CDS 385 - 624
  /gene="1"
  /product="gp1"
  /function="membrane protein"
  /locus tag="Uzumaki_1"
    /note=Original Glimmer call @bp 385 has strength 0.22; Genemark calls start at 385
    /note=SSC: 385-624 CP: yes SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_GIANTSBANE_52 [Arthrobacter phage Giantsbane]],,NCBI, q1:s1 92.4051% 6.33542E-19 GAP: 0 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.777, -5.619697951461639, no F: membrane protein SIF-BLAST: ,,[hypothetical protein SEA_GIANTSBANE_52 [Arthrobacter phage Giantsbane]],,QGZ17256,70.0,6.33542E-19 SIF-HHPRED:  SIF-Syn: 
    /note=Weaking coding potential. Glimmer and GM call start 3, but Zenia calls start 1, which has no coding potential to support it. Giantsbane calls start 3.

CDS 721 - 1098
  /gene="2"
  /product="gp2"
  /function="hypothetical protein"
  /locus tag="Uzumaki_2"
    /note=Original Glimmer call @bp 721 has strength 9.76; Genemark calls start at 721
    /note=SSC: 721-1098 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein PBI_STAYER_2 [Arthrobacter phage Stayer] ],,NCBI, q1:s1 100.0% 6.71953E-51 GAP: 96 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.454, -3.670670413150579, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein PBI_STAYER_2 [Arthrobacter phage Stayer] ],,QFG09297,81.5385,6.71953E-51 SIF-HHPRED:  SIF-Syn: Same synteny as Zeina
    /note=Same as Zeina

CDS 1088 - 1498
  /gene="3"
  /product="gp3"
  /function="HNH endonuclease"
  /locus tag="Uzumaki_3"
    /note=Original Glimmer call @bp 1088 has strength 5.53; Genemark calls start at 1082
    /note=SSC: 1088-1498 CP: yes SCS: both-gl ST: SS BLAST-Start: [HNH endonuclease [Arthrobacter phage Shepard]],,NCBI, q3:s2 98.5294% 1.56951E-58 GAP: -11 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.464, -3.712290173411778, yes F: HNH endonuclease SIF-BLAST: ,,[HNH endonuclease [Arthrobacter phage Shepard]],,QFG13612,74.8148,1.56951E-58 SIF-HHPRED: HNH endonuclease; Thermophilic bacteriophage, HNH Endonuclease, DNA nicking, HYDROLASE; 1.52A {Geobacillus virus E2},,,5H0M_A,56.6176,98.6 SIF-Syn: Same as Zeina
    /note=Same as Zeina

CDS 1520 - 2500
  /gene="4"
  /product="gp4"
  /function="lysin A"
  /locus tag="Uzumaki_4"
    /note=Original Glimmer call @bp 1520 has strength 7.49; Genemark calls start at 1520
    /note=SSC: 1520-2500 CP: yes SCS: both ST: SS BLAST-Start: [lysin A [Arthrobacter phage Stayer] ],,NCBI, q1:s1 99.6933% 3.78071E-125 GAP: 21 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.283, -1.9310779259753799, yes F: lysin A SIF-BLAST: ,,[lysin A [Arthrobacter phage Stayer] ],,QFG09299,63.9257,3.78071E-125 SIF-HHPRED: Endolysin; amidase-2 domain, HYDROLASE; HET: ZN; 2.27A {Staphylococcus phage GH15},,,4OLS_A,58.2822,99.7 SIF-Syn: Same synteny as Zeina
    /note=Same as Zeina

CDS 2501 - 2665
  /gene="5"
  /product="gp5"
  /function="membrane protein"
  /locus tag="Uzumaki_5"
    /note=Original Glimmer call @bp 2501 has strength 6.78; Genemark calls start at 2501
    /note=SSC: 2501-2665 CP: yes SCS: both ST: SS BLAST-Start:  GAP: 0 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.43, -3.8010267367911315, yes F: membrane protein SIF-BLAST:  SIF-HHPRED:  SIF-Syn: 
    /note=membrane protein prediction in both TmHmm and SOSUI

CDS 2658 - 3029
  /gene="6"
  /product="gp6"
  /function="hypothetical protein"
  /locus tag="Uzumaki_6"
    /note=Original Glimmer call @bp 2658 has strength 6.55; Genemark calls start at 2658
    /note=SSC: 2658-3029 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_TOKKI_5 [Arthrobacter phage Tokki]],,NCBI, q1:s1 100.0% 9.41836E-46 GAP: -8 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.43, -3.720984649070371, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_TOKKI_5 [Arthrobacter phage Tokki]],,UGL63234,74.7967,9.41836E-46 SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Same as Zeina

CDS 3002 - 3496
  /gene="7"
  /product="gp7"
  /function="hypothetical protein"
  /locus tag="Uzumaki_7"
    /note=Original Glimmer call @bp 3002 has strength 8.99; Genemark calls start at 3002
    /note=SSC: 3002-3496 CP: yes SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_TOKKI_6 [Arthrobacter phage Tokki]],,NCBI, q1:s1 99.3902% 1.14008E-22 GAP: -28 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.628, -3.95820260462814, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_TOKKI_6 [Arthrobacter phage Tokki]],,UGL63235,55.3571,1.14008E-22 SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Same as Zeina. The selected start has a 28 bp overlap, but is the strongest RBS score. This start has several manual annotations, as does the start at 3050. GM coding capacity is strong right at 3000, so selecting the 3050 start would not cover all coding capacity. This is a judgement call, but I think 3002 is the best choice here.

CDS 3513 - 5246
  /gene="8"
  /product="gp8"
  /function="terminase"
  /locus tag="Uzumaki_8"
    /note=Original Glimmer call @bp 3513 has strength 10.22; Genemark calls start at 3513
    /note=SSC: 3513-5246 CP: yes SCS: both ST: SS BLAST-Start: [terminase large subunit [Gordonia phage Secretariat] ],,NCBI, q1:s1 100.0% 0.0 GAP: 16 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.272, -2.0949393225970705, yes F: terminase SIF-BLAST: ,,[terminase large subunit [Gordonia phage Secretariat] ],,YP_009859423,89.673,0.0 SIF-HHPRED: Terminase large subunit; genome packaging, bacteriophage, ATPase, nuclease, VIRAL PROTEIN; HET: BR; 2.2A {Enterobacteria phage HK97},,,6Z6D_A,90.2946,100.0 SIF-Syn: Same as Zeina
    /note=Same as Zeina

CDS 5436 - 6092
  /gene="9"
  /product="gp9"
  /function="hypothetical protein"
  /locus tag="Uzumaki_9"
    /note=Original Glimmer call @bp 5436 has strength 15.77; Genemark calls start at 5436
    /note=SSC: 5436-6092 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein PBI_STAYER_10 [Arthrobacter phage Stayer] ],,NCBI, q1:s1 99.5413% 5.56995E-41 GAP: 189 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.283, -2.45827804503836, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein PBI_STAYER_10 [Arthrobacter phage Stayer] ],,QFG09305,57.0136,5.56995E-41 SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Same as Zeina

CDS 6094 - 6642
  /gene="10"
  /product="gp10"
  /function="acetyltransferase"
  /locus tag="Uzumaki_10"
    /note=Original Glimmer call @bp 6094 has strength 11.42; Genemark calls start at 6094
    /note=SSC: 6094-6642 CP: yes SCS: both ST: SS BLAST-Start: [acetyltransferase [Arthrobacter phage Giantsbane]],,NCBI, q5:s6 97.8022% 1.1226E-75 GAP: 1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.224, -6.252785163514522, no F: acetyltransferase SIF-BLAST: ,,[acetyltransferase [Arthrobacter phage Giantsbane]],,QGZ17214,75.9563,1.1226E-75 SIF-HHPRED: Putative acetyltransferase; Alpha Beta, Alpha and Beta Proteins (a+b), N-acetyltransferase activity, TRANSFERASE; 2.0A {Streptococcus mutans} SCOP: d.108.1.0,,,4E2A_B,56.5934,99.7 SIF-Syn: Same as Zeina
    /note=Same as Zeina

