CDS 1 - 525
  /gene="1"
  /product="gp1"
  /function="hypothetical protein"
  /locus tag="Janus167_1"
    /note=Original Glimmer call @bp 1 has strength 15.43; Genemark calls start at 1
    /note=SSC: 1-525 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein FDJ36_gp01 [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 4.58426E-121 GAP: 0 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.772, -5.135095111895543, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein FDJ36_gp01 [Microbacterium phage Ilzat] ],,YP_009623165,100.0,4.58426E-121 SIF-HHPRED: 38-mer peptide; De Novo design, Covalent constrained peptide, DE NOVO PROTEIN; NMR {N/A},,,5WOD_A,14.9425,24.1 SIF-Syn: none
    /note=Start: 1
    /note=Gl/Gm Favored: Both
    /note=Gap: 184
    /note=All CP: Yes
    /note=Most Annotated Start: Yes
    /note=Most Conserved Start: Yes
    /note=SD Z: 1.8 Final: -5.1 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: No functional hits with eval below e-7
    /note=SIF-HHPRED: No functional hits above 90% Probability, Top Hit: 24% Probability

CDS 522 - 1922
  /gene="2"
  /product="gp2"
  /function="terminase"
  /locus tag="Janus167_2"
    /note=Original Glimmer call @bp 522 has strength 10.49; Genemark calls start at 522
    /note=SSC: 522-1922 CP: yes SCS: both ST: SS BLAST-Start: [terminase large subunit [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 0.0 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.92, -4.757883910852364, no F: terminase SIF-BLAST: ,,[terminase large subunit [Microbacterium phage Ilzat] ],,YP_009623166,100.0,0.0 SIF-HHPRED: Terminase, large subunit; phage defense, pattern-recognition receptor, nlr, stand, atpase, ANTIVIRAL PROTEIN; HET: ATP;{Salmonella enterica},,,8DGC_F,97.4249,100.0 SIF-Syn: Yes, Upstream of portal protein
    /note=Start: 522
    /note=Gl/Gm favored: Both
    /note=Gap: -4
    /note=Cp: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD: Z = 1.9 Final = -4.8 Best = Yes 
    /note=Q1s1: Yes
    /note=SIF-BLASTp: Terminase large subunit, Ilzat, e-val: 0, 100% Alignment
    /note=SIF-HHPRED: Terminase large subunit, Salmonella enterica, 8DGC_F, Coverage: 97.4%, probability: 100%

CDS 1953 - 3350
  /gene="3"
  /product="gp3"
  /function="portal protein"
  /locus tag="Janus167_3"
    /note=Original Glimmer call @bp 1953 has strength 16.6; Genemark calls start at 1953
    /note=SSC: 1953-3350 CP: yes SCS: both ST: SS BLAST-Start: [portal protein [Microbacterium phage Klimt] ],,NCBI, q1:s1 100.0% 0.0 GAP: 30 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.898, -2.5823297389851954, no F: portal protein SIF-BLAST: ,,[portal protein [Microbacterium phage Klimt] ],,QGH75051,100.0,0.0 SIF-HHPRED: Portal protein; Bacteriophage, SPP1, Portal Protein, Head completion proteins, Connector Complex, DNA Channel, VIRAL PROTEIN; 2.7A {Bacillus subtilis},,,7Z4W_D,90.1075,99.9 SIF-Syn: Yes, Downstream of terminase, upstream of MuF-like minor capsid protein
    /note=Start: 1953
    /note=Gl/Gm favored: Yes
    /note=Gap: 30
    /note=Cp: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD: Z = 2.9 Final = -2.6 Best = Yes
    /note=Q1s1: Yes
    /note=SIF-BLASTp: Portal protein, Klimt, e-value = 0, 100% Alignment
    /note=SIF-HHPRED: Portal Protein, Bacillus subtilis, 7Z4W_D, Coverage = 90.12%, Probability = 99.9

CDS 3356 - 4024
  /gene="4"
  /product="gp4"
  /function="hypothetical protein"
  /locus tag="Janus167_4"
    /note=Original Glimmer call @bp 3356 has strength 13.55; Genemark calls start at 3356
    /note=SSC: 3356-4024 CP: yes SCS: both ST: SS BLAST-Start: [head morphogenesis [Microbacterium phage Teagan] ],,NCBI, q1:s1 100.0% 1.5413E-162 GAP: 5 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.638, -3.490561115344053, yes F: hypothetical protein SIF-BLAST: ,,[head morphogenesis [Microbacterium phage Teagan] ],,YP_009908706,100.0,1.5413E-162 SIF-HHPRED: Phage_Mu_F ; Phage Mu protein F like protein,,,PF04233.17,43.2432,99.7 SIF-Syn: none
    /note=Start: 3356
    /note=Gl/Gm favored: Yes
    /note=Gap: 5
    /note=Cp: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD: Z = 2.6 Final = -3.5 Best = Yes
    /note=Q1s1: Yes
    /note=SIF-BLAST: MuF-like minor capsid protein (hypothetical protein), Teagan,  e-val: 1.5e-162, Alignment: 100%
    /note=SIF-HHPRED: Phages_Mu_F, PF04233.17, 99.7% Probability, 43.24% Coverage
    /note=Note: SEA-PHAGES function list states we are no longer called MuF-like proteins, calling as NKF

CDS 4108 - 4668
  /gene="5"
  /product="gp5"
  /function="scaffolding protein"
  /locus tag="Janus167_5"
    /note=Original Glimmer call @bp 4108 has strength 17.58; Genemark calls start at 4108
    /note=SSC: 4108-4668 CP: yes SCS: both ST: SS BLAST-Start: [scaffolding protein [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 9.42612E-131 GAP: 83 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.023, -3.222210725506937, yes F: scaffolding protein SIF-BLAST: ,,[scaffolding protein [Microbacterium phage Ilzat] ],,YP_009623169,100.0,9.42612E-131 SIF-HHPRED: PROTEIN GRPE; CHAPERONE, CHAPERONE CYCLE, COMPLEMENTARY ASSAY; 4.094A {GEOBACILLUS KAUSTOPHILUS},,,4ANI_B,78.4946,92.9 SIF-Syn: Yes, upstream of major capsid, 2 downstream of portal
    /note=Start: 4108
    /note=Gl/Gm favored: Both
    /note=Gap: 83
    /note=Cp: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes 
    /note=SD: Z = 3.0 Final = -3.2 Best = Yes
    /note=Q1s1: Yes
    /note=SIF-BLASTp: Scaffolding Protein, Ilzat,  e-val: 9e-131, 100% Alignment,
    /note=SIF-HHPRED: chaperone protein,  Geobacillus, 4ANI_B, 78% coverage, 93% probability

CDS 4708 - 5634
  /gene="6"
  /product="gp6"
  /function="major capsid protein"
  /locus tag="Janus167_6"
    /note=Original Glimmer call @bp 4708 has strength 14.72; Genemark calls start at 4708
    /note=SSC: 4708-5634 CP: yes SCS: both ST: SS BLAST-Start: [major capsid protein [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 0.0 GAP: 39 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.192, -2.305049668942183, yes F: major capsid protein SIF-BLAST: ,,[major capsid protein [Microbacterium phage Ilzat] ],,YP_009623170,100.0,0.0 SIF-HHPRED: major capsid protein; acne, bacteriophage, HK97-like, VIRUS; 3.7A {Propionibacterium phage PA6},,,3JB5_F,94.1558,100.0 SIF-Syn: Yes, Downstream of Scaffolding
    /note=Start: 4708
    /note=Gl/Gm favored: Yes
    /note=Gap: 39
    /note=Cp: Yes
    /note=Most Annotated: No
    /note=Most Conserved: Yes
    /note=SD: Z = 3.2 Final = -2.3 Best = Yes 
    /note=Q1s1: Yes
    /note=SIF-BLAST: Major Capsid Protein, Ilzat, e-val: 0, 100% Alignment
    /note=SIF-HHPRED: Major Capsid Protein, Propionibacterium phage PA6, 3JB5_F, 94.2% Coverage, 100% Probability

CDS 5631 - 5882
  /gene="7"
  /product="gp7"
  /function="hypothetical protein"
  /locus tag="Janus167_7"
    /note=Original Glimmer call @bp 5631 has strength 11.23; Genemark calls start at 5631
    /note=SSC: 5631-5882 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein FDJ36_gp07 [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 1.87517E-47 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.879, -4.9056006736197375, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein FDJ36_gp07 [Microbacterium phage Ilzat] ],,YP_009623171,100.0,1.87517E-47 SIF-HHPRED: V-type proton ATPase subunit G; V-ATPase, rotary ATPase, complex, MEMBRANE PROTEIN; 3.9A {Citrus limon},,,7UWB_J,50.6024,64.8 SIF-Syn: none
    /note=Start: 5631
    /note=Gl/Gm favored: Yes
    /note=Gap: -4
    /note=Cp: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD: Z = 1.9 Final = -4.9 Best = Yes
    /note=Q1s1: Yes
    /note=SIF-BLAST: No functional hits with eval below e-7
    /note=SIF-HHPRED: No functional hits above 90% Probability, Top Hit 65%

CDS 5952 - 6377
  /gene="8"
  /product="gp8"
  /function="hypothetical protein"
  /locus tag="Janus167_8"
    /note=Original Glimmer call @bp 5952 has strength 12.58; Genemark calls start at 5952
    /note=SSC: 5952-6377 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein PBI_TENDA_8 [Microbacterium phage Tenda] ],,NCBI, q1:s1 100.0% 1.0892E-101 GAP: 69 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.097, -2.5074698667202133, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein PBI_TENDA_8 [Microbacterium phage Tenda] ],,AUX83410,100.0,1.0892E-101 SIF-HHPRED: DUF4832 ; Domain of unknown function (DUF4832),,,PF16116.8,39.0071,82.6 SIF-Syn: No
    /note=Start: 5952
    /note=Gl/Gm Favored: Both
    /note=Gap: 69
    /note=Cp: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z = 3.1 Final = -2.5 Best Score: Yes
    /note=Q1:s1: Yes
    /note=SIF-BLAST: No functional hits with eval below e-7
    /note=SIF-HHPRED: No functional hits above 90% Probability, Top hit: 83% Probability

