CDS 134 - 349 /gene="1" /product="gp1" /function="hypothetical protein" /locus tag="Jabb_1" /note=Original Glimmer call @bp 134 has strength 12.4; Genemark calls start at 134 /note=SSC: 134-349 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein QDW42_gp01 [Microbacterium phage Swervy] ],,NCBI, q1:s1 100.0% 3.64418E-45 GAP: 0 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.009, -2.523003374675015, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW42_gp01 [Microbacterium phage Swervy] ],,YP_010753705,98.5916,3.64418E-45 SIF-HHPRED: DUF7455 ; Domain of unknown function (DUF7455),,,PF24254.1,81.6901,99.8 SIF-Syn: hypothetical protein /note=Current Gene Number: 1 /note=Did the start site stay the same or change: It stayed the same /note=Do the Glimmer and Genemark start sites agree? Y /note=What about Starterator? Y /note=Is the ORF chosen the longest ORF: Y /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on blast and with which phage? Yes, Swervy /note=Z score = 3.009 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. The start site was kept because it has a 1:1 alignment, longer ORF, and agrees with starterator. /note= /note=FUNCTION /note=Synteny: yes /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: MsUbiquitous /note=Blast NCBI function match with E value should be 10^-7 or less: Swervy /note=HHPRED Match with > 90% probability: unknown function CDS 349 - 672 /gene="2" /product="gp2" /function="terminase, small subunit" /locus tag="Jabb_2" /note=Original Glimmer call @bp 349 has strength 13.12; Genemark calls start at 349 /note=SSC: 349-672 CP: yes SCS: both ST: NI BLAST-Start: [terminase small subunit [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 6.65869E-67 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 0.552, -7.739651338564521, no F: terminase, small subunit SIF-BLAST: ,,[terminase small subunit [Microbacterium phage Eula] ],,YP_010753567,100.0,6.65869E-67 SIF-HHPRED: Terminase_6 ; Terminase small subunit,,,PF23931.1,89.7196,99.8 SIF-Syn: terminase, small subunit found upstream from the terminase, large subunit as in CupcakePrincess /note=Did the start site stay the same or change: It stayed the same /note=Do the Glimmer and Genemark start sites agree? yes - called based on Glimmer and starterator. /note=What about Starterator? Y /note=Is the ORF chosen the longest ORF: no /note=Is all of the coding potential captured on GeneMark file: Yes /note=Is there a 1:1 alignment on blast and with which phage? Yes, Eula /note=Z score = 0.552 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. The start site was kept because it has a 1:1 alignment, and agrees with starterator. /note=FUNCTION /note=Synteny: yes /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: /note=Blast NCBI function match with E value should be 10^-7 or less: yes /note=HHPRED Match with > 90% probability: yes CDS 676 - 2304 /gene="3" /product="gp3" /function="terminase, large subunit" /locus tag="Jabb_3" /note=Original Glimmer call @bp 676 has strength 12.25; Genemark calls start at 676 /note=SSC: 676-2304 CP: yes SCS: both ST: SS BLAST-Start: [terminase large subunit [Microbacterium phage Swervy] ],,NCBI, q1:s1 100.0% 0.0 GAP: 3 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.009, -2.442961286954254, yes F: terminase, large subunit SIF-BLAST: ,,[terminase large subunit [Microbacterium phage Swervy] ],,YP_010753707,100.0,0.0 SIF-HHPRED: Terminase large subunit; genome packaging, bacteriophage, ATPase, nuclease, VIRAL PROTEIN; HET: BR; 2.2A {Enterobacteria phage HK97},,,6Z6D_A,91.3284,100.0 SIF-Syn: terminase, large subunit found upstream from the portal protein as in CupcakePrincess /note=Did the start site stay the same or change: Same /note=Do the Glimmer and Genemark start sites agree? Y /note=What about Starterator? Y /note=Is the ORF chosen the longest ORF: Y /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on blast and with which phage? Y, Swervy /note=Z score = 3.009 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. The start site was kept because it has a 1:1 alignment, longer ORF, and agrees with starterator. /note= /note=Synteny: yes /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Finalfrontier Blast NCBI function match with E value should be 10^-7 or less: Swervy /note=HHPRED Match with > 90% probability: Terminase CDS 2316 - 4340 /gene="4" /product="gp4" /function="portal protein" /locus tag="Jabb_4" /note=Original Glimmer call @bp 2316 has strength 9.92; Genemark calls start at 2316 /note=SSC: 2316-4340 CP: yes SCS: both ST: SS BLAST-Start: [portal and MuF-like fusion protein [Microbacterium phage Swervy] ],,NCBI, q1:s1 100.0% 0.0 GAP: 11 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.831, -2.8970853586582503, no F: portal protein SIF-BLAST: ,,[portal and MuF-like fusion protein [Microbacterium phage Swervy] ],,YP_010753708,99.8516,0.0 SIF-HHPRED: Portal protein; Archaeal virus, portal, portal capsid interface, Mg ions, VIRUS; HET: HIP, MG; 2.342A {Haloferax tailed virus 1},,,8QQN_PD,92.5816,100.0 SIF-Syn: portal protein found upstream from the capsid maturation protase as in CupcakePrincess /note=Did the start site stay the same or change: Same /note=Do the Glimmer and Genemark start sites agree? Y /note=What about Starterator? Y /note=Is the ORF chosen the longest ORF: Y /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on blast and with which phage? Y, Swervy /note=Z score = 2.831 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. Glimmer and Genemark agreed, Starterator agreed, longest ORF. /note= /note=Synteny: y /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: MsUbiquitous /note=Blast NCBI function match with E value should be 10^-7 or less: Swervy /note=HHPRED Match with > 90% probability: Portal protein CDS 4340 - 5092 /gene="5" /product="gp5" /function="capsid maturation protease" /locus tag="Jabb_5" /note=Original Glimmer call @bp 4340 has strength 13.47; Genemark calls start at 4340 /note=SSC: 4340-5092 CP: yes SCS: both ST: SS BLAST-Start: [capsid maturation protease [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 5.57631E-180 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.009, -2.5052746077145835, yes F: capsid maturation protease SIF-BLAST: ,,[capsid maturation protease [Microbacterium phage Eula] ],,YP_010753570,100.0,5.57631E-180 SIF-HHPRED: Peptidase_S78 ; Caudovirus prohead serine protease,,,PF04586.22,64.4,99.8 SIF-Syn: capsid maturation protease found upstream from the major capsid protein as in MsUbiquitous /note=Did the start site stay the same or change: Same /note=Do the Glimmer and Genemark start sites agree? Y /note=What about Starterator? /note=Is the ORF chosen the longest ORF: N /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on blast and with which phage? Eula /note=Z score = 3.009 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. /note=Same start, 1:1 alignment /note= /note=Synteny: y /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Eula /note=Blast NCBI function match with E value should be 10^-7 or less: Eula /note=HHPRED Match with > 90% probability: Caudovirus prohead serine protease CDS 5127 - 6308 /gene="6" /product="gp6" /function="major capsid protein" /locus tag="Jabb_6" /note=Original Glimmer call @bp 5127 has strength 14.06; Genemark calls start at 5127 /note=SSC: 5127-6308 CP: yes SCS: both ST: SS BLAST-Start: [major capsid protein [Microbacterium phage Swervy] ],,NCBI, q1:s1 100.0% 0.0 GAP: 34 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.145, -2.2364030944336752, yes F: major capsid protein SIF-BLAST: ,,[major capsid protein [Microbacterium phage Swervy] ],,YP_010753710,100.0,0.0 SIF-HHPRED: major capsid protein gp3; Xanthomonas phage, capsid, icosahedron, VIRUS; 3.5A {Xanthomonas phage phiXacJX1},,,9LBM_G,99.7455,100.0 SIF-Syn: major capsid protein found downstream from the capsid maturation protase as in MsUbiquitous /note=Did the start site stay the same or change: Same /note=Do the Glimmer and Genemark start sites agree? Y /note=What about Starterator? Y /note=Is the ORF chosen the longest ORF: Y /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on blast and with which phage? Y, Swervy /note=Z score = 3.145 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. Kept because Glimmer, Genemark, & Starterator agree and it is longest ORF. /note= /note=Synteny: y /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Y, SarBear /note=Blast NCBI function match with E value should be 10^-7 or less: Y, Swervy /note=HHPRED Match with > 90% probability: major capsid protein CDS 6378 - 6707 /gene="7" /product="gp7" /function="hypothetical protein" /locus tag="Jabb_7" /note=Original Glimmer call @bp 6378 has strength 13.31; Genemark calls start at 6378 /note=SSC: 6378-6707 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein QDW42_gp07 [Microbacterium phage Swervy] ],,NCBI, q1:s1 100.0% 5.50262E-70 GAP: 69 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.112, -4.85287563363746, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW42_gp07 [Microbacterium phage Swervy] ],,YP_010753711,100.0,5.50262E-70 SIF-HHPRED: SIF-Syn: hypothetical protein /note=Current Gene Number: 7 /note=Did the start site stay the same or change: same /note=Do the Glimmer and Genemark start sites agree? y /note=What about Starterator? y /note=Is the ORF chosen the longest ORF: y /note=Is all of the coding potential captured on GeneMark file: no /note=Is there a 1:1 alignment on blast and with which phage? Swervy /note=Z score = 2.112 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. Glimmer and GeneMark agree, Starterator agrees, longest ORF. /note= /note=Synteny: y /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: SarBear /note=Blast NCBI function match with E value should be 10^-7 or less: Swervy /note=HHPRED Match with > 90% probability: no CDS 6742 - 7302 /gene="8" /product="gp8" /function="head-to-tail adaptor" /locus tag="Jabb_8" /note=Original Glimmer call @bp 6742 has strength 10.97; Genemark calls start at 6742 /note=SSC: 6742-7302 CP: yes SCS: both ST: SS BLAST-Start: [head-to-tail adaptor [Microbacterium phage TukTuk]],,NCBI, q1:s1 100.0% 3.28162E-129 GAP: 34 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.099, -2.604595770381943, yes F: head-to-tail adaptor SIF-BLAST: ,,[head-to-tail adaptor [Microbacterium phage TukTuk]],,WXW92749,100.0,3.28162E-129 SIF-HHPRED: Adaptor protein gp8; Mycobacterium, bacteriophage, prolate head, head-to-tail connector, portal protein, adaptor protein, VIRUS, VIRAL PROTEIN; 3.46A {Mycolicibacterium phage Mycofy1},,,9LW9_D,98.9247,100.0 SIF-Syn: head-to-tail adaptor found upstream from the head-to-tail stopper as in MsUbiquitous /note=Current Gene Number: 8 /note=Did the start site stay the same or change: same /note=Do the Glimmer and Genemark start sites agree? y /note=What about Starterator? y /note=Is the ORF chosen the longest ORF: y /note=Is all of the coding potential captured on GeneMark file: y /note=Is there a 1:1 alignment on blast and with which phage? y, TukTuk /note=Z score = 3.099 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. Glimmer and GeneMark agree, Starterator agrees, longest ORF. /note= /note=Synteny: y /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: MsUbiquitous /note=Blast NCBI function match with E value should be 10^-7 or less: TukTuk /note=HHPRED Match with > 90% probability: Adaptor protein CDS 7302 - 7631 /gene="9" /product="gp9" /function="head-to-tail stopper" /locus tag="Jabb_9" /note=Original Glimmer call @bp 7302 has strength 15.91; Genemark calls start at 7302 /note=SSC: 7302-7631 CP: yes SCS: both ST: NI BLAST-Start: [head-to-tail stopper [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 1.35256E-73 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.009, -2.523003374675015, yes F: head-to-tail stopper SIF-BLAST: ,,[head-to-tail stopper [Microbacterium phage Eula] ],,YP_010753574,100.0,1.35256E-73 SIF-HHPRED: Head-to-tail stopper; Mycobacterium, bacteriophage, prolate head, head-to-tail interface, connector protein, terminator protein, tail tube protein, VIRUS, VIRAL PROTEIN;{Mycolicibacterium phage Mycofy1},,,9LWA_A,99.0826,99.8 SIF-Syn: head-to-tail stopper found downstream from the head-to-tail adaptor as in Eula /note=Did the start site stay the same or change: Stay /note=Do the Glimmer and Genemark start sites agree? Y /note=What about Starterator? Y /note=Is the ORF chosen the longest ORF: N /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on blast and with which phage? Eula /note=Z score = 3.009 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. /note=The start site was kept because it has a 1:1 alignment, and agrees with Starterator. /note= /note=Synteny: Y /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Eula /note=Blast NCBI function match with E value should be 10^-7 or less: Eula /note=HHPRED Match with > 90% probability: Head-to-tail stopper CDS 7631 - 7951 /gene="10" /product="gp10" /function="hypothetical protein" /locus tag="Jabb_10" /note=Original Glimmer call @bp 7631 has strength 12.44; Genemark calls start at 7631 /note=SSC: 7631-7951 CP: yes SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_TUKTUK_10 [Microbacterium phage TukTuk]],,NCBI, q1:s1 100.0% 5.16007E-69 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.952, -5.012410989999993, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_TUKTUK_10 [Microbacterium phage TukTuk]],,WXW92751,100.0,5.16007E-69 SIF-HHPRED: DUF5403 ; Family of unknown function (DUF5403),,,PF17395.7,65.0943,94.7 SIF-Syn: hypothetical protein /note=Did the start site stay the same or change: Y /note=Do the Glimmer and Genemark start sites agree? Y /note=What about Starterator? Y /note=Is the ORF chosen the longest ORF: N /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on blast and with which phage? TukTuk /note=Z score = 1.952 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. /note=The start site was kept because it has a 1:1 alignment, and agrees with Starterator. /note= /note=Synteny: y /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: TukTuk /note=Blast NCBI function match with E value should be 10^-7 or less: TukTuk /note=HHPRED Match with > 90% probability: Family of unknown CDS 7951 - 8346 /gene="11" /product="gp11" /function="tail terminator" /locus tag="Jabb_11" /note=Original Glimmer call @bp 7951 has strength 10.72; Genemark calls start at 7951 /note=SSC: 7951-8346 CP: yes SCS: both ST: NI BLAST-Start: [tail terminator [Microbacterium phage Finalfrontier] ],,NCBI, q1:s1 100.0% 3.81905E-87 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.755, -2.9754816289569264, no F: tail terminator SIF-BLAST: ,,[tail terminator [Microbacterium phage Finalfrontier] ],,WMI34029,100.0,3.81905E-87 SIF-HHPRED: Terminator protein gp11; Mycobacterium, bacteriophage, prolate head, head-to-tail interface, connector protein, terminator protein, tail tube protein, VIRUS, VIRAL PROTEIN;{Mycolicibacterium phage Mycofy1},,,9LWA_B,94.6565,99.8 SIF-Syn: tail terminator found downstream from the head-to-tail stopper as in TukTuk /note=Did the start site stay the same or change: Y /note=Do the Glimmer and Genemark start sites agree? Y /note=What about Starterator? Y /note=Is the ORF chosen the longest ORF: N /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on blast and with which phage? TukTuk /note=Z score = 2.755 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. /note=The start site was kept because it has a 1:1 alignment, and agrees with Starterator. /note= /note=Synteny: y /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Finalfrontier /note=Blast NCBI function match with E value should be 10^-7 or less: TukTuk /note=HHPRED Match with > 90% probability: Terminator protein CDS 8360 - 9157 /gene="12" /product="gp12" /function="major tail protein" /locus tag="Jabb_12" /note=Original Glimmer call @bp 8360 has strength 14.64; Genemark calls start at 8360 /note=SSC: 8360-9157 CP: yes SCS: both ST: NI BLAST-Start: [major tail protein [Microbacterium phage TukTuk]],,NCBI, q1:s1 100.0% 0.0 GAP: 13 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.242, -2.0162541296952132, yes F: major tail protein SIF-BLAST: ,,[major tail protein [Microbacterium phage TukTuk]],,WXW92753,100.0,0.0 SIF-HHPRED: Major tail protein; Bacteriophage, portal, VIRAL PROTEIN;{Mycobacterium phage Bxb1},,,9D94_Jj,95.4717,100.0 SIF-Syn: Major tail protein found downstream from the Tail Terminator as in TukTuk /note=Current Gene Number: 20 /note=Did the start site stay the same or change: Same /note=Do the Glimmer and Genemark start sites agree? Yes /note=What about Starterator? Yes /note=Is the ORF chosen the longest ORF: TRUE /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on blast and with which phage? MsUbiquitous /note=Z score = 1.978 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. The start site was kept because it has a 1:1 alignment, longer ORF, and agrees with Starterator. /note= /note=Synteny: Y /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: /note=Blast NCBI function match with E value should be 10^-7 or less: Nicky22 /note=HHPRED Match with > 90% probability: Major Tail Protein CDS 9283 - 9591 /gene="13" /product="gp13" /function="tail assembly chaperone" /locus tag="Jabb_13" /note=Original Glimmer call @bp 9283 has strength 12.6; Genemark calls start at 9283 /note=SSC: 9283-9591 CP: no SCS: both ST: SS BLAST-Start: [tail assembly chaperone [Microbacterium phage Finalfrontier] ],,NCBI, q1:s1 100.0% 1.27649E-67 GAP: 125 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.933, -4.700704706091107, no F: tail assembly chaperone SIF-BLAST: ,,[tail assembly chaperone [Microbacterium phage Finalfrontier] ],,WMI34031,100.0,1.27649E-67 SIF-HHPRED: GP24_25 ; Mycobacteriophage tail assembly protein,,,PF17388.7,77.451,96.8 SIF-Syn: /note=Current Gene Number: 13 /note=Did the start site stay the same or change: SAME /note=Do the Glimmer and Genemark start sites agree? Y /note=Does Starterator agree? Y /note=Is the ORF chosen the longest ORF: Y /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on BLAST and with which phage? Y, Finalfrontier /note=Z score = 1.933 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. Everything agrees /note= /note=Synteny: /note=PhagesDB BLAST- For any potential functional match, the E value should be 10^-7 or less: Y /note=BLAST NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: Y /note=Conserved Domain: CDS join(9283..9558,9558..9974) /gene="14" /product="gp14" /locus tag="Jabb_14" /note= /note=SSC: 9283-9974 CP: no SCS: neither ST: NI BLAST-Start: [tail assembly chaperone [Microbacterium phage Finalfrontier] ],,NCBI, q1:s1 100.0% 1.09327E-165 GAP: -309 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.933, -4.700704706091107, no F: SIF-BLAST: ,,[tail assembly chaperone [Microbacterium phage Finalfrontier] ],,WMI34032,100.0,1.09327E-165 SIF-HHPRED: SIF-Syn: CDS complement (9998 - 10201) /gene="15" /product="gp15" /function="hypothetical protein" /locus tag="Jabb_15" /note=Original Glimmer call @bp 10201 has strength 9.84; Genemark calls start at 10201 /note=SSC: 10201-9998 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein QDW42_gp15 [Microbacterium phage Swervy] ],,NCBI, q1:s1 100.0% 3.4629E-40 GAP: 197 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.584, -6.483743405613828, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW42_gp15 [Microbacterium phage Swervy] ],,YP_010753719,100.0,3.4629E-40 SIF-HHPRED: SIF-Syn: hypothetical protein /note=Current Gene Number: 15 /note=Did the start site stay the same or change: SAME /note=Do the Glimmer and Genemark start sites agree? Y /note=Does Starterator agree? Y /note=Is the ORF chosen the longest ORF: Y /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on BLAST and with which phage? Y, Swervy /note=Z score = 1.584 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. /note= /note=Synteny: Y /note=PhagesDB BLAST- For any potential functional match, the E value should be 10^-7 or less: Y /note=BLAST NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: N /note=Conserved Domain: CDS 10399 - 13161 /gene="16" /product="gp16" /function="tape measure protein" /locus tag="Jabb_16" /note=Original Glimmer call @bp 10399 has strength 12.86; Genemark calls start at 10399 /note=SSC: 10399-13161 CP: no SCS: both ST: NI BLAST-Start: [tape measure protein [Microbacterium phage TukTuk]],,NCBI, q1:s1 100.0% 0.0 GAP: 197 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.158, -4.309437458116814, no F: tape measure protein SIF-BLAST: ,,[tape measure protein [Microbacterium phage TukTuk]],,WXW92757,100.0,0.0 SIF-HHPRED: FtbJ; Bacteriocin, bacteriophage, Siphoviridae, F-type tailocin, phage tail-like bacteriocins, Listeria monocytogenes, monocin, cryo-EM, VIRUS LIKE PARTICLE;{Listeria monocytogenes},,,9J1K_O,4.23913,99.6 SIF-Syn: Tape measure protein found upstream of minor tail protein as in MsUbiquitous /note=Current Gene Number: 16 /note=Did the start site stay the same or change: SAME /note=Do the Glimmer and Genemark start sites agree? Y /note=Does Starterator agree? Y /note=Is the ORF chosen the longest ORF: Y /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on BLAST and with which phage? Y, TukTuk /note=Z score = 2.158 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. Everything agrees /note= /note=Synteny: Y /note=PhagesDB BLAST- For any potential functional match, the E value should be 10^-7 or less: Y /note=BLAST NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: Y /note=Conserved Domain: CDS 13158 - 14012 /gene="17" /product="gp17" /function="minor tail protein" /locus tag="Jabb_17" /note=Original Glimmer call @bp 13158 has strength 11.91; Genemark calls start at 13158 /note=SSC: 13158-14012 CP: no SCS: both ST: SS BLAST-Start: [minor tail protein [Microbacterium phage Jovita] ],,NCBI, q1:s1 100.0% 0.0 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.459, -4.5049749909507835, yes F: minor tail protein SIF-BLAST: ,,[minor tail protein [Microbacterium phage Jovita] ],,YP_010753791,100.0,0.0 SIF-HHPRED: FtbK; Bacteriocin, bacteriophage, Siphoviridae, F-type tailocin, phage tail-like bacteriocins, Listeria monocytogenes, monocin, cryo-EM, VIRUS LIKE PARTICLE;{Listeria monocytogenes},,,9J1K_P,98.5916,100.0 SIF-Syn: minor tail protein found upstream of tape measure protein as in MsUbiquitous /note=Did the start site stay the same or change: Same /note=Do the Glimmer and Genemark start sites agree? Yes /note=What about Starterator? Yes /note=Is the ORF chosen the longest ORF: TRUE /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on blast and with which phage? Yes, MsUbiquitous /note=Z score = 2.459 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. The start site was kept because it has a 1:1 alignment, and agrees with Starterator /note= /note= /note=Synteny: Y /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Y, MsUbiquitous /note=Blast NCBI function match with E value should be 10^-7 or less: TukTuk /note=HHPRED Match with > 90% probability: Minor Tail Protein CDS 14012 - 15982 /gene="18" /product="gp18" /function="minor tail protein" /locus tag="Jabb_18" /note=Original Glimmer call @bp 14012 has strength 9.69; Genemark calls start at 14012 /note=SSC: 14012-15982 CP: no SCS: both ST: NI BLAST-Start: [minor tail protein [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 0.0 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.943, -4.820269098574683, no F: minor tail protein SIF-BLAST: ,,[minor tail protein [Microbacterium phage Eula] ],,YP_010753583,99.5427,0.0 SIF-HHPRED: Minor tail protein; Bacteriophage, tail tip, VIRAL PROTEIN;{Mycobacterium phage Bxb1},,,9D93_Oa,59.2988,100.0 SIF-Syn: Minor tail protein