLSLLKSDNVERNGEKQIFQCANKTCRHIFEQ
>LR134490.1|VEI53995.1|415047_415599_+|ribosome-maturation-factor
MNREQIAKALRQNQVVAYPTEAVFGLGCNPQSESAVKKLLDLKQRPVEKGLILVAPSLDFFRPFVDFELINDEQLSRLQGKYERPTTWIVPAKSTIPHFLTGKFDSIAVRLCDHPSVKALCEFTGFTLTSTSANLTGEPPCRTADEVRLQFGADFPVLDEIVGDARNPSEIRDLRTNQLFRQG
>LR134490.1|VEI53997.1|415602_416421_+|dehydroshikimate-reductase,-NAD(P)-binding
MDLYAVWGNPITQSKSPLIQNKLAAQTHQTMEYIAKLGNLDSFEQQLLAFFEGGAKGCNITSPFKERAYQLADEYSQRAKLAEACNTLKKLDDGKLYADNTDGIGLVTDLQRLNWLHPNQRILILGAGGATKGVLLPLLQAQQNIVLANRTFSKAKELAERFQPYGNIQAASMDSIPLQTYDVVINATSAGLSGGTTPVDAEILKLGSAFYDMQYAKGVDTPFIALCKSLGLTNLSDGFGMLVAQAAHSFHLWRGVMPDFVAVYEQLKKAML
>LR134490.1|VEI53999.1|416417_416981_+|DNA-3-methyladenine-glycosylase
MITRCPWVGKQPIYIYIDYHDKEWGKPEFDSQKLFEKICLEGQQAGLSWITVLKKRESYREAFHQFDPKKIAKMTALDIDDCMKNAGLIRHRAKLEAIVKNAKAYLAMEKCGENFSDFIWSFVNHKPIVNDVPDLRSVPAKTEASKALSKALKKRGFVFVGETTCYAFMQSMGLVDDHLNDCPCKTR
>LR134490.1|VEI54001.1|416977_417742_-|UDP-glucose-Lipooligosaccharide-beta-1-4-glucosyltransferase
MPTISVAMIVKNEAQDLANCLDTVKDWVDEIIILDSGSTDNTKEIALSYGAKFYENRDWQGFGKQRQLAQQYVTSDYVLWLDADERVTPKLKQAILSAVKNNRENTVYEIPRVSEVFGREIRHSGWYPDYVVRLYRTNYAQYNDSLVHEKVEFPAGTKVEKLTGDLEHFTYKSIHHYLVKSAGYAKAWADQRQAKGKKATLWQGITHAIGCFVKMYLLKAGFLDGKQGFLLAVLSAHSTFVKYADLWERDQHKH
>LR134490.1|VEI54003.1|417804_419088_+|3-deoxy-D-manno-octulosonic-acid-transferase
MWRFFYTSLLLICQPLILCFIGLLSVKSPRYRQRLAERYGFYGNTSCPPPQGIFIHAASVGEVIAATPLVRQLQQDYPHLSITFTTFTPTGSERVKATFGNSVFHYYLPFDLPFSIHRFINFVQPKLCIVMETELWPNLIHQLFLRNIPFVIANARLSARSAHRYGKIKARLQTMWSQISLIAAQDHISGKRYATLGYPKEKLNITGNIKYDLSITDELREKIDDLRSLWVKNRPIWIAASTHNGEDEIILKSHRALLAKYPNLLLLLVPRHPERFNVVADLLKKEKFQFIRRSTNELPNENTQVILGDSMGELMLMYGISDIAFVGGSLVKHGGHNPLEPLAFKMPVITGKHTFNFPEIFRMLVEVQGVLEVNSTADALERAVEALLNSKEARERLGNAGYEVLMENRGALQRLLDLLKPYLERNV
>LR134490.1|VEI54005.1|419084_419555_+|pantetheine-phosphate-adenylyltransferase
MTSVIYPGTFDPITNGHLDIIERSAVIFPRVLVAVANSPSKKTLFSLEERVELVRQSVAHLSNVEVFGFSDLLANVIKQHNISAIIRGVRTTTDFEYELQLAALNRLLTKGVESLFFPPAEKWAFVSSTIVREIYLHGGDVAELVPVPVFNALKAR

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Crispr_ID: LR134490_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

LR134490_2

1049510-1049614

TypeIII

Consensus_repeat	Method
AATCCCTTTGGAACAGGGCAATGTCTTTCGACA	CRISPRCasFinder

1 spacers

csx1,csx16,cas6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10

The CRISPR arrays of LR134490_2

>merge|LR134490|2|1049510-1049614|CRISPRCasFinder
AATCCCTTTGGAACAGGGCAATGTCTTTCGACACTGACTATATGCTTCGCTTTGTACGGTTTGACAAGTCTCAATCCCTTTGGAACAGGGCAATGTCTTTCGACA

>LR134490|2|2|1049510-1049614|CRISPRCasFinder
AATCCCTTTGGAACAGGGCAATGTCTTTCGACA	CTGACTATATGCTTCGCTTTGTACGGTTTGACAAGTCTC
AATCCCTTTGGAACAGGGCAATGTCTTTCGACA

Protein	Signature genes	Signature genes Name	Protein_function
LR134490.1\|VEI55176.1\|1044422_1044746_+\|thioredoxin-1	unknown	unknown	gnl\|CDD\|200072
LR134490.1\|VEI55186.1\|1047004_1048384_+\|cysteinyl-tRNA-synthetase	unknown	unknown	gnl\|CDD\|234705
LR134490.1\|VEI55190.1\|1050750_1051911_-\|CRISPR-associated-protein,-NE0113-family	csx1	pfam09623_csx1_CAS-III	gnl\|CDD\|187872
LR134490.1\|VEI55208.1\|1061421_1061523_+\|Uncharacterised-protein	unknown	unknown	unknown
LR134490.1\|VEI55178.1\|1044795_1045050_-\|Uncharacterised-protein	unknown	unknown	unknown
LR134490.1\|VEI55200.1\|1055919_1056858_-\|CRISPR-type-III-A/MTUBE-associated-RAMP-protein-Csm4	csm4gr5	mkCas0089_csm4gr5_CAS-III-A:CAS-III-D	gnl\|CDD\|187794
LR134490.1\|VEI55192.1\|1051918_1053091_-\|Domain-of-uncharacterised-function-(DUF1887)	csx1	pfam09002_csx1_CAS-III	gnl\|CDD\|312526
LR134490.1\|VEI55180.1\|1045025_1045292_-\|Uncharacterised-protein	unknown	unknown	gnl\|CDD\|224871
LR134490.1\|VEI55194.1\|1053100_1053391_-\|putative-CRISPR-associated-protein,-VVA1548-family	csx16	cd09695_csx16_CAS-I:CAS-III	gnl\|CDD\|370601
LR134490.1\|VEI55196.1\|1053449_1054370_-\|Uncharacterized-conserved-protein-(DUF2276)	cas6	mkCas0066_cas6_CAS-I:CAS-III	gnl\|CDD\|337605
LR134490.1\|VEI55170.1\|1040059_1041337_+\|threonine-synthase	unknown	unknown	gnl\|CDD\|236418
LR134490.1\|VEI55198.1\|1054369_1055923_-\|CRISPR-type-III-A/MTUBE-associated-RAMP-protein-Csm5	csm5gr7	mkCas0182_csm5gr7_CAS-III-A	gnl\|CDD\|377130
LR134490.1\|VEI55174.1\|1043307_1044303_+\|fermentative-D-lactate-dehydrogenase,-NAD-dependent	unknown	unknown	gnl\|CDD\|240659
LR134490.1\|VEI55188.1\|1048544_1049405_-\|acyl-CoA-thioesterase-II	unknown	unknown	gnl\|CDD\|224857
LR134490.1\|VEI55202.1\|1056867_1057560_-\|CRISPR-type-III-A/MTUBE-associated-RAMP-protein-Csm3	csm3gr7	cd09684_csm3gr7_CAS-III-A:CAS-III-D	gnl\|CDD\|187815
LR134490.1\|VEI55206.1\|1057975_1060147_-\|CRISPR-associated-protein-Cas10/Csm1,-subtype-III-A/MTUBE	cas10	cd09680_cas10_CAS-III	gnl\|CDD\|187811
LR134490.1\|VEI55204.1\|1057576_1057966_-\|CRISPR-type-III-A/MTUBE-associated-protein-Csm2	csm2gr11	cd09647_csm2gr11_CAS-III-A	gnl\|CDD\|367635
LR134490.1\|VEI55184.1\|1046392_1046902_-\|peptidyl-prolyl-cis-trans-isomerase-B	unknown	unknown	gnl\|CDD\|182734
LR134490.1\|VEI55182.1\|1045549_1046338_-\|DNase	unknown	unknown	gnl\|CDD\|223162
LR134490.1\|VEI55172.1\|1042185_1043295_+\|cystathionine-gamma-synthase	unknown	unknown	gnl\|CDD\|181320

Protein	Function_ID	Function_description	E-value
LR134490.1\|VEI55176.1\|1044422_1044746_+\|thioredoxin-1	gnl\|CDD\|200072	TIGR01068, Thioredoxin-like_protein_slr0233, thioredoxin. Several proteins, such as protein disulfide isomerase, have two or more copies of a domain closely related to thioredoxin. This model is designed to recognize authentic thioredoxin, a small protein that should be hit exactly once by this model. Any protein that hits once with a score greater than the second (per domain) trusted cutoff may be taken as thioredoxin. [Energy metabolism, Electron transport].	1.12474e-54
LR134490.1\|VEI55186.1\|1047004_1048384_+\|cysteinyl-tRNA-synthetase	gnl\|CDD\|234705	PRK00260, cysS, cysteinyl-tRNA synthetase; Validated.	0
LR134490.1\|VEI55190.1\|1050750_1051911_-\|CRISPR-associated-protein,-NE0113-family	gnl\|CDD\|187872	cd09741, Csx1_III-U, CRISPR/Cas system-associated protein Csx1. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Protein of this family often fused to HTH domain; Some proteins could have an additional fusion with RecB-family nuclease domain; Core domain appears to have a Rossmann-like fold; loosely associated with CRISPR/Cas systems; also known as NE0113 family.	1.71417e-91
LR134490.1\|VEI55200.1\|1055919_1056858_-\|CRISPR-type-III-A/MTUBE-associated-RAMP-protein-Csm4	gnl\|CDD\|187794	cd09663, Csm4_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm4. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily protein.	1.11716e-06
LR134490.1\|VEI55192.1\|1051918_1053091_-\|Domain-of-uncharacterised-function-(DUF1887)	gnl\|CDD\|312526	pfam09002, DUF1887, Domain of unknown function (DUF1887). This domain is found in a set of hypothetical bacterial proteins.	1.95205e-82
LR134490.1\|VEI55180.1\|1045025_1045292_-\|Uncharacterised-protein	gnl\|CDD\|224871	COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism].	1.48406e-05
LR134490.1\|VEI55194.1\|1053100_1053391_-\|putative-CRISPR-associated-protein,-VVA1548-family	gnl\|CDD\|370601	pfam09652, Cas_VVA1548, Putative CRISPR-associated protein (Cas_VVA1548). This entry represents a conserved region of about 95 amino acids found exclusively in species with CRISPRs (Clustered Regularly Interspaced Short Palindromic Repeats). In all bacterial species that contain this entry, the genes encoding the proteins are in the midst of a cluster of cas (CRISPR-associated) genes.	1.77094e-41
LR134490.1\|VEI55196.1\|1053449_1054370_-\|Uncharacterized-conserved-protein-(DUF2276)	gnl\|CDD\|337605	pfam10040, CRISPR_Cas6, CRISPR-associated endoribonuclease Cas6. Cas6 is a member of the RAMP (repeat-associated mysterious protein) superfamily. It is among the most widely distributed Cas proteins and is found in both bacteria and archaea. Cas6 functions in the generation of CRISPR-derived guide RNAs for invader defense in prokaryotes.	8.03786e-06
LR134490.1\|VEI55170.1\|1040059_1041337_+\|threonine-synthase	gnl\|CDD\|236418	PRK09225, PRK09225, threonine synthase; Validated.	0
LR134490.1\|VEI55198.1\|1054369_1055923_-\|CRISPR-type-III-A/MTUBE-associated-RAMP-protein-Csm5	gnl\|CDD\|377130	pfam03787, RAMPs, RAMP superfamily. The molecular function of these proteins is not yet known. However, they have been identified and called the RAMP (Repair Associated Mysterious Proteins) superfamily. The members of this family have no known function they are around 300 amino acids in length and have several conserved motifs.	1.64453e-06
LR134490.1\|VEI55174.1\|1043307_1044303_+\|fermentative-D-lactate-dehydrogenase,-NAD-dependent	gnl\|CDD\|240659	cd12183, LDH_like_2, D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains. D-Lactate dehydrogenase (LDH) catalyzes the interconversion of pyruvate and lactate, and is a member of the 2-hydroxyacid dehydrogenase family. LDH is homologous to D-2-hydroxyisocaproic acid dehydrogenase (D-HicDH) and shares the 2-domain structure of formate dehydrogenase. D-2-hydroxyisocaproate dehydrogenase-like (HicDH) proteins are NAD-dependent members of the hydroxycarboxylate dehydrogenase family, and share the Rossmann fold typical of many NAD binding proteins. HicDH from Lactobacillus casei forms a monomer and catalyzes the reaction R-CO-COO(-) + NADH + H+ to R-COH-COO(-) + NAD+. D-HicDH, like the structurally distinct L-HicDH, exhibits low side-chain R specificity, accepting a wide range of 2-oxocarboxylic acid side chains. Formate/glycerate and related dehydrogenases of the D-specific 2-hydroxyacid dehydrogenase superfamily include groups such as formate dehydrogenase, glycerate dehydrogenase, L-alanine dehydrogenase, and S-adenosylhomocysteine hydrolase. Despite often low sequence identity, these proteins typically have a characteristic arrangement of 2 similar subdomains of the alpha/beta Rossmann fold NAD+ binding form. The NAD+ binding domain is inserted within the linear sequence of the mostly N-terminal catalytic domain, which has a similar domain structure to the internal NAD binding domain. Structurally, these domains are connected by extended alpha helices and create a cleft in which NAD is bound, primarily to the C-terminal portion of the 2nd (internal) domain.	0
LR134490.1\|VEI55188.1\|1048544_1049405_-\|acyl-CoA-thioesterase-II	gnl\|CDD\|224857	COG1946, TesB, Acyl-CoA thioesterase [Lipid metabolism].	1.71879e-155
LR134490.1\|VEI55202.1\|1056867_1057560_-\|CRISPR-type-III-A/MTUBE-associated-RAMP-protein-Csm3	gnl\|CDD\|187815	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily protein.	6.56927e-81
LR134490.1\|VEI55206.1\|1057975_1060147_-\|CRISPR-associated-protein-Cas10/Csm1,-subtype-III-A/MTUBE	gnl\|CDD\|187811	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Multidomain protein with permuted HD nuclease domain, palm domain and Zn-ribbon; signature gene for type III; also known as Csm1 family.	4.9029e-103
LR134490.1\|VEI55204.1\|1057576_1057966_-\|CRISPR-type-III-A/MTUBE-associated-protein-Csm2	gnl\|CDD\|367635	pfam03750, Csm2_III-A, Csm2 Type III-A. Clusters of short DNA repeats with non-homologous spacers, which are found at regular intervals in the genomes of phylogenetically distinct prokaryotic species, comprise a family with recognisable features. This family is known as CRISPR (short for Clustered Regularly Interspaced Short Palindromic Repeats). A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-associated) proteins. This entry represents Csm2 Type III-A, a family of Cas proteins also known as TM1810/Csm2.	7.00359e-18
LR134490.1\|VEI55184.1\|1046392_1046902_-\|peptidyl-prolyl-cis-trans-isomerase-B	gnl\|CDD\|182734	PRK10791, PRK10791, peptidylprolyl isomerase B.	2.49893e-95
LR134490.1\|VEI55182.1\|1045549_1046338_-\|DNase	gnl\|CDD\|223162	COG0084, TatD, Mg-dependent DNase [DNA replication, recombination, and repair].	3.59609e-98
LR134490.1\|VEI55172.1\|1042185_1043295_+\|cystathionine-gamma-synthase	gnl\|CDD\|181320	PRK08247, PRK08247, methionine biosynthesis PLP-dependent protein.	0