CDS 6404 - 6817
  /gene="9"
  /product="gp9"
  /function="hypothetical protein"
  /locus tag="Janus167_9"
    /note=Original Glimmer call @bp 6404 has strength 8.8; Genemark calls start at 6395
    /note=SSC: 6404-6817 CP: yes SCS: both-gl ST: SS BLAST-Start: [hypothetical protein SEA_BIGREDCLIFFORD_9 [Microbacterium phage BigRedClifford]],,NCBI, q1:s1 100.0% 1.80395E-95 GAP: 26 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.084, -4.6767843745817785, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_BIGREDCLIFFORD_9 [Microbacterium phage BigRedClifford]],,QKY79252,100.0,1.80395E-95 SIF-HHPRED: RNA polymerase sigma factor RpoN; Sigma-54, sigma factors, solution structure, transcription, RNA polymerase; NMR {Aquifex aeolicus},,,2AHQ_A,21.8978,72.0 SIF-Syn: No
    /note=Start: 6404
    /note=Gl/Gm Favored: Glimmer
    /note=Gap: 26
    /note=Cp: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z = 2.1 Final = -4.7, Best Score: Yes, Very close to other score
    /note=Q1:s1: Yes
    /note=SIF-BLAST: No functional hits with eval below e-7
    /note=SIF-HHPRED: No functional hits above 90% Probability, Top hit = 72% Probability

CDS 6783 - 7199
  /gene="10"
  /product="gp10"
  /function="hypothetical protein"
  /locus tag="Janus167_10"
    /note=Original Glimmer call @bp 6783 has strength 16.61; Genemark calls start at 6795
    /note=SSC: 6783-7199 CP: yes SCS: both-gl ST: SS BLAST-Start: [hypothetical protein PBI_STINGRAY_10 [Microbacterium phage StingRay] ],,NCBI, q1:s1 100.0% 2.47252E-91 GAP: -35 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.67, -3.0713502170045657, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein PBI_STINGRAY_10 [Microbacterium phage StingRay] ],,AVJ51455,100.0,2.47252E-91 SIF-HHPRED: Gifsy-2 prophage ATP-binding sugar transporter-like protein; beta barrel, 4 helix bundle, Structural Genomics, PSI-2, Protein Structure Initiative, Midwest Center for Structural Genomics; HET: MSE; 2.7A {Salmonella typhimurium LT2} SCOP: b.106.1.2, l.1.1.1,,,2PP6_A,79.7101,70.1 SIF-Syn: No
    /note=Start: 6783
    /note=Gl/Gm Favored: Glimmer
    /note=Gap: -35
    /note=Cp: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 2.7 Final:-3.1, Best Score: Yes 
    /note=Q1:s1: Yes
    /note=SIF-BLAST: No functional hits with eval below e-7
    /note=SIF-HHPRED: No functional hits above 90% Probability, Top functional hit = 70.1% Probability

CDS 7196 - 7537
  /gene="11"
  /product="gp11"
  /function="hypothetical protein"
  /locus tag="Janus167_11"
    /note=Original Glimmer call @bp 7196 has strength 13.15; Genemark calls start at 7196
    /note=SSC: 7196-7537 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein FDJ36_gp11 [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 4.76285E-76 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.963, -3.3503726477288405, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein FDJ36_gp11 [Microbacterium phage Ilzat] ],,YP_009623175,100.0,4.76285E-76 SIF-HHPRED: HK97-gp10_like ; Bacteriophage HK97-gp10, putative tail-component,,,PF04883.15,64.6018,99.2 SIF-Syn: none
    /note=Start: 7196
    /note=Gl/Gm Favored: Both
    /note=Gap: -4
    /note=Cp: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 2.9 Final: -3.4, Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: Minor Capsid Protein, HerculesXL, e-value: 3.1e-39, 73% Alignment
    /note=SIF-HHPRED: HK97 gp10 hit, 99.% Probability- inconclusive according to Hendrix lab info from the forum so NKF

CDS 7540 - 7896
  /gene="12"
  /product="gp12"
  /function="tail terminator"
  /locus tag="Janus167_12"
    /note=Original Glimmer call @bp 7540 has strength 13.03; Genemark calls start at 7540
    /note=SSC: 7540-7896 CP: yes SCS: both ST: SS BLAST-Start: [tail terminator [Microbacterium phage StingRay] ],,NCBI, q1:s1 100.0% 1.32225E-78 GAP: 2 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.312, -3.978223840957539, yes F: tail terminator SIF-BLAST: ,,[tail terminator [Microbacterium phage StingRay] ],,AVJ51457,100.0,1.32225E-78 SIF-HHPRED: TAIL-TO-HEAD JOINING PROTEIN GP17; VIRAL PROTEIN, VIRAL INFECTION, TAILED BACTERIOPHAGE, SIPHOVIRIDAE, SPP1, VIRAL ASSEMBLY, HEAD-TO-TAIL INTERFACE, DNA GATEKEEPER, ALLOSTERIC MECHANISM; 7.2A {BACILLUS PHAGE SPP1},,,5A21_G,72.8814,98.2 SIF-Syn: No
    /note=Start: 7540
    /note=Gl/Gm: Both
    /note=Gap: 2
    /note=Cp: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 2.3 Final: -3.9, Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: Tail Terminator, StingRay, e-value: 1.3e-78, 100% Alignment
    /note=HIF-HHPRED: Tail to Head Joining Protein GP17, Bacillus Phage SPP1, 5A21_G, 98% Probability
    /note=
    /note=Note: Can call as tail terminator since we have a functional HHPRED Hit with 5A21_G

CDS 7896 - 8132
  /gene="13"
  /product="gp13"
  /function="hypothetical protein"
  /locus tag="Janus167_13"
    /note=Original Glimmer call @bp 7896 has strength 15.78; Genemark calls start at 7896
    /note=SSC: 7896-8132 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein FDJ36_gp13 [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 2.72916E-48 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.118, -2.17469248771465, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein FDJ36_gp13 [Microbacterium phage Ilzat] ],,YP_009623177,100.0,2.72916E-48 SIF-HHPRED: RNase_II_C_S1 ; RNase II-type exonuclease C-terminal S1 domain,,,PF18614.4,47.4359,70.9 SIF-Syn: none
    /note=Start: 7896
    /note=Gl/Gm Favored: Both
    /note=Gap: -1
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 3.1 Final: -2.2 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST:No functional hits with eval below e-7
    /note=HIF-HHPRED: No functional Hits above 90% Probability, Top Hit = 71% Probability

CDS 8145 - 8645
  /gene="14"
  /product="gp14"
  /function="major tail protein"
  /locus tag="Janus167_14"
    /note=Original Glimmer call @bp 8145 has strength 14.48; Genemark calls start at 8145
    /note=SSC: 8145-8645 CP: yes SCS: both ST: NA BLAST-Start: [major tail protein [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 3.50922E-115 GAP: 12 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.097, -2.2364030944336752, yes F: major tail protein SIF-BLAST: ,,[major tail protein [Microbacterium phage Ilzat] ],,YP_009623178,100.0,3.50922E-115 SIF-HHPRED: Phage_TTP_11 ; Phage tail tube, TTP, lambda-like,,,PF16460.8,65.6627,91.3 SIF-Syn: Yes, Upstream of Tail Assembly Chaperone, 2 Downstream of Tail Terminator
    /note=Start: 8145
    /note=Gl/Gm Favored: Both 
    /note=Gap: 12
    /note=All CP: Yes
    /note=Most Annotated: No- does not have most annotated
    /note=Most Conserved: Yes
    /note=SD Z: 3.1 Final: -2.2 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: Major Tail Protein, Ilzat, eval: 3.5e-115, 100% Alignment 
    /note=HIF-HHPRED: Phage Tail tube, lambda like, PF16460.8, 66% Coverage, 91% Probability

CDS 8674 - 9243
  /gene="15"
  /product="gp15"
  /function="tail assembly chaperone"
  /locus tag="Janus167_15"
    /note=Original Glimmer call @bp 8674 has strength 18.54; Genemark calls start at 8674
    /note=SSC: 8674-9243 CP: yes SCS: both ST: SS BLAST-Start: [tail assembly chaperone [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 8.19299E-135 GAP: 28 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.963, -2.794070146961553, yes F: tail assembly chaperone SIF-BLAST: ,,[tail assembly chaperone [Microbacterium phage Ilzat] ],,YP_009623179,100.0,8.19299E-135 SIF-HHPRED: NUCLEAR DISTRIBUTION PROTEIN NUDE-LIKE 1; DEVELOPMENTAL PROTEIN, NUCLEAR PROTEIN, NEUROGENESIS, CYTOSKELETON, LIS1 BINDING, DIFFERENTIATION, PHOSPHORYLATION, TRANSPORT, MICROTUBULE, MICROTUBULE ASSOCIATED MIGRATION; HET: MSE; 2.24A {RATTUS NORVEGICUS},,,2V71_A,36.5079,66.1 SIF-Syn: Yes, Upstream of Tail Assembly Chaperone, Downstream of Major Tail Protein
    /note=Start: 8674
    /note=Gl/Gm Favored: Both
    /note=Gap: 28
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 3.0 Final: -2.8 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: Tail Assembly Chaperone, Ilzat, eval: 8e-1.35, 100% Alignment
    /note=HIF-HHPRED: No functional hits above 90% Probability, Top Hit = 66% Probability
    /note=Note: SEA forum indicates that the two genes between major tail protein and tapemeasure protein in EA1 phages are TAC, no frameshift is present