CDS 6671 - 7981
  /gene="11"
  /product="gp11"
  /function="portal protein"
  /locus tag="Uzumaki_11"
    /note=Original Glimmer call @bp 6671 has strength 10.94; Genemark calls start at 6671
    /note=SSC: 6671-7981 CP: yes SCS: both ST: SS BLAST-Start: [portal protein [Microbacterium phage Count]],,NCBI, q1:s1 99.7706% 0.0 GAP: 28 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.111, -3.1993478425474327, yes F: portal protein SIF-BLAST: ,,[portal protein [Microbacterium phage Count]],,AWN03340,77.551,0.0 SIF-HHPRED: Phage portal protein, HK97 family; "neck", "portal", "capsid", "tail tube", VIRUS; 3.58A {Rhodobacter capsulatus},,,6TE9_A,77.7523,100.0 SIF-Syn: Same as Zeina
    /note=Same as Zeina
    /note=A.S 4/27

CDS 7981 - 8712
  /gene="12"
  /product="gp12"
  /function="hypothetical protein"
  /locus tag="Uzumaki_12"
    /note=Original Glimmer call @bp 7981 has strength 12.54; Genemark calls start at 7981
    /note=SSC: 7981-8712 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_TOKKI_13 [Arthrobacter phage Tokki]],,NCBI, q13:s9 94.6502% 1.50192E-37 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 0.952, -6.886825842194078, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_TOKKI_13 [Arthrobacter phage Tokki]],,UGL63242,54.918,1.50192E-37 SIF-HHPRED:  SIF-Syn: 

CDS 8736 - 10892
  /gene="13"
  /product="gp13"
  /function="major capsid and protease fusion protein"
  /locus tag="Uzumaki_13"
    /note=Original Glimmer call @bp 8736 has strength 15.66; Genemark calls start at 8736
    /note=SSC: 8736-10892 CP: yes SCS: both ST: SS BLAST-Start: [major capsid and protease fusion protein [Arthrobacter phage Stayer] ],,NCBI, q5:s2 99.4429% 0.0 GAP: 23 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.039, -3.748312656400878, no F: major capsid and protease fusion protein SIF-BLAST: ,,[major capsid and protease fusion protein [Arthrobacter phage Stayer] ],,QFG09308,75.1037,0.0 SIF-HHPRED: L_lactis_ph-MCP ; Lactococcus lactis bacteriophage major capsid protein,,,PF06673.14,33.4262,99.9 SIF-Syn: Same as Egad
    /note=Same as Egad. Function call consistent with guidance from SEA-PHAGE forum for AU phages.

CDS 10907 - 11239
  /gene="14"
  /product="gp14"
  /function="hypothetical protein"
  /locus tag="Uzumaki_14"
    /note=Original Glimmer call @bp 10907 has strength 6.0; Genemark calls start at 10907
    /note=SSC: 10907-11239 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_KARDESAI_12 [Arthrobacter phage Kardesai]],,NCBI, q1:s1 99.0909% 1.05596E-39 GAP: 14 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.143, -4.975913734906325, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_KARDESAI_12 [Arthrobacter phage Kardesai]],,QXO12919,74.7748,1.05596E-39 SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Starterator Report, LORF, RBS score, Genemark, and Glimmer all provide sufficient evidence for the start at 10907

CDS 11214 - 11516
  /gene="15"
  /product="gp15"
  /function="hypothetical protein"
  /locus tag="Uzumaki_15"
    /note=Original Glimmer call @bp 11214 has strength 1.98; Genemark calls start at 11214
    /note=SSC: 11214-11516 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_HOTFRIES_10 [Streptomyces phage HotFries] ],,NCBI, q3:s4 98.0% 1.05886E-37 GAP: -26 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.386, -4.164901013602904, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_HOTFRIES_10 [Streptomyces phage HotFries] ],,AWN05178,77.0,1.05886E-37 SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Weak coding potential for the entire gene. The predicted start has many manual annotations, but also a 28bp overlap. Others have called tail-terminator for this gene, but we feel the evidence is not compelling enough to do so here, even though the gene is the same as those who have called it tail-terminator. Looking at official functions list, tail terminator needs to match HHPRED hits - SPP1 (5A21) and Lambda U (3FZ2). While these do appear as HHPRED hits, their match is weak (> 0.05). We are leaving this as no known function.

CDS 11527 - 12393
  /gene="16"
  /product="gp16"
  /function="major tail protein"
  /locus tag="Uzumaki_16"
    /note=Original Glimmer call @bp 11527 has strength 9.73; Genemark calls start at 11527
    /note=SSC: 11527-12393 CP: no SCS: both ST: SS BLAST-Start: [major tail protein [Arthrobacter phage Tokki]],,NCBI, q1:s1 100.0% 1.12764E-139 GAP: 10 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.386, -3.8761054743559344, yes F: major tail protein SIF-BLAST: ,,[major tail protein [Arthrobacter phage Tokki]],,UGL63246,79.2388,1.12764E-139 SIF-HHPRED: Phage_TTP_1 ; Phage tail tube protein,,,PF04630.15,64.9306,100.0 SIF-Syn: 

CDS 12416 - 12988
  /gene="17"
  /product="gp17"
  /function="hypothetical protein"
  /locus tag="Uzumaki_17"
    /note=Original Glimmer call @bp 12416 has strength 6.09; Genemark calls start at 12416
    /note=SSC: 12416-12988 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_QUI_32 [Arthrobacter phage Qui] ],,NCBI, q1:s1 100.0% 3.15581E-64 GAP: 22 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.272, -2.0949393225970705, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_QUI_32 [Arthrobacter phage Qui] ],,QED11522,71.978,3.15581E-64 SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Same as Zeina

CDS 13006 - 15192
  /gene="18"
  /product="gp18"
  /function="hypothetical protein"
  /locus tag="Uzumaki_18"
    /note=Original Glimmer call @bp 13006 has strength 9.43; Genemark calls start at 13006
    /note=SSC: 13006-15192 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_TATANKA_20 [Arthrobacter phage Tatanka]],,NCBI, q1:s1 38.1868% 8.01801E-44 GAP: 17 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.176, -2.6835611257758942, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_TATANKA_20 [Arthrobacter phage Tatanka]],,AXC38646,58.4559,8.01801E-44 SIF-HHPRED:  SIF-Syn: 
    /note=this is an orpham, but the N-terminal region of the gene is similar to gp18 of Zeina, which is a minor tail protein. HHPRED hits lipases and cell wall binding motifs support this as a tail protein as does synteny. However, we`re not confident enough to call it a minor tail protein.

CDS 15357 - 16349
  /gene="19"
  /product="gp19"
  /function="minor tail protein"
  /locus tag="Uzumaki_19"
    /note=Original Glimmer call @bp 15357 has strength 7.35; Genemark calls start at 15357
    /note=SSC: 15357-16349 CP: no SCS: both ST: SS BLAST-Start: [minor tail protein [Arthrobacter phage Tatanka]],,NCBI, q1:s1 99.697% 1.38355E-55 GAP: 164 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.197, -2.17469248771465, yes F: minor tail protein SIF-BLAST: ,,[minor tail protein [Arthrobacter phage Tatanka]],,AXC38647,56.4669,1.38355E-55 SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Same as Zeina. Synteny supports calling this minor tail protein.

CDS 16361 - 17194
  /gene="20"
  /product="gp20"
  /function="minor tail protein"
  /locus tag="Uzumaki_20"
    /note=Original Glimmer call @bp 16361 has strength 6.47; Genemark calls start at 16361
    /note=SSC: 16361-17194 CP: yes SCS: both ST: SS BLAST-Start: [minor tail protein [Arthrobacter phage Shepard]],,NCBI, q1:s1 100.0% 2.96976E-48 GAP: 11 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.283, -1.993391246735709, yes F: minor tail protein SIF-BLAST: ,,[minor tail protein [Arthrobacter phage Shepard]],,QFG13633,49.375,2.96976E-48 SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Same as Zeina, Exact same pham as gene 19.