>LR134490.1|VEI55188.1|1048544_1049405_-|acyl-CoA-thioesterase-II
MSDILNNLIHLLKLEKIDDLIFRGESQDLGFRQVFGGQVVAQALSAAMQVALEDRILHSCHAYFLAPGDSQYPIIYDVETLREGRNFSALRVKAIQHKNTICHVTASFQVPEKGFEHQNSMPNVGAPEDFTDENVMLQKVAQTLPEPLNEKFAAERPFEVRTKYLNNPFNGKKLPAEQYSWFKTNGETPLDIKIQQCLLAYFSDFHCILTALHPHEKGFLQKGMKVATIDHSIWFHRPFDLNHWHLHAIESNNAFGGRGLARGQIFSQDGQLIATTQQEGLIRFNE
>LR134490.1|VEI55186.1|1047004_1048384_+|cysteinyl-tRNA-synthetase
MLKIFNTLTREKEIFKPIHENKVGMYVCGVTVYDLCHIGHGRTFVCFDVIARYLRSLGYDLTYVRNITDVDDKIIKRALENKETCDQLVDRMVQEMYKDFDALNVLRPDFEPRATHHIPEIIEIVEKLIKRGHAYVADNGDVMFDVESFKEYGKLSRQDLEQLQAGARIEINEIKKNPMDFVLWKMSKENEPSWSSPWGAGRPGWHIECSAMNCKQLGEHFDIHGGGSDLMFPHHENEIAQSCCAHGGQYVNYWIHSGMIMVDKEKMSKSLGNFFTIRDVLNHYNAEAVRYFLLTAHYRSQLNYSEENLNLAQGALERLYTALRGTDQSAVVFGGENFVETFREAMDDDFNTPNALSVLFEMAREINKLKTEDVEKANGLAARLRELGAILGLLQQDPEKFLQAGSNDDEVAKIEALIKQRNEARAAKDWATADAARNELTAMGIVLEDGPNGTTWRKQ
>LR134490.1|VEI55184.1|1046392_1046902_-|peptidyl-prolyl-cis-trans-isomerase-B
MVTLHTNFGDIKIKLDFDKAPVTAENFLNYCKEGFYNNTIFHRVIDGFMIQGGGMESGMREKATKAPIQNEANNCLSNKRGTIAMARTSDPHSATAQFFINVADNDFLNYRSKEMFGREVVQEWGYAVFGEVVEGMDVVDKIKKVKTGNKGFHQDVPTEDVVITSVSVE
>LR134490.1|VEI55182.1|1045549_1046338_-|DNase
MPFFDTHTHLDYLQQFTGEPLSQLIDNAKQADVQKILVVAVKEADFKTIQNMTALFPDNLCYGLGLHPLYIQEHAENDLILLEQALKNRDANCTAVAEIGLERAIPDLLTDELWAKQCHFFESQLYLAKQFNLPVNIHSRKTHDQIFTFLKRIPLSKLGVVHGFSGSYDQAKRFVDLGYKIGVGGTITYERANKTRQAIAKLPLDSLVLETDSPDMPVFGFQGQPNRPERILESFKALCTLRNEPAELIKKLTWENACQIFS
>LR134490.1|VEI55180.1|1045025_1045292_-|Uncharacterised-protein
MGLTLKEHAEVCMALAESSASAGLCYMMSNVAVNCLNLFGSYQLKQKIFSDIVQNKTFAALAYSELGTGTHFYSSFYINMAWNLVKIM
>LR134490.1|VEI55178.1|1044795_1045050_-|Uncharacterised-protein
MEFGQDYVEKRFDVGVGLHGEHVGGELNSANAFTETLFKMDYNNPEHKEMMDLEGLKRWIARRKSLKLPSTRANIKISDKKLPH
>LR134490.1|VEI55176.1|1044422_1044746_+|thioredoxin-1
MSEVLHINDADFESVVVNSDIPVLLDFWAPWCGPCKMIAPVLDELAPEFAGKVKIVKMNVDDNQATPAQFGVRSIPTLLLIKNGQVVATQVGALAKTQLANFINQHI
>LR134490.1|VEI55174.1|1043307_1044303_+|fermentative-D-lactate-dehydrogenase,-NAD-dependent
MKIAIYSTKSYDRKYIDLINAKYNFDLEFFDFMLNESTVRLAEHCEVVCIFVNDNGSRKVLEKLAALGVKIVALRCAGFNNVDLKAAQDLGIQVVRVPAYSPEAVAEHTIGLMMTLNRRIHRAYQRTREANFSLEGLIGFNMYGRTVGVIGTGKIGIAVMRILKGFGMNILAYDPFKNPVVEELGGQYVELDELYAKSHVITLHCPATPENYHLLNREAFAKMKDGVMIVNTSRGSLIDTQAAIDALKQRKIGALGMDVYENERDLFFEDKSNEVIQDDIFRRLSSCHNVLLTGHQAFLTEEALTNIADVTLSNIYKLKSGKVCENIVLPS
>LR134490.1|VEI55172.1|1042185_1043295_+|cystathionine-gamma-synthase
MTQQYAIDTLLAQAGNRSDEGTGAVSAPIFLSTAYGHCGIGESTGFDYTRTKNPTRTVLEETIAKLENGDRGFAFSSGMAAIQVLMTLFTAPDEWIVSSDVYGGTYRLLDFSYKNNNSVKPIYVNTASASAIEAAINPNTKAIFIETPSNPLMEECDVVEIAKLAKKHNLMLIVDNTFLTPVLSRPLDLGADVVIHSGTKYIAGHNDALVGLIVAKGQALCDRIAYIQNGAGAVLSPFDSWLTIRGMKTLSLRMKRHQENAQAIAEFLSAQPQVESVLYPNKGGMLSFRLQDEAWVNTFLKSIKLITFAESLGGTESFITYPATQTHMDIPESERVARGITNTLLRFSVGIEDVEDIKADLLQAFVNLK
>LR134490.1|VEI55170.1|1040059_1041337_+|threonine-synthase
MNLYNIKHPEEQVTFSQAVRQGLGRDQGLFFPEVIPQLNNINELLELPLVERSQKILGALIDGELPQATLDAMVKNAFTFTAPLEKVEDNIYALELFHGPTLAFKDFGGRFMAQALAAVRGDGKITILTATSGDTGAAVAHAFYGLENINVVILYPKGKISPLQEKLFCTLGGNIRTVAINADFDACQALVKQAFDDVELRQAIGLNSANSINISRLLAQVCYYFEAVAQLPKEKHDNVVVSVPSGNFGNLTAGLIAKTLGLPIKRFVASTNANDTVPRYLKSGNWDPKTTVATLSNAMDVSRPNNWPRVEELFKRNGWDLTDLGSEMLSDSETEDTLKTMQSKGYLCEPHGAIAYQVLKDQLKADEVGIFLCTAHPAKFKESVERILGIQLPLPETLDKHNQLPLLSDEMDNDFAQLRAYLLKS
>LR134490.1|VEI55190.1|1050750_1051911_-|CRISPR-associated-protein,-NE0113-family
MNNYNKRTLLSVTGMSPAVVTETLYALVTEKGFIPTEIQVITTEQGKNKLLDALLGIEGGRKKSKGALQEFIEDYGDEYGFSAIHFDESCVHIIEDVSGQNLPDIRTPEENEQAANSIVQLVGKLCQDEESQLHVSIAGGRKTMGFFMGYALSLYGREQDSLSHVLVDAQYENLPSFYYPKPYSYLINDRDGKEIDAKSGKVMLAEIPWVRLGLGVPEDLKQQSISYSESVKNAQALLDKPSLTFLSPLEDCLVEFGAKVIKLAPRGYTLLLSLALAKKYNWHIGIREEQKTIDTYLKIYRAIKADPKDRMGNRLSGEENDLKKVLSESQTDIRNKMTEYFSLGKGAKSDYIPFSSHKTGNYELNVELDSIDISELQLDLKHLNLF
>LR134490.1|VEI55192.1|1051918_1053091_-|Domain-of-uncharacterised-function-(DUF1887)
MQKYDIHVCLISAQAAPNLLPILDSEFKPKKAIFLVSKAMKQRAEHLAKTFEKLNVKVELKNISDEFNFGLMEDEIFKFVEEYENESIALNVTGGTKLMSIAAENAFSSLGKPIFYIDTDSNQILFISKDEEQKWLPNLEMKAKNKIDIYLSAYGSTVLTTQDPNARKEYLPAIEPFIKHYDNYTQLIPMLNMHATLSQSNGYKSEYTKANPKINKIDELFLGLDYQGLINYDGQQIDFKNKEIKTFLNGGWLEDYTYFQLKEIANIEDIACGVDVANPKFKLGKNEYSSENKGNKNEFDIVFMAKNKLHIIECKTQLMDKSGGIKAEDILYKLETLKDYGGLMTKKCLVSYFEVPEQVKNRASFLNIEIIQGKDLQRLKSKIQEWIGKR
>LR134490.1|VEI55194.1|1053100_1053391_-|putative-CRISPR-associated-protein,-VVA1548-family
MTTWFISRHLGAIEWIKQQNIQIDRFESHLDTSLVQAGDVVIGTLPIHLAAEICQKGAKFYFLSVNVSREQRGTELTCEQLTEQQCSIQPFWVEKL
>LR134490.1|VEI55196.1|1053449_1054370_-|Uncharacterized-conserved-protein-(DUF2276)
MLSSLPIARYQFTFTVTEPIQLPEYAGSTLRGAFGRALRKIACMTKQTECKGCPLYRTCPYTNIFETPAPTLHELQKFSQVPNGYMIEPPEWGEKVYFSGEKLQFSLVLFGRLIEQLPLIAFAFKRAFEYNVGRGKAHLLDISVLNENAGNFESVLVNGNIIEHHKAVKFPESFSNNAVIEISTPLRLQENGKPLNEKEVSVERFFISLAKRISLLSEFHFEPLYFDFELLKNKITQIQDEKNLKWQDWTRYSSRQDQKMKLGGVVGKWQFKNLSLELSQLLYIGQWLHCGKNATFGLGKYKITNL
>LR134490.1|VEI55198.1|1054369_1055923_-|CRISPR-type-III-A/MTUBE-associated-RAMP-protein-Csm5
MKKFMQTHKVYLTPLSPIHIGCGEDFEPTNYVIDGATLFNFEPSQLMLNERERTELLNAINRLDLLAIQRFFLTYKEKAIANAYYFSDVSEGLAQDYKNRVGKVAQRENDGNKVINNLSIERTAYLSIQHLPYIPGSGFKGALATALLDQAHQEKNNPKVNAKDHGKLLKIYIGDFEESKLRHIKFSDFVPESQVGSKIYYALNFKKKLGKTDGKGRAMALRRECIAAGQYRAFQSELTLTESQNTFSLLQLIDALKKFYLPVFKKEMELLQNRNLVSAQYVKSLEKLITLPNVALIRLGKNGADSKTYQGDNIAQIKIMGAKGTPATFKDSSTTFWLAGTNNNQQTDLLPFGWALVEVDPASENETLKTWCESQPKSKFDRSAILAKHETQKAEQARLQAEAEAKRLAEQKAEKEKQALLNSLSDNQRLVEAKLVEWNSQERKQFTVSPIFAEAKKLLEEAQQWNKEDRHYLYEKIDPTKPNEGLQKYVDGLSGFSNLKAKSAVEFKKLRNKLVAE
>LR134490.1|VEI55200.1|1055919_1056858_-|CRISPR-type-III-A/MTUBE-associated-RAMP-protein-Csm4
MKLYRFTLTPQSAMGTPLVGDTLFGQLCWAVRNRFGEARLTALLESYTEQRPFMVVSDAFPQGFLPLPTLPSKFWQTKTETDRKSLKKAQWVNIEDAENSAVKFWQECALQANFKFEKESQNQFHNTIDRQTNTTGEGLFAPYSTELTWFGTAQKFDLYIVLDEVRFSLEELQQVLNDVGSFGFGRDASIGLGKFQCINPQAVNFLQQNANCYLTLANCAPQNLGLNKEYCYYQITTRFGRHGDIQALSSNPFKKPIILAKPASIFTPEKYEPRLFLGNGLSGISHAQPNAVHQGYAPVFNLFVDFKDKDHK
>LR134490.1|VEI55202.1|1056867_1057560_-|CRISPR-type-III-A/MTUBE-associated-RAMP-protein-Csm3
MKLTNIVEIKAKLVLETGLHIGAGDSEMHIGGIDNSVIKHPITQSPYIPGSSLKGKIRTLLEWRSGAVQNAPLTVKDITKNPEEVKNILRLFGISGDTKNSEQEVAEIGVSRLAFWDCALNSDWEKAIRDDNQLLTEAKSENTIDRITSTAGNPRQTERVPAGAEFDFKLMLRQFEGDKPELLELVLKGLKLLELDSLGGSGSRGYGKVKFTKLTVDGNARNLDDIKPFE
>LR134490.1|VEI55204.1|1057576_1057966_-|CRISPR-type-III-A/MTUBE-associated-protein-Csm2
MLNINEIKFGTDKSVEIFSDIAQRAAQYIKSNKNVNKTTQLRKFYDELAMWNDRVQLVRENKEVKFKELVPFIKMLKAKVAYAEGRKHVDKNFTEVFNRCIDQANNVETLRDAKLFMEAVMGFCKLEEI
>LR134490.1|VEI55206.1|1057975_1060147_-|CRISPR-associated-protein-Cas10/Csm1,-subtype-III-A/MTUBE
MSERTISLAFSVWHHYLKQLTEKHQISLPIFPEQLKKVDISYFLPKAEKIVLGKLPEIHQDNEKLFSLFEHINQEIDKSQFFYDFKPLSPNSIFPTKDVKGTDFSILWQQFVKAVENDIPISHRNNLSLWLDHFDTAMQCFTCNLPSPYSNEISFYDFTKAVAAFAVALADEKADKENPFLLIQGDFFGIQDFIFSGGSESNKGAAKILRGRSFQVSLFTELAALKILNACKLPTTSQMMNAAGKFLIVAPNTEEVKNAIKQVQTELNQWFINETYGLIGLGIAVQPAKSSEFEQANYEKLVKKLFENLEEQKLKRLDLTDTTQSVQKVEYPNGVCKMNSFFPAQSGKEHSIISEDQIKIGEMLAKKQRIIVADINAEINHQYETQILKLPIFGFKVIFTNSREDTKEFGYPVKLLQIYRFWDFSLPKDTNAQIWNGYARRYINAYVPFDEEGKIITFEDIQTKDEGQKALMTLKGDVDNLGTIFQKGIKPANIAKMAAFSRQMNQFFSLWLPAYCAENSPNMYTVFAGGDDFFLIGPWHSTQKVAYAMQQAFSHYVAENPEIHFSVGMVMSKSSIPVPRLGDLAEEALEKSKSIDKGEKVSTAAGKNAVTIFNRSVKWADWKQLCDLEEEIHRLAETYKISTSYLYSLIRLCEQAADEKNIESTMWRSRFYYRTSRYVTDKLPKENRNKALSKMSISLGDKGIASYKLNFAIPLTNYFYQKR
>LR134490.1|VEI55208.1|1061421_1061523_+|Uncharacterised-protein
MEILKDLTKEQAVIAGIALVAGMAFNAMLQYEK

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Crispr_ID: LR134490_3

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

LR134490_3

1063578-1064179

TypeIII

Consensus_repeat	Method
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGAC	PILER-CR
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGAC	CRISPRCasFinder
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGAC	CRT

8 spacers

cas2,cas1,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,cas6

The CRISPR arrays of LR134490_3

>merge|LR134490|3|1063578-1064179|PILER-CR,CRISPRCasFinder,CRT
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGACAACTTTACGCAAACGGTGTCTTTTGATAATTCAAGTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGACATTGGAATGTTATCTTCAATAACAAAATTTGAATGAGTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGACGTTACTGTATCTAATACATCATCAAAGTTAAAAGTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGACCCATAGTACTTACTGCACTTTCAACTAAAGACTTGTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGACGACTGTTTCTGTTGCAATCCACGATCACACAGTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGACTTGAAGTCATTTAAAATAAACATCACTTGTTTGTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGACACGGCAAAATAAGCCGTCATCCCCACATCACTACGGTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAAACTCATGGTCTTCAGGAATGTCTTTGTTCACGATAGGTCGAAAGACATCGACTGCCTAAAAGGGATGTACATC

>LR134490|3|1|1063578-1064036|PILER-CR
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGAC	AACTTTACGCAAACGGTGTCTTTTGATAATTCAA
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGAC	ATTGGAATGTTATCTTCAATAACAAAATTTGAATGA
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGAC	GTTACTGTATCTAATACATCATCAAAGTTAAAA
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGAC	CCATAGTACTTACTGCACTTTCAACTAAAGACTT
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGAC	GACTGTTTCTGTTGCAATCCACGATCACACA
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGAC	TTGAAGTCATTTAAAATAAACATCACTTGTTT
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGAC

>LR134490|3|3|1063578-1064108|CRISPRCasFinder
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGAC	AACTTTACGCAAACGGTGTCTTTTGATAATTCAA
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGAC	ATTGGAATGTTATCTTCAATAACAAAATTTGAATGA
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGAC	GTTACTGTATCTAATACATCATCAAAGTTAAAA
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGAC	CCATAGTACTTACTGCACTTTCAACTAAAGACTT
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGAC	GACTGTTTCTGTTGCAATCCACGATCACACA
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGAC	TTGAAGTCATTTAAAATAAACATCACTTGTTT
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGAC	ACGGCAAAATAAGCCGTCATCCCCACATCACTACG
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAAAC

>LR134490|3|1|1063578-1064179|CRT
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGAC	AACTTTACGCAAACGGTGTCTTTTGATAATTCAA
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGAC	ATTGGAATGTTATCTTCAATAACAAAATTTGAATGA
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGAC	GTTACTGTATCTAATACATCATCAAAGTTAAAA
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGAC	CCATAGTACTTACTGCACTTTCAACTAAAGACTT
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGAC	GACTGTTTCTGTTGCAATCCACGATCACACA
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGAC	TTGAAGTCATTTAAAATAAACATCACTTGTTT
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAGAC	ACGGCAAAATAAGCCGTCATCCCCACATCACTACG
GTCGAAAGACATTGCCCTGTTCCAAAGGGATTGAAAC	TCATGGTCTTCAGGAATGTCTTTGTTCACGATAG
GTCGAAAGACATCGACTGCCTAAAAGGGATGTACATC

Protein	Signature genes	Signature genes Name	Protein_function
LR134490.1\|VEI55204.1\|1057576_1057966_-\|CRISPR-type-III-A/MTUBE-associated-protein-Csm2	csm2gr11	cd09647_csm2gr11_CAS-III-A	gnl\|CDD\|367635
LR134490.1\|VEI55228.1\|1068367_1070491_-\|anaerobic-ribonucleoside-triphosphate-reductase	unknown	unknown	gnl\|CDD\|236436
LR134490.1\|VEI55232.1\|1071204_1071549_+\|nucleotidyltransferase	unknown	unknown	gnl\|CDD\|366857
LR134490.1\|VEI55218.1\|1064433_1064898_+\|single-stranded-DNA-binding-protein	unknown	unknown	gnl\|CDD\|136097
LR134490.1\|VEI55200.1\|1055919_1056858_-\|CRISPR-type-III-A/MTUBE-associated-RAMP-protein-Csm4	csm4gr5	mkCas0089_csm4gr5_CAS-III-A:CAS-III-D	gnl\|CDD\|187794
LR134490.1\|VEI55206.1\|1057975_1060147_-\|CRISPR-associated-protein-Cas10/Csm1,-subtype-III-A/MTUBE	cas10	cd09680_cas10_CAS-III	gnl\|CDD\|187811
LR134490.1\|VEI55222.1\|1066497_1066860_+\|Uncharacterised-protein	unknown	unknown	unknown
LR134490.1\|VEI55236.1\|1072272_1073163_+\|inorganic-polyphosphate/ATP-NAD-kinase	unknown	unknown	gnl\|CDD\|167337
LR134490.1\|VEI55208.1\|1061421_1061523_+\|Uncharacterised-protein	unknown	unknown	unknown
LR134490.1\|VEI55196.1\|1053449_1054370_-\|Uncharacterized-conserved-protein-(DUF2276)	cas6	mkCas0066_cas6_CAS-I:CAS-III	gnl\|CDD\|337605
LR134490.1\|VEI55212.1\|1062016_1063087_+\|CRISPR-associated-endonuclease-Cas1	cas1	cd09634_cas1_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|376633
LR134490.1\|VEI55198.1\|1054369_1055923_-\|CRISPR-type-III-A/MTUBE-associated-RAMP-protein-Csm5	csm5gr7	mkCas0182_csm5gr7_CAS-III-A	gnl\|CDD\|377130
LR134490.1\|VEI55230.1\|1070771_1071203_+\|Putative-nucleotidyltransferase-protein-component	unknown	unknown	gnl\|CDD\|131042
LR134490.1\|VEI55226.1\|1067165_1067795_+\|Uncharacterised-protein	unknown	unknown	unknown
LR134490.1\|VEI55220.1\|1064912_1066397_+\|exonuclease-V-subunit-alpha	unknown	unknown	gnl\|CDD\|350691
LR134490.1\|VEI55202.1\|1056867_1057560_-\|CRISPR-type-III-A/MTUBE-associated-RAMP-protein-Csm3	csm3gr7	cd09684_csm3gr7_CAS-III-A:CAS-III-D	gnl\|CDD\|187815
LR134490.1\|VEI55234.1\|1071561_1072173_-\|heat-shock-protein	unknown	unknown	gnl\|CDD\|184539
LR134490.1\|VEI55224.1\|1066933_1067191_+\|Uncharacterised-protein	unknown	unknown	unknown
LR134490.1\|VEI55214.1\|1063097_1063388_+\|CRISPR-associated-endoribonuclease-Cas2	cas2	cd09725_cas2_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|187856
LR134490.1\|VEI55210.1\|1061723_1062008_+\|CRISPR-associated-protein-Cas2	cas2	pfam09827_cas2_CAS-I:CAS-II:CAS-III	gnl\|CDD\|187856

Protein	Function_ID	Function_description	E-value
LR134490.1\|VEI55204.1\|1057576_1057966_-\|CRISPR-type-III-A/MTUBE-associated-protein-Csm2	gnl\|CDD\|367635	pfam03750, Csm2_III-A, Csm2 Type III-A. Clusters of short DNA repeats with non-homologous spacers, which are found at regular intervals in the genomes of phylogenetically distinct prokaryotic species, comprise a family with recognisable features. This family is known as CRISPR (short for Clustered Regularly Interspaced Short Palindromic Repeats). A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-associated) proteins. This entry represents Csm2 Type III-A, a family of Cas proteins also known as TM1810/Csm2.	7.00359e-18
LR134490.1\|VEI55228.1\|1068367_1070491_-\|anaerobic-ribonucleoside-triphosphate-reductase	gnl\|CDD\|236436	PRK09263, PRK09263, anaerobic ribonucleoside triphosphate reductase; Provisional.	0
LR134490.1\|VEI55232.1\|1071204_1071549_+\|nucleotidyltransferase	gnl\|CDD\|366857	pfam01909, NTP_transf_2, Nucleotidyltransferase domain. Members of this family belong to a large family of nucleotidyltransferases. This family includes kanamycin nucleotidyltransferase (KNTase) which is a plasmid-coded enzyme responsible for some types of bacterial resistance to aminoglycosides. KNTase in-activates antibiotics by catalyzing the addition of a nucleotidyl group onto the drug.	1.48513e-13
LR134490.1\|VEI55218.1\|1064433_1064898_+\|single-stranded-DNA-binding-protein	gnl\|CDD\|136097	PRK06863, PRK06863, single-stranded DNA-binding protein; Provisional.	1.62659e-65
LR134490.1\|VEI55200.1\|1055919_1056858_-\|CRISPR-type-III-A/MTUBE-associated-RAMP-protein-Csm4	gnl\|CDD\|187794	cd09663, Csm4_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm4. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily protein.	1.11716e-06
LR134490.1\|VEI55206.1\|1057975_1060147_-\|CRISPR-associated-protein-Cas10/Csm1,-subtype-III-A/MTUBE	gnl\|CDD\|187811	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Multidomain protein with permuted HD nuclease domain, palm domain and Zn-ribbon; signature gene for type III; also known as Csm1 family.	4.9029e-103
LR134490.1\|VEI55236.1\|1072272_1073163_+\|inorganic-polyphosphate/ATP-NAD-kinase	gnl\|CDD\|167337	PRK02231, ppnK, NAD(+) kinase.	0
LR134490.1\|VEI55230.1\|1070771_1071203_+\|Putative-nucleotidyltransferase-protein-component	gnl\|CDD\|131042	TIGR01987, Uncharacterized_protein_HI_0074, nucleotidyltransferase substrate binding protein, HI0074 family. The member of this family from Haemophilus influenzae, HI0074, has been shown by crystal structure to resemble nucleotidyltransferase substrate binding proteins. It forms a complex with HI0073, encoded by the adjacent gene and containing a nucleotidyltransferase nucleotide binding domain (pfam01909).	4.53328e-50
LR134490.1\|VEI55196.1\|1053449_1054370_-\|Uncharacterized-conserved-protein-(DUF2276)	gnl\|CDD\|337605	pfam10040, CRISPR_Cas6, CRISPR-associated endoribonuclease Cas6. Cas6 is a member of the RAMP (repeat-associated mysterious protein) superfamily. It is among the most widely distributed Cas proteins and is found in both bacteria and archaea. Cas6 functions in the generation of CRISPR-derived guide RNAs for invader defense in prokaryotes.	8.03786e-06
LR134490.1\|VEI55212.1\|1062016_1063087_+\|CRISPR-associated-endonuclease-Cas1	gnl\|CDD\|376633	pfam01867, Cas_Cas1, CRISPR associated protein Cas1. Clustered regularly interspaced short palindromic repeats (CRISPRs) are a family of DNA direct repeats found in many prokaryotic genomes. This family of proteins corresponds to Cas1, a CRISPR-associated protein. Cas1 may be involved in linking DNA segments to CRISPR.	1.77226e-95
LR134490.1\|VEI55198.1\|1054369_1055923_-\|CRISPR-type-III-A/MTUBE-associated-RAMP-protein-Csm5	gnl\|CDD\|377130	pfam03787, RAMPs, RAMP superfamily. The molecular function of these proteins is not yet known. However, they have been identified and called the RAMP (Repair Associated Mysterious Proteins) superfamily. The members of this family have no known function they are around 300 amino acids in length and have several conserved motifs.	1.64453e-06
LR134490.1\|VEI55220.1\|1064912_1066397_+\|exonuclease-V-subunit-alpha	gnl\|CDD\|350691	cd17933, DEXSc_RecD-like, DEXS-box helicase domain of RecD and similar proteins. RecD is a member of the RecBCD (EC 3.1.11.5, Exonuclease V) complex. It is the alpha chain of the complex and functions as a 3'-5' helicase. The RecBCD enzyme is both a helicase that unwinds, or separates the strands of DNA, and a nuclease that makes single-stranded nicks in DNA. RecD is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.	3.22063e-21
LR134490.1\|VEI55202.1\|1056867_1057560_-\|CRISPR-type-III-A/MTUBE-associated-RAMP-protein-Csm3	gnl\|CDD\|187815	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily protein.	6.56927e-81
LR134490.1\|VEI55234.1\|1071561_1072173_-\|heat-shock-protein	gnl\|CDD\|184539	PRK14150, PRK14150, heat shock protein GrpE; Provisional.	5.21682e-93
LR134490.1\|VEI55214.1\|1063097_1063388_+\|CRISPR-associated-endoribonuclease-Cas2	gnl\|CDD\|187856	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas2 is present in majority of CRISPR/Cas systems along with Cas1; RNAse specific to U-rich regions; Possesses an RRM/ferredoxin fold.	1.1038e-15
LR134490.1\|VEI55210.1\|1061723_1062008_+\|CRISPR-associated-protein-Cas2	gnl\|CDD\|187856	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas2 is present in majority of CRISPR/Cas systems along with Cas1; RNAse specific to U-rich regions; Possesses an RRM/ferredoxin fold.	1.90236e-12