CDS 9258 - 9629
  /gene="16"
  /product="gp16"
  /function="tail assembly chaperone"
  /locus tag="Janus167_16"
    /note=Original Glimmer call @bp 9480 has strength 5.1; Genemark calls start at 9258
    /note=SSC: 9258-9629 CP: yes SCS: both-gm ST: NI BLAST-Start: [tail assembly chaperone [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 7.85622E-86 GAP: 14 bp gap LO: no RBS: Kibler 6, Karlin Medium, 0.936, -7.612233436055309, no F: tail assembly chaperone SIF-BLAST: ,,[tail assembly chaperone [Microbacterium phage Ilzat] ],,YP_009623180,100.0,7.85622E-86 SIF-HHPRED: NinF ; NinF protein,,,PF05810.15,21.9512,80.4 SIF-Syn: Yes upstream of tapemeasure and downstream of tail assembly chaperone
    /note=Start: 9258
    /note=Favored: Genemark
    /note=Gap: 14
    /note=All CP: Yes
    /note=Most Annotated Start: yes
    /note=Most Conserved Start: yes
    /note=SD Z: 0.98 Final: -7.6 Best Score: No
    /note=Q1:s1: Yes
    /note=HIF-BLAST: Tail Assembly Chaperone, Ilzat, eval: 7.9e-86, 100% Alignment
    /note=HHpred: NinF Protein, PF05810.15, 80% Probability, 22% Coverage
    /note=Note: SEA forum indicates that the two genes between major tail protein and tapemeasure protein in EA1 phages are TAC, no frameshift is present

CDS 9654 - 11924
  /gene="17"
  /product="gp17"
  /function="tape measure protein"
  /locus tag="Janus167_17"
    /note=Original Glimmer call @bp 9654 has strength 21.57; Genemark calls start at 9654
    /note=SSC: 9654-11924 CP: yes SCS: both ST: SS BLAST-Start: [tape measure protein [Microbacterium phage Stanktossa] ],,NCBI, q1:s1 100.0% 0.0 GAP: 24 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.192, -1.953940808934884, yes F: tape measure protein SIF-BLAST: ,,[tape measure protein [Microbacterium phage Stanktossa] ],,QDP44689,100.0,0.0 SIF-HHPRED: Tape Measure Protein, gp57; phage tail, tail tip, tape measure protein, VIRAL PROTEIN; 3.7A {Staphylococcus virus 80alpha},,,6V8I_CF,88.8889,99.7 SIF-Syn: Yes, Downstream of tail assembly chaperone, Upstream of Minor Tail Protein
    /note=Start: 9654
    /note=Gl/Gm Favored: Both
    /note=Gap: 24
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 3.2 Final: -2.0 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: Tape Measure Protein, Stanktossa, eval: 0, 100% Alignment
    /note=HIF-HHPRED: Tape Measure Protein, Staphylococcus virus 80alpha, 6V8I_CF, 100% Probability, 19.4% Coverage

CDS 11921 - 12694
  /gene="18"
  /product="gp18"
  /function="minor tail protein"
  /locus tag="Janus167_18"
    /note=Original Glimmer call @bp 11921 has strength 15.96; Genemark calls start at 11921
    /note=SSC: 11921-12694 CP: yes SCS: both ST: SS BLAST-Start: [minor tail protein [Microbacterium phage Papafritta] ],,NCBI, q1:s1 100.0% 0.0 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.392, -3.8079208184165134, no F: minor tail protein SIF-BLAST: ,,[minor tail protein [Microbacterium phage Papafritta] ],,AXH48529,100.0,0.0 SIF-HHPRED: ORF46; Distal tail protein, Receptor-binding protein, Phage baseplate, host adsorption apparatus, genome injection device, VIRAL PROTEIN; 3.8A {Lactococcus phage TP901-1},,,4V96_AU,99.2218,99.9 SIF-Syn: Yes, Downstream of tape measure, Upstream of minor tail
    /note=Start: 11921
    /note=Gl/Gm Favored: Both
    /note=Gap: -4
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 2.4 Final: -3.8 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: Minor Tail Protein, Phage: Papafritta, 100% Alignment, e-val: 0
    /note=HIF-HHPRED: Distal Tail Protein, Lactococcus phage TP901-1, 4V96_AU, 99% Coverage, 99.9% Probability

CDS 12694 - 15120
  /gene="19"
  /product="gp19"
  /function="minor tail protein"
  /locus tag="Janus167_19"
    /note=Original Glimmer call @bp 12694 has strength 17.77; Genemark calls start at 12694
    /note=SSC: 12694-15120 CP: yes SCS: both ST: SS BLAST-Start: [minor tail protein [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 0.0 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.813, -2.7653702713535186, yes F: minor tail protein SIF-BLAST: ,,[minor tail protein [Microbacterium phage Ilzat] ],,YP_009623183,99.8762,0.0 SIF-HHPRED: Protein gp18; NP_465809.1, prophage tail protein gp18, Structural Genomics, Joint Center for Structural Genomics, JCSG, Protein Structure Initiative; HET: MSE, MLY; 1.7A {Listeria monocytogenes EGD-e},,,3GS9_A,40.8416,99.9 SIF-Syn: Yes, Downstream of minor tail protein
    /note=Start: 12694
    /note=Gl/Gm Favored: Both
    /note=Gap: -1
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 2.8 Final: -2.8 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: Minor Tail Protein, Ilzat, 99.9% Alignment, eval:0
    /note=HIF-HHPRED: gp18 prophage tail protein, Listeria monocytogenes EDG-e, 3GS9_A, 99.9% Probability, 40.8% Coverage

tRNA complement (13539 - 13624)
  /gene="20"
  /product="tRNA-Val(gac)"
  /locus tag="JANUS167_20"
    /note=tRNA-Val(gac)

CDS 15120 - 15305
  /gene="21"
  /product="gp21"
  /function="minor tail protein"
  /locus tag="Janus167_21"
    /note=Original Glimmer call @bp 15120 has strength 13.48; Genemark calls start at 15120
    /note=SSC: 15120-15305 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein H3N90_gp20 [Microbacterium phage Teagan] ],,NCBI, q1:s1 100.0% 2.62105E-35 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.476, -3.5660483139923818, yes F: minor tail protein SIF-BLAST: ,,[hypothetical protein H3N90_gp20 [Microbacterium phage Teagan] ],,YP_009908722,100.0,2.62105E-35 SIF-HHPRED: BETA-MANNOSIDASE; HYDROLASE, CARBOHYDRATE BINDING MODULE, MANNAN, LECTIN, GLYCOSIDE HYDROLASE; HET: BMA, GLA, GOL; 1.35A {THERMOTOGA MARITIMA} SCOP: b.18.1.18,,,1OH4_A,63.9344,71.0 SIF-Syn: Yes, Between Tape Measure and Endolysin
    /note=Start: 15120
    /note=Gl/Gm Favored: Both
    /note=Gap: -1
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most conserved: Yes
    /note=SD Z: 2.5 Final: -3.6 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: No functional hits with eval below e-7
    /note=HIF-HHPRED: A number of hits above 70% with hydrolases and based on SEA-forum gps in this region should be called minor tail protein.

CDS 15302 - 15898
  /gene="22"
  /product="gp22"
  /function="minor tail protein"
  /locus tag="Janus167_22"
    /note=Original Glimmer call @bp 15302 has strength 13.37; Genemark calls start at 15302
    /note=SSC: 15302-15898 CP: yes SCS: both ST: SS BLAST-Start: [minor tail protein [Microbacterium phage Figueroism]],,NCBI, q1:s1 100.0% 7.92764E-140 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.021, -4.601664605840989, no F: minor tail protein SIF-BLAST: ,,[minor tail protein [Microbacterium phage Figueroism]],,UVD40576,98.9899,7.92764E-140 SIF-HHPRED: XYLANASE; HYDROLASE, XYLOGLUCAN, CBM4-2, X2 L110F, CH-PI INTERACTION, ENGINEERED CONSTRUCT; HET: GLC, BGC, XYS; 1.0A {RHODOTHERMUS MARINUS} SCOP: b.18.1.14, l.1.1.1,,,4BJ0_A,24.2424,51.0 SIF-Syn: Yes, Between Tape Measure and Endolysin
    /note=Start: 15302
    /note=Gl/Gm Favored: Both
    /note=Gap: -4
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 2.0 Final: -4.6 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: Minor Tail Protein, Figueroism, 99% Alignment, eval:7.9e-140
    /note=HIF-HHPRED: No functional hits above 90% Probability, Top Hit = 51% Probability
    /note=Note: based on SEA-forum gps in this region should be called minor tail protein.

CDS 15898 - 16377
  /gene="23"
  /product="gp23"
  /function="minor tail protein"
  /locus tag="Janus167_23"
    /note=Original Glimmer call @bp 15898 has strength 12.61; Genemark calls start at 15898
    /note=SSC: 15898-16377 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_HANSOLO_22 [Microbacterium phage HanSolo] ],,NCBI, q1:s1 100.0% 6.08233E-107 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.55, -3.389881189012514, yes F: minor tail protein SIF-BLAST: ,,[hypothetical protein SEA_HANSOLO_22 [Microbacterium phage HanSolo] ],,QDM57162,98.1132,6.08233E-107 SIF-HHPRED: Gp15 protein; Listeria, homotrimeric, receptor binding protein, Bacteriophage, VIRAL PROTEIN; HET: ACT, 1PE; 1.7A {Listeria phage PSA},,,6R5W_B,72.956,99.4 SIF-Syn: Yes, Between Tape Measure and Endolysin
    /note=Start: 15898
    /note=Gl/Gm Favored: Both
    /note=Gap: -1
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z:  2.6 Final: -3.4 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: Minor Tail Protein, Chako, 98% Alignment, eval: 6.1e-107
    /note=HIF-HHPRED: Gp15 protein, Listeria phage PSA, 6R5W_B, 73% Coverage, 99% Probability
    /note=Notes: 3 TMH`s from TmHmm, based on SEA-forum gps in this region should be called minor tail protein.

