gi|00000000|ref|AP008937.1| Lactobacillus fermentum IFO 3956 DNA, complete genome. 2098685, gc%: 51.47% CDS_POSITION BLAST_HIT EVALUE prophage_PRO_SEQ --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- #### region 1 #### 539326..539340 attL N/A ATTACTTGTTGTAGA complement(539413..540534) PHAGE_Lactob_Sha1_NC_019489: phage integrase; LAF_0460; phage(gi418489824) 1.25e-99 LactobacillusfermentumIFO3956MAQIIKKGPSYMVRVTWRDEDGKQHKKSKSGFKTKAAARKAGAEMESSKYHGVLSTADPIFTDYYQNWYETYKHHQSSRATQDFYRYCINVVNDYFGRRKISTIDRATYQRFLNDFGKSHSKNTASKMNAYVRVAVKNAVLDNVIPADFTEGTTIVWDKTRTRQVEYLNMEEINRLVALVKESLSPGFPVRYMILTAVYTGMRLSEIAALTWDDLDLPFKTIEISKSWDFKGRTFKDTKTKSSRRIIRVNQELLDCLVELKANGHDLVFARKDGSVCGSSSANRTLRLFLDKLNLDKPGFHFHSLRHSHVAYLLANGVPLYAISKRLGHSNMTTTANRYAYLIDEFKARSDDQIERALVSLGVPDGVPTSSFL 542998..543198 PHAGE_Lactob_phiPYB5_NC_027982: hypothetical protein; LAF_0461; phage(gi937456193) 2.75e-29 LactobacillusfermentumIFO3956MNTDYYANGFKHAEDLLVKALADLDSIIRNEPETRGALRAEVRAILEQLDVAKDLIKQEAQERLGD 543201..543686 PHAGE_Lactob_LfeSau_NC_029068: hypothetical protein; LAF_0462; phage(gi985757759) 4.77e-36 LactobacillusfermentumIFO3956MAGKLYELSDKYKELSEREDLDPEVLHDTLDAINDAIEDKADNIAAWIDDLTSAAKRKKAKAKEWNDSAKADLNKADSLKKYLIQELTYAGKKKMETDRFLLSTRNNAPSTVIDDETLIPDTFKNTKVTESVDKTAIKEAIKLGEDVPGAHLQASKSITIK 543711..544391 PHAGE_Strept_Alq132_NC_013598: nucleoside triphosphate binding motifs protein; LAF_0463; phage(gi273809760) 9.53e-92 LactobacillusfermentumIFO3956MIIRSAKNTSRTANWRICIYGNPGVGKTTTVKYLTGKTLVLALDNSDKVLAGKDIDIADFNRTKPDEEITDFIVDMPNLSKQYDNIVIDNISSFERDWFIERGRATKSGINNELQDYSAWTNYFARVISAIYQYPVNILVTAWEKQVPITTANGQTFNQFAPNIRDNVRDMFMGLTDIVGRVVIKPEDGSRGVIMEGNDGVFAKNRLDSRKGCKVEDLFNFADSNV 544384..545730 PHAGE_Lactob_A2_NC_004112: putative helicase; LAF_0464; phage(gi22296555) 0.0 LactobacillusfermentumIFO3956MFKLFGYQQELVDKARQSLAKGNHSVLLVSPAGSGKSVIIAEITRLAIEKGGHVMFMVHRKELVDQIIDTFLKDDIDLSHTTVMTVGKIKRRLGKLPTPTLIITDETHHSLAKTYQDIYNWYDNVPRLGFSATPWRLSGKGLKNVYDDMVEGPSVQWLIDNSYLADYTMYGYKSGDDSQLKKSSTGDYTGRSMDDYAKTIIRGDVIKTWREKANERKTIVYCHAVWFSKQVAQVFNNAGIKAAHVDSKTPSGERSKIMVDFKAGKIMVLCNCDLISEGFNVPDCSCVVLLRPTESLVLYIQQSMRPMRFVPGKHAVIIDQVGNFKKFGTPDTPRTWTLEDRKKKKGNGGGQLGPPVRTCEKCFAVIPAQSRSCPICGAEIEVTKTELDIDRDANLDDVTQFKPFSANYVVTKRPSDLKTRQDLEEYAKAKGYKPGWIYYQLKKRGLAH 