found upstream of minor tail protein as in MsUbiquitous /note=Current Gene Number: 18 /note=Did the start site stay the same or change: SAME /note=Do the Glimmer and Genemark start sites agree? Y /note=Does Starterator agree? Y /note=Is the ORF chosen the longest ORF: Y /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on BLAST and with which phage? Y, Eula /note=Z score = 1.943 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. Everything agrees /note= /note=Synteny: Y /note=PhagesDB BLAST- For any potential functional match, the E value should be 10^-7 or less: Y /note=BLAST NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: Y /note=Conserved Domain: CDS 15975 - 16151 /gene="19" /product="gp19" /function="hypothetical protein" /locus tag="Jabb_19" /note=Original Glimmer call @bp 15975 has strength 5.82 /note=SSC: 15975-16151 CP: no SCS: glimmer ST: NI BLAST-Start: [hypothetical protein SEA_PHISB_19 [Microbacterium phage Phisb]],,NCBI, q1:s1 100.0% 5.386E-33 GAP: -8 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.538, -3.430952136556091, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_PHISB_19 [Microbacterium phage Phisb]],,XEN17706,100.0,5.386E-33 SIF-HHPRED: Zn_ribbon_Com ; Mu-like prophage protein Com,,,PF10122.14,63.7931,93.8 SIF-Syn: hypothetical protein found downstream from the minor tail protein as in Eula. /note=Current Gene Number: 19 /note=Did the start site stay the same or change: Change - 15975 /note=Do the Glimmer and Genemark start sites agree? No /note=What about Starterator? Yes /note=Is the ORF chosen the longest ORF: Yes /note=Is all of the coding potential captured on GeneMark file: Yes /note=Is there a 1:1 alignment on blast and with which phage? Yes - Phisb /note=Z score = 2.538 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. The start site was kept because it has a 1:1 alignment, longer ORF, and agrees with starterator. /note= /note=FUNCTION /note=Synteny: yes /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Yes /note=Blast NCBI function match with E value should be 10^-7 or less: Yes /note=HHPRED Match with > 90% probability: Yes /note=Conserved Domain: N/A CDS 16151 - 17239 /gene="20" /product="gp20" /function="minor tail protein" /locus tag="Jabb_20" /note=Original Glimmer call @bp 16151 has strength 15.33; Genemark calls start at 16151 /note=SSC: 16151-17239 CP: no SCS: both ST: NI BLAST-Start: [minor tail protein [Microbacterium phage Nicky22]],,NCBI, q1:s1 100.0% 0.0 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.009, -2.5052746077145835, yes F: minor tail protein SIF-BLAST: ,,[minor tail protein [Microbacterium phage Nicky22]],,WNT44414,100.0,0.0 SIF-HHPRED: Receptor Binding Protein; beta sandwich domain, phage receptor binding protein, Lactococcus lactis pellicle cell wall polyphosphosaccharide, VIRAL PROTEIN; 1.75A {Lactococcus phage 1358},,,4L9B_A,42.5414,99.7 SIF-Syn: Minor tail protein found upstream of minor tail protein as in MsUbiquitous /note=Current Gene Number: 20 /note=Did the start site stay the same or change: SAME /note=Do the Glimmer and Genemark start sites agree? Y /note=Does Starterator agree? Y /note=Is the ORF chosen the longest ORF: Y /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on BLAST and with which phage? Y, Nicky22 /note=Z score = 1.978 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. Everything agrees /note= /note=Synteny: YES /note=PhagesDB BLAST- For any potential functional match, the E value should be 10^-7 or less: Y /note=BLAST NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: minor tail protein /note=Conserved Domain: CDS 17249 - 18052 /gene="21" /product="gp21" /function="minor tail protein" /locus tag="Jabb_21" /note=Original Glimmer call @bp 17249 has strength 16.09; Genemark calls start at 17249 /note=SSC: 17249-18052 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein QDW44_gp21 [Microbacterium phage BubbaBear] ],,NCBI, q1:s1 100.0% 0.0 GAP: 9 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.253, -2.0111200136961407, yes F: minor tail protein SIF-BLAST: ,,[hypothetical protein QDW44_gp21 [Microbacterium phage BubbaBear] ],,YP_010753863,99.2509,0.0 SIF-HHPRED: SIF-Syn: /note=Current Gene Number: 21 /note=Did the start site stay the same or change: YES /note=Do the Glimmer and Genemark start sites agree? YES /note=What about Starterator? YES /note=Is the ORF chosen the longest ORF: 3.253 /note=Is all of the coding potential captured on GeneMark file: YES /note=Is there a 1:1 alignment on blast and with which phage? Yes, MsUbiquitous /note=Z score = 3.253 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. The start site was kept because it has a 1:1 alignment, longer ORF, and agrees with Starterator. /note= /note= /note=Synteny: YES /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: /note=Blast NCBI function match with E value should be 10^-7 or less: /note=HHPRED Match with > 90% probability: CDS 18064 - 18816 /gene="22" /product="gp22" /function="endolysin" /locus tag="Jabb_22" /note=Original Glimmer call @bp 18064 has strength 10.72; Genemark calls start at 18064 /note=SSC: 18064-18816 CP: no SCS: both ST: NI BLAST-Start: [endolysin [Microbacterium phage Swervy] ],,NCBI, q1:s1 100.0% 0.0 GAP: 11 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.253, -1.993391246735709, yes F: endolysin SIF-BLAST: ,,[endolysin [Microbacterium phage Swervy] ],,YP_010753726,100.0,0.0 SIF-HHPRED: D,D-dipeptidase/D,D-carboxypeptidase; CENTER FOR STRUCTURAL GENOMICS OF INFECTIOUS DISEASES, CSGID, NATIONAL INSTITUTE OF ALLERGY AND INFECTIOUS DISEASES, NIAID; HET: 2D8, LY0, GOL, PE3; 1.364A {Enterococcus faecalis},,,4MUQ_A,51.2,99.5 SIF-Syn: Endolysin found downstream of minor tail protein as in MsUbiquitous /note=Current Gene Number: 22 /note=Did the start site stay the same or change: SAME /note=Do the Glimmer and Genemark start sites agree? YES /note=What about Starterator? YES /note=Is the ORF chosen the longest ORF: YES /note=Is all of the coding potential captured on GeneMark file: YES /note=Is there a 1:1 alignment on blast and with which phage? Y, Sarbear. /note=Z score = 1.15 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. The start site was kept because it has a 1:1 alignment, longer ORF, and agrees with Starterator. /note= /note=Synteny: Y /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: /note=Blast NCBI function match with E value should be 10^-7 or less: /note=HHPRED Match with > 90% probability: CDS 18822 - 19304 /gene="23" /product="gp23" /function="hypothetical protein" /locus tag="Jabb_23" /note=Original Glimmer call @bp 18822 has strength 11.71; Genemark calls start at 18822 /note=SSC: 18822-19304 CP: no SCS: both ST: NI BLAST-Start: [membrane protein [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 3.93085E-108 GAP: 5 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.009, -2.583959800616441, yes F: hypothetical protein SIF-BLAST: ,,[membrane protein [Microbacterium phage Eula] ],,YP_010753588,100.0,3.93085E-108 SIF-HHPRED: SIF-Syn: /note=Current Gene Number: 23 /note=Did the start site stay the same or change: Same /note=Do the Glimmer and Genemark start sites agree? Yes /note=What about Starterator? Yes /note=Is the ORF chosen the longest ORF: Yes /note=Is all of the coding potential captured on GeneMark file: Yes /note=Is there a 1:1 alignment on blast and with which phage? Yes - Eula /note=Z score = 1.874 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. The start site was kept because it has a 1:1 alignment, longer ORF, and agrees with starterator. /note= /note=FUNCTION /note=Synteny: yes /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Yes /note=Blast NCBI function match with E value should be 10^-7 or less: Yes /note=HHPRED Match with > 90% probability: No /note=Conserved Domain: N/A CDS 19315 - 19656 /gene="24" /product="gp24" /function="hypothetical protein" /locus tag="Jabb_24" /note=Original Glimmer call @bp 19315 has strength 9.82; Genemark calls start at 19315 /note=SSC: 19315-19656 CP: no SCS: both ST: NI BLAST-Start: [membrane protein [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 7.55218E-70 GAP: 10 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.009, -2.523003374675015, yes F: hypothetical protein SIF-BLAST: ,,[membrane protein [Microbacterium phage Eula] ],,YP_010753589,100.0,7.55218E-70 SIF-HHPRED: DUF7365 ; Coiled-coil region of unknown function (DUF7365),,,PF24073.1,84.0708,97.4 SIF-Syn: hypothetical protein /note=Current Gene Number: 24 /note=Did the start site stay the same or change: SAME /note=Do the Glimmer and Genemark start sites agree? Y /note=Does Starterator agree? Y /note=Is the ORF chosen the longest ORF: Y /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on BLAST and with which phage? Y, Eula /note=Z score = 3.009 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. Everything agrees /note= /note=Synteny: /note=PhagesDB BLAST- For any potential functional match, the E value should be 10^-7 or less: Yes /note=BLAST NCBI function match with E value should be 10^-7 or less: Yes /note=HHPRED Match with > 90% probability: Yes /note=Conserved Domain: N/A CDS 19660 - 19887 /gene="25" /product="gp25" /function="hypothetical protein" /locus tag="Jabb_25" /note=Original Glimmer call @bp 19660 has strength 11.76; Genemark calls start at 19660 /note=SSC: 19660-19887 CP: yes SCS: both ST: SS BLAST-Start: [membrane protein [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 1.23034E-44 GAP: 3 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.56, -3.911270251972219, no F: hypothetical protein SIF-BLAST: ,,[membrane protein [Microbacterium phage Eula] ],,YP_010753590,100.0,1.23034E-44 SIF-HHPRED: DUF7439 ; Family of unknown function (DUF7439),,,PF24220.1,82.6667,99.7 SIF-Syn: hypothetical protein /note=Current Gene Number: 25 /note=Did the start site stay the same or change: Stayed the same /note=Do the Glimmer and Genemark start sites agree? Y /note=What about Starterator? Y /note=Is the ORF chosen the longest ORF: Y /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on blast and with which phage? Y, MsUbiquitous /note=Z score = 2.56 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site: All parties agreed /note= /note=Synteny: Y /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Y /note=Blast NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: Y /note=Conserved Domain: N/A CDS 20084 - 20680 /gene="26" /product="gp26" /function="hypothetical protein" /locus tag="Jabb_26" /note=Original Glimmer call @bp 20084 has strength 12.36; Genemark calls start at 20084 /note=SSC: 20084-20680 CP: no SCS: both ST: SS BLAST-Start: [hypothetical protein QDW40_gp26 [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 3.85001E-142 GAP: 196 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.26, -6.193723690050797, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW40_gp26 [Microbacterium phage Eula] ],,YP_010753591,100.0,3.85001E-142 SIF-HHPRED: SIF-Syn: Hypothetical protein /note=Current Gene Number: 26 /note=Did the start site stay the same or change: Stayed the same /note=Do the Glimmer and Genemark start sites agree? Y /note=Does Starterator agree? Y /note=Is the ORF chosen the longest ORF: N /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on BLAST and with which phage? Y-Eula /note=Z score = 1.26 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. /note=All is true /note=Synteny: /note=PhagesDB BLAST- For any potential functional match, the E value should be 10^-7 or less: Y /note=BLAST NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: Y /note=Conserved Domain: CDS 20691 - 21347 /gene="27" /product="gp27" /function="hypothetical protein" /locus tag="Jabb_27" /note=Original Glimmer call @bp 20691 has strength 17.17; Genemark calls start at 20691 /note=SSC: 20691-21347 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein QDW42_gp27 [Microbacterium phage Swervy] ],,NCBI, q1:s1 100.0% 3.64105E-156 GAP: 10 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.953, -2.5594668560256912, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW42_gp27 [Microbacterium phage Swervy] ],,YP_010753731,100.0,3.64105E-156 SIF-HHPRED: DUF6378 ; Domain of unknown function (DUF6378),,,PF19905.4,39.4495,99.9 SIF-Syn: hypothetical protein /note=Current Gene Number: 27 /note=Did the start site stay the same or change: Stayed the same /note=Do the Glimmer and Genemark start sites agree? Y /note=What about Starterator? Y /note=Is the ORF chosen the longest ORF: Y /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on blast and with which phage? Y, Jovita /note=Z score = 2.953 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site: All parties agreed /note= /note=Synteny: Y /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Y /note=Blast NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: Y /note=Conserved Domain: N/A CDS 21344 - 21490 /gene="28" /product="gp28" /function="hypothetical protein" /locus tag="Jabb_28" /note=Original Glimmer call @bp 21344 has strength 8.47; Genemark calls start at 21344 /note=SSC: 21344-21490 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein QDW40_gp28 [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 7.28493E-27 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.528, -6.458895366205956, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW40_gp28 [Microbacterium phage Eula] ],,YP_010753593,100.0,7.28493E-27 SIF-HHPRED: a.60.2.2 (A:401-581) NAD+-dependent DNA ligase, domain 3 {Thermus filiformis [TaxId: 276]} | CLASS: All alpha proteins, FOLD: SAM domain-like, SUPFAM: RuvA domain 2-like, FAM: NAD+-dependent DNA ligase, domain 3,,,SCOP_d1dgsa1,31.25,92.3 SIF-Syn: Hypothetical protein /note=Current Gene Number: 28 /note=Did the start site stay the same or change: same /note=Do the Glimmer and Genemark start sites agree? yes it agrees with starterator and grimmer /note=What about Starterator? Y /note=Is the ORF chosen the longest ORF: Y /note=Is all of the coding potential captured on GeneMark file: yes /note=Is there a 1:1 alignment on blast and with which phage? yes, Eula /note=Z score = 1.528 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. /note=The start site was kept because it has a 1:1 alignment, longer ORF, and agrees with starterator /note= /note=Synteny: Y /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Y /note=Blast NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: Y /note=Conserved Domain: N/A CDS 21556 - 22434 /gene="29" /product="gp29" /function="Cas4 family exonuclease" /locus tag="Jabb_29" /note=Original Glimmer call @bp 21556 has strength 14.07; Genemark calls start at 21556 /note=SSC: 21556-22434 CP: yes SCS: both ST: SS BLAST-Start: [exonuclease [Microbacterium phage Avocadoman] ],,NCBI, q1:s1 100.0% 0.0 GAP: 65 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.378, -3.8478832731078265, yes F: Cas4 family exonuclease SIF-BLAST: ,,[exonuclease [Microbacterium phage Avocadoman] ],,YP_010753317,100.0,0.0 SIF-HHPRED: Mitochondrial genome maintenance exonuclease 1; human MGME1, DNA complex, DNA exonuclease, DNA BINDING PROTEIN; 2.702A {Homo sapiens},,,5ZYT_A,85.6164,99.8 SIF-Syn: Found upstream from dUTPase as seen in CupcakePrincess. /note=Current Gene Number: 29 /note=Did the start site stay the same or change: Stayed the same /note=Do the Glimmer and Genemark start sites agree? Y /note=What about Starterator? Y /note=Is the ORF chosen the longest ORF: Y /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on blast and with which phage? Y, Abigail /note=Z score = 2.378 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site: All parties agreed /note= /note=Synteny: Y /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Y /note=Blast NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: Y /note=Conserved Domain: N/A CDS 22434 - 22598 /gene="30" /product="gp30" /function="hypothetical protein" /locus tag="Jabb_30" /note=Original Glimmer call @bp 22434 has strength 14.61; Genemark calls start at 22434 /note=SSC: 22434-22598 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein QDW40_gp30 [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 7.91418E-29 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.749, -5.166207523958222, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW40_gp30 [Microbacterium phage Eula] ],,YP_010753595,100.0,7.91418E-29 SIF-HHPRED: SIF-Syn: hypothetical protein /note=Current Gene Number: 30 /note=Did the start site stay the same or change: same /note=Do the Glimmer and Genemark start sites agree? yes it agrees with starterator and grimmer /note=What about Starterator? Y /note=Is the ORF chosen the longest ORF: Y /note=Is all of the coding potential captured on GeneMark file: yes /note=Is there a 1:1 alignment on blast and with which phage? yes, Eula /note=Z score = 1.749 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. /note=The start site was kept because it has a 1:1 alignment, longer ORF, and agrees with starterator /note= /note=Synteny: Y /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Y /note=Blast NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: N /note=Conserved Domain: N/A CDS 22595 - 22978 /gene="31" /product="gp31" /function="hypothetical protein" /locus tag="Jabb_31" /note=Original Glimmer call @bp 22595 has strength 8.12; Genemark calls start at 22595 /note=SSC: 22595-22978 CP: no SCS: both ST: SS BLAST-Start: [hypothetical protein QDW38_gp31 [Microbacterium phage Lynlen] ],,NCBI, q1:s1 100.0% 2.1052E-87 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.305, -4.060971128237648, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW38_gp31 [Microbacterium phage Lynlen] ],,YP_010753457,100.0,2.1052E-87 SIF-HHPRED: SIF-Syn: hypothetical protein /note=Current Gene Number: 31 /note=Did the start site stay the same or change: Stayed the same /note=Do the Glimmer and Genemark start sites agree? Y /note=What about Starterator? Y /note=Is the ORF chosen the longest ORF: N /note=Is all of the coding potential captured on GeneMark file: N /note=Is there a 1:1 alignment on blast and with which phage? Y, Albedo /note=Z score = 2.305 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site: All parties agreed /note= /note=Synteny: Y /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Y /note=Blast NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: N /note=Conserved Domain: N/A CDS 23092 - 23676 /gene="32" /product="gp32" /function="dUTPase" /locus tag="Jabb_32" /note=Original Glimmer call @bp 23092 has strength 9.07; Genemark calls start at 23092 /note=SSC: 23092-23676 CP: no SCS: both ST: SS BLAST-Start: [deoxyuridine triphosphatase [Microbacterium phage Lahqtemish] ],,NCBI, q1:s40 100.0% 2.28843E-128 GAP: 113 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.045, -4.52735728736575, no F: dUTPase SIF-BLAST: ,,[deoxyuridine triphosphatase [Microbacterium phage Lahqtemish] ],,YP_010752831,79.4872,2.28843E-128 SIF-HHPRED: dUTPase_2 ; dUTPase,,,PF08761.16,58.7629,99.4 SIF-Syn: Found downstream from Cas4 family exonuclease as seen in CupcakePrincess. /note=Current Gene Number: 32 /note=Did the start site stay the same or change: Stayed the same /note=Do the Glimmer and Genemark start sites agree? Y /note=Does Starterator agree? Y /note=Is the ORF chosen the longest ORF: N /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on BLAST and with which phage? Y, MsUbiquitous /note=Z score = 2.045 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. /note=Everything Agreed /note= /note=Synteny: Y /note=PhagesDB BLAST- For any potential functional match, the E value should be 10^-7 or less: Y /note=BLAST NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: Y /note=Conserved Domain: N/A CDS 23673 - 24179 /gene="33" /product="gp33" /function="thymidylate kinase" /locus tag="Jabb_33" /note=Original Glimmer call @bp 23673 has strength 12.51; Genemark calls start at 23673 /note=SSC: 23673-24179 CP: no SCS: both ST: SS BLAST-Start: [thymidylate kinase [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 6.67585E-119 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.512, -4.3934175870462076, yes F: thymidylate kinase SIF-BLAST: ,,[thymidylate kinase [Microbacterium phage Eula] ],,YP_010753598,99.4048,6.67585E-119 SIF-HHPRED: Thymidylate kinase; Structural Genomics, PSI-Biology, Midwest Center for Structural Genomics, MCSG, Mtb Proteins Conferring Susceptibility to Known Mtb; HET: MSE, MES, PG4; 1.55A {Staphylococcus aureus} SCOP: c.37.1.0,,,4MQB_B,97.0238,99.8 SIF-Syn: Found upstream from recombination directionality factor as found in CupcakePrincess. /note=Current Gene Number: 33 /note=Did the start site stay the same or change: Stayed the same /note=Do the Glimmer and Genemark start sites agree? Y /note=What about Starterator? Y /note=Is the ORF chosen the longest ORF: N /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on blast and with which phage? Y, Eula /note=Z score = 2.512 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site: All parties agreed /note= /note=Synteny: Y /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Y /note=Blast NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: N /note=Conserved Domain: N/A CDS 24195 - 24944 /gene="34" /product="gp34" /function="recombination directionality factor" /locus tag="Jabb_34" /note=Original Glimmer call @bp 24195 has strength 12.87; Genemark calls start at 24195 /note=SSC: 24195-24944 CP: yes SCS: both ST: SS BLAST-Start: [recombination directionality factor [Microbacterium phage Slay] ],,NCBI, q1:s1 100.0% 1.67187E-178 GAP: 15 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.112, -5.426906901365179, no F: recombination directionality factor SIF-BLAST: ,,[recombination directionality factor [Microbacterium phage Slay] ],,WMI34120,100.0,1.67187E-178 SIF-HHPRED: Gp3-like ; Recombination directionality factor-like,,,PF18897.5,74.2972,99.9 SIF-Syn: Found upstream from downstream from the Thymidylate kinase as in CupcakePrincess. /note=Current Gene Number: 34 /note=Did the start site stay the same or change: same /note=Do the Glimmer and Genemark start sites agree? yes it agrees with starterator and grimmer /note=What about Starterator? Y /note=Is the ORF chosen the longest ORF: Y /note=Is all of the coding potential captured on GeneMark file: yes /note=Is there a 1:1 alignment on blast and with which phage? yes, seen in Slay /note=Z score = 2.112 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. /note=The start site was kept because it has a 1:1 alignment, longer ORF, and agrees with starterator /note= /note=Synteny: Y /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Y /note=Blast NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: Y /note=Conserved Domain: N/A CDS complement (25102 - 25191) /gene="35" /product="gp35" /function="hypothetical protein" /locus tag="Jabb_35" /note=Genemark calls start at 25191 /note=SSC: 25191-25102 CP: no SCS: genemark ST: SS BLAST-Start: [hypothetical protein QDW40_gp35 [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 3.96374E-10 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.578, -3.4283035164720754, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW40_gp35 [Microbacterium phage Eula] ],,YP_010753600,100.0,3.96374E-10 SIF-HHPRED: SIF-Syn: hypothetical protein /note=Current Gene Number: 35 /note=Did the start site stay the same or change: Stayed the same /note=Do the Glimmer and Genemark start sites agree? Glimmer did not provide a start. /note=What about Starterator? Y /note=Is the ORF chosen the longest ORF: N /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on blast and with which phage? Y, Arroyo /note=Z score = 2.578 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site: GeneMark and Starterator agree. CDS complement (25191 - 25490) /gene="36" /product="gp36" /function="hypothetical protein" /locus tag="Jabb_36" /note=Original Glimmer call @bp 25490 has strength 13.15; Genemark calls start at 25490 /note=SSC: 25490-25191 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein QDW40_gp36 [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 1.38676E-65 GAP: 73 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.585, -5.511537306530897, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW40_gp36 [Microbacterium phage Eula] ],,YP_010753601,98.9899,1.38676E-65 SIF-HHPRED: SIF-Syn: Hypothetical protein /note=Current Gene Number: 36 /note=Did the start site stay the same or change: Yes /note=Do the Glimmer and Genemark start sites agree? Yes /note=What about Starterator? Yes /note=Is the ORF chosen the longest ORF: Yes /note=Is all of the coding potential captured on GeneMark file: Yes /note=Is there a 1:1 alignment on blast and with which phage? Yes - Eula /note=Z score = 1.585 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. The start site was kept because it has a 1:1 alignment, longer ORF, and agrees with starterator. /note= /note=FUNCTION /note=Synteny: yes /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Yes /note=Blast NCBI function match with E value should be 10^-7 or less: Yes /note=HHPRED Match with > 90% probability: No /note=Conserved Domain: N/A CDS 25564 - 25806 /gene="37" /product="gp37" /function="NrdH-like glutaredoxin" /locus tag="Jabb_37" /note=Original Glimmer call @bp 25564 has strength 15.07; Genemark calls start at 25564 /note=SSC: 25564-25806 CP: no SCS: both ST: NI BLAST-Start: [NrdH-like glutaredoxin [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 2.50302E-49 GAP: 73 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.119, -5.410872673788094, no F: NrdH-like glutaredoxin SIF-BLAST: ,,[NrdH-like glutaredoxin [Microbacterium phage Eula] ],,YP_010753602,100.0,2.50302E-49 SIF-HHPRED: c.47.1.0 (A:) automated matches {Baker`s yeast (Saccharomyces cerevisiae) [TaxId: 559292]} | CLASS: Alpha and beta proteins (a/b), FOLD: Thioredoxin fold, SUPFAM: Thioredoxin-like, FAM: automated matches,,,SCOP_d2m80a_,85.0,99.3 SIF-Syn: /note=Current Gene Number: 37 /note=Did the start site stay the same or change: Same /note=Do the Glimmer and Genemark start sites agree? Y /note=Does Starterator agree? Y /note=Is the ORF chosen the longest ORF: Y /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on BLAST and with which phage? Eula /note=Z score = 2.119 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. They were the same /note= /note=Synteny: /note=PhagesDB BLAST- For any potential functional match, the E value should be 10^-7 or less: Y /note=BLAST NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: Y 99.3% /note=Conserved Domain: N/A CDS 25806 - 26132 /gene="38" /product="gp38" /function="Holliday junction resolvase" /locus tag="Jabb_38" /note=Original Glimmer call @bp 25806 has strength 11.63; Genemark calls start at 25806 /note=SSC: 25806-26132 CP: yes SCS: both ST: NI BLAST-Start: [holliday junction resolvase [Microbacterium phage QMacho] ],,NCBI, q1:s1 100.0% 7.3251E-67 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.147, -5.353950185769375, no F: Holliday junction resolvase SIF-BLAST: ,,[holliday junction resolvase [Microbacterium phage QMacho] ],,YP_010753673,99.0741,7.3251E-67 SIF-HHPRED: SIF-Syn: Holliday junction resolvase found downstream from NrdH-like glutaredoxin as in CupcakePrincess /note=Current Gene Number: 38 /note=Did the start site stay the same or change: It stayed the same /note=Do the Glimmer and Genemark start sites agree? Yes /note=Does Starterator agree? Yes /note=Is the ORF chosen the longest ORF: Yes /note=Is all of the coding potential captured on GeneMark file: Yes /note=Is there a 1:1 alignment on BLAST and with which phage? Yes, with Jovita /note=Z score = 2.147 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. The start site was kept because it has a 1:1 alignment. /note= /note=Synteny: Yes /note=PhagesDB BLAST- For any potential functional match, the E value should be 10^-7 or less: Y /note=BLAST NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: Y /note=Conserved Domain: NA CDS 26162 - 26455 /gene="39" /product="gp39" /function="hypothetical protein" /locus tag="Jabb_39" /note=Original Glimmer call @bp 26162 has strength 21.21; Genemark calls start at 26162 /note=SSC: 26162-26455 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein QDW40_gp39 [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 7.48741E-62 GAP: 29 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.585, -5.511537306530897, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW40_gp39 [Microbacterium phage Eula] ],,YP_010753604,100.0,7.48741E-62 SIF-HHPRED: SIF-Syn: Hypothetical protein /note=Current Gene Number: 39 /note=Did the start site stay the same or change: Same /note=Do the Glimmer and Genemark start sites agree? Y /note=Does Starterator agree? Y /note=Is the ORF chosen the longest ORF: Y /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on BLAST and with which phage? Eula /note=Z score = 1.585 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. They were the same /note= /note=Synteny: /note=PhagesDB BLAST- For any potential functional match, the E value should be 10^-7 or less: Y /note=BLAST NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: N /note=Conserved Domain: N/A CDS 26541 - 26822 /gene="40" /product="gp40" /function="hypothetical protein" /locus tag="Jabb_40" /note=Original Glimmer call @bp 26541 has strength 15.93; Genemark calls start at 26541 /note=SSC: 26541-26822 CP: yes SCS: both ST: NI BLAST-Start: [hypothetical protein QDW43_gp40 [Microbacterium phage Jovita] ],,NCBI, q1:s1 100.0% 8.11822E-59 GAP: 85 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.242, -2.0162541296952132, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW43_gp40 [Microbacterium phage Jovita] ],,YP_010753814,100.0,8.11822E-59 SIF-HHPRED: SIF-Syn: Hypothetical protein /note=Current Gene Number: 40 /note=Did the start site stay the same or change: It stayed the same /note=Do the Glimmer and Genemark start sites agree? Yes /note=Does Starterator agree? Yes /note=Is the ORF chosen the longest ORF: Yes /note=Is all of the coding potential captured on GeneMark file: Yes /note=Is there a 1:1 alignment on BLAST and with which phage? Yes, with Jovita /note=Z score = 3.242 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. The start site was kept because it has a 1:1 alignment. /note= /note=Synteny: Yes /note=PhagesDB BLAST- For any potential functional match, the E value should be 10^-7 or less: Y /note=BLAST NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: N /note=Conserved Domain: NA CDS 26822 - 27004 /gene="41" /product="gp41" /function="hypothetical protein" /locus tag="Jabb_41" /note=Original Glimmer call @bp 26822 has strength 13.96; Genemark calls start at 26822 /note=SSC: 26822-27004 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein QDW41_gp43 [Microbacterium phage QMacho] ],,NCBI, q1:s1 100.0% 7.26841E-31 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.906, -4.7584729022291805, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW41_gp43 [Microbacterium phage QMacho] ],,YP_010753677,98.3333,7.26841E-31 SIF-HHPRED: SIF-Syn: Hypothetical protein /note=Current Gene Number: 41 /note=Did the start site stay the same or change: Same /note=Do the Glimmer and Genemark start sites agree? Y /note=Does Starterator agree? Y /note=Is the ORF chosen the longest ORF: N /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on BLAST and with which phage? QMacho /note=Z score = 1.906 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. They were the same /note= /note=Synteny: /note=PhagesDB BLAST- For any potential functional match, the E value should be 10^-7 or less: Y /note=BLAST NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: N /note=Conserved Domain: N/A CDS 27123 - 29588 /gene="42" /product="gp42" /function="DNA primase/helicase" /locus tag="Jabb_42" /note=Original Glimmer call @bp 27123 has strength 12.31; Genemark calls start at 27123 /note=SSC: 27123-29588 CP: yes SCS: both ST: NI BLAST-Start: [DNA primase/helicase [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 0.0 GAP: 118 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.761, -3.7907710954237626, yes F: DNA primase/helicase SIF-BLAST: ,,[DNA primase/helicase [Microbacterium phage Eula] ],,YP_010753607,99.7564,0.0 SIF-HHPRED: Putative primase C962R; VIRAL PROTEIN, DNA BINDING PROTEIN-DNA COMPLEX; HET: ADP; 3.15A {African swine fever virus},,,8WVZ_E,55.0548,100.0 SIF-Syn: DNA primase/helicase found downstream from the DNA polymerase as in CupcakePrincess. /note=Current Gene Number: 42 /note=Did the start site stay the same or change: It stayed the same /note=Do the Glimmer and Genemark start sites agree? Yes /note=Does Starterator agree? Yes /note=Is the ORF chosen the longest ORF: Yes /note=Is all of the coding potential captured on GeneMark file: Yes /note=Is there a 1:1 alignment on BLAST and with which phage? Yes, with Eula /note=Z score = 2.761 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. The start site was kept because it has a 1:1 alignment. /note= /note=Synteny: Yes /note=PhagesDB BLAST- For any potential functional match, the E value should be 10^-7 or less: Y /note=BLAST NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: Y /note=Conserved Domain: NA CDS 29585 - 31459 /gene="43" /product="gp43" /function="DNA polymerase I" /locus tag="Jabb_43" /note=Original Glimmer call @bp 29585 has strength 13.7; Genemark calls start at 29585 /note=SSC: 29585-31459 CP: no SCS: both ST: NI BLAST-Start: [DNA polymerase I [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 0.0 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.009, -2.523003374675015, yes F: DNA polymerase I SIF-BLAST: ,,[DNA polymerase I [Microbacterium phage Eula] ],,YP_010753608,99.8397,0.0 SIF-HHPRED: Apicoplast DNA polymerase; DNA polymerase, exonulease, apicoplast, Plasmodium falciparum, REPLICATION, TRANSFERASE; HET: EDO, PEG; 2.5A {Plasmodium falciparum (isolate 3D7)},,,7SXQ_A,95.1923,100.0 SIF-Syn: DNA Polymerase found upstream from DNA primase/helicase as in Eula /note=Current Gene Number: 43 /note=Did the start site stay the same or change: Same /note=Do the Glimmer and Genemark start sites agree? Y /note=Does Starterator agree? Y /note=Is the ORF chosen the longest ORF: N /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on BLAST and with which phage? Eula /note=Z score = 3.009 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. They were the same /note= /note=Synteny: /note=PhagesDB BLAST- For any potential functional match, the E value should be 10^-7 or less: Y /note=BLAST NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: Y /note=Conserved Domain: N/A CDS 31459 - 31659 /gene="44" /product="gp44" /function="hypothetical protein" /locus tag="Jabb_44" /note=Original Glimmer call @bp 31459 has strength 8.37; Genemark calls start at 31459 /note=SSC: 31459-31659 CP: yes SCS: both ST: NI BLAST-Start: [hypothetical protein QDW40_gp44 [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 9.75081E-41 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.752, -5.080915947802713, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW40_gp44 [Microbacterium phage Eula] ],,YP_010753609,100.0,9.75081E-41 SIF-HHPRED: DUF7837 ; Domain of unknown function (DUF7837),,,PF25207.1,69.697,96.9 SIF-Syn: hypothetical protein /note=Current Gene Number: 44 /note=Did the start site stay the same or change: It stayed the same /note=Do the Glimmer and Genemark start sites agree? Yes /note=Does Starterator agree? Yes /note=Is the ORF chosen the longest ORF: Yes /note=Is all of the coding potential captured on GeneMark file: Yes /note=Is there a 1:1 alignment on