>LR134490.1|VEI55214.1|1063097_1063388_+|CRISPR-associated-endoribonuclease-Cas2
MAQYLIGYDISDPKRLQRIYRRMTNYATPIQYSVFILDDTEKLLKQCLAEIMLIFHKKEDDLRVYPLPANAAQWRLGKSSLPDGIYWTALPTALTL
>LR134490.1|VEI55212.1|1062016_1063087_+|CRISPR-associated-endonuclease-Cas1
MSSLYIDRKGTEIKLSGEALVCYENGERVGTIPLAPIERIYLKSDVTVQASLLAKLGERGIGIIFLSGRKNIPTLFLSQPHNDAFRRISQYELAKNEVFCLAFAKKLMLLKLISQKTWLWQASNARPEKKSQLTEKATELDGLIHKIQEQTNLASLRGIEGRAAAVYFTALSIYLPPALRFQGRNRRPPRDPFNAVLSLTYTLIHSEAVLAIYGAGLDPYIGFYHALDFGRESLACDLIEPLRPLIDNWCLGLFRQEVLREEHFSSTQEGCFLGKTGRVQFYKAYESAVGNWRKMLTENSLDVVSLIKQADFISSPQRRESQVQQFSGLYEKQWQQLLEHYYFNQQSMLQDVEFKF
>LR134490.1|VEI55210.1|1061723_1062008_+|CRISPR-associated-protein-Cas2
MQTTRHKYLIAYDIADQKRLHQAHKKVEAFAIGGQKSFYECWLTEHEMSKFKSEVNNLIEPFDDRVFIFRIPDNVEPMLFGKAELQSISPFMLV
>LR134490.1|VEI55208.1|1061421_1061523_+|Uncharacterised-protein
MEILKDLTKEQAVIAGIALVAGMAFNAMLQYEK
>LR134490.1|VEI55206.1|1057975_1060147_-|CRISPR-associated-protein-Cas10/Csm1,-subtype-III-A/MTUBE
MSERTISLAFSVWHHYLKQLTEKHQISLPIFPEQLKKVDISYFLPKAEKIVLGKLPEIHQDNEKLFSLFEHINQEIDKSQFFYDFKPLSPNSIFPTKDVKGTDFSILWQQFVKAVENDIPISHRNNLSLWLDHFDTAMQCFTCNLPSPYSNEISFYDFTKAVAAFAVALADEKADKENPFLLIQGDFFGIQDFIFSGGSESNKGAAKILRGRSFQVSLFTELAALKILNACKLPTTSQMMNAAGKFLIVAPNTEEVKNAIKQVQTELNQWFINETYGLIGLGIAVQPAKSSEFEQANYEKLVKKLFENLEEQKLKRLDLTDTTQSVQKVEYPNGVCKMNSFFPAQSGKEHSIISEDQIKIGEMLAKKQRIIVADINAEINHQYETQILKLPIFGFKVIFTNSREDTKEFGYPVKLLQIYRFWDFSLPKDTNAQIWNGYARRYINAYVPFDEEGKIITFEDIQTKDEGQKALMTLKGDVDNLGTIFQKGIKPANIAKMAAFSRQMNQFFSLWLPAYCAENSPNMYTVFAGGDDFFLIGPWHSTQKVAYAMQQAFSHYVAENPEIHFSVGMVMSKSSIPVPRLGDLAEEALEKSKSIDKGEKVSTAAGKNAVTIFNRSVKWADWKQLCDLEEEIHRLAETYKISTSYLYSLIRLCEQAADEKNIESTMWRSRFYYRTSRYVTDKLPKENRNKALSKMSISLGDKGIASYKLNFAIPLTNYFYQKR
>LR134490.1|VEI55204.1|1057576_1057966_-|CRISPR-type-III-A/MTUBE-associated-protein-Csm2
MLNINEIKFGTDKSVEIFSDIAQRAAQYIKSNKNVNKTTQLRKFYDELAMWNDRVQLVRENKEVKFKELVPFIKMLKAKVAYAEGRKHVDKNFTEVFNRCIDQANNVETLRDAKLFMEAVMGFCKLEEI
>LR134490.1|VEI55202.1|1056867_1057560_-|CRISPR-type-III-A/MTUBE-associated-RAMP-protein-Csm3
MKLTNIVEIKAKLVLETGLHIGAGDSEMHIGGIDNSVIKHPITQSPYIPGSSLKGKIRTLLEWRSGAVQNAPLTVKDITKNPEEVKNILRLFGISGDTKNSEQEVAEIGVSRLAFWDCALNSDWEKAIRDDNQLLTEAKSENTIDRITSTAGNPRQTERVPAGAEFDFKLMLRQFEGDKPELLELVLKGLKLLELDSLGGSGSRGYGKVKFTKLTVDGNARNLDDIKPFE
>LR134490.1|VEI55200.1|1055919_1056858_-|CRISPR-type-III-A/MTUBE-associated-RAMP-protein-Csm4
MKLYRFTLTPQSAMGTPLVGDTLFGQLCWAVRNRFGEARLTALLESYTEQRPFMVVSDAFPQGFLPLPTLPSKFWQTKTETDRKSLKKAQWVNIEDAENSAVKFWQECALQANFKFEKESQNQFHNTIDRQTNTTGEGLFAPYSTELTWFGTAQKFDLYIVLDEVRFSLEELQQVLNDVGSFGFGRDASIGLGKFQCINPQAVNFLQQNANCYLTLANCAPQNLGLNKEYCYYQITTRFGRHGDIQALSSNPFKKPIILAKPASIFTPEKYEPRLFLGNGLSGISHAQPNAVHQGYAPVFNLFVDFKDKDHK
>LR134490.1|VEI55198.1|1054369_1055923_-|CRISPR-type-III-A/MTUBE-associated-RAMP-protein-Csm5
MKKFMQTHKVYLTPLSPIHIGCGEDFEPTNYVIDGATLFNFEPSQLMLNERERTELLNAINRLDLLAIQRFFLTYKEKAIANAYYFSDVSEGLAQDYKNRVGKVAQRENDGNKVINNLSIERTAYLSIQHLPYIPGSGFKGALATALLDQAHQEKNNPKVNAKDHGKLLKIYIGDFEESKLRHIKFSDFVPESQVGSKIYYALNFKKKLGKTDGKGRAMALRRECIAAGQYRAFQSELTLTESQNTFSLLQLIDALKKFYLPVFKKEMELLQNRNLVSAQYVKSLEKLITLPNVALIRLGKNGADSKTYQGDNIAQIKIMGAKGTPATFKDSSTTFWLAGTNNNQQTDLLPFGWALVEVDPASENETLKTWCESQPKSKFDRSAILAKHETQKAEQARLQAEAEAKRLAEQKAEKEKQALLNSLSDNQRLVEAKLVEWNSQERKQFTVSPIFAEAKKLLEEAQQWNKEDRHYLYEKIDPTKPNEGLQKYVDGLSGFSNLKAKSAVEFKKLRNKLVAE
>LR134490.1|VEI55196.1|1053449_1054370_-|Uncharacterized-conserved-protein-(DUF2276)
MLSSLPIARYQFTFTVTEPIQLPEYAGSTLRGAFGRALRKIACMTKQTECKGCPLYRTCPYTNIFETPAPTLHELQKFSQVPNGYMIEPPEWGEKVYFSGEKLQFSLVLFGRLIEQLPLIAFAFKRAFEYNVGRGKAHLLDISVLNENAGNFESVLVNGNIIEHHKAVKFPESFSNNAVIEISTPLRLQENGKPLNEKEVSVERFFISLAKRISLLSEFHFEPLYFDFELLKNKITQIQDEKNLKWQDWTRYSSRQDQKMKLGGVVGKWQFKNLSLELSQLLYIGQWLHCGKNATFGLGKYKITNL
>LR134490.1|VEI55218.1|1064433_1064898_+|single-stranded-DNA-binding-protein
MAGINKVIIIGNLGNAPEIRAMQNGDTVANFSVATSESWVDKNTQEKRENTEWHRIVLYRRLADIAGQYLRKGSKVYVEGKLKTRQWQDEKGQTHYVTEIIGSYLEMLGSKTENNQIDPSIPSVNQEKPTSNYLNKHHSDDPFLDGSDEKDWPF
>LR134490.1|VEI55220.1|1064912_1066397_+|exonuclease-V-subunit-alpha
MQYPEKKLTIEQRLKEKLKSQQYNNLLNKIQSCSQSQEEALWQMLYILEETPKHVCLQGAAGSGKSYLAGILKDILVALYLNSVYAAASTHQAKRVLSKSLGGFGCMTLHSLLDLKPEEEEDKLHFTPRSKSIAVFELNDDVTTLESNYEEREALFLIIDEVSMVDSQVFTHMKEVIPEHVKIIGIGDPYQLPPVYQEDHKIVEKSRFFTDSAFCQVHLSGVMRQSIGSPIIKQSEEIRLMQRDTLTPEMSSEGVGIIQYHSVKAFADAYLERVHSAKDALDCRILAFTNNKVNEINRYIRQQINKTNEPLIVGEYLILQEPVRDPDDIKKVMISNSEILEVVTIQEKNKNFCFNFSKQNLSVNYAEIEVRILYDDEQKDRLVKLNIIPDEKQYEEFKKALSFEALQLKIAKRQGLLKGQEAGFMWHYWWKDRVFFISTKSIFASTVHKTQGTTLDSSFVYTSDFAAAKNIDLELYYQLLYVAITRAKNQVHFI
>LR134490.1|VEI55222.1|1066497_1066860_+|Uncharacterised-protein
MLNIQQNTNHYLEDGYSHPYTSSELLAISLGYKEVFHPHSYNQRYFILNGKKWIHNLDALRHKLNREYGRYITDEELEAYEPEGFGYDVTAYFEHCVVPVKAVSKTNDFKELMRRVSLSH
>LR134490.1|VEI55224.1|1066933_1067191_+|Uncharacterised-protein
MYYLTNHNFCKLLSALYLDLPMNYADAYVNYYSGYRLASFDLDLHFFTKGEARALVIADKLIKDIQFIATAVQIARCNAEQKKMG
>LR134490.1|VEI55226.1|1067165_1067795_+|Uncharacterised-protein
MLSKKKWVEKIVLPAFHLHEKCNLLSSDFENFLIPESCPESRREEYRTYFLTHKDRYGYAENKVAPIVFCRLLQAKFNLSEELVDLEMHHFSRTNYDNSEVVEFNHTLDFEKEAINIQEMIDRFSTRVSKCKPSEVRSAYYRQNLEFLSEEERAMITTIQQERKQIYARILNFYFQKLFKEGADIPLHILELAGFQPCKGCCKHLLAEW
>LR134490.1|VEI55228.1|1068367_1070491_-|anaerobic-ribonucleoside-triphosphate-reductase
MSNFGVIKRDGSRAEFEIQRIINAIKKAASAVNISDEFYCHQIGQEVGNEIFTRHQGEIDINQIQKIVEDKLMASRYPEIARAYIEYRHDRDLAREKRSQLTKEIEGLIEQSNVELLNENANKDAKVIPTQRDLLAGIVAKHYAKHHILPRDVVEAHEKGEIHYHDLDYAPFFPMFNCMLVDLEGMLSRGFKMGNAEIEPPKSIGTATAVTAQIIAQVASHIYGGTTINRIDEVLSPYVQISYEKHLKHAQEWNVPDVEGYAKALIEKECFDAFQSLEYEVNTLHTSNGQTPFVTFGFGLGTSWQSRLIQQAILKNRIRGLGKNHKTPVFPKLVFTIKKGLNQTKGDPNYDIKQLALECASKRMYPDILNYDQVVKVTGSFKAPMGCRSFLGAYEEKGHEIHDGRNNLGVVSLNLPRIALESKNEEDFYRTLDERLAIAKKALMTRVARLENTKARVAPILYMEGACGVRLKADENVAQIFKNGRASISLGYIGIHETINALYKKGHIFDDEQLREKGIAIVRHLSEAVKRWQKETGYAFSLYSTPSENLCDRFCRLDTKKFGVIEGITDKGYYTNSYHLDVEKKVNPYDKLDFEMSYPPLASGGFICYGEYPNIQHNLKALEDVWDYSYDRVPYYGTNTPIDECYECGFTGEFECTSKGFVCPKCGNHDSTKVSVTRRVCGYLGSPDARPFNAGKQEEVKRRVKHL
>LR134490.1|VEI55230.1|1070771_1071203_+|Putative-nucleotidyltransferase-protein-component
MMTDKLNLNVLDATFYSLEQTVVQISDRNWFDMQPSIVQDTLIAGAIQKFEFVYELSLKMMKRQLQQDAINTDDIGVYGFKDILREALRFGLIEDMSKWVAYRDMRNITSYTYDQEKAMAVYAQIDDFLIESRFLLEQLRQRN
>LR134490.1|VEI55232.1|1071204_1071549_+|nucleotidyltransferase
MTSFAQLDINSEELAIVKTILQQLVPDYTVWAFGSRVKGKAKKYSDLDLAIISEEPLDFLARDRLKEAFSESDLPWRVDLLDWATTSEDFREIIRKVYVVIQEKEKTVEKPTAL
>LR134490.1|VEI55234.1|1071561_1072173_-|heat-shock-protein
MSEQEQKVKNPEVENQEVENQEEVVVEEAQQADPSQEFDPLEEAIARVQELEEQLKTQIEEAANKEQDILLRSRAEIENLRRRTEQDVEKAHKFALEKFSKDILNTIDNLERALATPANKEDESVKALFDGVELTLKELVSTVGRFGVEAVGVVGEAFNPDLHQAISMQPAEGFETNQISVVLQKGYTLSGRVIRPAMVMVAA
>LR134490.1|VEI55236.1|1072272_1073163_+|inorganic-polyphosphate/ATP-NAD-kinase
MNHLYRSFKTIALVGKPRNDINLQMHKNLFHWLMERGYQVLVEKEVAITLELPSEHLATLEEIGHRAQLAIVIGGDGNMLGRARVLAKYDIPLIGINRGNLGFLTDIDPKNAYSQLEACLERGEFFVEERFLLEAKIERASEIVSTSNAVNEAVIHPAKIAHMIDFHVYINDKFAFSQRSDGLIVSTPTGSTAYSLSAGGPILTPNLNAIALVPMFPHTLTSRPLVIDGDSKISIRFAEHNTSQLEVGCDSQITLSFTPDDVVHIQKSEHKLRLLHLKNYNYYNVLSSKLGWLKSF

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Crispr_ID: LR134490_4

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

LR134490_4

1190652-1190800

Orphan

Consensus_repeat	Method
TTGGAGCGGGAAACGAGGCTCGAACTCGCGACCCCGACCTTGGCAAGGT	CRISPRCasFinder

1 spacers

DEDDh

The CRISPR arrays of LR134490_4

>merge|LR134490|4|1190652-1190800|CRISPRCasFinder
TTGGAGCGGGAAACGAGGCTCGAACTCGCGACCCCGACCTTGGCAAGGTCGTGCTCTACCAACTGAGCTATTCCCGCAATAATGCTTTTATAATGTGAAATTGGAGCGGGAAACGAGGCTCGAACTCGCGACCCCAACCTTGGCAAGGT

>LR134490|4|4|1190652-1190800|CRISPRCasFinder
TTGGAGCGGGAAACGAGGCTCGAACTCGCGACCCCGACCTTGGCAAGGT	CGTGCTCTACCAACTGAGCTATTCCCGCAATAATGCTTTTATAATGTGAAA
TTGGAGCGGGAAACGAGGCTCGAACTCGCGACCCCAACCTTGGCAAGGT

Protein	Signature genes	Signature genes Name	Protein_function
LR134490.1\|VEI55443.1\|1192739_1192997_+\|phosphohistidinoprotein-hexose-phosphotransferase-component-of-PTS-system-(Hpr)	unknown	unknown	gnl\|CDD\|182777
LR134490.1\|VEI55419.1\|1178119_1178857_+\|lactam-utilization-protein	unknown	unknown	gnl\|CDD\|212111
LR134490.1\|VEI55435.1\|1186786_1189378_+\|uridylyltransferase	unknown	unknown	gnl\|CDD\|234980
LR134490.1\|VEI55451.1\|1195873_1196239_+\|putative-outer-membrane-protein	unknown	unknown	gnl\|CDD\|129260
LR134490.1\|VEI55447.1\|1194863_1195364_+\|glucose-specific-enzyme-IIA-component-of-PTS	unknown	unknown	gnl\|CDD\|181859
LR134490.1\|VEI55449.1\|1195546_1195759_+\|Uncharacterised-protein	unknown	unknown	gnl\|CDD\|224399
LR134490.1\|VEI55429.1\|1185051_1185450_-\|Uncharacterised-protein-family-(UPF0231)	unknown	unknown	gnl\|CDD\|225654
LR134490.1\|VEI55445.1\|1193076_1194804_+\|PEP-protein-phosphotransferase-of-PTS-system-(enzyme-I)	unknown	unknown	gnl\|CDD\|183017
LR134490.1\|VEI55423.1\|1180164_1181499_-\|argininosuccinate-synthetase	unknown	unknown	gnl\|CDD\|235434
LR134490.1\|VEI55433.1\|1185886_1186693_+\|methionine-aminopeptidase	unknown	unknown	gnl\|CDD\|235576
LR134490.1\|VEI55427.1\|1182699_1185045_-\|penicillin-binding-protein-1b	unknown	unknown	gnl\|CDD\|273952
LR134490.1\|VEI55421.1\|1178900_1180094_+\|Mn2+-and-Fe2+-transporter-of-the-NRAMP-family	unknown	unknown	gnl\|CDD\|224826
LR134490.1\|VEI55425.1\|1181654_1182527_-\|phosphoribosylaminoimidazole-succinocarboxamide-synthase	unknown	unknown	gnl\|CDD\|237571
LR134490.1\|VEI55437.1\|1189452_1190520_+\|UDP-GlcNAc:undecaprenylphosphate-GlcNAc-1-phosphate-transferase	unknown	unknown	gnl\|CDD\|131433
LR134490.1\|VEI55431.1\|1185406_1185751_-\|iron-sulfur-cluster-insertion-protein-ErpA	unknown	unknown	gnl\|CDD\|184186
LR134490.1\|VEI55453.1\|1196302_1196968_+\|DNA-binding-response-regulator-in-two-component-regulatory-system-with-QseC	unknown	unknown	gnl\|CDD\|182387
LR134490.1\|VEI55441.1\|1191540_1192581_+\|ribosome-small-subunit-dependent-GTPase-A	unknown	unknown	gnl\|CDD\|237039
LR134490.1\|VEI55457.1\|1197299_1198319_+\|sensory-histidine-kinase-in-two-component-regulatory-system-with-QseB	unknown	unknown	gnl\|CDD\|182388
LR134490.1\|VEI55455.1\|1196964_1197219_+\|sensory-histidine-kinase-in-two-component-regulatory-system-with-QseB	unknown	unknown	gnl\|CDD\|182388
LR134490.1\|VEI55439.1\|1190921_1191470_-\|oligoribonuclease	DEDDh	cd06127_DEDDh_CAS-I	gnl\|CDD\|235429