545750..546310 PHAGE_Lactob_A2_NC_004112: putative single stranded binding protein; LAF_0465; phage(gi22296556) 1.97e-58 LactobacillusfermentumIFO3956MLFQTNYKDLQDHSYGPLPEGDYEFIIKSVAENATKSGAESIQFNLVVRNDLDQAMPETNGKYHNRQLWVDEWKRRATNQYEVNNLMYFMQAAGISEGTPINTMEDFFDIMTGKPVRIHITVEDNTYNGKTTQVNRPAPWDWQQTKFPQVNHQWKTNKPVTGAQMPTNGQTFTMPQQPAGNEKLPF 546376..548685 PHAGE_Lactob_CL2_NC_028835: DNA primase; LAF_0466; phage(gi971748054) 0.0 LactobacillusfermentumIFO3956MYESLPSELKKLSQWGCYHRIWKEERGKYTKIPVNPWTGGPGKSNDSSTWADFDTAMRALDQYPDADGLAFYFANGYVGLDIDHIAEDLERVQCGDTDPDNLVTKAHELTHGSYMEVSMSGEGIHCIFKGKIPGDRRRKGNYEMYQSGRFFALTGNTLNATPEIKSLDDTAMRRLYDHYLHSDKVAEFPKKQPAITENTLSIDEIINRAERSTNGARFRAFMKGGWEPFYPSQSEADMAFANDLAFWCGRDFKAMDSIFRQSSLYRKKYDEKHGKTTYGIALLNKAINETSNVFHPHQPLNVNYDMSFLNKDRDKPKTPRTWDDMGNALRFIDMYGDNFKYSYIDKMWYLYNGSYWQIDQSGMVEKCADSVIKNMDNEKLNIWPGMDESDATEKWVKFKAKCRSNRSKKSMLDEVKHHVPVLHSEFDNDLMLLNTESGYVDLNSGLLKEHDRDKMFSHQTAAEYTDTIDAPEWDKFLHQIFNNDEEVIHYIQKAVGYSATGSIKEQVMLLLYGNGRNGKSVFINTIADILGSYAETMNVESIMVKHSSGVNSDIARLEGARLVISSEANEGSRLDEGLVKQMTGGDKMVARHLYASEFEFTPQFKLWMATNHKPIIRGTDDGIWRRIMLIPFLVQIPKDKVDKELKYKLQREASGILNWIVQGAMMWQAEGLEPPEIIKKASDEYRQEMDAIEFFISEKCERGDGYMAPAGELYDVYKRWSDESGEHQFNKQKFGSEMKAKFNYKHTKHGRYYEGLKIITDSRINFLKG 548986..549330 PHAGE_Lactob_LfeSau_NC_029068: DNA nuclease; LAF_0467; phage(gi985757765) 7.92e-54 LactobacillusfermentumIFO3956MAQPEHVIQNQIRLALSANQCTVFRINVGKLRLPDGTLFQTGVPRGYSDLSGFRWSDGKAFFIEVKTQTGRPRKDQIQFHHMLTSHGIVHGIARSPEDAIKIVKEGLIGYGFKQ 550838..551746 hypothetical protein; LAF_0468 N/A LactobacillusfermentumIFO3956MSEMTLNYISSYFYLSLVIITGLLYYMGEVKIMERKEKIKSIIEHPEYMMTAERRSLQKRIENKNLDSEEVKSVVTTTAKDKGKSLVSDLLNKKWFDLVCDIADTGDKLKNNLEYAKKVKLLGEYLQKTDNHEKALKSLVDLITDPYGLALYSKIINILSDSPADGDILEILSDYLKNLTQEESLQNVFSRNKTILTLIDKCSPQALILLRMYNKWTEVPSPQTVISNGGHVQGNNTRLVAQTFVEKKVIENVDVDDVQMAIYDLEKNGLAEFISETLNFAPVFAERTTKIGEMVKDAISNN 552537..552998 PHAGE_Lactob_Sha1_NC_019489: P27 family phage terminase small subunit; LAF_0469; phage(gi418489801) 1.03e-28 