CDS 17208 - 17339
  /gene="21"
  /product="gp21"
  /function="hypothetical protein"
  /locus tag="Uzumaki_21"
    /note=Original Glimmer call @bp 17208 has strength 11.02; Genemark calls start at 17208
    /note=SSC: 17208-17339 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_PRAIRIE_33 [Arthrobacter phage Prairie]],,NCBI, q1:s1 95.3488% 1.14651E-14 GAP: 13 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.142, -4.97781437024576, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_PRAIRIE_33 [Arthrobacter phage Prairie]],,QTF82130,79.0698,1.14651E-14 SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Same as Zeina
    /note=A.S 4/27

CDS 17375 - 18172
  /gene="22"
  /product="gp22"
  /function="major tail protein"
  /locus tag="Uzumaki_22"
    /note=Original Glimmer call @bp 17375 has strength 9.32; Genemark calls start at 17375
    /note=SSC: 17375-18172 CP: yes SCS: both ST: SS BLAST-Start: [major tail protein [Arthrobacter phage Paella]],,NCBI, q1:s1 100.0% 2.50824E-111 GAP: 35 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.272, -1.953940808934884, yes F: major tail protein SIF-BLAST: ,,[major tail protein [Arthrobacter phage Paella]],,QOC56355,76.03,2.50824E-111 SIF-HHPRED: Phage_TTP_1 ; Phage tail tube protein,,,PF04630.15,68.6792,99.9 SIF-Syn: Same as Paella
    /note=Same as  Paella
    /note=A.S 4/27

CDS 18185 - 19108
  /gene="23"
  /product="gp23"
  /function="hypothetical protein"
  /locus tag="Uzumaki_23"
    /note=Original Glimmer call @bp 18185 has strength 8.79; Genemark calls start at 18185
    /note=SSC: 18185-19108 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_QUI_34 [Arthrobacter phage Qui] ],,NCBI, q1:s1 100.0% 2.15724E-37 GAP: 12 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.272, -2.033982896655645, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_QUI_34 [Arthrobacter phage Qui] ],,QED11524,66.6667,2.15724E-37 SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Same as Zeina
    /note=A.S 4/27

CDS 19108 - 19419
  /gene="24"
  /product="gp24"
  /function="hypothetical protein"
  /locus tag="Uzumaki_24"
    /note=Original Glimmer call @bp 19108 has strength 8.66; Genemark calls start at 19108
    /note=SSC: 19108-19419 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_MAKAI_24 [Arthrobacter phage Makai] ],,NCBI, q1:s1 99.0291% 4.56888E-18 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.708, -4.045504852447161, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_MAKAI_24 [Arthrobacter phage Makai] ],,QFP95416,61.2613,4.56888E-18 SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Checked by VP 4/27

CDS 19441 - 19824
  /gene="25"
  /product="gp25"
  /function="hypothetical protein"
  /locus tag="Uzumaki_25"
    /note=Original Glimmer call @bp 19441 has strength 3.24; Genemark calls start at 19441
    /note=SSC: 19441-19824 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein FDH69_gp25 [Arthrobacter phage Gordon] ],,NCBI, q1:s1 100.0% 1.49835E-48 GAP: 21 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.343, -3.90407005001345, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein FDH69_gp25 [Arthrobacter phage Gordon] ],,YP_009603486,81.1024,1.49835E-48 SIF-HHPRED:  SIF-Syn: same as Zeina
    /note=Same as Zeina. there is no strong evidence that it can be minor tail protein.

CDS 19821 - 24458
  /gene="26"
  /product="gp26"
  /function="tape measure protein"
  /locus tag="Uzumaki_26"
    /note=Original Glimmer call @bp 19821 has strength 7.85; Genemark calls start at 19800
    /note=SSC: 19821-24458 CP: yes SCS: both-gl ST: SS BLAST-Start: [tape measure protein [Arthrobacter phage Sporto]],,NCBI, q1:s1 99.6116% 0.0 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.608, -4.255672789525901, no F: tape measure protein SIF-BLAST: ,,[tape measure protein [Arthrobacter phage Sporto]],,QFG09132,70.5805,0.0 SIF-HHPRED: Tape Measure Protein, gp57; phage tail, tail tip, tape measure protein, VIRAL PROTEIN; 3.7A {Staphylococcus virus 80alpha},,,6V8I_AF,5.56634,99.9 SIF-Syn: Same as Zeina
    /note=same as Zeina

CDS 24442 - 25278
  /gene="27"
  /product="gp27"
  /function="minor tail protein"
  /locus tag="Uzumaki_27"
    /note=Original Glimmer call @bp 24442 has strength 10.24; Genemark calls start at 24442
    /note=SSC: 24442-25278 CP: yes SCS: both ST: SS BLAST-Start: [minor tail protein [Arthrobacter phage Qui] ],,NCBI, q1:s1 100.0% 1.91821E-88 GAP: -17 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.532, -4.16062280240617, no F: minor tail protein SIF-BLAST: ,,[minor tail protein [Arthrobacter phage Qui] ],,QED11531,69.534,1.91821E-88 SIF-HHPRED: Distal Tail Protein, gp58; phage tail, tail tip, tape measure protein, VIRAL PROTEIN; 3.7A {Staphylococcus virus 80alpha},,,6V8I_BD,97.8417,100.0 SIF-Syn: Same as zeina
    /note=Same as zeina (Checked by Alex)

CDS 25279 - 26442
  /gene="28"
  /product="gp28"
  /function="minor tail protein"
  /locus tag="Uzumaki_28"
    /note=Original Glimmer call @bp 25279 has strength 7.38; Genemark calls start at 25279
    /note=SSC: 25279-26442 CP: yes SCS: both ST: SS BLAST-Start: [minor tail protein [Arthrobacter phage Qui] ],,NCBI, q1:s1 100.0% 1.74442E-161 GAP: 0 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.618, -3.4685663819143713, no F: minor tail protein SIF-BLAST: ,,[minor tail protein [Arthrobacter phage Qui] ],,QED11532,73.1959,1.74442E-161 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,92.7649,99.8 SIF-Syn: Same as Zeina
    /note=Checked by VP 4/27

CDS 26458 - 26694
  /gene="29"
  /product="gp29"
  /function="hypothetical protein"
  /locus tag="Uzumaki_29"
    /note=Original Glimmer call @bp 26458 has strength 7.04; Genemark calls start at 26458
    /note=SSC: 26458-26694 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_QUI_43 [Arthrobacter phage Qui] ],,NCBI, q1:s1 100.0% 3.31755E-34 GAP: 15 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.272, -1.953940808934884, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_QUI_43 [Arthrobacter phage Qui] ],,QED11533,83.3333,3.31755E-34 SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Checked by VP 4/27

CDS 26694 - 27101
  /gene="30"
  /product="gp30"
  /function="hypothetical protein"
  /locus tag="Uzumaki_30"
    /note=Original Glimmer call @bp 26799 has strength 1.18; Genemark calls start at 26799
    /note=SSC: 26694-27101 CP: no SCS: both-cs ST: NI BLAST-Start: [hypothetical protein SEA_QUI_44 [Arthrobacter phage Qui] ],,NCBI, q3:s4 97.7778% 9.73165E-62 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.231, -6.317717280514785, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_QUI_44 [Arthrobacter phage Qui] ],,QED11534,80.1471,9.73165E-62 SIF-HHPRED:  SIF-Syn: Same  as zeina
    /note=Same as zeina
    /note=Start site is unclear as there is not much coding potential at selected start site.

CDS 27109 - 27555
  /gene="31"
  /product="gp31"
  /function="membrane protein"
  /locus tag="Uzumaki_31"
    /note=Original Glimmer call @bp 27052 has strength 5.48; Genemark calls start at 27076
    /note=SSC: 27109-27555 CP: yes SCS: both-cs ST: NI BLAST-Start: [hypothetical protein [Planctomycetaceae bacterium]],,NCBI, q21:s10 81.0811% 3.8435E-23 GAP: 7 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.664, -3.580897435031301, no F: membrane protein SIF-BLAST: ,,[hypothetical protein [Planctomycetaceae bacterium]],,MBX3435924,60.7407,3.8435E-23 SIF-HHPRED:  SIF-Syn: 
    /note=This is a tricky start call. Zeina calls start #1, but this is not consistent with other members of the pham. Coding potential isn`t super clear either. order 4 CP starts just at 27000, but order 2 starts sharply at 27100. Start #1, creates a 50 bp overlap with previous gene. Other members of the pham are shorter gene products than the one created by start #1, which is more consistent with the selection of start 27109 (start 3) as the choice. However, there aren`t any good NCBI blast matches that have start sites matching 1:1. We are selecting start 3 (27109) because 1: it does not introduce a significant overlap, 2: consistent with gene lengths of other members of the pham, but its not a clear and obvious call.
    /note= A.S 4/27