Protein	Function_ID	Function_description	E-value
LR134490.1\|VEI55443.1\|1192739_1192997_+\|phosphohistidinoprotein-hexose-phosphotransferase-component-of-PTS-system-(Hpr)	gnl\|CDD\|182777	PRK10850, PRK10850, phosphocarrier protein Hpr.	3.80476e-35
LR134490.1\|VEI55419.1\|1178119_1178857_+\|lactam-utilization-protein	gnl\|CDD\|212111	cd10800, LamB_YcsF_YbgL_like, Escherichia coli putative lactam utilization protein YbgL and similar proteins. This subfamily of the LamB/YbgL family is represented by the Escherichia coli putative lactam utilization protein YbgL. Although their molecular function of member of this subfamily is unknown, they show high sequence similarity to the Aspergillus nidulans lactam utilization protein LamB, which might be required for conversion of exogenous 2-pyrrolidinone to endogenous GABA.	5.85636e-152
LR134490.1\|VEI55435.1\|1186786_1189378_+\|uridylyltransferase	gnl\|CDD\|234980	PRK01759, glnD, bifunctional uridylyltransferase/uridylyl-removing protein GlnD.	0
LR134490.1\|VEI55451.1\|1195873_1196239_+\|putative-outer-membrane-protein	gnl\|CDD\|129260	TIGR00156, Uncharacterized_protein_HI_1709, TIGR00156 family protein. As of the last revision, this family consists only of two proteins from Escherichia coli and one from the related species Haemophilus influenzae. [Hypothetical proteins, Conserved].	3.4492e-56
LR134490.1\|VEI55447.1\|1194863_1195364_+\|glucose-specific-enzyme-IIA-component-of-PTS	gnl\|CDD\|181859	PRK09439, PRK09439, PTS system glucose-specific transporter subunit; Provisional.	1.54255e-101
LR134490.1\|VEI55449.1\|1195546_1195759_+\|Uncharacterised-protein	gnl\|CDD\|224399	COG1482, ManA, Phosphomannose isomerase [Carbohydrate transport and metabolism].	9.985e-06
LR134490.1\|VEI55429.1\|1185051_1185450_-\|Uncharacterised-protein-family-(UPF0231)	gnl\|CDD\|225654	COG3112, COG3112, Uncharacterized protein conserved in bacteria [Function unknown].	1.26966e-62
LR134490.1\|VEI55445.1\|1193076_1194804_+\|PEP-protein-phosphotransferase-of-PTS-system-(enzyme-I)	gnl\|CDD\|183017	PRK11177, PRK11177, phosphoenolpyruvate-protein phosphotransferase PtsI.	0
LR134490.1\|VEI55423.1\|1180164_1181499_-\|argininosuccinate-synthetase	gnl\|CDD\|235434	PRK05370, PRK05370, argininosuccinate synthase; Validated.	0
LR134490.1\|VEI55433.1\|1185886_1186693_+\|methionine-aminopeptidase	gnl\|CDD\|235576	PRK05716, PRK05716, methionine aminopeptidase; Validated.	1.6579e-160
LR134490.1\|VEI55427.1\|1182699_1185045_-\|penicillin-binding-protein-1b	gnl\|CDD\|273952	TIGR02071, Includes:_Penicillin-insensitive_transglycosylase, penicillin-binding protein 1B. Bacterial that synthesize a cell wall of peptidoglycan (murein) generally have several transglycosylases and transpeptidases for the task. This family consists of a particular bifunctional transglycosylase/transpeptidase in E. coli and other Proteobacteria, designated penicillin-binding protein 1B. [Cell envelope, Biosynthesis and degradation of murein sacculus and peptidoglycan].	0
LR134490.1\|VEI55421.1\|1178900_1180094_+\|Mn2+-and-Fe2+-transporter-of-the-NRAMP-family	gnl\|CDD\|224826	COG1914, MntH, Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism].	5.17135e-86
LR134490.1\|VEI55425.1\|1181654_1182527_-\|phosphoribosylaminoimidazole-succinocarboxamide-synthase	gnl\|CDD\|237571	PRK13961, PRK13961, phosphoribosylaminoimidazole-succinocarboxamide synthase; Provisional.	0
LR134490.1\|VEI55437.1\|1189452_1190520_+\|UDP-GlcNAc:undecaprenylphosphate-GlcNAc-1-phosphate-transferase	gnl\|CDD\|131433	TIGR02380, ECA_wecA, undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase. Members of this family are the WecA enzyme of enterobacterial common antigen biosynthesis, undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase. This family represents one narrow clade, and closely related sequences outside this clade may represent enzymes that catalyze the same specific reaction, but in the context of different pathways. A His-rich motif in a cytosolic loop of this integral membrane protein, shown critical to enzymatic activity for WecA is variously present or absent in the clade that includes Bacillus subtilis TagO teichoic acid biosynthesis enzyme, which may catalyze the same reaction as WecA. [Cell envelope, Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides].	0
LR134490.1\|VEI55431.1\|1185406_1185751_-\|iron-sulfur-cluster-insertion-protein-ErpA	gnl\|CDD\|184186	PRK13623, PRK13623, iron-sulfur cluster insertion protein ErpA; Provisional.	2.97219e-82
LR134490.1\|VEI55453.1\|1196302_1196968_+\|DNA-binding-response-regulator-in-two-component-regulatory-system-with-QseC	gnl\|CDD\|182387	PRK10336, PRK10336, two-component system response regulator QseB.	3.28549e-101
LR134490.1\|VEI55441.1\|1191540_1192581_+\|ribosome-small-subunit-dependent-GTPase-A	gnl\|CDD\|237039	PRK12288, PRK12288, small ribosomal subunit biogenesis GTPase RsgA.	0
LR134490.1\|VEI55457.1\|1197299_1198319_+\|sensory-histidine-kinase-in-two-component-regulatory-system-with-QseB	gnl\|CDD\|182388	PRK10337, PRK10337, sensor protein QseC; Provisional.	1.42148e-136
LR134490.1\|VEI55455.1\|1196964_1197219_+\|sensory-histidine-kinase-in-two-component-regulatory-system-with-QseB	gnl\|CDD\|182388	PRK10337, PRK10337, sensor protein QseC; Provisional.	6.37033e-16
LR134490.1\|VEI55439.1\|1190921_1191470_-\|oligoribonuclease	gnl\|CDD\|235429	PRK05359, PRK05359, oligoribonuclease; Provisional.	3.84683e-134

>LR134490.1|VEI55437.1|1189452_1190520_+|UDP-GlcNAc:undecaprenylphosphate-GlcNAc-1-phosphate-transferase
MLSIFVTFLGAFLTLIVMRPLANWIGLVDKPNYRKRHQGTIPLIGGVSLFVGNLCYYLMEWDQLRLPYLYLFSIFVLLAIGILDDRFDISPFLRAGIQAILAILMIDLGNIYLDHLGQILGPFQLTLGSIGLIITVFATIAIINAFNMIDGIDGLLGGLSCVSFAAIGILMYRDGQMDMAHWSFALIVSILPYLMLNLGIPFGPKYKVFMGDAGSTLIGFTIIWILLLSTQGKGHPMNPVTALWIIAIPLIDMVAIIYRRVRKGKSPFRPDRLHVHHLMVRAGLTSRQAFLLITFISAVCATIGILGEVYYVNEWAMFVGFFILFFLYVYSITHAWRITRWVRRMKRRAKRLKKA
>LR134490.1|VEI55435.1|1186786_1189378_+|uridylyltransferase
MLFSPTLSSPLTPSAVKIERENFKQFELENFSCYSIFELIENRCDFYDALLIQLWQEIGLSEQQGISLIAVGGYGRREMFPLSDLDFLILVEQTPSPEIEEKITQFIQFLWDCGFEVGNSVRTLAQCESEGKQDITIATNLLEARFLAGNRPHFDALNELVKRADFWSKEDFFNAKVQEQIERYQRYHNTAYNLEPDIKFSPGGLRDLHLLYWVALRHSGALTLEAILQSGFIYPQEYQQLQESRAFLFKVRFALHLILKRYDNRLLFDRQIKVSELLGFRGEGNPAVEKMMKCFFQALHRISLISNLLIQHYRENVLSSNQTTVIDQLDDDFQLINQCLCLRNSSVFQEKPARILDLFFYLTQYEHANIHSDTLRQLQISLDQLSQKLCEIPAAREKFLRLFNQPNAIKRAFMPMHQYGVLTAYLPQWQAIEGLMQFDLFHIYTVDEHTLRVMLKLESFLSQESEEEHPIAHRIFSQLSDRTLLYIAALFHDIAKGRGGDHAELGAEDVADFAQLHGLDRREIDTLAWLVKSHLLMSITAQRRDIHDPEVVMNFAEAVQNQVRLDYLTCLTVADICATNGNLWNSWKRSLFASLYEFTEQQFSQGMKELLDYSEKSAENRKLAQQILTQDYSDITSISIEKLWTRCPEDYFVRNTPKQIAWHTSLLVDFVEALLVKISNRFSLGGTEVFIYCQDQPHLFNKVVSTIGTKKFSIHDAQIITTQDGYVFDSFIITELNGELVEFDRRRELEQALTVALQSEKLPALSITPNRQLQHFTVQTDVRFLHENKKEHTEMELVALDKPGLLAQVSQIFTELNLNLLNAKITTVGEKAEDFFILTNQFGQALDSQQREILRNVLYRNIG
>LR134490.1|VEI55433.1|1185886_1186693_+|methionine-aminopeptidase
MAIPIRTEKEIVKLREACKLASDVLVMIEPYVKAGVTTGELDRICHEYMVNEQKVIPACLNYHGFPKATCISINEVVCHGIPSDDKVLKNGDIVNIDVTVIKDGYFGDNSKMYIVGGETNIRSKKLVEAAQEALYVGIRTVKPDIRLNEIGKAVQKYTESQTFSVVREYCGHGVGTEFHCEPQVLHYYADDGGVILKPGMVFTIEPMINAGKKEVRVMGDGWTVKTKDRSHSAQYEHQLVVTETGCEVMTIRDEEIAEGRISRIMVNV
>LR134490.1|VEI55431.1|1185406_1185751_-|iron-sulfur-cluster-insertion-protein-ErpA
MIDDMAVPLTFTDAAANKVKSLISEEENTDLKLRVYITGGGCSGFQYGFTFDEKVNDGDLTIEKSGVQLVIDPMSLQYLIGGTVDYTEGLEGSRFTVNNPNATSTCGCGSSFSI
>LR134490.1|VEI55429.1|1185051_1185450_-|Uncharacterised-protein-family-(UPF0231)
MPPALVAVVHPLVSKMDFQFTHYQGNVSVKCSMEHIALANWFNTEVRSNSDKILTALSTAKSLIENQEKVLIGAEYTLFLNADEVMVRANNLAIETDEILEDDFHYYDEESLAFCGTQDFIHFLQSYVDFIA
>LR134490.1|VEI55427.1|1182699_1185045_-|penicillin-binding-protein-1b
MTSQHSAKKSSKNTSKNNRTFKGFLLKFSFTALVLTIFYGGYLDWQIRSKMDGQIWHLPAEVYSRLESVKIADNLAFDEVIQILLDNEYRQTTMVAAPGDFKLEDDSIVVLRRAFPFPDKAEPQRVLRLRFNNNKLSRIEDLVTVKTVDEFRLAPKLIAMLQSDNEDRLAIPLQNYPRLLIDTLILTEDRRFYEHNGINPVGILRALIANIRAGQTVQGGSTLTQQLVKNLFLSRERTITRKANEALMSLVLDWRYDKNRILETYLNEIYLGQNGDTQIHGFELASQFYFGRSIREISLDQIALLVGMVKGPSLYNPWRNPQNALERRNIVLRLMLEHKMIGDELYQLLSQRPLGVQKKGQILRKYPAFIQTLQADLRRELGEHKISSLLGARIFSTMDLKQQAQAENAVGNTVSQLQLKMKNPHLEGAMIITDYRTGEIRAVVGGLQTQYAGFNRALMAKRQIGSLVKPSIYLTALSNPEQFRLNTPINNQPITINVKGSPPWQPRNYDKKYSDSVMLMDALARSLNIPTVNIGMKVGLSKVIDTQKAMGWDNVEIPKVPAMLLGSYTISPYDVTKLYQTLANQGGRIALTTVDSIADRQGNLIFQHDKSAKQVVPQEAAFQTLFAMQQTVERGTARSLQKDYADLHLAGKTGTTNESRDTWFVGIDGKNISTVWLGRDDNGETKLTGASGALQIYKDYLNRTNIEKLAITPPTTVKWVGINQYGDWDCESYRTIPIWLNNGQNFCGETSSPSLTPTTETEAPPQESLWDVLDNPNPPAQ
>LR134490.1|VEI55425.1|1181654_1182527_-|phosphoribosylaminoimidazole-succinocarboxamide-synthase
MTQQLPILSLKKIYSGKVRDLYEIDDKRMLMVTSDRLSAFDVILDDPIPRKGEILTQISNFWFNKLAHIMPNHFTGDSVYDVLPKEEADLIRDRAVVCKRLNPIKIESIVRGYLTGSGLKDYKQTGTICGLKLPEGLVEASKLPEAIFTPSSKEEVGNHDINISYAECEKLIGADLAAQVKEKAIALYTVAAEYALTKGIIICDTKFEFGLDENGTLTLMDEVLTPDSSRFWSVDTYQAGTNPPSFDKQFVRDWLENSGWNKQAPAPKVPENIIQKTVDKYQEALDLLTK
>LR134490.1|VEI55423.1|1180164_1181499_-|argininosuccinate-synthetase
MSNTILQNLPKGQKVGIAFSGGLDTSAALLWMRQKGAVPYAYTANLGQPDEDDYNAIPKKAMAYGAENARLIDCRSQLAHEGIAAIQCGAFHISTGGIPYFNTTPLGRAVTGTMLVAAMKEDDVNIWGDGSTFKGNDIERFYRYGLLTNPNLKIYKPWLDVQFIEELGGRLEMSQFLIENGFDYKMSVEKAYSTDSNMLGATHEAKDLEQLSTGMKIVKPIMGVAFWDEKVEIKPETVTVTFEDGVPVALNGKHFDNAVDLILEANRIGGRHGLGMSDQIENRIIEAKSRGIYEAPGMALLHIAYERLVTGIHNEDTIEQYRINGIRLGRLLYQGRWFDPQALMLRETAQRWVAKAITGTVTLELRRGNDFTILNTESPNLTYEAERLSMEKVEDAPFDPIDRIGQLTMRNLDVSDTRGKLGIYAQTGLLSAIKDSVLPQLGKK
>LR134490.1|VEI55421.1|1178900_1180094_+|Mn2+-and-Fe2+-transporter-of-the-NRAMP-family
MASITHRRNAVLGAAFLMATSAIGPGFLTQTATFTNTLLASFGFVILLSILLDIGAQLNIWRIVIVSGKRAQDISNAVFPKAGYFLAALIVMGGLAFNIGNVGGAGLGLNSIFGIAPEMGAVISGIIAILIFLRKEAGVLMDRFAQLMGFIMVALTFYVMFKTEPPVAEAAYHSFIPEQIDPIAIVTLVGGTVGGYITFAGAHRLLDAGIQGEKAMAEVSRSSVSAILIASTMRVVLFLAVLGVVSKGVSLNPKNPAETPFEYVAGNFGQVLFGVVIWAASVTSVIGAAYTSVSFLTTLCPTIERNRNRWIIAFIVISTVVLVTVGKPAAVLVFVGTLNGLILPIALALILLAAYRSDIVGTYKHPVFLAFSGWFVVIIMAILSGKTIISYISSFFS
>LR134490.1|VEI55419.1|1178119_1178857_+|lactam-utilization-protein
MKKIDLNADIAEGFPFDESLLQLLSSANIACGLHAGGAKEMQSAVKFAKENKVRIGAHPSFPDRENFGRTAMALSSQELIAHLRYQLGALKAICDGEGAVISYVKPHGALYNQAAKDEKIARVIAQTVYQFDPNLKLMGLAGSLMLRIAEEEKLQTISEVFADRHYMPDGSLVPRSQPNAMVESDKEAIQQVLQMVTKGQVNAIDGSLVPVKAESICLHGDNQHSLQFAKRIVEELEKNHIKITA
>LR134490.1|VEI55439.1|1190921_1191470_-|oligoribonuclease
MSFDKQNLIWIDLEMTGLDPEKERIIEIATIVTDKNLNILAEGPVLAVHQSDELLNKMNDWCQKTHSENGLIERVKASKLTERAAELQTLDFLKKWVPKGASPICGNSIAQDKRFLVKYMPDLADYFHYRHLDVSTLKELAARWKPEILEGFKKENTHLALDDIRESIKELAYYREHFMKLD
>LR134490.1|VEI55441.1|1191540_1192581_+|ribosome-small-subunit-dependent-GTPase-A
MAKRKLTQNQTRRIQSNNAKALHRHKKKDIEWSDEMLGESQEGVVVTRYSIHADVENEQGEIYRCNLRRTLSSLVVGDKVVWRKGNEQLQGVSGVIEAIHPRENEISRPDYYDGLKPIAANIDRIIIVSAVLPTLSLNIIDRYLVVCEIAGITPLIVLNKVDLLAQEQRQEIEDQLKIYQDIGYEILMISAKSGENMEKLTALLAQGTAIFVGQSGVGKSSLINHILPSVNAQVGDVSETSGLGQHTTTSSRLYHLPQGGNLIDSPGIREFGLWHLDAEQITKGYREFQYVLGSCKFRDCKHLSDPGCALREAVEQGKISPVRYDNYHRLIESLSETKSQRHFSLV
>LR134490.1|VEI55443.1|1192739_1192997_+|phosphohistidinoprotein-hexose-phosphotransferase-component-of-PTS-system-(Hpr)
MYSKDVEIIASNGLHTRPAAQFVKEAKAFSSEITVTSGGKSASAKSLFKLQTLALTQGTILTISADGGDEQQAVEHLVALIPTLE
>LR134490.1|VEI55445.1|1193076_1194804_+|PEP-protein-phosphotransferase-of-PTS-system-(enzyme-I)
MISGILASPGIAFGKALVLKEEKIVLDTQKITDDQIDAEVARFYEGRNAAVEQLNSIRERALISLGEEKAAIFEGHLMILEDEELEEEILDYLRSNKVNAGVAASKILDQQVTMLSEIDDEYLKERAGDIRDIANRLVKNILGMYIVDLGDIQEESILVAYDLTPSETAQLNLEKVLGVVTDIGGRTSHTSIMARSLELPAIVGTNKVTKLVNTGDYLILDAINNQVYINPTASQIDELKALEAKISEEKAELAKLKDLPAITLDGHKVDVVANIGTIRDCDGAERNGAEGIGLYRTEFLFMDREQLPTEEEQFIAYKQVVEAMNGRLTVIRTMDIGGDKELSYLDLPKEMNPFLGWRAIRIALDRREILNAQLRAVLRASAFGKLAVMFPMIISVEEIRELKAVIETLKAELREEGRLFDNNIQVGVMVETPSAAVNAKFLAKEVDFFSIGTNDLTQYTLAVDRGNEFISHLYNPMHPSVLGLIKQVIDASHAEGKWTGMCGELAGDERATLLLLGMGLDEFSMSAISVPRIKKLIRNVNFQDAKVLADTALQKPTAAEIDQLIEEFLLENSLN
>LR134490.1|VEI55447.1|1194863_1195364_+|glucose-specific-enzyme-IIA-component-of-PTS
MGLFDKLFGSKENKSVEVEIYAPISGEIVNIEDVPDVVFSEKIVGDGVAVRPIGNKIVAPVDGVIGKIFETNHAFSMESKEGVELFVHFGIDTVELKGEGFTRIAQEGQSVKRGDTVIEFDLALLESKAKSVLTPIVISNMDEISCIVKKSGEVVAGESVVLALKK
>LR134490.1|VEI55449.1|1195546_1195759_+|Uncharacterised-protein
MQNIQYECGETHHLKAQSASILLVMKGQLNLRSETTALSLKQGKVAFITAGAAYEVEGLIEGYAVVAKLP
>LR134490.1|VEI55451.1|1195873_1196239_+|putative-outer-membrane-protein
MKKFALATIFALATTSAFAGFNGNNSQGGFQQAAPAAISVKQALSAADNSMITLVGNITQQIDDDEFWFTDGTGQIKIEIKKRVWNGLNVDSKDKVKIYGKLDNEVFEKAELDVLRVEKAE
>LR134490.1|VEI55453.1|1196302_1196968_+|DNA-binding-response-regulator-in-two-component-regulatory-system-with-QseC
MRILLIEDDNLIGNGLQIGLTKLGFAVDWFTDGKTGMAALTSAPYDAVVLDLTLPKLDGLEVLQQWRSNHQDVPVLILTARDTLDERVKGLQSGADDYLCKPFALAEVAARLQALIRRRYGYHHSVIEQAGVKLDQNQRSVWLNNQPISLTSREYKLLELFMLNKDRVLSRSSIEEKLSSWDEEISSGALDVHIYNLRQKLGKQFIRTVHGVGYALGQVEK
>LR134490.1|VEI55455.1|1196964_1197219_+|sensory-histidine-kinase-in-two-component-regulatory-system-with-QseB
MKNRSLTLRLISVLCLTALFVWLGSTFVAWWQVRHDVNKVFDAQQVLFAERLANSDLSTILLESSTTLNKNPQSVLKKVMTMMP
>LR134490.1|VEI55457.1|1197299_1198319_+|sensory-histidine-kinase-in-two-component-regulatory-system-with-QseB
MGFYNSHTYDDDDNWRIFWRMAANGELVIAVGQELDYREDLIEEMIFGQMWIWFASLPILIIVLGWLIHKELRPIKRLSQEVQTRKSGDVSLLNTEGLPVEILPLVKNLNQFFDRTSAMLQRERRFTSDAAHELRSPLAALRIQTEVAQLAGDDVALREQALLHLTQGIDRASQLIEQLLTLSRLDNLQALETLQLLDWEAIVQSLISERYFVAEKRKITLVFEKESEPKQKQGQSILVSLMLRNLLDNAIKYCPEDTIVSVKISSSQIIIEDNGGGVEPEDLKKLGQRFYRPAGQNEKGSGLGLSIVMRIAELHGFKVRLENVVKEGRRIGLKAIISL