LactobacillusfermentumIFO3956MVEKATEDLQPLQMSPPNYMKGTIAGRAWQRITPILRQSTIIKNADRSTVEALCSAIALYRIGFDDVQENGIQTPIYKSVQNNRGEIIDRDFIGFKKNPAVSTMDAAIRQIRSLSSELGLTPTSRASLLSLTTDSDDDDVPSLADVLSGGDGW 552995..554899 PHAGE_Lactob_Sha1_NC_019489: phage terminase-like protein large subunit; LAF_0470; phage(gi418489802) 1.56e-160 LactobacillusfermentumIFO3956MMRKWDLTKKGQTVEKSYETEKNAGSYNEIFKKYRDPATRYAFAVLEGRQLAGKKIKLDAFRHLQDLRRQTEDPDFNYHYDLEKCRAIINYSKLVPDVNAGKPLPLMVWEQKILCSVIGWRDDNDQLRYMRAIFSVARTNGKTYLATILMSFYFLVESKGQMNHDYLYTAPVTVQSQKGFQYMQSFFTKLSTLPAFKKLFKQQEIVVLHDVIMSRKLHNRLLRMSYKSGQFDSLHCQFAVGDEVGDDHHIGSIIEGNGKITSGQGQEPNHCFLQVSTAYPDSNSQFYKDQQMMEEVMERDYDRSLDDNLCMVWEQDSLDETNQPETWVKSNPILDLNPENHDQLMKSLLSERDNKMANGSLPEFQNKSLNMWLQVKQNTYLDLDDINRAAVDDAPIDIDGRECYVGFDKSNFSDDTSIAFVFPYLDNDKPRYYVKQHSWVPLARAQNNVVLKEKQDGINYRDAEKRGFCDIAKNDYGYIDDGAVYDWLMAYVEAHKLKIKYFCYDKWGLSKMIGWIEQKTDWNTMPVKNVIQNLNEPTVDLRKQFDTGTIRYDHDPIITYSLKNAVLYGNNNGVKIDKEKATTKIDFVDALIDAWYTAMFHFDDISLEKFDAKNPFSGMSNDDINDYFTNDFSF 554914..555096 hypothetical protein; LAF_0471 N/A LactobacillusfermentumIFO3956MIKTIFKLILAVAVVVLWIAALYAFVKFGFAVNVAVGWLTLSVALYMGSRVISALIGGDD 555096..556316 PHAGE_Lactob_Sha1_NC_019489: phage portal protein; LAF_0472; phage(gi418489804) 4.90e-51 LactobacillusfermentumIFO3956MFNPFKAVIKRSRMLISNGWSPFFSASNGQVVSVGPVNASAALNNSDVFAVVYRISSDVAACQFEAPMVDYMLNHPMGTLINGYNVWQSVVAQMALNGNAYMLIHREGTDGVVTRLEPIPEERVTVTLNDDGSDVFYTVHFDDSNRSGDYQVPSANMLHFRLFVNGQSESQYMGVSPLMSLAKEIDVQDQSNRLALSTLKHALAPTNILSIPQGTLSADAKANIRDEFEKANSGENAGRAIVLDQGLSLSQLTVSPDIAKLLANTNFSQAQIAKAFCVPADYLSGKQDEQSSIEQVRSLYQNSLTLYIRPIEDELTNKLGAPVHLDVSTAVDIDHQQLISNIVSLTNSKNPVLSGDDARQILVDRGVLPKQTYQTATPGNQDLGGDTSANDNGRTNADNGPDDTKQ 556765..558027 PHAGE_Lactob_Lv_1_NC_011801: protease-scaffold-major head protein; LAF_0473; phage(gi219563201) 3.67e-115 LactobacillusfermentumIFO3956MKGENEVEIDYDKLADAVADKLEQRSAEQADVETTDETDKQDAETTEEPVEEPQEDEEEQSADDSADSDGKPAEKPAEKPAKKVEKPAEKVEKRSEPHAEIVTTENEELKEGTEMRELHGANESTKDQFAHFLKTGEITRDNTAGGIGLSNGQVLIPQDILPAEHEQHQFPRLGNLVRQIAVKHTTGKLPVFQPGSGKLALHTELQSTANSTSPEIKEILWNLKTYTGRYVFTRELMDDSDYNWEAELQSRLVELRDNTEDDLIVTQLTNGITAVKPTNLIDDLKLILDSKLKPYDSNASSIVLSQSAFAQLDQMKDSEGRPLVQPNVTLGTGNAILGKTVTVVDDTLFPSAQQGDVNIVVAPLQKAVIKFKSNEITGQFVDTNDIWYEALGIYMREDVVQANKDVINWVSSTTTSTPGK 