CDS 27562 - 27825
  /gene="32"
  /product="gp32"
  /function="membrane protein"
  /locus tag="Uzumaki_32"
    /note=Original Glimmer call @bp 27562 has strength 1.83; Genemark calls start at 27562
    /note=SSC: 27562-27825 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein PBI_STAYER_29 [Arthrobacter phage Stayer] ],,NCBI, q1:s1 94.2529% 1.56309E-13 GAP: 6 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.176, -2.5074698667202133, yes F: membrane protein SIF-BLAST: ,,[hypothetical protein PBI_STAYER_29 [Arthrobacter phage Stayer] ],,QFG09324,57.5758,1.56309E-13 SIF-HHPRED:  SIF-Syn: 
    /note=A.S 4/27

CDS 27836 - 28222
  /gene="33"
  /product="gp33"
  /function="holin"
  /locus tag="Uzumaki_33"
    /note=Original Glimmer call @bp 27836 has strength 6.33; Genemark calls start at 27836
    /note=SSC: 27836-28222 CP: yes SCS: both ST: SS BLAST-Start: [holin [Streptomyces phage SendItCS] ],,NCBI, q2:s4 93.75% 5.26757E-15 GAP: 10 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.272, -2.033982896655645, yes F: holin SIF-BLAST: ,,[holin [Streptomyces phage SendItCS] ],,AWN06129,52.8,5.26757E-15 SIF-HHPRED: Phage_holin_Dp1 ; Putative phage holin Dp-1,,,PF16938.8,47.6562,99.9 SIF-Syn: Same as Zeina
    /note=Same as Zeina.
    /note=A.S 4/27

CDS 28281 - 28574
  /gene="34"
  /product="gp34"
  /function="hypothetical protein"
  /locus tag="Uzumaki_34"
    /note=Original Glimmer call @bp 28281 has strength 8.35; Genemark calls start at 28281
    /note=SSC: 28281-28574 CP: no SCS: both ST: SS BLAST-Start: [hypothetical protein [Actinomycetia bacterium]],,NCBI, q7:s3 93.8144% 1.35849E-13 GAP: 58 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.272, -2.0162541296952132, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein [Actinomycetia bacterium]],,MCA1806542,61.9565,1.35849E-13 SIF-HHPRED:  SIF-Syn: Same as zeina
    /note=Same as zeina
    /note=Maybe start site can change as there is no coding potential but then again there is no strong evidence about that

CDS 28904 - 29104
  /gene="35"
  /product="gp35"
  /function="hypothetical protein"
  /locus tag="Uzumaki_35"
    /note=Original Glimmer call @bp 28904 has strength 7.52; Genemark calls start at 28904
    /note=SSC: 28904-29104 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_QUI_59 [Arthrobacter phage Qui] ],,NCBI, q2:s3 98.4848% 2.59922E-12 GAP: 329 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.176, -2.2364030944336752, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_QUI_59 [Arthrobacter phage Qui] ],,QED11549,58.9041,2.59922E-12 SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Same as Zeina
    /note=A.S 4/27

CDS 29214 - 29453
  /gene="36"
  /product="gp36"
  /function="hypothetical protein"
  /locus tag="Uzumaki_36"
    /note=Original Glimmer call @bp 29214 has strength 12.79; Genemark calls start at 29166
    /note=SSC: 29214-29453 CP: yes SCS: both-gl ST: SS BLAST-Start: [hypothetical protein PBI_STAYER_36 [Arthrobacter phage Stayer] ],,NCBI, q1:s1 98.7342% 5.02415E-12 GAP: 109 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.039, -2.442961286954254, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein PBI_STAYER_36 [Arthrobacter phage Stayer] ],,QFG09331,65.8228,5.02415E-12 SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Same as Zeina. Many manual annotations for our chosen start site.
    /note=A.S 4/27

CDS 29511 - 29654
  /gene="37"
  /product="gp37"
  /function="membrane protein"
  /locus tag="Uzumaki_37"
    /note=Original Glimmer call @bp 29511 has strength 11.11; Genemark calls start at 29511
    /note=SSC: 29511-29654 CP: yes SCS: both ST: SS BLAST-Start:  GAP: 57 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.973, -2.723328252647382, yes F: membrane protein SIF-BLAST:  SIF-HHPRED:  SIF-Syn: 
    /note=A.S 4/27

CDS 29883 - 30041
  /gene="38"
  /product="gp38"
  /function="membrane protein"
  /locus tag="Uzumaki_38"
    /note=Original Glimmer call @bp 29883 has strength 4.02; Genemark calls start at 29883
    /note=SSC: 29883-30041 CP: yes SCS: both ST: SS BLAST-Start: [membrane protein [Microbacterium phage GardenState]],,NCBI, q7:s2 75.0% 0.0450674 GAP: 228 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.841, -3.5113798064032244, yes F: membrane protein SIF-BLAST: ,,[membrane protein [Microbacterium phage GardenState]],,QOI66966,60.4651,0.0450674 SIF-HHPRED:  SIF-Syn: 
    /note=membrane protein called based on TmHmm and SOSUI results.

CDS 30028 - 30789
  /gene="39"
  /product="gp39"
  /function="hypothetical protein"
  /locus tag="Uzumaki_39"
    /note=Original Glimmer call @bp 30028 has strength 6.6; Genemark calls start at 30028
    /note=SSC: 30028-30789 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_NIGHTMARE_41 [Arthrobacter phage Nightmare]],,NCBI, q1:s1 99.2095% 6.7831E-79 GAP: -14 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.99, -5.17338398269729, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_NIGHTMARE_41 [Arthrobacter phage Nightmare]],,ASM62317,67.5889,6.7831E-79 SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Clear coding potential and support for predicted start by starterator. No known function.

CDS 30796 - 31170
  /gene="40"
  /product="gp40"
  /function="hypothetical protein"
  /locus tag="Uzumaki_40"
    /note=Original Glimmer call @bp 30796 has strength 7.88; Genemark calls start at 30796
    /note=SSC: 30796-31170 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein BI184_gp41 [Arthrobacter phage Mudcat] ],,NCBI, q1:s1 92.7419% 1.56573E-32 GAP: 6 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.279, -4.867305349060101, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein BI184_gp41 [Arthrobacter phage Mudcat] ],,YP_009300730,70.2479,1.56573E-32 SIF-HHPRED: DUF1599 ; Nucleotide modification associated domain 1,,,PF07659.14,58.0645,99.3 SIF-Syn: Same as Mudcat
    /note=Same as Mudcat
    /note=A.S 4/27

CDS 31163 - 31378
  /gene="41"
  /product="gp41"
  /function="hypothetical protein"
  /locus tag="Uzumaki_41"
    /note=Original Glimmer call @bp 31163 has strength 10.03; Genemark calls start at 31163
    /note=SSC: 31163-31378 CP: yes SCS: both ST: SS BLAST-Start:  GAP: -8 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.039, -3.095100142625534, yes F: hypothetical protein SIF-BLAST:  SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Same as Zeina

CDS 31442 - 31642
  /gene="42"
  /product="gp42"
  /function="hypothetical protein"
  /locus tag="Uzumaki_42"
    /note=Original Glimmer call @bp 31442 has strength 8.48; Genemark calls start at 31442
    /note=SSC: 31442-31642 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_CORREA_44 [Arthrobacter phage Correa] ],,NCBI, q1:s1 60.6061% 0.0145886 GAP: 63 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.176, -2.156361006712914, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_CORREA_44 [Arthrobacter phage Correa] ],,ASR80105,39.0625,0.0145886 SIF-HHPRED:  SIF-Syn: 

CDS 31702 - 32049
  /gene="43"
  /product="gp43"
  /function="hypothetical protein"
  /locus tag="Uzumaki_43"
    /note=Original Glimmer call @bp 31702 has strength 9.28; Genemark calls start at 31702
    /note=SSC: 31702-32049 CP: yes SCS: both ST: NI BLAST-Start: [DUF6275 family protein [Pseudarthrobacter sp. NIBRBAC000502771] ],,NCBI, q25:s7 79.1304% 4.50599E-20 GAP: 59 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.792, -3.0425830684175623, yes F: hypothetical protein SIF-BLAST: ,,[DUF6275 family protein [Pseudarthrobacter sp. NIBRBAC000502771] ],,WP_141158268,66.2791,4.50599E-20 SIF-HHPRED: DUF6275 ; Family of unknown function (DUF6275),,,PF19791.2,75.6522,100.0 SIF-Syn: Same as Zeina
    /note=Same as Zeina

CDS 32072 - 32194
  /gene="44"
  /product="gp44"
  /function="hypothetical protein"
  /locus tag="Uzumaki_44"
    /note=Original Glimmer call @bp 32072 has strength 10.36; Genemark calls start at 32036
    /note=SSC: 32072-32194 CP: yes SCS: both-gl ST: SS BLAST-Start:  GAP: 22 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.039, -2.794070146961553, yes F: hypothetical protein SIF-BLAST:  SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Same as Zeina