CDS 16377 - 18512
  /gene="24"
  /product="gp24"
  /function="minor tail protein"
  /locus tag="Janus167_24"
    /note=Original Glimmer call @bp 16416 has strength 9.86; Genemark calls start at 16377
    /note=SSC: 16377-18512 CP: yes SCS: both-gm ST: SS BLAST-Start: [minor tail protein [Microbacterium phage Aubergine] ],,NCBI, q1:s1 100.0% 0.0 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.831, -4.868688382016774, no F: minor tail protein SIF-BLAST: ,,[minor tail protein [Microbacterium phage Aubergine] ],,AUX82610,99.8594,0.0 SIF-HHPRED: Chitinase; Chitinase Family GH18 Chitinase, HYDROLASE; HET: CS; 1.75A {Chromobacterium violaceum},,,4TXG_A,50.6329,100.0 SIF-Syn: between minor tail protein and endolysin in multiple EA1 phages
    /note=Start: 16377
    /note=Gl/Gm Favored: Genemark
    /note=Gap: -1
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 1.8 Final: -4.9 Best Score: No
    /note=Q1:s1: Yes
    /note=HIF-BLAST: Minor Tail Protein, Figueroism, eval: 0, 99% Alignment
    /note=HIF-HHPRED: Chitinase, Chromobacterium, 4TXG_A, 50% Coverage, 100% Probability
    /note=Note: based on SEA-forum gps in this region should be called minor tail protein.

CDS 18543 - 19349
  /gene="25"
  /product="gp25"
  /function="endolysin"
  /locus tag="Janus167_25"
    /note=Original Glimmer call @bp 18543 has strength 14.7; Genemark calls start at 18543
    /note=SSC: 18543-19349 CP: yes SCS: both ST: SS BLAST-Start: [endolysin [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 0.0 GAP: 30 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.963, -2.442961286954254, yes F: endolysin SIF-BLAST: ,,[endolysin [Microbacterium phage Ilzat] ],,YP_009623188,100.0,0.0 SIF-HHPRED: D-alanyl-D-alanine carboxypeptidase; Vancomycin resistance, peptidase, metallopeptidase family M15, HYDROLASE; HET: PG4, MSE, GOL; 1.65A {Enterococcus faecalis V583},,,5ZHF_B,39.5522,99.1 SIF-Syn: Yes, Downstream of minor tail protein, 2 upstream of Holin
    /note=Start: 18543
    /note=Gl/Gm Favored: Both
    /note=Gap: 30
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 3.0 Final: -2.4 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: Endolysin, Ilzat, eval: 0, 100% Alignment
    /note=HIF-HHPRED: endolysin, B. subtilis phage B4, 6AKV_A, 40% Coverage, 99% Probability

CDS 19384 - 19773
  /gene="26"
  /product="gp26"
  /function="membrane protein"
  /locus tag="Janus167_26"
    /note=Original Glimmer call @bp 19384 has strength 12.87; Genemark calls start at 19384
    /note=SSC: 19384-19773 CP: yes SCS: both ST: SS BLAST-Start: [membrane protein [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 3.40859E-88 GAP: 34 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.963, -2.970161406017234, yes F: membrane protein SIF-BLAST: ,,[membrane protein [Microbacterium phage Ilzat] ],,YP_009623189,100.0,3.40859E-88 SIF-HHPRED: PspB ; Phage shock protein B,,,PF06667.15,75.969,95.4 SIF-Syn: Yes, Downstream of Endolysin
    /note=Start: 19384
    /note=Gl/Gm Favored: Both
    /note=Gap: 34
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 3.0 Final: -3.0 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: Membrane Protein, Ilzat, eval: 3.4e-88,  100% Alignment
    /note=HIF-HHPRED: Phage shock protein B, PF06667.15, 76% Coverage, 95% Probability
    /note=Note: Have a hit in SOSUI for membrane protein, able to call because we have two pieces of evidence (TmHmm & SOSUI)

CDS 19778 - 20119
  /gene="27"
  /product="gp27"
  /function="holin"
  /locus tag="Janus167_27"
    /note=Original Glimmer call @bp 19778 has strength 16.91; Genemark calls start at 19778
    /note=SSC: 19778-20119 CP: yes SCS: both ST: SS BLAST-Start: [holin [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 1.71515E-68 GAP: 4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.074, -4.87383788125753, no F: holin SIF-BLAST: ,,[holin [Microbacterium phage Ilzat] ],,YP_009623190,100.0,1.71515E-68 SIF-HHPRED: Phage_holin_5_1 ; Bacteriophage A118-like holin, Hol118,,,PF06946.14,74.3363,99.7 SIF-Syn: Yes, just downstream of membrane protein and endolysin
    /note=Start: 19778
    /note=Gl/Gm Favored: Both
    /note=Gap: 4
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 2.1 Final: -4.9 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: Holin, Ilzat, eval:1.7e-68,100% Alignment
    /note=HIF-HHPRED: Phage_holin_5_1, Hol118, PF06946.14, 74% Coverage, 99.7% Probability
    /note=TMHMM: 3 TMHs

CDS complement (20175 - 20363)
  /gene="28"
  /product="gp28"
  /function="hypothetical protein"
  /locus tag="Janus167_28"
    /note=Original Glimmer call @bp 20363 has strength 20.27; Genemark calls start at 20363
    /note=SSC: 20363-20175 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein FDJ36_gp27 [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 1.02868E-36 GAP: 70 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.963, -2.442961286954254, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein FDJ36_gp27 [Microbacterium phage Ilzat] ],,YP_009623191,100.0,1.02868E-36 SIF-HHPRED: ENDONUCLEASE PI-SCEI; ENDONUCLEASE, HOMING, PROTEIN SPLICING; 1.35A {SACCHAROMYCES CEREVISIAE} SCOP: l.1.1.1, b.86.1.2,,,1GPP_A,41.9355,69.4 SIF-Syn: none
    /note=Start: 20363
    /note=Gl/Gm Favored: Both
    /note=Gap: 70
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 3.0 Final: -2.4 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: No functional hits with eval below e-7
    /note=HIF-HHPRED: No functional hits above 90% Probability, Top Hit: 69% Probability

CDS complement (20434 - 20604)
  /gene="29"
  /product="gp29"
  /function="hypothetical protein"
  /locus tag="Janus167_29"
    /note=Original Glimmer call @bp 20586 has strength 15.19; Genemark calls start at 20586
    /note=SSC: 20604-20434 CP: yes SCS: both-cs ST: SS BLAST-Start: [hypothetical protein PBI_AXIPUP_29 [Microbacterium phage AxiPup] ],,NCBI, q1:s1 100.0% 1.25871E-33 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.339, -7.228036388736505, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein PBI_AXIPUP_29 [Microbacterium phage AxiPup] ],,AUX82678,100.0,1.25871E-33 SIF-HHPRED: 5-chloro-2-hydroxyhydroquinone dehydrochlorinase (TftG); LYASE; 1.75A {Burkholderia cepacia} SCOP: d.58.4.0,,,4LBH_A,57.1429,89.5 SIF-Syn: No
    /note=Start: 20604
    /note=Gl/Gm Favored: None
    /note=Gap: -4
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 1.3 Final: -7.2 Best Score: No
    /note=Q1:s1: Yes
    /note=HIF-BLAST: No functional hits with eval below e-7
    /note=HIF-HHPRED: Hydroxyhydroquinone dehyfrochlorinase, Burkholderia cepacia, 4LBH_A, 64% Coverage, 90% Probability

CDS complement (20601 - 20759)
  /gene="30"
  /product="gp30"
  /function="hypothetical protein"
  /locus tag="Janus167_30"
    /note=Original Glimmer call @bp 20759 has strength 11.9; Genemark calls start at 20759
    /note=SSC: 20759-20601 CP: yes SCS: both ST: NI BLAST-Start: [hypothetical protein FDJ36_gp29 [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 4.60776E-28 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.267, -4.075451192669358, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein FDJ36_gp29 [Microbacterium phage Ilzat] ],,YP_009623193,100.0,4.60776E-28 SIF-HHPRED: PROTEIN (FLIG); FLAGELLAR MOTOR SWITCH PROTEIN, STRUCTURAL PROTEIN; 2.2A {Thermotoga maritima} SCOP: a.118.14.1,,,1QC7_A,84.6154,87.0 SIF-Syn: No
    /note=Start: 20759
    /note=Gl/Gm Favored: Both
    /note=Gap: -4
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 2.3 Final: -4.1 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: No functional hits with eval below e-7
    /note=HIF-HHPRED: No functional hit above 90% Probability, Top Hit: 87% Probability

CDS complement (20756 - 21598)
  /gene="31"
  /product="gp31"
  /function="hypothetical protein"
  /locus tag="Janus167_31"
    /note=Original Glimmer call @bp 21598 has strength 17.79; Genemark calls start at 21598
    /note=SSC: 21598-20756 CP: yes SCS: both ST: SS BLAST-Start: [ssDNA-binding protein [Microbacterium phage GardenState]],,NCBI, q10:s5 96.7857% 1.29024E-8 GAP: 44 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.494, -6.242072432500853, no F: hypothetical protein SIF-BLAST: ,,[ssDNA-binding protein [Microbacterium phage GardenState]],,QOI66981,50.0,1.29024E-8 SIF-HHPRED: Antitermination protein; RNA polymerase, DNA Binding, transcription, Q-dependent antitermination, Q antitermination factor, GENE REGULATION, TRANSFERASE-DNA-RNA complex;{Escherichia coli},,,7UBN_Q,15.3571,95.1 SIF-Syn: No
    /note=Start: 21598
    /note=Gl/Gm Favored: Both
    /note=Gap: 44
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 1.5 Final: -6.2 Best Score: No
    /note=Q1:s1: Yes
    /note=HIF-BLAST: ssDNA Binding Protein, GardenState, 32% Alignment, eval: 1.3e-8
    /note=HIF-HHPRED: Antitermination Protein, RNA pol., DNA binding, Escherichia coli, 7UBN_Q, 15% Coverage, 95% Probability
    /note=Note: Not calling ssDNA Binding Protein because HHpred hit does not indicate SSB and only one blast hit for SSB, since it has an antitermination protein hit, may be able to call as DNA binding protein