BLAST and with which phage? Yes, with Eula /note=Z score = 1.752 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. The start site was kept because it has a 1:1 alignment. /note= /note=Synteny: Yes /note=PhagesDB BLAST- For any potential functional match, the E value should be 10^-7 or less: Y /note=BLAST NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: Y /note=Conserved Domain: NA CDS 31656 - 31958 /gene="45" /product="gp45" /function="hypothetical protein" /locus tag="Jabb_45" /note=Original Glimmer call @bp 31656 has strength 11.63; Genemark calls start at 31656 /note=SSC: 31656-31958 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein QDW40_gp45 [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 3.99573E-66 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.009, -2.583959800616441, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW40_gp45 [Microbacterium phage Eula] ],,YP_010753610,100.0,3.99573E-66 SIF-HHPRED: DUF7169 ; Domain of unknown function (DUF7169),,,PF23773.1,93.0,100.0 SIF-Syn: Hypothetical protein /note=Current Gene Number: 45 /note=Did the start site stay the same or change: Same /note=Do the Glimmer and Genemark start sites agree? Y /note=Does Starterator agree? Y /note=Is the ORF chosen the longest ORF: N /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on BLAST and with which phage? Eula /note=Z score = 3.009 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. They stayed the same /note= /note=Synteny: /note=PhagesDB BLAST- For any potential functional match, the E value should be 10^-7 or less: Y /note=BLAST NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: Y /note=Conserved Domain: N/A CDS 31958 - 32680 /gene="46" /product="gp46" /function="DNA binding protein" /locus tag="Jabb_46" /note=Original Glimmer call @bp 31958 has strength 7.83; Genemark calls start at 31958 /note=SSC: 31958-32680 CP: no SCS: both ST: NI BLAST-Start: [DNA binding protein [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 2.8504E-170 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.811, -3.210349810739243, yes F: DNA binding protein SIF-BLAST: ,,[DNA binding protein [Microbacterium phage Eula] ],,YP_010753611,99.5833,2.8504E-170 SIF-HHPRED: RNA polymerase sigma factor; RNA polymerase, transcription, Staphylococcus aureus, sigB;{Staphylococcus aureus},,,8X6G_H,96.25,99.9 SIF-Syn: /note=Current Gene Number: 46 /note=Did the start site stay the same or change: Same /note=Do the Glimmer and Genemark start sites agree? Y /note=Does Starterator agree? Y /note=Is the ORF chosen the longest ORF: N /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on BLAST and with which phage? Eula /note=Z score = 2.811 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. Stayed the same /note= /note=Synteny: /note=PhagesDB BLAST- For any potential functional match, the E value should be 10^-7 or less: Y /note=BLAST NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: Y /note=Conserved Domain: N/A CDS complement (32670 - 32900) /gene="47" /product="gp47" /function="hypothetical protein" /locus tag="Jabb_47" /note=Original Glimmer call @bp 32900 has strength 13.71; Genemark calls start at 32900 /note=SSC: 32900-32670 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein QDW40_gp47 [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 5.9429E-47 GAP: 110 bp gap LO: no RBS: Kibler 6, Karlin Medium, 0.637, -8.072528763081499, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW40_gp47 [Microbacterium phage Eula] ],,YP_010753612,100.0,5.9429E-47 SIF-HHPRED: SIF-Syn: Hypothetical protein /note=Current Gene Number: 47 /note=Did the start site stay the same or change: Same /note=Do the Glimmer and Genemark start sites agree? Y /note=Does Starterator agree? Y /note=Is the ORF chosen the longest ORF: N /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on BLAST and with which phage? Eula /note=Z score = 0.637 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. They were the same /note= /note=Synteny: /note=PhagesDB BLAST- For any potential functional match, the E value should be 10^-7 or less: Y /note=BLAST NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: Y /note=Conserved Domain: N/A CDS 33011 - 33169 /gene="48" /product="gp48" /function="hypothetical protein" /locus tag="Jabb_48" /note=Original Glimmer call @bp 33011 has strength 6.66; Genemark calls start at 33011 /note=SSC: 33011-33169 CP: yes SCS: both ST: NI BLAST-Start: [hypothetical protein QDW24_gp48 [Microbacterium phage Arroyo] ],,NCBI, q1:s1 100.0% 1.31639E-29 GAP: 110 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.777, -5.679831809821832, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW24_gp48 [Microbacterium phage Arroyo] ],,YP_010752779,100.0,1.31639E-29 SIF-HHPRED: DUF7560 ; Family of unknown function (DUF7560),,,PF24441.1,73.0769,95.9 SIF-Syn: Hypothetical Protein /note=Current Gene Number: 48 /note=Did the start site stay the same or change: It stayed the same /note=Do the Glimmer and Genemark start sites agree? Yes /note=Does Starterator agree? Yes /note=Is the ORF chosen the longest ORF: No /note=Is all of the coding potential captured on GeneMark file: Yes /note=Is there a 1:1 alignment on BLAST and with which phage? Yes, with Jovita /note=Z score = 1.777 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. The start site was kept because it has a 1:1 alignment. /note= /note=Synteny: Yes /note=PhagesDB BLAST- For any potential functional match, the E value should be 10^-7 or less: Y /note=BLAST NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: Y /note=Conserved Domain: NA CDS 33169 - 33570 /gene="49" /product="gp49" /function="ParB-like nuclease domain" /locus tag="Jabb_49" /note=Original Glimmer call @bp 33169 has strength 16.84; Genemark calls start at 33169 /note=SSC: 33169-33570 CP: yes SCS: both ST: NI BLAST-Start: [ParB-like nuclease domain protein [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 6.79525E-92 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.759, -3.0478325568523097, no F: ParB-like nuclease domain SIF-BLAST: ,,[ParB-like nuclease domain protein [Microbacterium phage Eula] ],,YP_010753614,100.0,6.79525E-92 SIF-HHPRED: Sulfiredoxin, chloroplastic/mitochondrial; sulfiredoxin, cysteine, sulfinic acid, peroxiredoxin repair protein, arabidopsis thaliana, antioxidant, oxidoreductase; HET: PO4, ADP; 3.2A {Arabidopsis thaliana},,,6KY4_A,78.1955,99.0 SIF-Syn: ParB-like nuclease domain found downstream from the DNA binding protein as in CupcakePrincess /note=Current Gene Number: 49 /note=Did the start site stay the same or change: Stayed the same /note=Do the Glimmer and Genemark start sites agree? Y /note=What about Starterator? Y /note=Is the ORF chosen the longest ORF: N /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on blast and with which phage? Y-Albedo /note=Z score = 2.759 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. Nothing Disagreed /note= /note=FUNCTION /note=Synteny: /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Y /note=Blast NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: Y /note=Conserved Domain: Y CDS 33558 - 34001 /gene="50" /product="gp50" /function="hypothetical protein" /locus tag="Jabb_50" /note=Original Glimmer call @bp 33558 has strength 10.42; Genemark calls start at 33567 /note=SSC: 33558-34001 CP: yes SCS: both-gl ST: NI BLAST-Start: [hypothetical protein QDW40_gp50 [Microbacterium phage Eula] ],,NCBI, q4:s1 97.9592% 3.96078E-100 GAP: -13 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.692, -3.635743271219807, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW40_gp50 [Microbacterium phage Eula] ],,YP_010753615,99.3056,3.96078E-100 SIF-HHPRED: SIF-Syn: Hypothetical Protein /note=Current Gene Number: 50 /note=Did the start site stay the same or change: Stayed the same /note=Do the Glimmer and Genemark start sites agree? N /note=What about Starterator? W/ Glimmer, not Genemark /note=Is the ORF chosen the longest ORF: Y /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on blast and with which phage? Y-MsUbiquitous /note=Z score = 2.692 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. Majority of start sites agreed. /note= /note=FUNCTION /note=Synteny: /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Y /note=Blast NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: N /note=Conserved Domain: N CDS 34006 - 34329 /gene="51" /product="gp51" /function="hypothetical protein" /locus tag="Jabb_51" /note=Original Glimmer call @bp 34006 has strength 14.83; Genemark calls start at 34006 /note=SSC: 34006-34329 CP: yes SCS: both ST: NI BLAST-Start: [hypothetical protein QDW40_gp51 [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 8.22206E-70 GAP: 4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.605, -5.916882820574897, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW40_gp51 [Microbacterium phage Eula] ],,YP_010753616,100.0,8.22206E-70 SIF-HHPRED: SIF-Syn: Hypothetical Protein /note=Current Gene Number: 51 /note=Did the start site stay the same or change: Stayed the same /note=Do the Glimmer and Genemark start sites agree? Y /note=What about Starterator? Y /note=Is the ORF chosen the longest ORF: N /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on blast and with which phage? Y-Eula /note=Z score = 1.605 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. Nothing Disagreed /note= /note=FUNCTION /note=Synteny: /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Y /note=Blast NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: N /note=Conserved Domain:N CDS 34334 - 34792 /gene="52" /product="gp52" /function="HNH endonuclease" /locus tag="Jabb_52" /note=Original Glimmer call @bp 34334 has strength 3.01; Genemark calls start at 34394 /note=SSC: 34334-34792 CP: yes SCS: both-gl ST: NI BLAST-Start: [HNH endonuclease [Microbacterium phage SarBear]],,NCBI, q1:s1 100.0% 5.8828E-98 GAP: 4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.009, -3.095100142625534, yes F: HNH endonuclease SIF-BLAST: ,,[HNH endonuclease [Microbacterium phage SarBear]],,XAO35720,94.7368,5.8828E-98 SIF-HHPRED: RE_Alw26IDE ; Type II restriction endonuclease (RE_Alw26IDE),,,PF09665.15,33.5526,98.4 SIF-Syn: HNH endonuclease found downstream from the ParB-like nuclease domain as in CupcakePrincess /note=Current Gene Number: 52 /note=Did the start site stay the same or change: Stayed the same /note=Do the Glimmer and Genemark start sites agree? N /note=What about Starterator? W/ Glimmer, Not Genemark /note=Is the ORF chosen the longest ORF: N /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on blast and with which phage? Y-MsUbiquitous /note=Z score = 3.009 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. Majority Agreed /note= /note=FUNCTION /note=Synteny: /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Y /note=Blast NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: Y /note=Conserved Domain:Y CDS 34852 - 35268 /gene="53" /product="gp53" /function="hypothetical protein" /locus tag="Jabb_53" /note=Original Glimmer call @bp 34852 has strength 12.2; Genemark calls start at 34951 /note=SSC: 34852-35268 CP: yes SCS: both-gl ST: NI BLAST-Start: [hypothetical protein SLAY_53 [Microbacterium phage Slay]],,NCBI, q1:s1 100.0% 8.07759E-94 GAP: 59 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.238, -7.210617002990049, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SLAY_53 [Microbacterium phage Slay]],,WMI34139,98.5507,8.07759E-94 SIF-HHPRED: DUF7250 ; Domain of unknown function (DUF7250),,,PF23908.1,75.3623,100.0 SIF-Syn: Hypothetical Protein /note=Current Gene Number: 53 /note=Did the start site stay the same or change: Stayed the same /note=Do the Glimmer and Genemark start sites agree? N /note=What about Starterator? W/ Glimmer, Not Genemark /note=Is the ORF chosen the longest ORF: N /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on blast and