CDS 32211 - 32744
  /gene="45"
  /product="gp45"
  /function="hypothetical protein"
  /locus tag="Uzumaki_45"
    /note=Original Glimmer call @bp 32211 has strength 16.43; Genemark calls start at 32211
    /note=SSC: 32211-32744 CP: yes SCS: both ST: SS BLAST-Start: [TPA: MAG TPA: hypothetical protein [Siphoviridae sp.]],,NCBI, q1:s1 74.0113% 9.19393E-26 GAP: 16 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.142, -4.6767843745817785, no F: hypothetical protein SIF-BLAST: ,,[TPA: MAG TPA: hypothetical protein [Siphoviridae sp.]],,DAJ72066,56.4286,9.19393E-26 SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Same as Zeina

CDS 32889 - 33236
  /gene="46"
  /product="gp46"
  /function="hypothetical protein"
  /locus tag="Uzumaki_46"
    /note=Original Glimmer call @bp 32889 has strength 13.27; Genemark calls start at 32889
    /note=SSC: 32889-33236 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein PBI_SPORTO_46 [Arthrobacter phage Sporto]],,NCBI, q15:s12 66.087% 3.57158E-7 GAP: 144 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.542, -3.5676719685030167, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein PBI_SPORTO_46 [Arthrobacter phage Sporto]],,QFG09154,50.5494,3.57158E-7 SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Same as Zeina

CDS 33233 - 33454
  /gene="47"
  /product="gp47"
  /function="membrane protein"
  /locus tag="Uzumaki_47"
    /note=Original Glimmer call @bp 33233 has strength 4.72; Genemark calls start at 33233
    /note=SSC: 33233-33454 CP: no SCS: both ST: SS BLAST-Start:  GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.74, -3.2123487306667524, yes F: membrane protein SIF-BLAST:  SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Same as Zeina. Membrane protein predicted by TmHmm and SOSUI.

CDS 33429 - 33545
  /gene="48"
  /product="gp48"
  /function="membrane protein"
  /locus tag="Uzumaki_48"
    /note=Original Glimmer call @bp 33429 has strength 4.25; Genemark calls start at 33447
    /note=SSC: 33429-33545 CP: yes SCS: both-gl ST: SS BLAST-Start: [hypothetical protein SEA_TRIBBY_53 [Arthrobacter phage Tribby]],,NCBI, q6:s2 84.2105% 2.5763E-8 GAP: -26 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.551, -4.77228768972975, no F: membrane protein SIF-BLAST: ,,[hypothetical protein SEA_TRIBBY_53 [Arthrobacter phage Tribby]],,ASR80504,87.8788,2.5763E-8 SIF-HHPRED:  SIF-Syn: 
    /note=Membrane protein predicted by TmHmm and SOSUI

CDS 33548 - 34216
  /gene="49"
  /product="gp49"
  /function="hypothetical protein"
  /locus tag="Uzumaki_49"
    /note=Original Glimmer call @bp 33548 has strength 8.01; Genemark calls start at 33548
    /note=SSC: 33548-34216 CP: yes SCS: both ST: SS BLAST-Start: [gp067 [Rhodococcus phage ReqiPoco6] ],,NCBI, q17:s3 90.5405% 1.09464E-43 GAP: 2 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.132, -4.487636275856737, no F: hypothetical protein SIF-BLAST: ,,[gp067 [Rhodococcus phage ReqiPoco6] ],,YP_009012648,58.2222,1.09464E-43 SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Same as Zeina

CDS 34378 - 34530
  /gene="50"
  /product="gp50"
  /function="hypothetical protein"
  /locus tag="Uzumaki_50"
    /note=Original Glimmer call @bp 34378 has strength 1.42
    /note=SSC: 34378-34530 CP: yes SCS: glimmer ST: SS BLAST-Start:  GAP: 161 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.088, -6.601703937454487, no F: hypothetical protein SIF-BLAST:  SIF-HHPRED:  SIF-Syn: Same as zeina
    /note=Same as zeina

CDS 34540 - 34803
  /gene="51"
  /product="gp51"
  /function="membrane protein"
  /locus tag="Uzumaki_51"
    /note=Original Glimmer call @bp 34540 has strength 5.53; Genemark calls start at 34540
    /note=SSC: 34540-34803 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein PBI_INGRID_53 [Arthrobacter phage Ingrid] ],,NCBI, q41:s1 50.5747% 2.72913E-9 GAP: 9 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.283, -2.0111200136961407, yes F: membrane protein SIF-BLAST: ,,[hypothetical protein PBI_INGRID_53 [Arthrobacter phage Ingrid] ],,QFG08727,77.2727,2.72913E-9 SIF-HHPRED:  SIF-Syn: 
    /note=Protein length doesn`t match 1:1 with NCBI Blast hits, but this is because Uzumaki and Zenia don`t have the most commonly called start site.

CDS 34796 - 34993
  /gene="52"
  /product="gp52"
  /function="hypothetical protein"
  /locus tag="Uzumaki_52"
    /note=Original Glimmer call @bp 34796 has strength 2.34; Genemark calls start at 34796
    /note=SSC: 34796-34993 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_QUI_103 [Arthrobacter phage Qui] ],,NCBI, q1:s1 93.8462% 2.35476E-18 GAP: -8 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.111, -2.6430453417801454, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_QUI_103 [Arthrobacter phage Qui] ],,QED11593,68.254,2.35476E-18 SIF-HHPRED:  SIF-Syn: 
    /note=NCBI shows hypothetical protein

CDS 34990 - 35898
  /gene="53"
  /product="gp53"
  /function="hypothetical protein"
  /locus tag="Uzumaki_53"
    /note=Original Glimmer call @bp 34990 has strength 10.79; Genemark calls start at 34990
    /note=SSC: 34990-35898 CP: yes SCS: both ST: SS BLAST-Start: [Uncharacterised protein [uncultured Blautia sp.]],,NCBI, q1:s1 99.0066% 5.29175E-84 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.943, -2.707694805492614, yes F: hypothetical protein SIF-BLAST: ,,[Uncharacterised protein [uncultured Blautia sp.]],,VEJ95857,65.4839,5.29175E-84 SIF-HHPRED: DUF6353 ; Family of unknown function (DUF6353),,,PF19880.2,91.3907,100.0 SIF-Syn: 

CDS 35934 - 36110
  /gene="54"
  /product="gp54"
  /function="hypothetical protein"
  /locus tag="Uzumaki_54"
    /note=Original Glimmer call @bp 35934 has strength 13.09; Genemark calls start at 35934
    /note=SSC: 35934-36110 CP: yes SCS: both ST: SS BLAST-Start:  GAP: 35 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.142, -4.97781437024576, yes F: hypothetical protein SIF-BLAST:  SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Same as Zeina
    /note=A.S 4/27

CDS 36107 - 36823
  /gene="55"
  /product="gp55"
  /function="hypothetical protein"
  /locus tag="Uzumaki_55"
    /note=Original Glimmer call @bp 36107 has strength 9.66; Genemark calls start at 36107
    /note=SSC: 36107-36823 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_QUI_107 [Arthrobacter phage Qui] ],,NCBI, q1:s1 99.5798% 1.89635E-16 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.562, -4.352843561762387, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_QUI_107 [Arthrobacter phage Qui] ],,QED11597,51.4056,1.89635E-16 SIF-HHPRED:  SIF-Syn: 

CDS 36820 - 37383
  /gene="56"
  /product="gp56"
  /function="hypothetical protein"
  /locus tag="Uzumaki_56"
    /note=Original Glimmer call @bp 36928 has strength 5.66; Genemark calls start at 36928
    /note=SSC: 36820-37383 CP: yes SCS: both-cs ST: SS BLAST-Start: [hypothetical protein PBI_EGAD_55 [Arthrobacter phage Egad] ],,NCBI, q1:s1 97.3262% 5.31907E-55 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.622, -3.31900957015528, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein PBI_EGAD_55 [Arthrobacter phage Egad] ],,QFG10199,67.7419,5.31907E-55 SIF-HHPRED:  SIF-Syn: same as Zeina
    /note=Same as Zeina