CDS complement (21643 - 21906)
  /gene="32"
  /product="gp32"
  /function="membrane protein"
  /locus tag="Janus167_32"
    /note=Original Glimmer call @bp 21906 has strength 19.02; Genemark calls start at 21906
    /note=SSC: 21906-21643 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_KLIMT_31 [Microbacterium phage Klimt] ],,NCBI, q1:s1 100.0% 1.76795E-55 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.247, -4.327759218808925, yes F: membrane protein SIF-BLAST: ,,[hypothetical protein SEA_KLIMT_31 [Microbacterium phage Klimt] ],,QGH75079,97.7011,1.76795E-55 SIF-HHPRED: RseC_MucC ; Positive regulator of sigma(E), RseC/MucC,,,PF04246.15,79.3103,70.7 SIF-Syn: none
    /note=Start: 21906
    /note=Gl/Gm Favored: Both
    /note=Gap: -1
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 2.2 Final: -4.3 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: Membrane Protein, Chamuel, 98% Alignment, eval:1.8e-55
    /note=HIF-HHPRED: No Functional Hits above 90% Probability, Top Hit: 71% Probability
    /note=Notes: 1 TMH found my Tmhmm, 1 hit from SOSUI, enough evidence to call as membrane

CDS complement (21906 - 22115)
  /gene="33"
  /product="gp33"
  /function="membrane protein"
  /locus tag="Janus167_33"
    /note=Original Glimmer call @bp 22115 has strength 16.1; Genemark calls start at 22115
    /note=SSC: 22115-21906 CP: yes SCS: both ST: NA BLAST-Start: [hypothetical protein FDJ36_gp32 [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 7.85173E-42 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.813, -2.9063687850157054, yes F: membrane protein SIF-BLAST: ,,[hypothetical protein FDJ36_gp32 [Microbacterium phage Ilzat] ],,YP_009623196,100.0,7.85173E-42 SIF-HHPRED: Regulatory peptide; Transmembrane helical complex, MEMBRANE PROTEIN; NMR {N/A},,,2MC7_A,30.4348,86.0 SIF-Syn: none
    /note=Start: 22115
    /note=Gl/Gm Favored: Both
    /note=Gap: -4
    /note=All CP: Yes
    /note=Most Annotated: No, Doesn’t Contain
    /note=Most Conserved: Yes
    /note=SD Z: 2.8 Final: -2.9 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: Membrane Protein, Aubergine, 100% Alignment, eval: 7.9e-42
    /note=HIF-HHPRED: No functional hits above 90% Probability, Top Hit: 86% Probability
    /note=membrane: 1 TMH hit and SOSUI calls it a membrane protein

CDS complement (22112 - 23782)
  /gene="34"
  /product="gp34"
  /function="DNA primase/helicase"
  /locus tag="Janus167_34"
    /note=Original Glimmer call @bp 23782 has strength 11.97; Genemark calls start at 23713
    /note=SSC: 23782-22112 CP: yes SCS: both-gl ST: SS BLAST-Start: [DNA recombinase [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 0.0 GAP: -25 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.034, -2.4329349954350334, yes F: DNA primase/helicase SIF-BLAST: ,,[DNA recombinase [Microbacterium phage Ilzat] ],,YP_009623197,100.0,0.0 SIF-HHPRED: DNA primase/helicase; primase, helicase, dNTPase, DNA replication, TRANSFERASE; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11, e.13.1.2,,,1Q57_D,45.8633,99.7 SIF-Syn: Yes, upstream of nuclease
    /note=Start: 23782
    /note=Gl/Gm Favored: Glimmer
    /note=Gap: -25
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 3.0 Final: -2.4 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: DNA recombinase, Ilzat, eval: 0, 100% Alignment
    /note=HIF-HHPRED: 1Q57_D, DNA primase/helicase, phage T7, 46% Coverage, 99.7% Probability
    /note=Note: Contains both primase and helicase domains based on HHPRED

CDS complement (23758 - 24051)
  /gene="35"
  /product="gp35"
  /function="nuclease"
  /locus tag="Janus167_35"
    /note=Original Glimmer call @bp 24051 has strength 5.37; Genemark calls start at 24051
    /note=SSC: 24051-23758 CP: yes SCS: both ST: SS BLAST-Start: [endonuclease [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 1.24499E-65 GAP: 3 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.15, -6.678258492274136, no F: nuclease SIF-BLAST: ,,[endonuclease [Microbacterium phage Ilzat] ],,YP_009623198,100.0,1.24499E-65 SIF-HHPRED: Nuclease; Nuclease, HYDROLASE; HET: SO4; 1.85A {Salmonella phage SETP3} SCOP: c.52.1.35,,,4QBN_A,94.8454,99.9 SIF-Syn: Yes, Downstream of DNA primase/helicase in Benjalauren
    /note=Start: 24051
    /note=Gl/Gm Favored: Both
    /note=Gap: 3
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 1.2 Final: -6.7 Best Score: No
    /note=Q1:s1: Yes
    /note=HIF-BLAST: Endonuclease, Ilzat, eval:1.2e-65, 100% Alignment
    /note=HIF-HHPRED: Nuclease, Salmonella phage SETP3, 4QBN_A, 95% Coverage, 99.9% Probability

CDS complement (24055 - 24894)
  /gene="36"
  /product="gp36"
  /function="hypothetical protein"
  /locus tag="Janus167_36"
    /note=Original Glimmer call @bp 24894 has strength 17.35; Genemark calls start at 24894
    /note=SSC: 24894-24055 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein PBI_BANDIK_36 [Microbacterium phage Bandik] ],,NCBI, q1:s1 100.0% 0.0 GAP: 32 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.67, -3.2123487306667524, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein PBI_BANDIK_36 [Microbacterium phage Bandik] ],,AVR56058,100.0,0.0 SIF-HHPRED: Transcription termination factor Rho; transcription termination factor, RNA helicase, ATP-dependent, molecular motor, TRANSCRIPTION; HET: ATP;{Mycobacterium tuberculosis},,,7OQH_D,38.7097,96.5 SIF-Syn: Downstream of Nuclease, Upstream of AAA-ATPASE
    /note=Start: 24894
    /note=Gl/Gm Favored: Both
    /note=Gap: 32
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 2.7 Final: -3.2 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: DNA Binding Protein, Chako, eval: 0, 100% Alignment 
    /note=HIF-HHPRED: Transcription Termination Factor Rho, Mycobacterium tuberculosis, 7OQH_D, 39% Coverage, 97% Probability
    /note=Note: No HHPRED evidence found that suggests calling a DNA binding protein

CDS complement (24927 - 25595)
  /gene="37"
  /product="gp37"
  /function="RecA-like DNA recombinase"
  /locus tag="Janus167_37"
    /note=Original Glimmer call @bp 25595 has strength 18.22; Genemark calls start at 25595
    /note=SSC: 25595-24927 CP: yes SCS: both ST: SS BLAST-Start: [AAA-ATPase [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 7.24156E-162 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.089, -4.455662434380964, no F: RecA-like DNA recombinase SIF-BLAST: ,,[AAA-ATPase [Microbacterium phage Ilzat] ],,YP_009623200,100.0,7.24156E-162 SIF-HHPRED: AAA_24 ; AAA domain,,,PF13479.9,87.8378,99.8 SIF-Syn: Yes, Upstream of Exonuclease, 2 Downstream of Nuclease
    /note=Start: 25595
    /note=Gl/Gm Favored: Both
    /note=Gap: -4
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 2.1 Final: -4.5 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: AAA-ATPase, Ilzat, eval:7.2e-162, 100% Alignment
    /note=HIF-HHPRED: AAA domain, PF13479.9, 88% Coverage, 99.8% Probability. AND  RecA protein, M. tuberculosis, 4PPF_A, 98.7% probability and 77% coverage

CDS complement (25592 - 26767)
  /gene="38"
  /product="gp38"
  /function="RecB-like exonuclease/helicase"
  /locus tag="Janus167_38"
    /note=Original Glimmer call @bp 26767 has strength 12.08; Genemark calls start at 26776
    /note=SSC: 26767-25592 CP: yes SCS: both-gl ST: SS BLAST-Start: [exonuclease [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 0.0 GAP: -14 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.39, -3.670670413150579, no F: RecB-like exonuclease/helicase SIF-BLAST: ,,[exonuclease [Microbacterium phage Ilzat] ],,YP_009623201,100.0,0.0 SIF-HHPRED: ATP-dependent DNA helicase (UvrD/REP); DNA, DNA BINDING PROTEIN, DNA BINDING PROTEIN-DNA complex; 3.5A {Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)},,,6PPU_A,83.8875,99.8 SIF-Syn: Yes, Upstream of DNA Polymerase, Downstream of RecA-like recombinase
    /note=Start: 26767
    /note=Gl/Gm Favored: Glimmer
    /note=Gap: -14
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 2.4 Final: -3.7 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: Exonuclease, Ilzat, eval: 0, 100% Alignment
    /note=HIF-HHPRED: ATP-dependent DNA helicase, Myocobacterium smegmatis, 6PPU_A, 84% Coverage, 99.8% Probability (has both helicase and nuclease domains)

CDS complement (26754 - 28619)
  /gene="39"
  /product="gp39"
  /function="DNA polymerase I"
  /locus tag="Janus167_39"
    /note=Original Glimmer call @bp 28619 has strength 13.6; Genemark calls start at 28610
    /note=SSC: 28619-26754 CP: yes SCS: both-gl ST: NA BLAST-Start: [DNA polymerase [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 0.0 GAP: 199 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.889, -2.6013996449736907, yes F: DNA polymerase I SIF-BLAST: ,,[DNA polymerase [Microbacterium phage Ilzat] ],,YP_009623202,100.0,0.0 SIF-HHPRED: DNA polymerase I; mycobacteria, DNA polymerase, Flap endonuclease, TRANSFERASE; 2.713A {Mycolicibacterium smegmatis},,,6VDE_A,99.1948,100.0 SIF-Syn: Yes, Downstream of RecB-like exonuclease/helicase in WildNOut
    /note=Start: 28619
    /note=Gl/Gm Favored: Glimmer
    /note=Gap: 623
    /note=All CP: Yes
    /note=Most Annotated: no starterator report
    /note=Most Conserved: no starterator report
    /note=SD Z:  2.9 Final: -2.6 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: DNA polymerase I, Ilzat, eval: 0, 100% Alignment
    /note=HIF-HHPRED: 6VDE_A, DNA polymerase I, M. smegmatis, 99% Coverage, 100% Probability