with which phage? Y-MsUbiquitous /note=Z score = 1.238 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. Majority Agreed /note= /note=FUNCTION /note=Synteny: /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Y /note=Blast NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: Y /note=Conserved Domain: N CDS 35265 - 35423 /gene="54" /product="gp54" /function="hypothetical protein" /locus tag="Jabb_54" /note=Original Glimmer call @bp 35265 has strength 12.31; Genemark calls start at 35265 /note=SSC: 35265-35423 CP: yes SCS: both ST: NI BLAST-Start: [hypothetical protein QDW40_gp54 [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 1.3151E-27 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.943, -4.759312672633257, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW40_gp54 [Microbacterium phage Eula] ],,YP_010753619,100.0,1.3151E-27 SIF-HHPRED: SIF-Syn: Hhypothetical Protein /note=Current Gene Number: 54 /note=Did the start site stay the same or change: Stayed the same /note=Do the Glimmer and Genemark start sites agree? Y /note=What about Starterator? Y /note=Is the ORF chosen the longest ORF: Y /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on blast and with which phage? Y-Eula /note=Z score = 1.943 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. Nothing disagreed /note= /note=FUNCTION /note=Synteny: /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Y /note=Blast NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: N /note=Conserved Domain: N CDS 35476 - 35973 /gene="55" /product="gp55" /function="hypothetical protein" /locus tag="Jabb_55" /note=Original Glimmer call @bp 35476 has strength 17.3; Genemark calls start at 35476 /note=SSC: 35476-35973 CP: yes SCS: both ST: NI BLAST-Start: [hypothetical protein QDW40_gp55 [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 2.66056E-114 GAP: 52 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.727, -5.274463563926485, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW40_gp55 [Microbacterium phage Eula] ],,YP_010753620,99.3939,2.66056E-114 SIF-HHPRED: SIF-Syn: Hypothetical Protein /note=Current Gene Number: 55 /note=Did the start site stay the same or change: Stayed the same /note=Do the Glimmer and Genemark start sites agree? Y /note=What about Starterator? Y /note=Is the ORF chosen the longest ORF: Y /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on blast and with which phage? Y-MsUbiquitous /note=Z score = 1.727 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. Nothing Disagreed /note= /note=FUNCTION /note=Synteny: /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Y /note=Blast NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: N /note=Conserved Domain: N CDS 36037 - 36345 /gene="56" /product="gp56" /function="hypothetical protein" /locus tag="Jabb_56" /note=Original Glimmer call @bp 36037 has strength 7.37; Genemark calls start at 36037 /note=SSC: 36037-36345 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein QDW40_gp56 [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 5.24521E-68 GAP: 63 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.812, -4.954064444624791, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW40_gp56 [Microbacterium phage Eula] ],,YP_010753621,100.0,5.24521E-68 SIF-HHPRED: SIF-Syn: Hypothetical Protein /note=Current Gene Number: 56 /note=Did the start site stay the same or change: Stayed the same /note=Do the Glimmer and Genemark start sites agree? Y /note=What about Starterator? Y /note=Is the ORF chosen the longest ORF: Y /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on blast and with which phage? Y-Eula /note=Z score = 1.812 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. There were no other options /note= /note=FUNCTION /note=Synteny: /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Y /note=Blast NCBI function match with E value should be 10^-7 or less: Y /note=HHPRED Match with > 90% probability: N /note=Conserved Domain: N CDS 36335 - 36898 /gene="57" /product="gp57" /function="dihydrofolate reductase" /locus tag="Jabb_57" /note=Original Glimmer call @bp 36335 has strength 13.39; Genemark calls start at 36335 /note=SSC: 36335-36898 CP: yes SCS: both ST: SS BLAST-Start: [dihydrofolate reductase [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 1.3709E-132 GAP: -11 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.112, -4.325675514574479, no F: dihydrofolate reductase SIF-BLAST: ,,[dihydrofolate reductase [Microbacterium phage Eula] ],,YP_010753622,99.4652,1.3709E-132 SIF-HHPRED: Dihydrofolate reductase; DHFR, OXIDOREDUCTASE; HET: SO4, EDO; 1.65A {Bacillus anthracis},,,8SSX_A,97.3262,99.9 SIF-Syn: Dihydrofolate Reductase found upstream from Thymidylate Synthase as in Eula /note=Current Gene Number: 57 /note=Did the start site stay the same or change: Stay the same /note=Do the Glimmer and Genemark start sites agree? Y /note=What about Starterator? Y /note=Is the ORF chosen the longest ORF: Y /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on blast and with which phage? Y-Eula /note=Z score = 2.112 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. All agreed /note= /note=FUNCTION /note=Synteny: /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: /note=Blast NCBI function match with E value should be 10^-7 or less: /note=HHPRED Match with > 90% probability: /note=Conserved Domain: CDS 36895 - 37419 /gene="58" /product="gp58" /function="hypothetical protein" /locus tag="Jabb_58" /note=Original Glimmer call @bp 36895 has strength 15.39; Genemark calls start at 36895 /note=SSC: 36895-37419 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein QDW40_gp58 [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 8.36074E-125 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.009, -2.442961286954254, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW40_gp58 [Microbacterium phage Eula] ],,YP_010753623,100.0,8.36074E-125 SIF-HHPRED: SIF-Syn: hypothetical protein /note=Current Gene Number: 58 /note=Did the start site stay the same or change: Stayed the Same /note=Do the Glimmer and Genemark start sites agree? Y /note=What about Starterator? Y /note=Is the ORF chosen the longest ORF: Y /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on blast and with which phage? CupcakePrincess /note=Z score = 3.009 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. All agreed /note= /note=FUNCTION /note=Synteny: /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: /note=Blast NCBI function match with E value should be 10^-7 or less: /note=HHPRED Match with > 90% probability: /note=Conserved Domain: CDS 37419 - 38333 /gene="59" /product="gp59" /function="thymidylate synthase" /locus tag="Jabb_59" /note=Original Glimmer call @bp 37419 has strength 11.49; Genemark calls start at 37419 /note=SSC: 37419-38333 CP: yes SCS: both ST: SS BLAST-Start: [thymidylate synthase [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 0.0 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.791, -5.06189390351663, no F: thymidylate synthase SIF-BLAST: ,,[thymidylate synthase [Microbacterium phage Eula] ],,YP_010753624,99.6711,0.0 SIF-HHPRED: Thymidylate synthase; Methyl transferase, Nucleotide biosynthesis, Transferase; HET: UMP, CB3; 2.08A {Filobasidiella neoformans} SCOP: d.117.1.1,,,2AAZ_E,99.0132,100.0 SIF-Syn: thymidylate synthase found downstream from the dihydrofolate as in CupcakePrincess /note=Current Gene Number: 59 /note=Did the start site stay the same or change: Stay the same /note=Do the Glimmer and Genemark start sites agree? Y /note=What about Starterator? Y /note=Is the ORF chosen the longest ORF: N /note=Is all of the coding potential captured on GeneMark file: Y /note=Is there a 1:1 alignment on blast and with which phage? CupcakePrincess /note=Z score = 1.791 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. All agreed /note= /note=FUNCTION /note=Synteny: /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: /note=Blast NCBI function match with E value should be 10^-7 or less: /note=HHPRED Match with > 90% probability: /note=Conserved Domain: CDS 38349 - 38675 /gene="60" /product="gp60" /function="hypothetical protein" /locus tag="Jabb_60" /note=Original Glimmer call @bp 38349 has strength 14.27; Genemark calls start at 38349 /note=SSC: 38349-38675 CP: no SCS: both ST: SS BLAST-Start: [hypothetical protein QDW40_gp60 [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 1.771E-72 GAP: 15 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.009, -2.442961286954254, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW40_gp60 [Microbacterium phage Eula] ],,YP_010753625,99.0741,1.771E-72 SIF-HHPRED: SIF-Syn: hypothetical protein /note=Current Gene Number: 60 /note=Did the start site stay the same or change: It stayed the same /note=Do the Glimmer and Genemark start sites agree? Yes /note=What about Starterator? Yes /note=Is the ORF chosen the longest ORF: Yes /note=Is all of the coding potential captured on GeneMark file: Yes /note=Is there a 1:1 alignment on blast and with which phage? Yes - Sea Eula /note=Z score = 3.009 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. The start site was kept because it has a 1:1 alignment, longer ORF, and agrees with starterator. /note= /note=FUNCTION /note=Synteny: yes /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Yes /note=Blast NCBI function match with E value should be 10^-7 or less: Yes /note=HHPRED Match with > 90% probability: No /note=Conserved Domain: N/A CDS 38675 - 38869 /gene="61" /product="gp61" /function="hypothetical protein" /locus tag="Jabb_61" /note=Original Glimmer call @bp 38675 has strength 8.31; Genemark calls start at 38675 /note=SSC: 38675-38869 CP: no SCS: both ST: SS BLAST-Start: [hypothetical protein QDW38_gp62 [Microbacterium phage Lynlen] ],,NCBI, q1:s1 100.0% 2.40596E-30 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.145, -4.3978601770686225, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW38_gp62 [Microbacterium phage Lynlen] ],,YP_010753488,100.0,2.40596E-30 SIF-HHPRED: SIF-Syn: hypothetical protein /note=Current Gene Number: 61 /note=Did the start site stay the same or change: Yes /note=Do the Glimmer and Genemark start sites agree? Yes /note=What about Starterator? Yes /note=Is the ORF chosen the longest ORF: Yes /note=Is all of the coding potential captured on GeneMark file: Yes /note=Is there a 1:1 alignment on blast and with which phage? Yes - Lynlen /note=Z score = 2.145 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. The start site was kept because it has a 1:1 alignment, longer ORF, and agrees with starterator. /note= /note=FUNCTION /note=Synteny: yes /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Yes /note=Blast NCBI function match with E value should be 10^-7 or less: Yes /note=HHPRED Match with > 90% probability: No /note=Conserved Domain: N/A CDS 39013 - 39150 /gene="62" /product="gp62" /function="hypothetical protein" /locus tag="Jabb_62" /note=Original Glimmer call @bp 39013 has strength 14.91; Genemark calls start at 38947 /note=SSC: 39013-39150 CP: no SCS: both-gl ST: SS BLAST-Start: [hypothetical protein QDW42_gp63 [Microbacterium phage Swervy] ],,NCBI, q1:s1 100.0% 1.01324E-22 GAP: 143 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.009, -2.442961286954254, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW42_gp63 [Microbacterium phage Swervy] ],,YP_010753767,100.0,1.01324E-22 SIF-HHPRED: SIF-Syn: hypothetical protein /note=Current Gene Number: 62 /note=Did the start site stay the same or change: Change (39013) /note=Do the Glimmer and Genemark start sites agree? No /note=What about Starterator? Yes /note=Is the ORF chosen the longest ORF: Yes /note=Is all of the coding potential captured on GeneMark file: Yes /note=Is there a 1:1 alignment on blast and with which phage? Yes - Swervy /note=Z score = 3.0009 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. Starterator