CDS 37406 - 41239
  /gene="57"
  /product="gp57"
  /function="DNA primase/polymerase"
  /locus tag="Uzumaki_57"
    /note=Original Glimmer call @bp 37406 has strength 8.62; Genemark calls start at 37496
    /note=SSC: 37406-41239 CP: yes SCS: both-gl ST: SS BLAST-Start: [DNA polymerase/primase [Arthrobacter phage CaptnMurica] ],,NCBI, q1:s1 99.9217% 0.0 GAP: 22 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.378, -3.8308929311341546, no F: DNA primase/polymerase SIF-BLAST: ,,[DNA polymerase/primase [Arthrobacter phage CaptnMurica] ],,YP_009603427,81.0976,0.0 SIF-HHPRED: DNA polymerase delta catalytic subunit; Protein, REPLICATION; HET: TTP, DOC; 3.08A {Homo sapiens},,,6TNY_A,51.1355,100.0 SIF-Syn: Same as Zeina
    /note=Checked by VP 4/27

CDS 41239 - 41418
  /gene="58"
  /product="gp58"
  /function="hypothetical protein"
  /locus tag="Uzumaki_58"
    /note=Original Glimmer call @bp 41239 has strength 10.83; Genemark calls start at 41239
    /note=SSC: 41239-41418 CP: yes SCS: both ST: SS BLAST-Start:  GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.239, -5.728774177464096, no F: hypothetical protein SIF-BLAST:  SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Checked by VP 4/27

CDS 41418 - 41543
  /gene="59"
  /product="gp59"
  /function="hypothetical protein"
  /locus tag="Uzumaki_59"
    /note=Original Glimmer call @bp 41418 has strength 1.58; Genemark calls start at 41418
    /note=SSC: 41418-41543 CP: yes SCS: both ST: SS BLAST-Start:  GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.612, -4.2479250502251915, yes F: hypothetical protein SIF-BLAST:  SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Checked by VP 4/27

CDS 41543 - 41785
  /gene="60"
  /product="gp60"
  /function="hypothetical protein"
  /locus tag="Uzumaki_60"
    /note=Original Glimmer call @bp 41642 has strength 6.17; Genemark calls start at 41543
    /note=SSC: 41543-41785 CP: no SCS: both-gm ST: SS BLAST-Start:  GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.58, -3.488131341317348, yes F: hypothetical protein SIF-BLAST:  SIF-HHPRED:  SIF-Syn: same as zeina
    /note=Same as Zeina

CDS 41775 - 42089
  /gene="61"
  /product="gp61"
  /function="hypothetical protein"
  /locus tag="Uzumaki_61"
    /note=Original Glimmer call @bp 41775 has strength 9.32; Genemark calls start at 41775
    /note=SSC: 41775-42089 CP: yes SCS: both ST: SS BLAST-Start:  GAP: -11 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.789, -3.0301037898918786, yes F: hypothetical protein SIF-BLAST:  SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Same as Zeina

CDS 42089 - 42250
  /gene="62"
  /product="gp62"
  /function="hypothetical protein"
  /locus tag="Uzumaki_62"
    /note=Original Glimmer call @bp 42089 has strength 10.13; Genemark calls start at 42089
    /note=SSC: 42089-42250 CP: yes SCS: both ST: SS BLAST-Start:  GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 0.67, -7.4774537397358, no F: hypothetical protein SIF-BLAST:  SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Checked by VP 4/27

CDS 42263 - 42850
  /gene="63"
  /product="gp63"
  /function="hypothetical protein"
  /locus tag="Uzumaki_63"
    /note=Original Glimmer call @bp 42263 has strength 13.25; Genemark calls start at 42263
    /note=SSC: 42263-42850 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein FDH69_gp58 [Arthrobacter phage Gordon] ],,NCBI, q1:s1 94.359% 1.90467E-49 GAP: 12 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.187, -2.274496637415597, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein FDH69_gp58 [Arthrobacter phage Gordon] ],,YP_009603519,66.4921,1.90467E-49 SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Checked by VP 4/27 
    /note=HHPred calls for "Phage related protein"  on different hosts

CDS 42857 - 43123
  /gene="64"
  /product="gp64"
  /function="hypothetical protein"
  /locus tag="Uzumaki_64"
    /note=Original Glimmer call @bp 42878 has strength 1.49; Genemark calls start at 42857
    /note=SSC: 42857-43123 CP: yes SCS: both-gm ST: SS BLAST-Start: [hypothetical protein [Streptomyces sp. CS014]],,NCBI, q1:s5 93.1818% 8.63665E-8 GAP: 6 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.683, -6.1971024208175916, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein [Streptomyces sp. CS014]],,WP_109196234,41.8367,8.63665E-8 SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Same as Zeina

CDS 43123 - 43404
  /gene="65"
  /product="gp65"
  /function="hypothetical protein"
  /locus tag="Uzumaki_65"
    /note=Original Glimmer call @bp 43123 has strength 3.92; Genemark calls start at 43123
    /note=SSC: 43123-43404 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein FDH68_gp63 [Arthrobacter phage CaptnMurica] ],,NCBI, q1:s1 98.9247% 8.79219E-17 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.649, -5.501485936053402, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein FDH68_gp63 [Arthrobacter phage CaptnMurica] ],,YP_009603436,60.0,8.79219E-17 SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Checked by VP 4/27

CDS 43404 - 43739
  /gene="66"
  /product="gp66"
  /function="hypothetical protein"
  /locus tag="Uzumaki_66"
    /note=Original Glimmer call @bp 43404 has strength 0.34; Genemark calls start at 43404
    /note=SSC: 43404-43739 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein PBI_SPORTO_64 [Arthrobacter phage Sporto]],,NCBI, q17:s10 57.6577% 5.27279E-5 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.74, -4.37670158645119, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein PBI_SPORTO_64 [Arthrobacter phage Sporto]],,QFG09169,48.1928,5.27279E-5 SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Checked by VP 4/27

CDS 43739 - 44179
  /gene="67"
  /product="gp67"
  /function="hypothetical protein"
  /locus tag="Uzumaki_67"
    /note=Original Glimmer call @bp 43739 has strength 8.51; Genemark calls start at 43739
    /note=SSC: 43739-44179 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein GBF35_25855 [Nonomuraea nitratireducens]],,NCBI, q1:s1 76.7123% 1.18844E-38 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.943, -3.1725816037952645, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein GBF35_25855 [Nonomuraea nitratireducens]],,QFY14483,69.4915,1.18844E-38 SIF-HHPRED:  SIF-Syn: same as zeina
    /note=Same as Zeina
    /note=A.S 4/27

CDS 44179 - 44292
  /gene="68"
  /product="gp68"
  /function="hypothetical protein"
  /locus tag="Uzumaki_68"
    /note=Original Glimmer call @bp 44179 has strength 12.09; Genemark calls start at 44179
    /note=SSC: 44179-44292 CP: yes SCS: both ST: SS BLAST-Start:  GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.74, -3.0713502170045657, yes F: hypothetical protein SIF-BLAST:  SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Checked by VP 4/27

CDS 44292 - 44579
  /gene="69"
  /product="gp69"
  /function="PnuC-like Nicotinamide riboside transporter"
  /locus tag="Uzumaki_69"
    /note=Original Glimmer call @bp 44292 has strength 3.02; Genemark calls start at 44292
    /note=SSC: 44292-44579 CP: yes SCS: both ST: SS BLAST-Start: [membrane protein [Arthrobacter phage Truckee]],,NCBI, q1:s3 85.2632% 1.16853E-29 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.83, -3.0228743540871426, yes F: PnuC-like Nicotinamide riboside transporter SIF-BLAST: ,,[membrane protein [Arthrobacter phage Truckee]],,QPX62531,27.4678,1.16853E-29 SIF-HHPRED: NMN_transporter ; Nicotinamide mononucleotide transporter,,,PF04973.15,73.6842,99.5 SIF-Syn: Same as Zeina
    /note=Checked by VP 4/27

CDS 44675 - 45166
  /gene="70"
  /product="gp70"
  /function="HNH endonuclease"
  /locus tag="Uzumaki_70"
    /note=Original Glimmer call @bp 44675 has strength 6.63; Genemark calls start at 44672
    /note=SSC: 44675-45166 CP: yes SCS: both-gl ST: SS BLAST-Start: [homing endonuclease [Arthrobacter phage Sporto]],,NCBI, q1:s1 99.3865% 1.16665E-39 GAP: 95 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.322, -4.028824818920689, no F: HNH endonuclease SIF-BLAST: ,,[homing endonuclease [Arthrobacter phage Sporto]],,QFG09176,61.2121,1.16665E-39 SIF-HHPRED: HNH homing endonuclease; HNH catalytic motif, Helix-turn-helix DNA binding domain, protein-DNA complex, DNA binding protein-DNA COMPLEX; HET: EDO; 2.92A {Bacillus phage SPO1} SCOP: d.4.1.3, d.285.1.1,,,1U3E_M,98.1595,100.0 SIF-Syn: Same as Zeina from AU6 cluster.
    /note=Start site changed to 44,675 from 44,672 (Checked by Alex)

CDS 45263 - 45418
  /gene="71"
  /product="gp71"
  /function="hypothetical protein"
  /locus tag="Uzumaki_71"
    /note=Original Glimmer call @bp 45263 has strength 5.09; Genemark calls start at 45263
    /note=SSC: 45263-45418 CP: yes SCS: both ST: SS BLAST-Start:  GAP: 96 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.381, -6.830096380064466, no F: hypothetical protein SIF-BLAST:  SIF-HHPRED:  SIF-Syn: Same as Zeina
    /note=Checked by VP 4/27

CDS 45440 - 45559
  /gene="72"
  /product="gp72"
  /function="hypothetical protein"
  /locus tag="Uzumaki_72"
    /note=
    /note=SSC: 45440-45559 CP: no SCS: neither ST: NA BLAST-Start:  GAP: 21 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.189, -7.632501001713461, no F: hypothetical protein SIF-BLAST:  SIF-HHPRED:  SIF-Syn: 
    /note=This gene was in a large gap that has weak GM coding potential for three putative genes. After looking closely, we decided to call this gene. The next one is a -4 start, and the one after this was called in other phages. That said, the evidence for this gene is borderline.

CDS 45556 - 45699
  /gene="73"
  /product="gp73"
  /function="hypothetical protein"
  /locus tag="Uzumaki_73"
    /note=
    /note=SSC: 45556-45699 CP: yes SCS: neither ST: NA BLAST-Start:  GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.539, -6.642181763633265, no F: hypothetical protein SIF-BLAST:  SIF-HHPRED:  SIF-Syn: 
    /note=Weak but real GM coding capacity for this gene, which was not originally called by Glimmer or GM. We decided to call the gene when investigating a large gap, where this is one of three genes we called in the region.

CDS 45687 - 45845
  /gene="74"
  /product="gp74"
  /function="hypothetical protein"
  /locus tag="Uzumaki_74"
    /note=
    /note=SSC: 45687-45845 CP: no SCS: neither ST: NA BLAST-Start: [hypothetical protein SEA_QUI_229 [Arthrobacter phage Qui] ],,NCBI, q1:s1 69.2308% 1.1241E-9 GAP: -13 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.132, -4.408951082954879, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_QUI_229 [Arthrobacter phage Qui] ],,QED11717,48.2143,1.1241E-9 SIF-HHPRED:  SIF-Syn: 
    /note=Not originally called by Glimmer or GM. We found this by investigating a large gap, which has three weak regions of GM coding potential. This is the third gene we called in this gap, and was also called in Zeina and a couple of other phages.

CDS 45845 - 47092
  /gene="75"
  /product="gp75"
  /function="DNA helicase"
  /locus tag="Uzumaki_75"
    /note=Original Glimmer call @bp 45845 has strength 4.86; Genemark calls start at 45845
    /note=SSC: 45845-47092 CP: yes SCS: both ST: SS BLAST-Start: [DNA helicase [Arthrobacter phage Qui] ],,NCBI, q1:s1 97.5904% 0.0 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.1, -3.222210725506937, yes F: DNA helicase SIF-BLAST: ,,[DNA helicase [Arthrobacter phage Qui] ],,QED11629,83.5749,0.0 SIF-HHPRED: DNA excision repair protein ERCC-6; transcription, DNA repair;{Sus scrofa},,,7OO3_b,96.8675,100.0 SIF-Syn: Same as Zeina
    /note=Checked by VP 4/27

CDS 47064 - 47411
  /gene="76"
  /product="gp76"
  /function="hypothetical protein"
  /locus tag="Uzumaki_76"
    /note=Original Glimmer call @bp 47064 has strength 6.07; Genemark calls start at 47064
    /note=SSC: 47064-47411 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_MAKAI_77 [Arthrobacter phage Makai] ],,NCBI, q70:s8 40.0% 4.48124E-5 GAP: -29 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.792, -3.0248543014571307, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_MAKAI_77 [Arthrobacter phage Makai] ],,QFP95468,61.5385,4.48124E-5 SIF-HHPRED:  SIF-Syn: Same as Makai from AU5 cluster.
    /note=Checked by VP 4/27

CDS 47411 - 47572
  /gene="77"
  /product="gp77"
  /function="hypothetical protein"
  /locus tag="Uzumaki_77"
    /note=
    /note=SSC: 47411-47572 CP: yes SCS: neither ST: NA BLAST-Start:  GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.746, -5.238109312333945, yes F: hypothetical protein SIF-BLAST:  SIF-HHPRED: DUF2614 ; Zinc-ribbon containing domain,,,PF11023.11,45.283,98.5 SIF-Syn: 
    /note=Not originally called by Glimmer or GM. We found this gene by investigating the gap, which has weak GM coding potential.

CDS 47572 - 47928
  /gene="78"
  /product="gp78"
  /function="HNH endonuclease"
  /locus tag="Uzumaki_78"
    /note=Original Glimmer call @bp 47572 has strength 7.88; Genemark calls start at 47572
    /note=SSC: 47572-47928 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_QUI_230 [Arthrobacter phage Qui] ],,NCBI, q1:s1 100.0% 8.63764E-16 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.279, -4.56627535339612, yes F: HNH endonuclease SIF-BLAST: ,,[hypothetical protein SEA_QUI_230 [Arthrobacter phage Qui] ],,QED11718,63.0252,8.63764E-16 SIF-HHPRED: d.4.1.3 (M:1-105) Intron-encoded homing endonuclease I-HmuI {Bacteriophage SPO1 [TaxId: 10685]},,,d1u3em1,53.3898,99.5 SIF-Syn: Same as Zeina from AU6 cluster.
    /note=Checked by VP 4/27

CDS 47925 - 48260
  /gene="79"
  /product="gp79"
  /function="membrane protein"
  /locus tag="Uzumaki_79"
    /note=Original Glimmer call @bp 47925 has strength 2.43; Genemark calls start at 47925
    /note=SSC: 47925-48260 CP: yes SCS: both ST: SS BLAST-Start:  GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.414, -3.8970005018578204, no F: membrane protein SIF-BLAST:  SIF-HHPRED:  SIF-Syn: 
    /note=A.S 4/27

CDS 48257 - 48595
  /gene="80"
  /product="gp80"
  /function="hypothetical protein"
  /locus tag="Uzumaki_80"
    /note=Original Glimmer call @bp 48257 has strength 9.4; Genemark calls start at 48257
    /note=SSC: 48257-48595 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_QUI_238 [Arthrobacter phage Qui]],,NCBI, q1:s1 71.4286% 5.39365E-7 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.899, -4.976656753876107, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_QUI_238 [Arthrobacter phage Qui]],,QED11726,40.1639,5.39365E-7 SIF-HHPRED:  SIF-Syn: Paella
    /note=NCBI blast calling for Hypothetical protein function
    /note=A.S 4/27

CDS 48596 - 48835
  /gene="81"
  /product="gp81"
  /function="hypothetical protein"
  /locus tag="Uzumaki_81"
    /note=Original Glimmer call @bp 48596 has strength 6.42; Genemark calls start at 48596
    /note=SSC: 48596-48835 CP: yes SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MAKAI_78 [Arthrobacter phage Makai] ],,NCBI, q17:s6 79.7468% 0.0318798 GAP: 0 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.964, -5.0518135660984065, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_MAKAI_78 [Arthrobacter phage Makai] ],,QFP95469,35.9551,0.0318798 SIF-HHPRED:  SIF-Syn: Same as Zeina from AU6 cluster.
    /note=same as zeina (Checked by Alex)

CDS 48832 - 49182
  /gene="82"
  /product="gp82"
  /function="hypothetical protein"
  /locus tag="Uzumaki_82"
    /note=Original Glimmer call @bp 48832 has strength 4.08; Genemark calls start at 48832
    /note=SSC: 48832-49182 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_QUI_230 [Arthrobacter phage Qui] ],,NCBI, q3:s1 97.4138% 6.51796E-6 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.792, -3.4897410997597818, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_QUI_230 [Arthrobacter phage Qui] ],,QED11718,49.5798,6.51796E-6 SIF-HHPRED:  SIF-Syn: Same as Paella from FK cluster.
    /note=(checked by Alex)

CDS 49182 - 49328
  /gene="83"
  /product="gp83"
  /function="hypothetical protein"
  /locus tag="Uzumaki_83"
    /note=Original Glimmer call @bp 49182 has strength 7.85; Genemark calls start at 49182
    /note=SSC: 49182-49328 CP: yes SCS: both ST: SS BLAST-Start:  GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.658, -4.151529987991346, yes F: hypothetical protein SIF-BLAST:  SIF-HHPRED:  SIF-Syn: Same as Paella from FK cluster.
    /note=Checked by Alex

CDS 49321 - 50100
  /gene="84"
  /product="gp84"
  /function="HNH endonuclease"
  /locus tag="Uzumaki_84"
    /note=Original Glimmer call @bp 49321 has strength 8.9; Genemark calls start at 49321
    /note=SSC: 49321-50100 CP: yes SCS: both ST: SS BLAST-Start: [HNH endonuclease [Arthrobacter phage MediumFry]],,NCBI, q4:s1 81.4672% 3.50457E-43 GAP: -8 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.283, -2.45827804503836, yes F: HNH endonuclease SIF-BLAST: ,,[HNH endonuclease [Arthrobacter phage MediumFry]],,AXH44618,52.0492,3.50457E-43 SIF-HHPRED: HNH homing endonuclease; HNH catalytic motif, Helix-turn-helix DNA binding domain, protein-DNA complex, DNA binding protein-DNA COMPLEX; HET: EDO; 2.92A {Bacillus phage SPO1} SCOP: d.4.1.3, d.285.1.1,,,1U3E_M,36.2934,99.5 SIF-Syn: Same as Zeina from AU6 cluster.
    /note=A.S 4/27

CDS 50090 - 50362
  /gene="85"
  /product="gp85"
  /function="hypothetical protein"
  /locus tag="Uzumaki_85"
    /note=Original Glimmer call @bp 50090 has strength 4.18; Genemark calls start at 50090
    /note=SSC: 50090-50362 CP: yes SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_QUI_232 [Arthrobacter phage Qui]],,NCBI, q5:s17 95.5556% 7.61841E-4 GAP: -11 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.943, -3.1725816037952645, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_QUI_232 [Arthrobacter phage Qui]],,QED11720,39.0909,7.61841E-4 SIF-HHPRED:  SIF-Syn: Same as Paella from FK cluster.
    /note=A.S 4/27

CDS 50346 - 50585
  /gene="86"
  /product="gp86"
  /function="membrane protein"
  /locus tag="Uzumaki_86"
    /note=Original Glimmer call @bp 50346 has strength 5.02; Genemark calls start at 50346
    /note=SSC: 50346-50585 CP: yes SCS: both ST: NI BLAST-Start:  GAP: -17 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.708, -3.200406812432904, yes F: membrane protein SIF-BLAST:  SIF-HHPRED:  SIF-Syn: 
    /note=Checked by Alex

CDS 50566 - 50802
  /gene="87"
  /product="gp87"
  /function="hypothetical protein"
  /locus tag="Uzumaki_87"
    /note=Original Glimmer call @bp 50566 has strength 5.05; Genemark calls start at 50566
    /note=SSC: 50566-50802 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_QUI_166 [Arthrobacter phage Qui] ],,NCBI, q12:s9 84.6154% 6.58069E-11 GAP: -20 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.039, -2.5052746077145835, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_QUI_166 [Arthrobacter phage Qui] ],,QED11654,52.3256,6.58069E-11 SIF-HHPRED:  SIF-Syn: Same as Paella from FK cluster
    /note=Checked by Alex

CDS 50799 - 51023
  /gene="88"
  /product="gp88"
  /function="HNH endonuclease"
  /locus tag="Uzumaki_88"
    /note=Original Glimmer call @bp 50799 has strength 5.54; Genemark calls start at 50799
    /note=SSC: 50799-51023 CP: yes SCS: both ST: SS BLAST-Start: [HNH endonuclease [Arthrobacter phage Qui] ],,NCBI, q11:s84 81.0811% 2.5454E-11 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.886, -2.9063687850157054, yes F: HNH endonuclease SIF-BLAST: ,,[HNH endonuclease [Arthrobacter phage Qui] ],,QED11677,27.2109,2.5454E-11 SIF-HHPRED: d.4.1.3 (M:1-105) Intron-encoded homing endonuclease I-HmuI {Bacteriophage SPO1 [TaxId: 10685]},,,d1u3em1,83.7838,99.7 SIF-Syn: Same as Paella from FK cluster.
    /note=Starterator report not found. (Checked by Alex)

CDS 51465 - 51782
  /gene="89"
  /product="gp89"
  /function="VRR-Nuc domain protein"
  /locus tag="Uzumaki_89"
    /note=Original Glimmer call @bp 51465 has strength 1.4; Genemark calls start at 51444
    /note=SSC: 51465-51782 CP: no SCS: both-gl ST: NI BLAST-Start: [hypothetical protein SEA_NIGHTMARE_89 [Arthrobacter phage Nightmare]],,NCBI, q1:s1 100.0% 7.04061E-32 GAP: 441 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.979, -4.669046746593814, no F: VRR-Nuc domain protein SIF-BLAST: ,,[hypothetical protein SEA_NIGHTMARE_89 [Arthrobacter phage Nightmare]],,ASM62368,66.9643,7.04061E-32 SIF-HHPRED:  SIF-Syn: Same as Zeina from AU6 cluster
    /note=The start site for the longest ORF and shortest gap does not have coding potential. Thus, the start site with the shortest gap and coding potential was chosen. (checked by Alex)

CDS 51748 - 52317
  /gene="90"
  /product="gp90"
  /function="Cas4 family exonuclease"
  /locus tag="Uzumaki_90"
    /note=Original Glimmer call @bp 51748 has strength 11.31; Genemark calls start at 51748
    /note=SSC: 51748-52317 CP: yes SCS: both ST: SS BLAST-Start: [TPA: MAG TPA: Protein of unknown function (DUF2800) [Siphoviridae sp.]],,NCBI, q1:s1 98.9418% 2.29749E-68 GAP: -35 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.013, -4.65945827897842, no F: Cas4 family exonuclease SIF-BLAST: ,,[TPA: MAG TPA: Protein of unknown function (DUF2800) [Siphoviridae sp.]],,DAX66161,70.6522,2.29749E-68 SIF-HHPRED: DUF2800 ; Protein of unknown function (DUF2800),,,PF10926.11,88.3598,99.6 SIF-Syn: Same as Zeina from AU6 cluster
    /note=checked by alex

CDS 52314 - 55037
  /gene="91"
  /product="gp91"
  /function="helix-turn-helix DNA binding domain"
  /locus tag="Uzumaki_91"
    /note=Original Glimmer call @bp 52314 has strength 8.24; Genemark calls start at 52314
    /note=SSC: 52314-55037 CP: yes SCS: both ST: SS BLAST-Start: [helix-turn-helix DNA binding domain protein [Arthrobacter phage Qui] ],,NCBI, q6:s19 98.8975% 0.0 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.119, -2.417348306996335, yes F: helix-turn-helix DNA binding domain SIF-BLAST: ,,[helix-turn-helix DNA binding domain protein [Arthrobacter phage Qui] ],,QED11734,73.8307,0.0 SIF-HHPRED:  SIF-Syn: Same as Zeina from AU6 cluster
    /note=Checked by VP 4/27

CDS 55037 - 55294
  /gene="92"
  /product="gp92"
  /function="hypothetical protein"
  /locus tag="Uzumaki_92"
    /note=Original Glimmer call @bp 55037 has strength 3.76; Genemark calls start at 55037
    /note=SSC: 55037-55294 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_ROSAASANTEWAA_55 [Streptomyces phage RosaAsantewaa]],,NCBI, q1:s1 92.9412% 1.05865E-26 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.74, -3.9787615777791516, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_ROSAASANTEWAA_55 [Streptomyces phage RosaAsantewaa]],,QBZ73619,65.5556,1.05865E-26 SIF-HHPRED:  SIF-Syn: Same as Zeina from AU6 cluster
    /note=checked by Alexandru