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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
LR134490_3	3.7\|1064037\|35\|LR134490\|CRISPRCasFinder,CRT	1064037-1064071	35	U24159	Bacteriophage HP1 strain HP1c1, complete genome	27564-27598	1	0.971
LR134490_3	3.7\|1064037\|35\|LR134490\|CRISPRCasFinder,CRT	1064037-1064071	35	NC_001697	Haemophilus phage HP1, complete genome	27564-27598	1	0.971
LR134490_1	1.1\|408509\|25\|LR134490\|CRISPRCasFinder	408509-408533	25	NZ_CP046456	Corynebacterium sp. 2039 plasmid pCOCCU, complete sequence	73101-73125	4	0.84
LR134490_3	3.3\|1063759\|33\|LR134490\|PILER-CR,CRISPRCasFinder,CRT	1063759-1063791	33	KY779848	Staphylococcus phage qdsa001, complete genome	76660-76692	7	0.788
LR134490_3	3.3\|1063759\|33\|LR134490\|PILER-CR,CRISPRCasFinder,CRT	1063759-1063791	33	KX532239	Staphylococcus phage StAP1, complete genome	56679-56711	7	0.788
LR134490_3	3.3\|1063759\|33\|LR134490\|PILER-CR,CRISPRCasFinder,CRT	1063759-1063791	33	LC492751	Staphylococcus phage KSAP7 genomic DNA, compelete genome	43330-43362	7	0.788
LR134490_3	3.3\|1063759\|33\|LR134490\|PILER-CR,CRISPRCasFinder,CRT	1063759-1063791	33	LC492752	Staphylococcus phage KSAP11 genomic DNA, compelete genome	43150-43182	7	0.788
LR134490_3	3.3\|1063759\|33\|LR134490\|PILER-CR,CRISPRCasFinder,CRT	1063759-1063791	33	AP019522	Staphylococcal phage MR003 DNA, complete genome	79072-79104	7	0.788
LR134490_3	3.3\|1063759\|33\|LR134490\|PILER-CR,CRISPRCasFinder,CRT	1063759-1063791	33	NC_022090	Staphylococcus phage vB_SauM_Remus, complete genome	43033-43065	7	0.788
LR134490_3	3.3\|1063759\|33\|LR134490\|PILER-CR,CRISPRCasFinder,CRT	1063759-1063791	33	LC576631	Staphylococcus phage vB_SauH_DELF3 DNA, complete sequence	77399-77431	7	0.788
LR134490_3	3.3\|1063759\|33\|LR134490\|PILER-CR,CRISPRCasFinder,CRT	1063759-1063791	33	KP881332	Staphylococcus phage Stau2, complete genome	48926-48958	7	0.788
LR134490_3	3.3\|1063759\|33\|LR134490\|PILER-CR,CRISPRCasFinder,CRT	1063759-1063791	33	MT080595	UNVERIFIED: Staphylococcus phage vB_SauM_EW41, partial genome	35710-35742	7	0.788
LR134490_3	3.3\|1063759\|33\|LR134490\|PILER-CR,CRISPRCasFinder,CRT	1063759-1063791	33	NC_020877	Staphylococcus phage vB_SauM_Romulus, complete genome	43033-43065	7	0.788
LR134490_3	3.3\|1063759\|33\|LR134490\|PILER-CR,CRISPRCasFinder,CRT	1063759-1063791	33	JX194239	Staphylococcus phage SA11, complete genome	79571-79603	7	0.788
LR134490_3	3.3\|1063759\|33\|LR134490\|PILER-CR,CRISPRCasFinder,CRT	1063759-1063791	33	NC_015598	Lactobacillus kefiranofaciens ZW3 plasmid pWW1, complete sequence	22733-22765	9	0.727

1. spacer 3.7|1064037|35|LR134490|CRISPRCasFinder,CRT matches to U24159 (Bacteriophage HP1 strain HP1c1, complete genome) position: , mismatch: 1, identity: 0.971

acggcaaaataagccgtcatccccacatcactacg	CRISPR spacer
acggcaaaataagctgtcatccccacatcactacg	Protospacer
**************.********************

2. spacer 3.7|1064037|35|LR134490|CRISPRCasFinder,CRT matches to NC_001697 (Haemophilus phage HP1, complete genome) position: , mismatch: 1, identity: 0.971

acggcaaaataagccgtcatccccacatcactacg	CRISPR spacer
acggcaaaataagctgtcatccccacatcactacg	Protospacer
**************.********************

3. spacer 1.1|408509|25|LR134490|CRISPRCasFinder matches to NZ_CP046456 (Corynebacterium sp. 2039 plasmid pCOCCU, complete sequence) position: , mismatch: 4, identity: 0.84

ctactgaagcccaccaaaatatctc	CRISPR spacer
tcaccgaagcccaacaaaatatctc	Protospacer
..**.******** ***********

4. spacer 3.3|1063759|33|LR134490|PILER-CR,CRISPRCasFinder,CRT matches to KY779848 (Staphylococcus phage qdsa001, complete genome) position: , mismatch: 7, identity: 0.788

gttactgtatctaatacatcatcaaagttaaaa--	CRISPR spacer
agtactgtatttaataaatcatcaaa--taatatt	Protospacer
. ********.***** *********  *** *

5. spacer 3.3|1063759|33|LR134490|PILER-CR,CRISPRCasFinder,CRT matches to KX532239 (Staphylococcus phage StAP1, complete genome) position: , mismatch: 7, identity: 0.788

gttactgtatctaatacatcatcaaagttaaaa--	CRISPR spacer
agtactgtatttaataaatcatcaaa--taatatt	Protospacer
. ********.***** *********  *** *

6. spacer 3.3|1063759|33|LR134490|PILER-CR,CRISPRCasFinder,CRT matches to LC492751 (Staphylococcus phage KSAP7 genomic DNA, compelete genome) position: , mismatch: 7, identity: 0.788

gttactgtatctaatacatcatcaaagttaaaa--	CRISPR spacer
agtactgtatttaataaatcatcaaa--taatatt	Protospacer
. ********.***** *********  *** *

7. spacer 3.3|1063759|33|LR134490|PILER-CR,CRISPRCasFinder,CRT matches to LC492752 (Staphylococcus phage KSAP11 genomic DNA, compelete genome) position: , mismatch: 7, identity: 0.788

gttactgtatctaatacatcatcaaagttaaaa--	CRISPR spacer
agtactgtatttaataaatcatcaaa--taatatt	Protospacer
. ********.***** *********  *** *

8. spacer 3.3|1063759|33|LR134490|PILER-CR,CRISPRCasFinder,CRT matches to AP019522 (Staphylococcal phage MR003 DNA, complete genome) position: , mismatch: 7, identity: 0.788

gttactgtatctaatacatcatcaaagttaaaa--	CRISPR spacer
agtactgtatttaataaatcatcaaa--taatatt	Protospacer
. ********.***** *********  *** *

9. spacer 3.3|1063759|33|LR134490|PILER-CR,CRISPRCasFinder,CRT matches to NC_022090 (Staphylococcus phage vB_SauM_Remus, complete genome) position: , mismatch: 7, identity: 0.788

gttactgtatctaatacatcatcaaagttaaaa--	CRISPR spacer
agtactgtatttaataaatcatcaaa--taatatt	Protospacer
. ********.***** *********  *** *

10. spacer 3.3|1063759|33|LR134490|PILER-CR,CRISPRCasFinder,CRT matches to LC576631 (Staphylococcus phage vB_SauH_DELF3 DNA, complete sequence) position: , mismatch: 7, identity: 0.788

gttactgtatctaatacatcatcaaagttaaaa--	CRISPR spacer
agtactgtatttaataaatcatcaaa--taatatt	Protospacer
. ********.***** *********  *** *

11. spacer 3.3|1063759|33|LR134490|PILER-CR,CRISPRCasFinder,CRT matches to KP881332 (Staphylococcus phage Stau2, complete genome) position: , mismatch: 7, identity: 0.788

gttactgtatctaatacatcatcaaagttaaaa--	CRISPR spacer
agtactgtatttaataaatcatcaaa--taatatt	Protospacer
. ********.***** *********  *** *

12. spacer 3.3|1063759|33|LR134490|PILER-CR,CRISPRCasFinder,CRT matches to MT080595 (UNVERIFIED: Staphylococcus phage vB_SauM_EW41, partial genome) position: , mismatch: 7, identity: 0.788

gttactgtatctaatacatcatcaaagttaaaa--	CRISPR spacer
agtactgtatttaataaatcatcaaa--taatatt	Protospacer
. ********.***** *********  *** *

13. spacer 3.3|1063759|33|LR134490|PILER-CR,CRISPRCasFinder,CRT matches to NC_020877 (Staphylococcus phage vB_SauM_Romulus, complete genome) position: , mismatch: 7, identity: 0.788

gttactgtatctaatacatcatcaaagttaaaa--	CRISPR spacer
agtactgtatttaataaatcatcaaa--taatatt	Protospacer
. ********.***** *********  *** *

14. spacer 3.3|1063759|33|LR134490|PILER-CR,CRISPRCasFinder,CRT matches to JX194239 (Staphylococcus phage SA11, complete genome) position: , mismatch: 7, identity: 0.788

gttactgtatctaatacatcatcaaagttaaaa--	CRISPR spacer
agtactgtatttaataaatcatcaaa--taatatt	Protospacer
. ********.***** *********  *** *

15. spacer 3.3|1063759|33|LR134490|PILER-CR,CRISPRCasFinder,CRT matches to NC_015598 (Lactobacillus kefiranofaciens ZW3 plasmid pWW1, complete sequence) position: , mismatch: 9, identity: 0.727

gttactgtatctaatacatcatcaaagttaaaa	CRISPR spacer
gttaatgtatctaatgcatcatcatttgtatgg	Protospacer
**** **********.********    ** ..

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

924660 : 1006899

Haemophilus_virus(73.33%)