agrees with glimmer not genemark. /note= /note=FUNCTION /note=Synteny: yes /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Yes /note=Blast NCBI function match with E value should be 10^-7 or less: Yes /note=HHPRED Match with > 90% probability: No /note=Conserved Domain: N/A CDS 39147 - 39539 /gene="63" /product="gp63" /function="hypothetical protein" /locus tag="Jabb_63" /note=Original Glimmer call @bp 39147 has strength 17.82; Genemark calls start at 39147 /note=SSC: 39147-39539 CP: no SCS: both ST: SS BLAST-Start: [hypothetical protein QDW40_gp63 [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 3.81716E-88 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.009, -2.583959800616441, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW40_gp63 [Microbacterium phage Eula] ],,YP_010753628,99.2308,3.81716E-88 SIF-HHPRED: SIF-Syn: hypothetical protein /note=Current Gene Number: 63 /note=Did the start site stay the same or change: Yes /note=Do the Glimmer and Genemark start sites agree? Yes /note=What about Starterator? Yes /note=Is the ORF chosen the longest ORF: Yes /note=Is all of the coding potential captured on GeneMark file: Yes /note=Is there a 1:1 alignment on blast and with which phage? Yes - Eula /note=Z score = 3.009 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. The start site was kept because it has a 1:1 alignment, longer ORF, and agrees with starterator. /note=FUNCTION /note=Synteny: yes /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Yes /note=Blast NCBI function match with E value should be 10^-7 or less: Yes /note=HHPRED Match with > 90% probability: No /note=Conserved Domain: N/A CDS 39532 - 39792 /gene="64" /product="gp64" /function="hypothetical protein" /locus tag="Jabb_64" /note=Original Glimmer call @bp 39532 has strength 9.76; Genemark calls start at 39532 /note=SSC: 39532-39792 CP: no SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_SHARKBOY_57 [Microbacterium phage Sharkboy]],,NCBI, q3:s7 95.3488% 3.55634E-17 GAP: -8 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.649, -5.377477764364887, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_SHARKBOY_57 [Microbacterium phage Sharkboy]],,QDP45293,65.5172,3.55634E-17 SIF-HHPRED: SIF-Syn: hypothetical protein /note=Current Gene Number: 64 /note=Did the start site stay the same or change: Yes /note=Do the Glimmer and Genemark start sites agree? Yes /note=What about Starterator? Yes /note=Is the ORF chosen the longest ORF: Yes /note=Is all of the coding potential captured on GeneMark file: Yes /note=Is there a 1:1 alignment on blast and with which phage? No /note=Z score = 1.649 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. The start site was kept because it has a 1:1 alignment, longer ORF, and agrees with starterator. /note= /note=FUNCTION /note=Synteny: yes /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Yes /note=Blast NCBI function match with E value should be 10^-7 or less: No /note=HHPRED Match with > 90% probability: No /note=Conserved Domain: N/A CDS 39785 - 39967 /gene="65" /product="gp65" /function="hypothetical protein" /locus tag="Jabb_65" /note=Original Glimmer call @bp 39785 has strength 12.43; Genemark calls start at 39785 /note=SSC: 39785-39967 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein QDW40_gp64 [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 1.29783E-33 GAP: -8 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.248, -4.1806440387355694, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW40_gp64 [Microbacterium phage Eula] ],,YP_010753629,98.3333,1.29783E-33 SIF-HHPRED: SIF-Syn: hypothetical protein /note=Current Gene Number: 65 /note=Did the start site stay the same or change: Yes /note=Do the Glimmer and Genemark start sites agree? Yes /note=What about Starterator? Yes /note=Is the ORF chosen the longest ORF: Yes /note=Is all of the coding potential captured on GeneMark file: Yes /note=Is there a 1:1 alignment on blast and with which phage? Yes - Eula /note=Z score = 2.248 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. The start site was kept because it has a 1:1 alignment, longer ORF, and agrees with starterator. /note= /note=FUNCTION /note=Synteny: yes /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Yes /note=Blast NCBI function match with E value should be 10^-7 or less: Yes /note=HHPRED Match with > 90% probability: No /note=Conserved Domain: N/A CDS 39981 - 40211 /gene="66" /product="gp66" /function="hypothetical protein" /locus tag="Jabb_66" /note=Original Glimmer call @bp 39981 has strength 17.78; Genemark calls start at 39981 /note=SSC: 39981-40211 CP: no SCS: both ST: SS BLAST-Start: [hypothetical protein QDW40_gp65 [Microbacterium phage Eula] ],,NCBI, q1:s1 100.0% 2.67738E-43 GAP: 13 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.253, -2.2821867859826788, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW40_gp65 [Microbacterium phage Eula] ],,YP_010753630,100.0,2.67738E-43 SIF-HHPRED: SIF-Syn: Hypothetical protein /note=Current Gene Number: 66 /note=Did the start site stay the same or change: Yes /note=Do the Glimmer and Genemark start sites agree? Yes /note=What about Starterator? Yes /note=Is the ORF chosen the longest ORF: Yes /note=Is all of the coding potential captured on GeneMark file: Yes /note=Is there a 1:1 alignment on blast and with which phage? Yes - Eula /note=Z score = 3.253 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. The start site was kept because it has a 1:1 alignment, longer ORF, and agrees with starterator. /note= /note=FUNCTION /note=Synteny: yes /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Yes /note=Blast NCBI function match with E value should be 10^-7 or less: Yes /note=HHPRED Match with > 90% probability: No /note=Conserved Domain: N/A CDS 40211 - 40531 /gene="67" /product="gp67" /function="hypothetical protein" /locus tag="Jabb_67" /note=Original Glimmer call @bp 40211 has strength 11.06; Genemark calls start at 40211 /note=SSC: 40211-40531 CP: no SCS: both ST: SS BLAST-Start: [hypothetical protein QDW42_gp67 [Microbacterium phage Swervy] ],,NCBI, q1:s1 100.0% 1.35997E-67 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.374, -6.526515810972826, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW42_gp67 [Microbacterium phage Swervy] ],,YP_010753771,99.0566,1.35997E-67 SIF-HHPRED: SIF-Syn: hypothetical protein /note=Current Gene Number: 67 /note=Did the start site stay the same or change: Yes /note=Do the Glimmer and Genemark start sites agree? Yes /note=What about Starterator? Yes /note=Is the ORF chosen the longest ORF: Yes /note=Is all of the coding potential captured on GeneMark file: Yes /note=Is there a 1:1 alignment on blast and with which phage? Yes - Swervy /note=Z score = 1.374 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. The start site was kept because it has a 1:1 alignment, longer ORF, and agrees with starterator. /note= /note=FUNCTION /note=Synteny: yes /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Yes /note=Blast NCBI function match with E value should be 10^-7 or less: Yes /note=HHPRED Match with > 90% probability: No /note=Conserved Domain: N/A CDS 40528 - 40878 /gene="68" /product="gp68" /function="hypothetical protein" /locus tag="Jabb_68" /note=Original Glimmer call @bp 40528 has strength 14.41; Genemark calls start at 40528 /note=SSC: 40528-40878 CP: no SCS: both ST: SS BLAST-Start: [hypothetical protein QDW38_gp68 [Microbacterium phage Lynlen] ],,NCBI, q1:s1 100.0% 1.13049E-75 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.009, -2.523003374675015, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW38_gp68 [Microbacterium phage Lynlen] ],,YP_010753494,100.0,1.13049E-75 SIF-HHPRED: DUF7252 ; Domain of unknown function (DUF7252),,,PF23910.1,99.1379,100.0 SIF-Syn: hypothetical protein /note=Current Gene Number: 68 /note=Did the start site stay the same or change: Yes /note=Do the Glimmer and Genemark start sites agree? Yes /note=What about Starterator? Yes /note=Is the ORF chosen the longest ORF: Yes /note=Is all of the coding potential captured on GeneMark file: Yes /note=Is there a 1:1 alignment on blast and with which phage? Yes - Lynlen /note=Z score = 3.009 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. The start site was kept because it has a 1:1 alignment, longer ORF, and agrees with starterator. /note= /note=FUNCTION /note=Synteny: yes /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Yes /note=Blast NCBI function match with E value should be 10^-7 or less: Yes /note=HHPRED Match with > 90% probability: Yes /note=Conserved Domain: N/A tRNA 41026 - 41099 /gene="69" /product="tRNA-Asn(gtt)" /locus tag="JABB_69" /note=tRNA-Asn(gtt) tRNA 41175 - 41247 /gene="70" /product="tRNA-Lys(ctt)" /locus tag="JABB_70" /note=tRNA-Lys(ctt) CDS 41251 - 41526 /gene="71" /product="gp71" /function="HNH endonuclease" /locus tag="Jabb_71" /note=Original Glimmer call @bp 41251 has strength 4.57; Genemark calls start at 41251 /note=SSC: 41251-41526 CP: no SCS: both ST: SS BLAST-Start: [HNH endonuclease [Microbacterium phage Softsoap]],,NCBI, q1:s1 100.0% 4.85156E-61 GAP: 372 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.256, -4.086372157395013, yes F: HNH endonuclease SIF-BLAST: ,,[HNH endonuclease [Microbacterium phage Softsoap]],,XUU32266,100.0,4.85156E-61 SIF-HHPRED: CRISPR-associated endonuclease Cas9; Inhibitor, Complex, VIRAL PROTEIN; HET: NI; 2.097A {Staphylococcus aureus},,,7ENH_A,72.5275,98.3 SIF-Syn: HNH endonuclease is found upstream from the thymidylate synthase is Cupcake Princess. /note=Current Gene Number: 69 /note=Did the start site stay the same or change: Yes /note=Do the Glimmer and Genemark start sites agree? Yes /note=What about Starterator? Yes /note=Is the ORF chosen the longest ORF: Yes /note=Is all of the coding potential captured on GeneMark file: Yes /note=Is there a 1:1 alignment on blast and with which phage? Yes - Arroyo /note=Z score = 2.256 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. The start site was kept because it has a 1:1 alignment, longer ORF, and agrees with starterator. /note= /note=FUNCTION /note=Synteny: yes /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Yes /note=Blast NCBI function match with E value should be 10^-7 or less: Yes /note=HHPRED Match with > 90% probability: Yes /note=Conserved Domain: N/A CDS 41526 - 41654 /gene="72" /product="gp72" /function="hypothetical protein" /locus tag="Jabb_72" /note=Original Glimmer call @bp 41526 has strength 4.2; Genemark calls start at 41526 /note=SSC: 41526-41654 CP: no SCS: both ST: SS BLAST-Start: [hypothetical protein QDW47_gp67 [Microbacterium phage AnnaLie] ],,NCBI, q1:s1 100.0% 3.58028E-19 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.855, -2.8454123590742793, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein QDW47_gp67 [Microbacterium phage AnnaLie] ],,YP_010754117,97.619,3.58028E-19 SIF-HHPRED: YtxH ; YtxH-like protein,,,PF12732.12,66.6667,90.5 SIF-Syn: hypothetical protein /note=Current Gene Number: 70 /note=Did the start site stay the same or change: Yes /note=Do the Glimmer and Genemark start sites agree? Yes /note=What about Starterator? Yes /note=Is the ORF chosen the longest ORF: Yes /note=Is all of the coding potential captured on GeneMark file: Yes /note=Is there a 1:1 alignment on blast and with which phage? Yes - AnnaLie /note=Z score = 2.845 /note=Detailed reasoning / evidence of why you either changed or kept the auto-annotated start site. The start site was kept because it has a 1:1 alignment, longer ORF, and agrees with starterator. /note= /note=FUNCTION /note=Synteny: yes /note=Phagesdb blast- For any potential functional match, the E value should be 10^-7 or less: Yes /note=Blast NCBI function match with E value should be 10^-7 or less: Yes /note=HHPRED Match with > 90% probability: Yes /note=Conserved Domain: N/A