558048..558350 PHAGE_Lactoc_bIL309_NC_002668: Orf44; LAF_0474; phage(gi13095849) 4.74e-06 LactobacillusfermentumIFO3956MIDTQSMLDELCLDATDETTQLITDLLSQSESIIRDSVDKTKPIASYEQDPIFIRAAKTLCTQLYYDRTLTGGMSIGLQMMISHLKGEVGADGYEPNSTV 558569..559120 PHAGE_Strept_DT1_NC_002072: putative tail component protein; LAF_0475; phage(gi9632427) 4.73e-41 LactobacillusfermentumIFO3956MPCKSTARCTASWISQCGTTPICHTTWSPSSATERVVKMADIEMSQFLEQWLEDVKSISVDLTPKDQAEITKAGAKVMAERLTDVTNAKHRSHHNDKTYGHAADHISYMAKDVDGETNGLSTVGWDNHYHAMNMMRLNDGYRGHPGDHFVTNLQQDKATSEAVLRAESDKYQELINDKKGDDD 559503..560126 PHAGE_Lactob_Sha1_NC_019489: major tail protein; LAF_0476; phage(gi418489811) 3.13e-14 LactobacillusfermentumIFO3956MLLHGIKDAWVFLKSADGKSLLVKTDGLSDNGLLELGHDVLGVASAEIKGLDGSKLEKISGNNTPQYSYADPLNPTVALTINSLKMMTYAKLVGLEKQGTGWQMADTKPVGGCVVKAPHMTDDGFTYFCFPSGNFLGGDKKLDSDSDSKKTPVTDTLNFAAIDDPNINDVYRIYDTGDPDWKDEDTMFKEILPDYNKTATAATGSQA 560193..560522 PHAGE_Lactob_phiAT3_NC_005893: putative tail component; LAF_0477; phage(gi48697270) 1.10e-10 LactobacillusfermentumIFO3956MKLYIKLFNRRFDVSTSNGNVRRVYEMQLRIAKVQAEKDILKRAESELELIQELPKFLGTMLKLNKQQLKQLDNMDFEATQDAVGYICQRILGRTDDQIADEEKEDPKK 560727..564926 PHAGE_Lactob_Sha1_NC_019489: minor tail protein; LAF_0478; phage(gi418489814) 7.52e-113 LactobacillusfermentumIFO3956MAKISNVMATKVALDLVDASKSVRNLTTEVNASTKAWQAQEASLRSAGDYAGATKARLDGLGSAIDAQKEKISALQEKQESMNNISQETAEEFLRLKERIEQLKAEQASLDDVTGRNKDKYESLGTEISRLEDQQNKLNTGTVKQAETYLRYGAQVDQAKAKLASMEAQQQRAEQQLELQNSGVLKLNASMRAQSALFMAHTERLQAEGRQYQAMGAQVDGLENKINQLRDIQQREMQMLESTRQRMGESSEEYLKQATRVEELGTQIAQTRSKINELNEAMKVTPHTWLDGMSARLDSLQGKADRVSHSFGSMFLANTAANLFSGALATIQAHFTELIARGQEYDVTQQKMVATWDTLTGSANKAQDMVNTVNNLSVKTGQAVDTVDELEQGFYHLHSSKSQADGLTRSMLNMADAVGLNSQQINDVSQDMVHAMATGKVTQGELNQIGAYFPMIDEALAKHYNTSVAGMRQIASAGKLDADTFQQVFEQLGNGKYKEAADNMMGTFFGMERTIKARMPALVGDIEQPFMQMSNPLLESVSKWVSDKRTDALFTQFGRHLMQAFNQITTAFGGKKINVSDALTGGMEAATRAVDRFANVVSSHHTQIKEFFDSFKTGSAASLKIFANVMLDLSKVMLPVLDELAKYPKTTAAVITSLLLASKAVKGLSVAVKGLQIMRTVGSTIGSFATKIKNIPSRKITRIQVDGAKSTRDLEAYSRRLDRIPNSKTTKAIVNTASAETSLTRLGTKATVAGKVGSSGLSLIGRGAKIASAGLDLIGGPAGAIMLVVQGLTILYQHNKKFRTFVNGLASSAMSAMGKMGKAFESGAKSAISWTSNMWDRVKKSYQQGQAQTQQQTLQHARQQQKAWNDIRSNVTNTAQDMMHKAGNAFSNGYNDVINNTSNWRNNASNLWHDASNKILNTAGNLRSNSTNILSNMHDKLSGIQDTGLGHMLGGWKDHFGKVINTIESNGSPLHNAFRDILNGLLSPFTNLINGIIKGINWVLDKVGGDSHKLGTFSIGKLANGTSGGGLLHDQVALLNDGSGPNYQEMVHFPSGETVMLPPERNLMMYLPAQTEVLDGERSAKLAPMMDINHYANGAVGDFFSGLWDKGKDVLDFAEDILKKPIDFMESVFNRFTSGKLDNGGFFSAQLHTSLPVFFAKSMANWVKKQFQEMANPAGSGVDRWRPYVVRALDMLHLSSSLVDKVLRQIQTESRGNPHAKQPGADPDGDGSGPALGLMQTKRKTFDAYKIPGHGDLWNGFDDLLAGLNYARHRYGDSLSALGQGHGYANGGVATQPSIFGEAGAEMAIPLNSMKSSRAWELMRQVVAYYGGNNASQTTTIDTRNMSRQIQELIEVGKAVLAVNGEQVRAIKGINGYDKARVYHQQRTDMDLANFQSFV 564989..565828 PHAGE_Lister_vB_LmoS_188_NC_028871: holin-like putative tail component protein; LAF_0479; phage(gi971750814) 1.15e-24 LactobacillusfermentumIFO3956MQRPTMWIKLPGQAEINCESITKGLRFLQDDSDPGVTNSYLTDAGLDGSILSYQSIAKNTINANFWLHFGDWYDFKMKKHSIAKFFAQKGLMRIRTDAEPAIVKYVYAGSYSIKPVQDYSHEALFTVAFDNPTGIKYSLGWSDDEMTYGNGLWQVGMNLPNGKHLDYEYIGQRSFKIYNASDITVDPIQRHPMQIIVKNTTGQVEISNQTTGTSIAYRGHLTASDELTWDGVNCYLNGELANNDTDYTYLTLAPGYNDIHVSSTSDADIRFHFKFLYLD 565835..566875 hypothetical protein; LAF_0480 N/A LactobacillusfermentumIFO3956MTVTPLDAINQHRYTYFGFKDVSTADHPYQYLPALCYSDNLTNWNVVQYYPELGNCGAQSVAKIGSWYYVIATGYLMRTKNFVDFDKLDNPLDKQSEFKHVWAPEIFADINGNYHVAYCANKDDSEVTGFDLYVADMTADGQLSKLQQKITFYDGQLGNVRQIDPSIVLYKGIYYLATSGDYLYSATNYLGPYQRVKVNFTPTPQFYGDQWCGNDGWTEAPELVKDGNFLRLFSDMPAKHGYVYRSANLSDLGTWSARSQTVCVDFDMRHGCFMVNPNVEPALYKAEISYDNKFDPAMTIKALHNDQVVPLTCYERTGFQYQYANNQTNQIRSSSTLTMTARQAGR 566872..568434 PHAGE_Lactob_LF1_NC_019486: phage-associated protein/endopeptidase; LAF_0481; phage(gi418489399) 3.15e-31 LactobacillusfermentumIFO3956MIQVESIITFNDDWFVVKNIQPTIQGSDIVQVTAIQYVNSQIATIHQYNTQQGTLTMRPDDILKYWLNDSTVNPNNKFTYNVVGSFESHRVENLGNGSGKDMLSKITELWPSAVIYPQKNQINVVSADAFTKPTQKRIDYIRDTSEIQMTQDSTNIVNMVRCIGATKQSDTSTAATDSGGVQLTESEATQTTGVDRTAEFQADAKKYLGVPYKWGGHDKSNPYAGMDCSGFVSQVYYDFGVNVPPQTAQMEPYFYQVSDPKCGDVGFYGPHGSTHHICLMLDANTMIYEPEPGEVCKIAPVSSYPPDWYARNNNIQAKINQQKTTTVDNANITFTDNYQSGTYNSEEQYYFEPFMVIDNDSINAWGPYPATSDLQDDRFTDADAMRTYAKTQLSPDPTISIVVTLNSNAKPIAGEQVRLNIQPRHYSTNVTVVGWTWYPFDPTQGTQITYDNLPATILNNRAAMRTLADVEKMARTALANIPQVFYSSEDPTAKHNVKNGAIWVKPINQETGGDAKHADG 575894..575908 attR N/A ATTACTTGTTGTAGA