tRNA,integrase,holin,portal,protease,terminase,capsid,tail

attL 930596:930613|attR 989531:989548

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
VEI54964.1\|924660_925548_+\|protease	modulator for HflB protease specific for phage lambda cII repressor	NA	NA	NA	NA
VEI54966.1\|925590_926025_-	putative protein-S-isoprenylcysteine methyltransferase	NA	NA	NA	NA
VEI54968.1\|926186_927314_-	N-acetylneuraminic acid mutarotase	NA	NA	NA	NA
VEI54970.1\|927489_929340_-	putative sialic acid transporter, TRAP-type C4-dicarboxylate transport system, large permease component	NA	NA	NA	NA
VEI54972.1\|929404_930394_-	transporter	NA	NA	NA	NA
930596:930613	attL	NA	NA	NA	NA
VEI54974.1\|930743_931430_+	N-acetylmannosamine-6-P epimerase	NA	NA	NA	NA
VEI54976.1\|931474_932377_+	N-acetylmannosamine kinase	NA	NA	NA	NA
VEI54978.1\|932369_933236_+	putative HTH-type transcriptional regulator	NA	NA	NA	NA
VEI54980.1\|933246_934128_+	N-acetylneuraminate lyase	NA	NA	NA	NA
VEI54982.1\|934270_934690_+	glucosamine-6-phosphate deaminase	NA	NA	NA	NA
VEI54984.1\|934809_935082_+	glucosamine-6-phosphate deaminase	NA	NA	NA	NA
VEI54986.1\|935159_936308_+	N-acetylglucosamine-6-phosphate deacetylase	NA	NA	NA	NA
VEI54988.1\|936525_937662_-	Outer membrane protein P2	NA	NA	NA	NA
VEI54990.1\|937930_938710_-	Protein of uncharacterised function (DUF3800)	NA	NA	NA	NA
VEI54992.1\|938873_939338_-	ribonuclease HI, degrades RNA of DNA-RNA hybrids	J9Q745	Salmonella_phage	1.1e-44	52.9
VEI54994.1\|939398_940169_+	DNA polymerase III subunit epsilon	A0A1X9SH08	Bradyrhizobium_phage	2.2e-37	36.1
VEI54996.1\|940851_942363_+	GTP-binding protein	NA	NA	NA	NA
VEI54998.1\|942423_943632_-	arabinose transporter	NA	NA	NA	NA
VEI55000.1\|943771_944812_-	Uncharacterized protein involved in outer membrane biogenesis	NA	NA	NA	NA
VEI55002.1\|944815_945403_-	2'-deoxycytidine 5'-triphosphate deaminase	I4AZP2	Saccharomonospora_phage	2.8e-24	40.5
VEI55004.1\|945411_946053_-	uridine/cytidine kinase	A0A1V0SAA3	Catovirus	1.4e-34	38.1
VEI55006.1\|946218_947259_+	ferric transport system AfuABC periplasmic-binding protein component	NA	NA	NA	NA
VEI55008.1\|947422_949480_+	ferric transport system permease protein FbpB	NA	NA	NA	NA
VEI55010.1\|949504_950554_+	CP4-6 prophage; ferric transporter subunit	G3M9Y6	Bacillus_virus	4.4e-33	38.1
VEI55012.1\|950642_951959_-	permease	A0A0R6PHV4	Moraxella_phage	3.1e-185	80.7
VEI55014.1\|952192_952723_+	inorganic pyrophosphatase	A0A2H4J8U1	uncultured_Caudovirales_phage	8.3e-20	36.9
VEI55016.1\|953182_954196_-\|integrase	integrase	Q94N03	Haemophilus_virus	7.5e-195	100.0
VEI55018.1\|954195_954960_-\|tRNA	tRNA_anti-like	P79672	Haemophilus_phage	2.4e-137	99.6
VEI55020.1\|954969_955152_-	Uncharacterised protein	A0A0R6PI25	Moraxella_phage	3.5e-10	45.8
VEI55022.1\|955151_955727_-	probable cI repressor	Q94N02	Haemophilus_virus	6.1e-109	100.0
VEI55024.1\|955845_956058_+	putative cox protein	P79674	Haemophilus_phage	1.2e-30	100.0
VEI55026.1\|956193_956697_+	phage protein	P79675	Haemophilus_phage	1.8e-88	100.0
VEI55028.1\|956715_957084_+	Uncharacterised protein	Q94N01	Haemophilus_virus	1.6e-67	100.0
VEI55030.1\|957083_957269_+	Uncharacterised protein	Q775F8	Haemophilus_virus	8.0e-31	100.0
VEI55032.1\|957280_957562_+	Uncharacterised protein	Q775F7	Haemophilus_virus	6.1e-46	100.0
VEI55034.1\|957612_957873_+	Uncharacterised protein	Q775F6	Haemophilus_virus	3.6e-45	100.0
VEI55036.1\|957875_960203_+	probable rep protein	Q94N00	Haemophilus_virus	0.0e+00	100.0
VEI55038.1\|960214_960526_+	Uncharacterised protein	Q94MZ9	Haemophilus_virus	2.9e-49	100.0
VEI55040.1\|960535_961054_+	putative dam methylase	Q94MZ8	Haemophilus_virus	4.6e-100	100.0
VEI55042.1\|961354_961756_+	Antitoxin HicB	Q775F5	Haemophilus_virus	2.3e-70	100.0
VEI55044.1\|962121_963159_-\|capsid,portal	probable capsid portal protein	Q94MZ7	Haemophilus_virus	1.3e-199	100.0
VEI55046.1\|963148_964972_-\|terminase	probable terminase, ATPase subunit	Q94MZ6	Haemophilus_virus	0.0e+00	100.0
VEI55048.1\|965175_966069_+\|capsid	probable capsid scaffold protein	Q94MZ5	Haemophilus_virus	1.5e-151	100.0
VEI55050.1\|966071_967082_+\|capsid	phage major capsid protein	Q94MZ4	Haemophilus_virus	1.4e-188	100.0
VEI55052.1\|967095_967941_+\|terminase	probable terminase, endonuclease subunit	Q94MZ3	Haemophilus_virus	1.3e-155	100.0
VEI55054.1\|967933_968386_+	phage protein	Q94MZ2	Haemophilus_virus	3.3e-78	100.0
VEI55056.1\|968373_968859_+\|tail	P2 phage tail completion protein R (GpR)	Q94MZ1	Haemophilus_virus	1.3e-88	99.4
VEI55058.1\|968848_969544_+	Phage virion morphogenesis family	Q94MZ0	Haemophilus_virus	1.3e-126	100.0
VEI55060.1\|969622_969781_+	Uncharacterised protein	NA	NA	NA	NA
VEI55062.1\|969815_970946_+\|tail	tail sheath phage protein	Q94MY9	Haemophilus_virus	1.7e-219	99.7
VEI55064.1\|970949_971402_+	phage protein	Q94MY8	Haemophilus_virus	6.9e-76	100.0
VEI55066.1\|971488_971725_+\|holin	putative holin	Q94MY7	Haemophilus_virus	4.8e-36	100.0
VEI55068.1\|971717_972278_+	lysozyme precursor phage protein	Q94MY6	Haemophilus_virus	7.2e-99	100.0
VEI55070.1\|972277_972610_+	Uncharacterised protein	Q94MY5	Haemophilus_virus	6.1e-53	100.0
VEI55072.1\|972802_973111_+	phage protein	Q775G2	Haemophilus_virus	1.2e-47	100.0
VEI55074.1\|973299_975429_+	Phage-related protein	Q94MY4	Haemophilus_virus	0.0e+00	100.0
VEI55076.1\|975432_975768_+	phage protein	Q94MY3	Haemophilus_virus	6.1e-53	100.0
VEI55078.1\|975760_976930_+	phage protein	Q94MY2	Haemophilus_virus	5.0e-219	99.7
VEI55080.1\|976939_977467_+\|tail	Phage tail protein (Tail_P2_I)	Q94MY1	Haemophilus_virus	7.5e-98	100.0
VEI55082.1\|977490_980223_+\|tail	probable tail fiber protein	Q94MY0	Haemophilus_virus	0.0e+00	100.0
VEI55084.1\|980234_980867_+	Uncharacterised protein	Q94MX9	Haemophilus_virus	1.6e-110	100.0
VEI55086.1\|980879_981647_+	Uncharacterised protein	Q94MX8	Haemophilus_virus	1.5e-134	100.0
VEI55088.1\|981633_982194_+	phage protein	Q94MX7	Haemophilus_virus	3.3e-83	100.0
VEI55090.1\|982194_983796_+	phage protein	Q94MX6	Haemophilus_virus	1.1e-285	100.0
VEI55092.1\|984791_985349_-	phosphatidylglycerophosphate synthetase	NA	NA	NA	NA
VEI55094.1\|985449_986052_-	peroxiredoxin	NA	NA	NA	NA
VEI55096.1\|986188_987376_+	cystathionine beta-lyase	NA	NA	NA	NA
VEI55098.1\|987760_989122_+	UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase	NA	NA	NA	NA
VEI55100.1\|989234_989741_+	Uncharacterized integral membrane protein	NA	NA	NA	NA
989531:989548	attR	NA	NA	NA	NA
VEI55102.1\|989790_990858_-	zinc transporter subunit: periplasmic-binding component of ABC superfamily	NA	NA	NA	NA
VEI55104.1\|991035_991806_-	high-affinity zinc transporter periplasmic component	NA	NA	NA	NA
VEI55106.1\|991805_992915_-	membrane-bound lytic murein transglycosylase A	NA	NA	NA	NA
VEI55108.1\|993309_995445_+	putative methyltransferase	NA	NA	NA	NA
VEI55110.1\|1002047_1004285_-	TonB-dependent heme receptor A	NA	NA	NA	NA
VEI55112.1\|1004645_1005275_-	glutathionine S-transferase	NA	NA	NA	NA
VEI55114.1\|1005609_1006899_-\|tRNA	seryl-tRNA synthetase, also charges selenocysteinyl-tRNA with serine	A0A1B1IVT2	uncultured_Mediterranean_phage	4.3e-94	51.8

DBSCAN-SWA_2

1312183 : 1380083

Mannheimia_phage(50.0%)

tRNA,lysis,integrase,head,holin,portal,protease,plate,terminase,capsid,tail

attL 1307448:1307473|attR 1382202:1382227

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
1307448:1307473	attL	NA	NA	NA	NA
VEI55649.1\|1312183_1313575_-\|protease	serine protease	A0A1B1IT49	uncultured_Mediterranean_phage	7.2e-23	31.2
VEI55651.1\|1313768_1314659_+	acetyl-CoA carboxylase, beta (carboxyltranferase) subunit	NA	NA	NA	NA
VEI55653.1\|1314660_1315965_+	folylpolyglutamate synthase	NA	NA	NA	NA
VEI55655.1\|1316197_1316872_-	SanA	NA	NA	NA	NA
VEI55657.1\|1317041_1318118_+	homoserine O-acetyltransferase	NA	NA	NA	NA
VEI55659.1\|1318172_1320815_-	DNA gyrase subunit A	G3M9Z5	Bacillus_virus	1.6e-103	32.5
VEI55661.1\|1321383_1323147_-	YcaO-like family	NA	NA	NA	NA
VEI55663.1\|1323560_1324262_+	hydroxyacylglutathione hydrolase	NA	NA	NA	NA
VEI55665.1\|1324312_1325173_-	tellurite resistance protein	NA	NA	NA	NA
VEI55667.1\|1325285_1327334_-\|tRNA	methionyl-tRNA synthetase	A0A1V0S905	Catovirus	2.4e-27	25.2
VEI55669.1\|1327484_1328597_+	antiporter inner membrane protein	NA	NA	NA	NA
VEI55671.1\|1328643_1329306_-	dihydropteridine reductase, NAD(P)H-dependent, oxygen-insensitive	NA	NA	NA	NA
VEI55673.1\|1329419_1330094_+	acylneuraminate cytidylyltransferase	NA	NA	NA	NA
VEI55675.1\|1331474_1332485_-\|portal	portal vertex protein	Q19UT6	Mannheimia_phage	6.0e-120	61.9
VEI55677.1\|1332494_1333037_-	Terminase, ATPase subunit	E5E3X0	Burkholderia_phage	3.1e-46	50.0
VEI55679.1\|1333027_1334275_-	Terminase, ATPase subunit	A0A0M3LRV4	Mannheimia_phage	2.6e-149	72.9
VEI55681.1\|1334439_1335255_+\|capsid	Probable bacteriophage capsid scaffolding protein	A0A0M3LNM2	Mannheimia_phage	2.0e-65	61.9
VEI55683.1\|1335276_1336326_+\|capsid	major capsid protein	Q19UT3	Mannheimia_phage	5.7e-89	51.9
VEI55685.1\|1336337_1336988_+\|terminase	terminase, endonuclease subunit	Q19US0	Mannheimia_phage	9.1e-45	45.5
VEI55687.1\|1337280_1337787_+\|head	putative phage head completion	A0A0M3LNL8	Mannheimia_phage	2.8e-33	51.0
VEI55689.1\|1337786_1337996_+\|tail	Probable bacteriophage tail protein X	A0A1S6KZY4	Salmonella_phage	3.5e-06	40.6
VEI55691.1\|1337997_1338219_+\|holin	holin	NA	NA	NA	NA
VEI55693.1\|1338211_1338730_+	phage-like lysozyme	A0A0M3LPQ1	Mannheimia_phage	3.3e-37	46.6
VEI55695.1\|1338714_1339065_+\|lysis	phage lysis regulatory protein, LysB family	NA	NA	NA	NA
VEI55697.1\|1339239_1339455_+	DnaK suppressor protein	A0A0M3LS11	Mannheimia_phage	2.7e-09	48.6
VEI55699.1\|1339564_1340035_+\|tail	Probable bacteriophage tail completion protein	E5G6N3	Salmonella_phage	1.2e-27	46.3
VEI55701.1\|1340034_1340493_+\|tail	Probable bacteriophage tail completion protein	A0A2H4J927	uncultured_Caudovirales_phage	7.9e-27	51.1
VEI55703.1\|1340470_1340743_-	Uncharacterised protein	NA	NA	NA	NA
VEI55705.1\|1341021_1341369_-	Uncharacterised protein	NA	NA	NA	NA
VEI55707.1\|1341441_1344099_+\|tail	phage-related tail protein	A0A0M3LPE0	Mannheimia_phage	2.1e-127	36.6
VEI55709.1\|1344199_1344757_+	Uncharacterised protein	NA	NA	NA	NA
VEI55711.1\|1344765_1345194_+	Uncharacterised protein	NA	NA	NA	NA
VEI55713.1\|1345303_1345897_+\|plate	phage P2-like baseplate assembly protein	A0A0M3LPY9	Mannheimia_phage	2.7e-43	66.5
VEI55715.1\|1345898_1346237_+\|plate	baseplate assembly protein W	Q19UQ6	Mannheimia_phage	4.5e-19	56.6
VEI55717.1\|1346233_1347148_+\|plate	phage-like baseplate assembly protein	Q19UQ5	Mannheimia_phage	5.1e-94	59.2
VEI55719.1\|1347134_1347674_+\|tail	Probable bacteriophage tail protein gpI	Q19UQ4	Mannheimia_phage	1.2e-50	52.8
VEI55721.1\|1347682_1350178_+\|tail	Probable phage tail-fiber protein	Q94MY0	Haemophilus_virus	1.8e-237	66.2
VEI55723.1\|1350188_1350740_+\|tail	Putative bacteriophage tail collar protein	Q94MX9	Haemophilus_virus	2.7e-42	50.5
VEI55725.1\|1350732_1351212_+	Uncharacterised protein	F6MIM0	Haemophilus_phage	2.7e-46	55.0
VEI55727.1\|1351356_1352541_+\|tail	phage tail sheath-like protein	A0A1S6KZY7	Salmonella_phage	3.0e-102	48.2
VEI55729.1\|1352544_1353051_+\|tail	phage-related tail protein	Q19UP8	Mannheimia_phage	3.2e-53	60.1
VEI55731.1\|1353138_1353438_+\|tail	Probable bacteriophage tail protein E	A0A0F7LBN9	Escherichia_phage	3.3e-10	40.7
VEI55733.1\|1353437_1353584_+\|tail	Probable bacteriophage tail protein E+E'	E5E3Q0	Burkholderia_phage	2.2e-07	65.0
VEI55735.1\|1353751_1354189_+\|tail	phage-related tail protein	A0A0M3LQ18	Mannheimia_phage	1.2e-40	57.4
VEI55737.1\|1354188_1355382_+	regulator of late gene expression	R9QBT3	Mannheimia_phage	1.7e-105	52.3
VEI55739.1\|1355407_1355647_-	Excalibur calcium-binding domain	NA	NA	NA	NA
VEI55741.1\|1355643_1356150_-	BRCT domain type II	Q19UP0	Mannheimia_phage	7.9e-36	43.7
VEI55743.1\|1356158_1356854_-	phage repressor	A0A0M3LPF9	Mannheimia_phage	2.0e-34	38.8
VEI55745.1\|1356973_1357219_+	Uncharacterized protein conserved in bacteria, prophage-related	G8C7U2	Escherichia_phage	6.1e-10	46.0
VEI55748.1\|1357375_1357618_-	Uncharacterised protein	NA	NA	NA	NA
VEI55750.1\|1357682_1357925_+	Uncharacterised protein	Q19UN6	Mannheimia_phage	1.2e-21	68.1
VEI55752.1\|1358015_1358279_+	Uncharacterised protein	NA	NA	NA	NA
VEI55754.1\|1358296_1358677_+	Uncharacterised protein	NA	NA	NA	NA
VEI55756.1\|1358680_1358923_+	Uncharacterised protein	NA	NA	NA	NA
VEI55758.1\|1358919_1359033_+	Uncharacterised protein	NA	NA	NA	NA
VEI55760.1\|1359048_1359351_+	Uncharacterised protein	NA	NA	NA	NA
VEI55762.1\|1359360_1360647_+	cytosine-specific methyltransferase	A0A2I7QRH3	Vibrio_phage	8.5e-95	47.1
VEI55764.1\|1360659_1362843_+	Probable bacteriophage replication protein A	Q94N00	Haemophilus_virus	1.9e-166	42.8
VEI55766.1\|1362898_1363408_+	Uncharacterised protein	A0A0M3LTD8	Mannheimia_phage	4.8e-25	42.6
VEI55768.1\|1363407_1363575_+	DNA binding domain, excisionase family	NA	NA	NA	NA
VEI55770.1\|1363555_1364887_-\|integrase	phage integrase family protein	A0A1V0E8G8	Vibrio_phage	7.9e-43	29.1
VEI55772.1\|1366134_1366590_+	ribosome maturation factor RimP	NA	NA	NA	NA
VEI55774.1\|1366606_1368094_+	transcription elongation factor NusA	NA	NA	NA	NA
VEI55776.1\|1368105_1370595_+	translation initiation factor IF-2	A0A2H4UTS4	Bodo_saltans_virus	3.5e-28	26.0
VEI55778.1\|1370673_1373856_-	type I restriction enzyme HindVIIP R protein	A0A220A398	Liberibacter_phage	3.3e-79	27.4
VEI55780.1\|1373967_1374294_-	Uncharacterised protein	NA	NA	NA	NA
VEI55782.1\|1374304_1374724_-	Uncharacterised protein	NA	NA	NA	NA
VEI55784.1\|1374760_1375600_-	FRG domain	NA	NA	NA	NA
VEI55786.1\|1375601_1376948_-	type I restriction/modification specificity protein	NA	NA	NA	NA
VEI55788.1\|1376940_1378272_-	type i restriction enzyme hindviip m protein	A0A2H4UVW8	Bodo_saltans_virus	1.7e-08	21.6
VEI55790.1\|1378776_1379163_+	30s ribosome binding factor	NA	NA	NA	NA
VEI55792.1\|1379162_1380083_+\|tRNA	tRNA pseudouridine synthase B	NA	NA	NA	NA
1382202:1382227	attR	NA	NA	NA	NA