CDS complement (28819 - 29244)
  /gene="40"
  /product="gp40"
  /function="hypothetical protein"
  /locus tag="Janus167_40"
    /note=Original Glimmer call @bp 29244 has strength 19.02; Genemark calls start at 29244
    /note=SSC: 29244-28819 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein FDJ36_gp39 [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 1.06988E-90 GAP: 170 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.963, -2.442961286954254, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein FDJ36_gp39 [Microbacterium phage Ilzat] ],,YP_009623203,99.2908,1.06988E-90 SIF-HHPRED: 60S ACIDIC RIBOSOMAL PROTEIN P2; RIBOSOMAL PROTEIN, RIBONUCLEOPROTEIN, RIBOSOME, TRANSLATION, DIMERIZATION, PHOSPHOPROTEIN; NMR {HOMO SAPIENS},,,2W1O_A,39.0071,83.1 SIF-Syn: Upstream of DNA Helicase
    /note=Start: 29244
    /note=Gl/Gm Favored: Both
    /note=Gap: 170
    /note=All CP: yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 3.0 Final: -2.4 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: No functional hits with eval below e-7
    /note=HIF-HHPRED: No functional hits above 90% Probability, Top Hit: 83% Probability

CDS complement (29415 - 30803)
  /gene="41"
  /product="gp41"
  /function="DNA helicase"
  /locus tag="Janus167_41"
    /note=Original Glimmer call @bp 30803 has strength 11.2; Genemark calls start at 30803
    /note=SSC: 30803-29415 CP: yes SCS: both ST: SS BLAST-Start: [DNA helicase [Microbacterium phage Gargoyle]],,NCBI, q1:s1 100.0% 0.0 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.07, -4.497860114175419, no F: DNA helicase SIF-BLAST: ,,[DNA helicase [Microbacterium phage Gargoyle]],,AWN03496,100.0,0.0 SIF-HHPRED: ATP-dependent DNA helicase uvsW; ATP-dependant helicase, T4-bacteriophage, Recombination, HYDROLASE; 2.7A {Enterobacteria phage T4},,,2OCA_A,97.8355,100.0 SIF-Syn: Upstream of Phosphoesterase
    /note=Start: 30803
    /note=Gl/Gm Favored: Both
    /note=Gap: -1
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 2.0 Final: -4.4 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: DNA helicase, Gargoyle, eval: 0, 100% Alignment
    /note=HIF-HHPRED:ATP-dependent DNA helicase, Enterobacteria phage T4, 100% probability 98% coverage, 2OCA_A

CDS complement (30803 - 31396)
  /gene="42"
  /product="gp42"
  /function="phosphoesterase"
  /locus tag="Janus167_42"
    /note=Original Glimmer call @bp 31396 has strength 15.52; Genemark calls start at 31396
    /note=SSC: 31396-30803 CP: yes SCS: both ST: SS BLAST-Start: [phosphoesterase [Microbacterium phage Aubergine] ],,NCBI, q1:s1 100.0% 2.53267E-140 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.957, -4.738143471880277, no F: phosphoesterase SIF-BLAST: ,,[phosphoesterase [Microbacterium phage Aubergine] ],,AUX82628,100.0,2.53267E-140 SIF-HHPRED: RNA 2`,3`-cyclic phosphodiesterase; RNA repair, CPDase, 2, 3 -cyclic phosphodiesterase, HYDROLASE; HET: SO4, GOL; 1.6A {Deinococcus radiodurans} SCOP: d.61.1.0,,,5H7E_A,77.665,99.5 SIF-Syn: Downstream of DNA Helicase
    /note=Start: 31396
    /note=Gl/Gm Favored: Both
    /note=Gap: -4
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 2.0 Final: -4.7 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: Phosphoesterase, Aubergine, eval:2.5e-140, 100% Alignment
    /note=HIF-HHPRED: Cyclic phosphodiesterase, Deinococcus radiodurans, 5H7E_A, 99.5% Probability, 78% Coverage

CDS complement (31393 - 31689)
  /gene="43"
  /product="gp43"
  /function="hypothetical protein"
  /locus tag="Janus167_43"
    /note=Original Glimmer call @bp 31689 has strength 16.76; Genemark calls start at 31689
    /note=SSC: 31689-31393 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein PAPAFRITTA_42 [Microbacterium phage Papafritta]],,NCBI, q1:s1 100.0% 9.16812E-61 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.963, -2.523003374675015, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein PAPAFRITTA_42 [Microbacterium phage Papafritta]],,AXH48553,100.0,9.16812E-61 SIF-HHPRED: HTH-TYPE TRANSCRIPTIONAL REGULATOR MGRA; TRANSCRIPTIONAL REGULATOR, MULTIDRUG RESISTANCE REGULATOR, VIRULENCE DETERMINANT, TRANSCRIPTIONAL FACTORS; HET: MSE; 2.8A {STAPHYLOCOCCUS AUREUS} SCOP: a.4.5.28, l.1.1.1,,,2BV6_A,39.7959,65.0 SIF-Syn: none
    /note=Start: 31689
    /note=Gl/Gm Favored: Both
    /note=Gap: -1
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 3.0 Final: -2.5 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: No functional hits with eval below e-7
    /note=HIF-HHPRED: No functional hits above 90% Probability, Top Hit: 65% Probability

CDS complement (31689 - 31967)
  /gene="44"
  /product="gp44"
  /function="hypothetical protein"
  /locus tag="Janus167_44"
    /note=Original Glimmer call @bp 31967 has strength 15.87; Genemark calls start at 31967
    /note=SSC: 31967-31689 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_THORONGIL_44 [Microbacterium phage Thorongil]],,NCBI, q1:s1 100.0% 4.51611E-60 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.996, -4.59534204625343, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_THORONGIL_44 [Microbacterium phage Thorongil]],,QPX62445,98.913,4.51611E-60 SIF-HHPRED: RcnB ; Nickel/cobalt transporter regulator,,,PF11776.11,11.9565,82.4 SIF-Syn: none
    /note=Start: 31967
    /note=Gl/Gm Favored: Both
    /note=Gap: -1
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 2.0 Final: -4.6 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: No functional hits with eval below e-7
    /note=HIF-HHPRED: No functional hits above 90% Probability, Top Hit: 82% Probability

CDS complement (31967 - 32773)
  /gene="45"
  /product="gp45"
  /function="MazG-like nucleotide pyrophosphohydrolase"
  /locus tag="Janus167_45"
    /note=Original Glimmer call @bp 32773 has strength 16.4; Genemark calls start at 32773
    /note=SSC: 32773-31967 CP: yes SCS: both ST: SS BLAST-Start: [MazG-like nucleotide pyrophosphohydrolase [Microbacterium phage Figueroism]],,NCBI, q1:s1 100.0% 0.0 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.694, -3.1604619823777065, no F: MazG-like nucleotide pyrophosphohydrolase SIF-BLAST: ,,[MazG-like nucleotide pyrophosphohydrolase [Microbacterium phage Figueroism]],,UVD40600,100.0,0.0 SIF-HHPRED: MazG-like pyrophosphohydrolase (MazZ); S-2L, MazG-like pyrophosphohydrolase, MazZ, VIRAL PROTEIN; HET: MN, DGI, SO4; 1.43A {Cyanophage S-2L},,,7ODY_B,55.9701,98.0 SIF-Syn: No
    /note=Start: 32773
    /note=Gl/Gm Favored: Yes
    /note=Gap: -4
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 2.7 Final: -3.2 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: MazG-like nucleotide pyrophosphohydrolase, Figueroism, eval: 0, 100% Alignment
    /note=HIF-HHPRED: MazG-like pyrophosphohydrolase, Cyanophage S-2L, 7ODY_B, 98% Probability, 56% Coverage

CDS complement (32770 - 33495)
  /gene="46"
  /product="gp46"
  /function="hypothetical protein"
  /locus tag="Janus167_46"
    /note=Original Glimmer call @bp 33495 has strength 10.52; Genemark calls start at 33495
    /note=SSC: 33495-32770 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein FDJ36_gp45 [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 3.4668E-175 GAP: -23 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.476, -4.138145081942901, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein FDJ36_gp45 [Microbacterium phage Ilzat] ],,YP_009623209,99.5851,3.4668E-175 SIF-HHPRED: T3SS_needle_E ; Type III secretion system, cytoplasmic E component of needle,,,PF08988.13,21.1618,59.9 SIF-Syn: none
    /note=Start: 33495
    /note=Gl/Gm Favored: Both
    /note=Gap: -23
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 2.5 Final: -4.1 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: No functional hits with eval below e-7
    /note=HIF-HHPRED: No functional hits above 90%Probability, Top Hit: 60% Probability

CDS complement (33473 - 34072)
  /gene="47"
  /product="gp47"
  /function="thymidylate kinase"
  /locus tag="Janus167_47"
    /note=Original Glimmer call @bp 34072 has strength 15.74; Genemark calls start at 34072
    /note=SSC: 34072-33473 CP: yes SCS: both ST: SS BLAST-Start: [thymidylate kinase [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 6.52985E-144 GAP: 12 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.202, -2.0720764396375664, yes F: thymidylate kinase SIF-BLAST: ,,[thymidylate kinase [Microbacterium phage Ilzat] ],,YP_009623210,99.4975,6.52985E-144 SIF-HHPRED: Thymidylate kinase; TMK, kinase, thymidylate kinase, MRSA, pipiridine, transferase-transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp. aureus} SCOP: c.37.1.0,,,4HLC_B,64.3216,99.6 SIF-Syn: 
    /note=Start: 34072
    /note=Gl/Gm Favored: Both
    /note=Gap: 12
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 3.2 Final: -2.1 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: Thymidylate Kinase, Ilzat, eval:6.5e-144, 99.5% Alignment
    /note=HIF-HHPRED: Thymidylate Kinase, Staphylococcus auerus, 4HLC_B, 99.6% Probability, 64% Coverage

CDS complement (34085 - 35050)
  /gene="48"
  /product="gp48"
  /function="glycosyltransferase"
  /locus tag="Janus167_48"
    /note=Original Glimmer call @bp 35050 has strength 11.37; Genemark calls start at 35050
    /note=SSC: 35050-34085 CP: yes SCS: both ST: SS BLAST-Start: [glycosyltransferase [Microbacterium phage Papafritta]],,NCBI, q1:s1 100.0% 0.0 GAP: -8 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.979, -5.4589402468268435, no F: glycosyltransferase SIF-BLAST: ,,[glycosyltransferase [Microbacterium phage Papafritta]],,AXH48558,99.6885,0.0 SIF-HHPRED: UDP-galactofuranosyl transferase GlfT2; Galactofuranosyltransferase, CAZY GT-2 family, Glycosyltransferase, Carbohydrate binding, Membrane, TRANSFERASE; HET: GOL; 2.45A {Mycobacterium tuberculosis},,,4FIX_A,79.1277,99.2 SIF-Syn: Yes, downstream of thymidylate kinase
    /note=Start: 35050
    /note=Gl/Gm Favored: Both
    /note=Gap: -8
    /note=All CP: Yes
    /note=Most Annotated: NI
    /note=Most Conserved: NI
    /note=SD Z: 1.9 Final: -5.5 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: glycosyltransferase, Papafritta, 99.7% Alignment, eval: 0 
    /note=HIF-HHPRED: Glycosyltransferase, M. tuberculosis, 79% Coverage, 99.2% Identity

CDS complement (35043 - 35273)
  /gene="49"
  /product="gp49"
  /function="hypothetical protein"
  /locus tag="Janus167_49"
    /note=Original Glimmer call @bp 35174 has strength 9.92; Genemark calls start at 35273
    /note=SSC: 35273-35043 CP: yes SCS: both-gm ST: NI BLAST-Start: [hypothetical protein PAPAFRITTA_48 [Microbacterium phage Papafritta]],,NCBI, q1:s1 100.0% 2.27587E-50 GAP: 62 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.084, -4.325675514574479, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein PAPAFRITTA_48 [Microbacterium phage Papafritta]],,AXH48559,100.0,2.27587E-50 SIF-HHPRED: Protein prgH; FHA domain, CELL INVASION; 1.858A {Salmonella enterica subsp. enterica serovar Typhimurium},,,4G2S_A,31.5789,72.8 SIF-Syn: none
    /note=Start: 35273
    /note=Gl/Gm Favored: Glimmer
    /note=Gap: 62
    /note=All CP: Yes
    /note=Most Annotated: no but only 2 out of 4 annotated, is LOR
    /note=Most Conserved: no but only 2 out of 4 annotated, is LOR
    /note=SD Z: 2 Final: -4. Best Score: yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: No functional hits with eval below e-7
    /note=HIF-HHPRED: No functional hits above 90% Probability, Top Hit: 73% probability

CDS complement (35336 - 35632)
  /gene="50"
  /product="gp50"
  /function="membrane protein"
  /locus tag="Janus167_50"
    /note=Original Glimmer call @bp 35632 has strength 11.48; Genemark calls start at 35632
    /note=SSC: 35632-35336 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein FDJ36_gp49 [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 3.11631E-62 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.118, -2.253377680616507, yes F: membrane protein SIF-BLAST: ,,[hypothetical protein FDJ36_gp49 [Microbacterium phage Ilzat] ],,YP_009623213,100.0,3.11631E-62 SIF-HHPRED: DUF6479 ; Family of unknown function (DUF6479),,,PF20087.2,50.0,87.9 SIF-Syn: upstream of thymidylate synthase
    /note=Start: 35632
    /note=Gl/Gm Favored: Both
    /note=Gap: -4
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 3.1 Final: -2.3 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: Membrane Protein, Clancy, eval: 3.1e-62, 100% Alignment
    /note=HIF-HHPRED: No functional hits above 90% Probability, Top Hit: 88% Probability
    /note=Notes: Called Membrane Protein, 2 pieces of evidence from SOSUI and TmHmm

CDS complement (35629 - 36396)
  /gene="51"
  /product="gp51"
  /function="thymidylate synthase"
  /locus tag="Janus167_51"
    /note=Original Glimmer call @bp 36396 has strength 13.68; Genemark calls start at 36396
    /note=SSC: 36396-35629 CP: yes SCS: both ST: SS BLAST-Start: [thymidylate synthase [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 0.0 GAP: 119 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.963, -2.523003374675015, yes F: thymidylate synthase SIF-BLAST: ,,[thymidylate synthase [Microbacterium phage Ilzat] ],,YP_009623214,99.6078,0.0 SIF-HHPRED: Thymidylate synthase; structural genomics, PSI-Biology, Midwest Center for Structural Genomics, MCSG, Structures of Mtb Proteins Conferring Susceptibility to; HET: UMP; 2.71A {Staphylococcus aureus} SCOP: d.117.1.1,,,4DQ1_B,91.7647,100.0 SIF-Syn: Yes, Downstream of membrane protein
    /note=Start: 36396
    /note=Gl/Gm Favored: Both
    /note=Gap: 119
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 3.0 Final: -2.5 Best Score: Yes
    /note=Q1:s1: Yes 
    /note=HIF-BLAST: Thymidylate synthase, Ilzat, eval: 0, 99.6% Alignment
    /note=HIF-HHPRED: Thymidylate synthase, Staph. aureus, 4DQ1_B, 100% Probability, 92% Coverage

CDS complement (36516 - 36746)
  /gene="52"
  /product="gp52"
  /function="hypothetical protein"
  /locus tag="Janus167_52"
    /note=Original Glimmer call @bp 36728 has strength 9.65; Genemark calls start at 36728
    /note=SSC: 36746-36516 CP: yes SCS: both-cs ST: SS BLAST-Start: [hypothetical protein PBI_KNOX_52 [Microbacterium phage Knox] ],,NCBI, q1:s1 100.0% 2.30712E-48 GAP: 60 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.598, -6.672171187999036, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein PBI_KNOX_52 [Microbacterium phage Knox] ],,AUX83013,100.0,2.30712E-48 SIF-HHPRED: LRC5; phycobilisome, Complex, PHOTOSYNTHESIS; HET: CYC, PEB, MEN, PUB; 2.8A {Porphyridium purpureum},,,6KGX_3H,76.3158,67.4 SIF-Syn: none
    /note=Start: 36746
    /note=Gl/Gm Favored: Both
    /note=Gap: 60
    /note=All CP: Yes
    /note=Most Annotated: yes
    /note=Most Conserved: Yes
    /note=SD Z: 1.6 Final: -6.7 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: No functional hits with eval below e-7
    /note=HIF-HHPRED: No functional hits above 90% Probability, Top Hit: 67% Probability

CDS complement (36807 - 37031)
  /gene="53"
  /product="gp53"
  /function="hypothetical protein"
  /locus tag="Janus167_53"
    /note=Original Glimmer call @bp 37031 has strength 19.58; Genemark calls start at 37031
    /note=SSC: 37031-36807 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein FDJ36_gp52 [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 1.11884E-46 GAP: 64 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.118, -2.253377680616507, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein FDJ36_gp52 [Microbacterium phage Ilzat] ],,YP_009623216,100.0,1.11884E-46 SIF-HHPRED: Elongation Factor G; L11, EF-G, cryo-EM, 70S E.coli ribosome, GTP state, RIBOSOME; 18.0A {Escherichia coli} SCOP: i.1.1.1,,,1JQS_B,35.1351,49.2 SIF-Syn: 
    /note=Start: 37031
    /note=Gl/Gm Favored: Both
    /note=Gap: 64
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 3.1 Final: -2.3 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: No functional hits with eval below e-7
    /note=HIF-HHPRED: No functional hits above 90% Probability, Top Hit: 49% Probability

CDS complement (37096 - 37362)
  /gene="54"
  /product="gp54"
  /function="hypothetical protein"
  /locus tag="Janus167_54"
    /note=Original Glimmer call @bp 37362 has strength 19.59; Genemark calls start at 37362
    /note=SSC: 37362-37096 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein FDJ36_gp53 [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 3.90662E-53 GAP: 71 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.118, -2.1123791669543204, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein FDJ36_gp53 [Microbacterium phage Ilzat] ],,YP_009623217,100.0,3.90662E-53 SIF-HHPRED: COILED-COIL PEPTIDE CC-PIL; DE NOVO PROTEIN; HET: PHI; 1.59A {N/A},,,4DZN_A,30.6818,82.7 SIF-Syn: No
    /note=Start: 37362
    /note=Gl/Gm Favored: Both
    /note=Gap: 71
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 3.1 Final: -2.1 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: No functional hits with eval below e-7
    /note=HIF-HHPRED: No functional hits above 90% Probability, Top Hit: 83% Probability

CDS complement (37434 - 37730)
  /gene="55"
  /product="gp55"
  /function="hypothetical protein"
  /locus tag="Janus167_55"
    /note=Original Glimmer call @bp 37730 has strength 16.07; Genemark calls start at 37730
    /note=SSC: 37730-37434 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein PBI_POCKET_54 [Microbacterium phage Pocket] ],,NCBI, q1:s1 100.0% 6.92406E-63 GAP: 91 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.052, -2.253486910374644, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein PBI_POCKET_54 [Microbacterium phage Pocket] ],,QFG09850,98.9796,6.92406E-63 SIF-HHPRED: HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, Coiled-coil, post-transcriptional, Gene Regulation, Chaperone; HET: EPE; 2.2A {Helicobacter pylori},,,3NA7_A,81.6327,97.4 SIF-Syn: No
    /note=Start: 37730
    /note=Gl/Gm Favored: Both
    /note=Gap: 91
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 3.1 Final: -2.3 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: No functional hits with eval below e-7
    /note=HIF-HHPRED: Zn-ribbon, H.pylori, 3NA7_A, 97% Probability, 82% Coverage, plus other zinc finger domain hits
    /note=Conserved domain hit with zinc finger domain

CDS complement (37822 - 38016)
  /gene="56"
  /product="gp56"
  /function="hypothetical protein"
  /locus tag="Janus167_56"
    /note=Original Glimmer call @bp 38016 has strength 14.88; Genemark calls start at 38016
    /note=SSC: 38016-37822 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein FDJ36_gp55 [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 2.01918E-39 GAP: 38 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.686, -5.830816207622988, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein FDJ36_gp55 [Microbacterium phage Ilzat] ],,YP_009623219,100.0,2.01918E-39 SIF-HHPRED: a.247.1.1 (A:11-107) Hypothetical protein YoaC {Salmonella typhimurium [TaxId: 90371]} | CLASS: All alpha proteins, FOLD: YoaC-like, SUPFAM: YoaC-like, FAM: YoaC-like,,,SCOP_d2es9a1,73.4375,92.1 SIF-Syn: No
    /note=Start: 38016
    /note=Gl/Gm Favored: Both
    /note=Gap: 38
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 1.7 Final: -5.8 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: No functional hits with eval below e-7
    /note=HIF-HHPRED: No functional hits above 90% Probability, top hit with SCOP hit to hypothetical Salmonella protein with 92% probability and 73% coverage

CDS complement (38055 - 38360)
  /gene="57"
  /product="gp57"
  /function="hypothetical protein"
  /locus tag="Janus167_57"
    /note=Original Glimmer call @bp 38183 has strength 19.04; Genemark calls start at 38360
    /note=SSC: 38360-38055 CP: yes SCS: both-gm ST: NA BLAST-Start: [hypothetical protein FDJ36_gp56 [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 3.1241E-67 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.008, -5.0156772593681485, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein FDJ36_gp56 [Microbacterium phage Ilzat] ],,YP_009623220,100.0,3.1241E-67 SIF-HHPRED: DUF3015 ; Protein of unknown function (DUF3015),,,PF11220.11,31.6832,64.2 SIF-Syn: No
    /note=Start: 38360
    /note=Gl/Gm Favored: None
    /note=Gap: -4
    /note=All CP: Yes
    /note=Most Annotated: does not have most annotated
    /note=Most Conserved: only 6 in pham
    /note=SD Z: 2.0 Final: -5.0 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: No functional hits with eval below e-7
    /note=HIF-HHPRED: No functional hits above 90% Probability, Top Hit: 64% Probability

CDS complement (38357 - 38548)
  /gene="58"
  /product="gp58"
  /function="hypothetical protein"
  /locus tag="Janus167_58"
    /note=Original Glimmer call @bp 38548 has strength 7.78; Genemark calls start at 38548
    /note=SSC: 38548-38357 CP: yes SCS: both ST: NI BLAST-Start: [hypothetical protein PBI_AUBERGINE_57 [Microbacterium phage Aubergine] ],,NCBI, q1:s1 100.0% 4.40922E-38 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.776, -5.047808595116427, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein PBI_AUBERGINE_57 [Microbacterium phage Aubergine] ],,AUX82644,100.0,4.40922E-38 SIF-HHPRED: NPHI_C ; Nucleoside triphosphatase I C-terminal,,,PF08469.13,17.4603,72.1 SIF-Syn: No
    /note=Start: 38548
    /note=Gl/Gm Favored: Yes
    /note=Gap: -4
    /note=All CP: Yes
    /note=Most Annotated: No but our start called 48% of the time
    /note=Most Conserved: NI
    /note=SD Z: -1.8 Final: -5.1 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: No functional hits with eval below e-7
    /note=HIF-HHPRED: No functional hits above 90% Probability, Top Hit: 72% Probability

CDS complement (38545 - 39276)
  /gene="59"
  /product="gp59"
  /function="hypothetical protein"
  /locus tag="Janus167_59"
    /note=Original Glimmer call @bp 39276 has strength 15.12; Genemark calls start at 39276
    /note=SSC: 39276-38545 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein FDJ36_gp58 [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 1.47485E-175 GAP: 93 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.052, -2.253486910374644, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein FDJ36_gp58 [Microbacterium phage Ilzat] ],,YP_009623222,100.0,1.47485E-175 SIF-HHPRED: Histone_HNS ; H-NS histone family,,,PF00816.24,16.8724,79.1 SIF-Syn: No
    /note=Start: 39276
    /note=Gl/Gm Favored: Both
    /note=Gap: 93
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 3.1 Final: -2.3 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: No functional hits with eval below e-7
    /note=HIF-HHPRED: No functional hits above 90% Probability, top functional hit has 79% prob

CDS complement (39370 - 39756)
  /gene="60"
  /product="gp60"
  /function="hypothetical protein"
  /locus tag="Janus167_60"
    /note=Original Glimmer call @bp 39708 has strength 19.78; Genemark calls start at 39756
    /note=SSC: 39756-39370 CP: yes SCS: both-gm ST: SS BLAST-Start: [hypothetical protein FDJ36_gp59 [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 1.44371E-88 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.418, -3.9616183113819163, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein FDJ36_gp59 [Microbacterium phage Ilzat] ],,YP_009623223,100.0,1.44371E-88 SIF-HHPRED: Ribulose bisphosphate carboxylase/oxygenase activase; alpha-beta structure, Rubisco, CHAPERONE; 1.38A {Nostoc sp. (strain PCC 7120 / SAG 25.82 / UTEX 2576)},,,6HAS_A,30.4688,51.8 SIF-Syn: none
    /note=Start: 39756
    /note=Gl/Gm Favored: Genemark
    /note=Gap: -4
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 2.4 Final: -4.0 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: No functional hits with eval below e-7
    /note=HIF-HHPRED: No functional hits above 90% Probability, Top Hit: 52% Probability

CDS complement (39753 - 40112)
  /gene="61"
  /product="gp61"
  /function="hypothetical protein"
  /locus tag="Janus167_61"
    /note=Original Glimmer call @bp 40010 has strength 8.64; Genemark calls start at 40112
    /note=SSC: 40112-39753 CP: yes SCS: both-gm ST: SS BLAST-Start: [hypothetical protein FDJ36_gp60 [Microbacterium phage Ilzat] ],,NCBI, q1:s1 100.0% 2.73855E-78 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.506, -6.393143906827662, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein FDJ36_gp60 [Microbacterium phage Ilzat] ],,YP_009623224,100.0,2.73855E-78 SIF-HHPRED: SMALL GLUTAMINE-RICH TETRATRICOPEPTIDE REPEAT- CONTAINING PROTEIN 2; CHAPERONE-SIGNALING PROTEIN COMPLEX; 1.803A {SACCHAROMYCES CEREVISIAE},,,3ZDM_B,35.2941,79.5 SIF-Syn: none
    /note=Start: 40112
    /note=Gl/Gm Favored: Genemark
    /note=Gap: -4
    /note=All CP: Yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 1.5 Final: -6.4 Best Score: No
    /note=Q1:s1: Yes
    /note=HIF-BLAST: No functional hits with eval below e-7
    /note=HIF-HHPRED: No functional hits above 90% Probability, Top Hit: 80% Probability

CDS complement (40109 - 40342)
  /gene="62"
  /product="gp62"
  /function="hypothetical protein"
  /locus tag="Janus167_62"
    /note=Original Glimmer call @bp 40291 has strength 2.81; Genemark calls start at 40342
    /note=SSC: 40342-40109 CP: yes SCS: both-gm ST: SS BLAST-Start: [hypothetical protein H3N90_gp62 [Microbacterium phage Teagan] ],,NCBI, q1:s1 100.0% 4.90317E-50 GAP: 560 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.906, -4.848494831654203, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein H3N90_gp62 [Microbacterium phage Teagan] ],,YP_009908764,100.0,4.90317E-50 SIF-HHPRED: PDI_a_APS_reductase; PDIa family, 5`-Adenylylsulfate (APS) reductase subfamily; composed of plant-type APS reductases containing a C-terminal redox active TRX domain and an N-terminal reductase domain which is part of a superfamily that includes N type ATP PPases.,,,cd02993,51.9481,61.6 SIF-Syn: none
    /note=Start: 40342
    /note=Gl/Gm Favored: Genemark
    /note=Gap: 560
    /note=All CP: yes
    /note=Most Annotated: Yes
    /note=Most Conserved: Yes
    /note=SD Z: 1.9 Final: -4.8 Best Score: Yes
    /note=Q1:s1: yes
    /note=HIF-BLAST: No functional hits with eval below e-7
    /note=HIF-HHPRED: No functional hits above 90%, Top Hit: 62% Probability

CDS 40903 - 41346
  /gene="63"
  /product="gp63"
  /function="hypothetical protein"
  /locus tag="Janus167_63"
    /note=Original Glimmer call @bp 40903 has strength 12.58; Genemark calls start at 40705
    /note=SSC: 40903-41346 CP: yes SCS: both-gl ST: SS BLAST-Start: [hypothetical protein SEA_DEN3_63 [Microbacterium phage Den3]],,NCBI, q1:s1 100.0% 2.67005E-99 GAP: 560 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.963, -2.442961286954254, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_DEN3_63 [Microbacterium phage Den3]],,QDP44053,100.0,2.67005E-99 SIF-HHPRED: Glyco_hydro_65C ; Glycosyl hydrolase family 65, C-terminal domain,,,PF03633.18,19.7279,39.0 SIF-Syn: none
    /note=Start: 40903
    /note=Gl/Gm Favored: Glimmer only
    /note=Gap: 560
    /note=All CP: Yes
    /note=Most Annotated: yes
    /note=Most Conserved: Yes
    /note=SD Z: 3.0 Final: -2.4 Best Score: Yes
    /note=Q1:s1: Yes
    /note=HIF-BLAST: No functional hits with eval below e-7
    /note=HIF-HHPRED: No functional hits above 90% Probability, Top Hit: 39% Probability