DBSCAN-SWA_3

1467163 : 1475314

Mannheimia_phage(33.33%)

integrase,tail

attL 1466715:1466728|attR 1469746:1469759

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
1466715:1466728	attL	NA	NA	NA	NA
VEI56007.1\|1467163_1467613_+\|integrase	putative integrase/recombinase	A0A0M3LQN1	Mannheimia_phage	2.4e-20	48.0
VEI56009.1\|1467778_1467877_-	Uncharacterised protein	NA	NA	NA	NA
VEI56011.1\|1468839_1469061_-	Uncharacterised protein	NA	NA	NA	NA
VEI56013.1\|1469075_1469246_+	Uncharacterized conserved protein	NA	NA	NA	NA
VEI56015.1\|1469683_1470529_-	DNA-damage-inducible protein d	F5A3D6	Riemerella_phage	3.6e-49	41.6
1469746:1469759	attR	NA	NA	NA	NA
VEI56017.1\|1470646_1471303_-	prophage repressor CI	A0A0M3LSL8	Mannheimia_phage	2.8e-65	57.9
VEI56019.1\|1471433_1471640_+	cro repressor	A0A0M3LSY2	Mannheimia_phage	9.6e-17	66.2
VEI56021.1\|1471660_1471867_+	Uncharacterised protein	NA	NA	NA	NA
VEI56023.1\|1471866_1472202_+	Probable phage repressor protein	A0A2I7RHG4	Vibrio_phage	8.6e-31	65.5
VEI56025.1\|1472198_1472411_+	putative phage DNA replication protein O	NA	NA	NA	NA
VEI56027.1\|1473074_1474175_+	Uncharacterized protein conserved in bacteria	Q7Y5U2	Haemophilus_phage	2.0e-140	85.7
VEI56029.1\|1474187_1474643_+	Protein of uncharacterised function (DUF2612)	D0UIH4	Aggregatibacter_phage	8.3e-61	79.4
VEI56031.1\|1474653_1474764_+\|tail	tail fiber protein	Q7Y5S2	Haemophilus_phage	3.2e-11	93.9
VEI56033.1\|1474714_1475314_+\|tail	tail fiber protein	Q94MY0	Haemophilus_virus	3.5e-35	52.1

DBSCAN-SWA_4

1571301 : 1645282

103

Mannheimia_phage(18.0%)

tRNA,integrase,holin,protease,plate,terminase,tail

attL 1584031:1584050|attR 1654703:1654722

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
VEI56190.1\|1571301_1572099_+\|holin	phosphorylcholine transferase	A0A1V0SD50	Indivirus	1.0e-05	46.7
VEI56192.1\|1572136_1573984_-\|protease	protease iv (signal peptide peptidase)	NA	NA	NA	NA
VEI56194.1\|1574081_1574636_+	oxidoreductase	NA	NA	NA	NA
VEI56196.1\|1574683_1574989_-	component of anaerobic dehydrogenase	NA	NA	NA	NA
VEI56198.1\|1575228_1575843_-	NAD(P)H oxidoreductase	NA	NA	NA	NA
VEI56200.1\|1575963_1577208_-	sodium:serine/threonine symporter	NA	NA	NA	NA
VEI56202.1\|1577491_1577932_+	protein ImpA	NA	NA	NA	NA
VEI56204.1\|1578001_1579090_-	3-deoxy-D-arabino-heptulosonate-7-phosphate synthase	A0A1Z1LYN9	Serratia_phage	7.8e-81	47.0
VEI56206.1\|1579307_1580561_-	outer membrane-specific lipoprotein transporter subunit	NA	NA	NA	NA
VEI56208.1\|1580557_1581241_-	outer membrane-specific lipoprotein transporter subunit	G9BWD6	Planktothrix_phage	5.6e-37	40.1
VEI56210.1\|1581322_1581964_-	dethiobiotin synthetase 2	NA	NA	NA	NA
VEI56212.1\|1581972_1582755_-	malonyl-CoA O-methyltransferase BioC	NA	NA	NA	NA
VEI56214.1\|1582742_1583390_-	dithiobiotin synthetase	NA	NA	NA	NA
VEI56216.1\|1583399_1584542_-	8-amino-7-oxononanoate synthase	NA	NA	NA	NA
1584031:1584050	attL	NA	NA	NA	NA
VEI56218.1\|1584528_1585833_-	adenosylmethionine-8-amino-7-oxononanoate aminotransferase	A0A1V0SKB7	Klosneuvirus	7.0e-20	30.5
VEI56220.1\|1585853_1587035_-	outer membrane-specific lipoprotein transporter subunit	NA	NA	NA	NA
VEI56222.1\|1587034_1587982_-	putative 2-hydroxyacid dehydrogenase	M1I636	Acanthocystis_turfacea_Chlorella_virus	1.7e-23	28.1
VEI56224.1\|1588040_1588895_-	3-deoxy-D-manno-octulosonate 8-phosphate synthase	E3T537	Cafeteria_roenbergensis_virus	1.7e-38	36.0
VEI56226.1\|1588909_1589713_-	putative transcriptional regulator	NA	NA	NA	NA
VEI56228.1\|1589712_1590591_-	N5-glutamine methyltransferase, modifies release factors RF-1 and RF-2	NA	NA	NA	NA
VEI56230.1\|1590590_1591031_-	RDD family	NA	NA	NA	NA
VEI56232.1\|1591088_1592174_-	peptide chain release factor RF-1	W8EDB3	Pseudomonas_phage	1.3e-08	42.2
VEI56234.1\|1592449_1593001_-	Putative TPR repeat protein	NA	NA	NA	NA
VEI56236.1\|1593012_1593189_-	Uncharacterised protein	NA	NA	NA	NA
VEI56238.1\|1593188_1593848_-	Putative TPR repeat protein	NA	NA	NA	NA
VEI56240.1\|1593859_1594036_-	Uncharacterised protein	NA	NA	NA	NA
VEI56242.1\|1594035_1594482_-	Putative TPR repeat protein	NA	NA	NA	NA
VEI56244.1\|1594682_1595219_-	Protein of uncharacterised function, DUF462	NA	NA	NA	NA
VEI56245.1\|1595480_1596188_-	Uncharacterised protein	A0A0M3LSH7	Mannheimia_phage	1.4e-62	55.6
VEI56247.1\|1596199_1596571_-	Mu-like prophage protein gp29	B7SDN1	Haemophilus_phage	3.8e-48	78.0
VEI56249.1\|1596615_1596774_+	Uncharacterised protein	A0A0M3LTD8	Mannheimia_phage	2.0e-14	83.7
VEI56251.1\|1596833_1597451_-\|integrase	putative integrase/recombinase	Q19US1	Mannheimia_phage	1.2e-62	60.6
VEI56252.1\|1597517_1597835_-\|integrase	integrase	A0A0M3LRG1	Mannheimia_phage	3.2e-27	58.1
VEI56254.1\|1598311_1599076_-	Uncharacterised protein	NA	NA	NA	NA
VEI56256.1\|1599079_1599607_-	Uncharacterised protein	NA	NA	NA	NA
VEI56258.1\|1599616_1600789_-	Uncharacterised protein	NA	NA	NA	NA
VEI56260.1\|1600772_1601183_-	Uncharacterised protein	NA	NA	NA	NA
VEI56262.1\|1601196_1602018_-	Uncharacterised protein	NA	NA	NA	NA
VEI56264.1\|1602071_1602536_-	Uncharacterised protein	F6MIM0	Haemophilus_phage	2.2e-45	56.3
VEI56265.1\|1602532_1603135_-	Uncharacterised protein	Q94MX9	Haemophilus_virus	9.5e-97	92.5
VEI56267.1\|1603146_1605495_-\|tail	tail fiber protein	Q94MY0	Haemophilus_virus	5.5e-249	67.2
VEI56269.1\|1605491_1606118_-	Protein of uncharacterised function (DUF2612)	A0A0N9SSD8	Pseudomonas_phage	4.0e-21	36.9
VEI56271.1\|1606126_1607563_-	Uncharacterized homolog of phage Mu protein gp47	A0A0N9SH53	Pseudomonas_phage	2.2e-46	28.4
VEI56273.1\|1607555_1607921_-	Uncharacterised protein	A0A1J0MEY0	Pectobacterium_phage	1.8e-10	34.5
VEI56275.1\|1607917_1608589_-\|plate	phage baseplate assembly protein V	A0A0M5M1K7	Salmonella_phage	5.8e-18	33.5
VEI56277.1\|1608591_1609548_-	Uncharacterised protein	M4SNA5	Psychrobacter_phage	4.6e-21	29.5
VEI56279.1\|1609544_1609859_-	Uncharacterised protein	NA	NA	NA	NA
VEI56281.1\|1609855_1610437_-	Uncharacterised protein	I3PGV3	Xanthomonas_phage	2.0e-06	27.5
VEI56283.1\|1610527_1612858_-\|tail	phage-like minor tail protein	K7RVL7	Vibrio_phage	2.8e-35	28.6
VEI56285.1\|1612854_1613007_-	Uncharacterised protein	NA	NA	NA	NA
VEI56287.1\|1613042_1613525_-	Uncharacterised protein	NA	NA	NA	NA
VEI56289.1\|1613524_1613950_-	Uncharacterised protein	A0A0A1IUI2	Pseudomonas_phage	2.6e-16	36.9
VEI56291.1\|1613995_1615075_-	phage-like protein	A0A0N9SJA3	Pseudomonas_phage	8.3e-59	46.7
VEI56293.1\|1615055_1615565_-	Uncharacterised protein	NA	NA	NA	NA
VEI56295.1\|1615566_1615926_-	Uncharacterised protein	NA	NA	NA	NA
VEI56297.1\|1615925_1616384_-	Mu-like prophage protein gpG	A0A2I7R754	Vibrio_phage	5.3e-15	34.5
VEI56299.1\|1616376_1616727_-	Uncharacterised protein	NA	NA	NA	NA
VEI56301.1\|1616730_1616919_-	Uncharacterised protein	NA	NA	NA	NA
VEI56303.1\|1616921_1617869_-	Uncharacterized protein conserved in bacteria	A0A0N9SG07	Pseudomonas_phage	2.8e-50	36.6
VEI56305.1\|1617930_1618350_-	Uncharacterised protein	NA	NA	NA	NA
VEI56307.1\|1618360_1619434_-	Uncharacterized protein conserved in bacteria	E5AGA6	Erwinia_phage	9.4e-55	40.2
VEI56309.1\|1619559_1620819_-	phage Mu protein gp30-like protein	E5AGA5	Erwinia_phage	1.8e-25	31.2
VEI56311.1\|1620757_1622074_-	phage-associated protein, HI1409 family	A0A2K9V3H1	Faecalibacterium_phage	1.8e-47	32.0
VEI56313.1\|1622075_1623470_-\|terminase	phage terminase large subunit	A0A220NQL3	Acinetobacter_phage	5.2e-122	52.9
VEI56315.1\|1623414_1623933_-\|terminase	Probable bacteriophage terminase, small subunit	A0A1X9SFE5	Acinetobacter_phage	2.1e-20	39.2
VEI56317.1\|1624010_1624262_+	bacteriophage protein/plasmid stabilization system protein	A0A1S5NR91	Burkholderia_phage	9.9e-16	52.9
VEI56319.1\|1624245_1624593_+	transcriptional regulator	A0A1S5NNJ5	Burkholderia_phage	5.2e-23	57.0
VEI56321.1\|1624787_1625111_-	putative bacteriophage protein	Q7Y5U9	Haemophilus_phage	9.2e-22	56.1
VEI56323.1\|1625103_1625706_-	Putative phage lysozyme	Q7Y5V0	Haemophilus_phage	3.9e-58	55.4
VEI56325.1\|1625671_1626031_-\|holin	Putative bacteriophage holin protein	NA	NA	NA	NA
VEI56327.1\|1626209_1626722_-	Uncharacterised protein	NA	NA	NA	NA
VEI56329.1\|1626950_1627721_-	phage repressor	Q76H56	Enterobacteria_phage	1.1e-15	26.3
VEI56331.1\|1627846_1628053_+	phage transcriptional regulatory protein/antirepressor Cro	NA	NA	NA	NA
VEI56333.1\|1628096_1628549_+	Uncharacterised protein	NA	NA	NA	NA
VEI56335.1\|1628595_1629270_+	Probable phage repressor protein	D0UIL6	Aggregatibacter_phage	5.0e-62	55.6
VEI56337.1\|1629266_1630025_+	Uncharacterised protein	D0UIL5	Aggregatibacter_phage	3.6e-61	68.3
VEI56339.1\|1630009_1630645_+	phage replication protein	NA	NA	NA	NA
VEI56341.1\|1630641_1631208_+	Transcriptional activator, adenine-specific DNA methyltransferase	A0A0M3LPV8	Mannheimia_phage	1.9e-83	78.3
VEI56343.1\|1631282_1631702_+	recombination protein NinB	Q7Y5V7	Haemophilus_phage	2.8e-63	84.8
VEI56345.1\|1631698_1631791_+	Uncharacterised protein	NA	NA	NA	NA
VEI56347.1\|1631790_1632378_+	ning recombination protein	A0A2I7RAC0	Vibrio_phage	3.7e-37	48.5
VEI56349.1\|1632379_1632745_+	RNA polymerase sigma factor	NA	NA	NA	NA
VEI56351.1\|1632867_1633668_+\|tRNA	tRNA_anti-like	NA	NA	NA	NA
VEI56353.1\|1633678_1634827_+	Uncharacterized conserved protein	A0A1S5SAB0	Streptococcus_phage	1.7e-30	36.2
VEI56355.1\|1634977_1635163_+	Uncharacterised protein	NA	NA	NA	NA
VEI56357.1\|1635547_1635859_+	Uncharacterised protein	NA	NA	NA	NA
VEI56359.1\|1635978_1636230_+	Uncharacterised protein	NA	NA	NA	NA
VEI56361.1\|1636219_1637251_+	phage antirepressor protein	D0UIK6	Aggregatibacter_phage	4.1e-39	79.8
VEI56363.1\|1637338_1637683_+	Uncharacterised protein	NA	NA	NA	NA
VEI56365.1\|1637679_1637973_+	Uncharacterised protein	NA	NA	NA	NA
VEI56367.1\|1637986_1638892_+	phage-like endonuclease protein	A0A0M3LR66	Mannheimia_phage	3.4e-58	46.8
VEI56369.1\|1638893_1639676_+	phage recombination protein Bet	A0A0M3LR26	Mannheimia_phage	1.0e-87	61.9
VEI56371.1\|1639669_1640287_+	putative bacteriophage exonuclease	A0A0M3LPU0	Mannheimia_phage	1.7e-88	76.2
VEI56373.1\|1640289_1640433_+	Uncharacterised protein	NA	NA	NA	NA
VEI56375.1\|1640441_1640882_+	ssDNA-binding protein	F8TUL2	EBPR_podovirus	5.1e-39	53.3
VEI56377.1\|1640983_1641553_+	Uncharacterised protein	NA	NA	NA	NA
VEI56379.1\|1641549_1641786_+	Uncharacterised protein	NA	NA	NA	NA
VEI56381.1\|1641782_1642142_+	Uncharacterised protein	NA	NA	NA	NA
VEI56383.1\|1642138_1642927_+	C5 methylase	U4KJA1	Streptococcus_phage	3.1e-79	57.1
VEI56385.1\|1642937_1643420_+	Protein of uncharacterised function (DUF551)	A0A0M3LS47	Mannheimia_phage	1.5e-31	46.1
VEI56387.1\|1643423_1643711_+	Uncharacterised protein	NA	NA	NA	NA
VEI56389.1\|1643837_1644038_+	Predicted transcriptional regulator	NA	NA	NA	NA
VEI56391.1\|1644034_1645282_-\|integrase	prophage CP4-57-like integrase	A0A1V0E8G8	Vibrio_phage	4.3e-75	37.7
1654703:1654722	attR	NA	NA	NA	NA

DBSCAN-SWA_5

1753087 : 1761601

Bacillus_virus(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
VEI56590.1\|1753087_1753771_+	7-cyano-7-deazaguanine synthase	A0A2H4J8Q7	uncultured_Caudovirales_phage	6.6e-54	50.2
VEI56592.1\|1753763_1754189_+	6-pyruvoyl-tetrahydropterin synthase	A0A1U9WRB3	Streptococcus_virus	7.8e-21	42.7
VEI56594.1\|1754195_1754825_+	organic radical activating protein	A0A218M2Y8	Acidovorax_phage	2.9e-11	35.2
VEI56599.1\|1755436_1757620_+	DNA-dependent ATPase I and helicase II	A7KV33	Bacillus_phage	1.9e-115	37.6
VEI56601.1\|1757709_1758711_+	dipeptide transporter	NA	NA	NA	NA
VEI56603.1\|1758725_1759613_+	dipeptide transporter	NA	NA	NA	NA
VEI56605.1\|1759622_1760615_+	dipeptide transporter	G3M9Y6	Bacillus_virus	2.0e-14	30.8
VEI56607.1\|1760617_1761601_+	dipeptide transporter	G3M9Y6	Bacillus_virus	9.3e-17	26.8

Anti-CRISPR protein detection

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

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. LR134490

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection