CDS 438 - 815
  /gene="1"
  /product="gp1"
  /function="hypothetical protein"
  /locus tag="Argan_1"
    /note=Original Glimmer call @bp 438 has strength 10.64; Genemark calls start at 438
    /note=SSC: 438-815 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_ZEINA_2 [Arthrobacter phage Zeina]],,NCBI, q1:s1 100.0% 8.35518E-84 GAP: 0 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.457, -3.670670413150579, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_ZEINA_2 [Arthrobacter phage Zeina]],,UQS94676,100.0,8.35518E-84 SIF-HHPRED:  SIF-Syn: Gene 1 lines up with GantcherGoblin gene 1, which is NKF.
    /note=Function is NKF as neiher phagesDB, NCBI, or HHPRED have a named function.

CDS 805 - 1215
  /gene="2"
  /product="gp2"
  /function="HNH endonuclease"
  /locus tag="Argan_2"
    /note=Original Glimmer call @bp 805 has strength 4.33; Genemark calls start at 799
    /note=SSC: 805-1215 CP: no SCS: both-gl ST: SS BLAST-Start: [HNH endonuclease [Arthrobacter phage Zeina] ],,NCBI, q1:s1 100.0% 5.5033E-97 GAP: -11 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.467, -3.712290173411778, no F: HNH endonuclease SIF-BLAST: ,,[HNH endonuclease [Arthrobacter phage Zeina] ],,UQS94677,100.0,5.5033E-97 SIF-HHPRED: HNH endonuclease; Thermophilic bacteriophage, HNH Endonuclease, DNA nicking, HYDROLASE; 1.52A {Geobacillus virus E2},,,5H0M_A,57.3529,98.5 SIF-Syn: Gene 2 lines up with gene 2 of GantcherGoblin, which is HNH Endonuclease, supports prediction.
    /note=Function is likely HNH Endonuclease, as it is suppored by NCBI Blast, phagesDB blast, and HHPRED.

CDS 1237 - 2217
  /gene="3"
  /product="gp3"
  /function="endolysin"
  /locus tag="Argan_3"
    /note=Original Glimmer call @bp 1237 has strength 7.29; Genemark calls start at 1237
    /note=SSC: 1237-2217 CP: no SCS: both ST: NI BLAST-Start: [endolysin [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 0.0 GAP: 21 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.288, -1.9310779259753799, yes F: endolysin SIF-BLAST: ,,[endolysin [Arthrobacter phage Uzumaki]],,UVK62826,99.6933,0.0 SIF-HHPRED:  SIF-Syn: Gene 3 lines up with GantcherGoblin Gene 3, which is Endolysin. Supports prediction
    /note=Likely endolysin as Zeina who is lysin A, has different HHPRED result despite the coverage and alignment.  Function is likely endolysin. HHPRED supports BLAST results, likely endolysin protein

CDS 2218 - 2382
  /gene="4"
  /product="gp4"
  /function="membrane protein"
  /locus tag="Argan_4"
    /note=Genemark calls start at 2218
    /note=SSC: 2218-2382 CP: no SCS: genemark ST: NI BLAST-Start: [membrane protein [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 1.63082E-25 GAP: 0 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.433, -3.8010267367911315, no F: membrane protein SIF-BLAST: ,,[membrane protein [Arthrobacter phage Uzumaki]],,UVK62827,98.1481,1.63082E-25 SIF-HHPRED:  SIF-Syn: Gene 4 lines up with GantcherGoblin gene 4, which is NKF for GantcherGoblin, however, Argan has a transmembrane protein likely.
    /note=there is a transmembrane protein predicted.  Function is membrane protein, as it has a transmembrane helix predicted, despite the fact that there is no good matches on HHPRED and blast results say function unk.

CDS 2375 - 2746
  /gene="5"
  /product="gp5"
  /function="hypothetical protein"
  /locus tag="Argan_5"
    /note=Original Glimmer call @bp 2375 has strength 5.99; Genemark calls start at 2375
    /note=SSC: 2375-2746 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_UZUMAKI_6 [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 1.22557E-85 GAP: -8 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.433, -3.720984649070371, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_UZUMAKI_6 [Arthrobacter phage Uzumaki]],,UVK62828,100.0,1.22557E-85 SIF-HHPRED:  SIF-Syn: Gene 5 lines up with GantcherGoblin gene 5, which is NKF and supports prediction.
    /note=similar to a connector protein but probability is low. Function is likely NKF as blast is NKF and HHPRED has no good matches

CDS 2719 - 3213
  /gene="6"
  /product="gp6"
  /function="hypothetical protein"
  /locus tag="Argan_6"
    /note=Original Glimmer call @bp 2719 has strength 9.53; Genemark calls start at 2719
    /note=SSC: 2719-3213 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_ZEINA_7 [Arthrobacter phage Zeina]],,NCBI, q1:s1 100.0% 5.63168E-115 GAP: -28 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.631, -3.95820260462814, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_ZEINA_7 [Arthrobacter phage Zeina]],,UQS94681,100.0,5.63168E-115 SIF-HHPRED:  SIF-Syn: Argan gene 6 lines up with GantcherGoblin Gene 6, which is NKF and supports prediction.
    /note=Function is NKF as BLAST is NKF and no good matches for HHPRED. Also no transmembrane proteins predicted.

CDS 3230 - 4963
  /gene="7"
  /product="gp7"
  /function="terminase"
  /locus tag="Argan_7"
    /note=Original Glimmer call @bp 3230 has strength 10.34; Genemark calls start at 3230
    /note=SSC: 3230-4963 CP: no SCS: both ST: NI BLAST-Start: [terminase [Arthrobacter phage Zeina] ],,NCBI, q1:s1 100.0% 0.0 GAP: 16 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.277, -2.0949393225970705, yes F: terminase SIF-BLAST: ,,[terminase [Arthrobacter phage Zeina] ],,UQS94682,99.8267,0.0 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: Argan gene 7 lines up with GantcherGoblin gene 7, which is Terminase. Supports prediction
    /note=This gene has coding potential based on the Genemark, it`s the longest orf at start 11 and has a gap of 17. The function is a terminase, large subunit, supported by BLAST and HHPRED.

CDS 5153 - 5809
  /gene="8"
  /product="gp8"
  /function="hypothetical protein"
  /locus tag="Argan_8"
    /note=Original Glimmer call @bp 5153 has strength 16.55; Genemark calls start at 5153
    /note=SSC: 5153-5809 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_GANTCHERGOBLIN_8 [Arthrobacter phage GantcherGoblin] ],,NCBI, q1:s1 100.0% 3.05494E-152 GAP: 189 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.288, -2.45827804503836, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_GANTCHERGOBLIN_8 [Arthrobacter phage GantcherGoblin] ],,UVK58671,100.0,3.05494E-152 SIF-HHPRED:  SIF-Syn: Argan gene 8 aligns with GantcherGoblin gene 8 which is NKF. Supports prediction
    /note=Function is likely NKF, as Blast has it as NKF and no good HHPRED matches. No transmembrane protein predicted.

CDS 5811 - 6359
  /gene="9"
  /product="gp9"
  /function="acetyltransferase"
  /locus tag="Argan_9"
    /note=Original Glimmer call @bp 5811 has strength 12.79; Genemark calls start at 5811
    /note=SSC: 5811-6359 CP: no SCS: both ST: NI BLAST-Start: [acetyltransferase [Arthrobacter phage GantcherGoblin]],,NCBI, q1:s1 100.0% 2.23358E-127 GAP: 1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.224, -6.252785163514522, no F: acetyltransferase SIF-BLAST: ,,[acetyltransferase [Arthrobacter phage GantcherGoblin]],,UVK58672,98.9011,2.23358E-127 SIF-HHPRED: Putative D-alanine N-acetyltransferase of GNAT family; PUTATIVE ACETYLTRANSFERASE OF THE GNAT FAMILY, STRUCTURAL GENOMICS, JOINT CENTER FOR STRUCTURAL GENOMICS, JCSG, PROTEIN STRUCTURE; HET: MSE, ETX; 1.85A {Desulfovibrio desulfuricans subsp. desulfuricans str.},,,2R7H_A,57.1429,99.7 SIF-Syn: Argan gene 9 aligns with GantcherGoblin gene 9 which is acetyltransferase. Supports prediction.
    /note=Function is likely acetyltransferase. Supported by blast results and HHPRED

CDS 6388 - 7698
  /gene="10"
  /product="gp10"
  /function="portal protein"
  /locus tag="Argan_10"
    /note=Original Glimmer call @bp 6388 has strength 7.06; Genemark calls start at 6388
    /note=SSC: 6388-7698 CP: no SCS: both ST: NI BLAST-Start: [portal protein [Arthrobacter phage Zeina]],,NCBI, q1:s1 100.0% 0.0 GAP: 28 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.115, -3.1993478425474327, yes F: portal protein SIF-BLAST: ,,[portal protein [Arthrobacter phage Zeina]],,UQS94685,100.0,0.0 SIF-HHPRED: Phage portal protein, HK97 family; "neck", "portal", "capsid", "tail tube", VIRUS; 3.58A {Rhodobacter capsulatus},,,6TE9_A,76.8349,100.0 SIF-Syn: Argan gene 10 aligns with GantcherGoblin gene 10 which is portal protein. Supports prediction.
    /note=Function is likely portal protein. Supported by BLAST and HHPRED.

CDS 7698 - 8429
  /gene="11"
  /product="gp11"
  /function="hypothetical protein"
  /locus tag="Argan_11"
    /note=Original Glimmer call @bp 7698 has strength 13.51; Genemark calls start at 7698
    /note=SSC: 7698-8429 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_UZUMAKI_12 [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 4.56653E-166 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 0.951, -6.886825842194078, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_UZUMAKI_12 [Arthrobacter phage Uzumaki]],,UVK62834,98.7654,4.56653E-166 SIF-HHPRED:  SIF-Syn: Argan (top) gene 11 aligns with GatcherGoblin gene 11, which is NKF. Supports prediction.
    /note=Function is likely NKF according to Blast, however HHPRED gives the possibility that it is a transport protein.  No transmembrane protein predicted.

CDS 8453 - 10609
  /gene="12"
  /product="gp12"
  /function="major capsid and protease fusion protein"
  /locus tag="Argan_12"
    /note=Original Glimmer call @bp 8453 has strength 15.76; Genemark calls start at 8453
    /note=SSC: 8453-10609 CP: no SCS: both ST: NI BLAST-Start: [major capsid and protease fusion protein [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 0.0 GAP: 23 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.043, -3.748312656400878, no F: major capsid and protease fusion protein SIF-BLAST: ,,[major capsid and protease fusion protein [Arthrobacter phage Uzumaki]],,UVK62835,100.0,0.0 SIF-HHPRED: Major capsid protein; Virus Procapsid particles, VIRUS; 5.2A {Enterobacteria phage HK97},,,3QPR_B,40.9471,99.9 SIF-Syn: Argan gene 12 aligns with GantcherGoblin gene 12, which is major capsid and protease fusion protein. Supports prediction.
    /note=This gene has coding potential with a start of 2. This gene contains a gap of 24. When the protein sequence is plugged in for this gene into HHpred conveyed that this gene has a 100 % probability of being a major capsid protein based off of other similar genes within its cluster. major caspid and protease fusion protein. Supported by BLAST and HHPRED.

CDS 10624 - 10956
  /gene="13"
  /product="gp13"
  /function="hypothetical protein"
  /locus tag="Argan_13"
    /note=Original Glimmer call @bp 10624 has strength 4.72; Genemark calls start at 10624
    /note=SSC: 10624-10956 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_UZUMAKI_14 [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 1.30757E-74 GAP: 14 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.145, -4.975913734906325, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_UZUMAKI_14 [Arthrobacter phage Uzumaki]],,UVK62836,100.0,1.30757E-74 SIF-HHPRED:  SIF-Syn: Argan(top) gene 13 aligns with GantcherGoblin gene 13 which is NKF. Supports prediction.
    /note=Function is likely NKF, as its supported by BLASt and the no good results from HHPRED. Also no transmembrane proteins.

CDS 10931 - 11233
  /gene="14"
  /product="gp14"
  /function="tail terminator"
  /locus tag="Argan_14"
    /note=Original Glimmer call @bp 11015 has strength 2.28; Genemark calls start at 10931
    /note=SSC: 10931-11233 CP: no SCS: both-gm ST: NI BLAST-Start: [tail terminator [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 5.92158E-68 GAP: -26 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.389, -4.164901013602904, no F: tail terminator SIF-BLAST: ,,[tail terminator [Arthrobacter phage Uzumaki]],,UVK62837,100.0,5.92158E-68 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,75.0,92.4 SIF-Syn: Argan gene 14 aligns with GantcherGoblin gene 14 which is tail terminator. Supports prediction.
    /note=Genemark Start 10931 has better coverage with other phages in same cluster. Also supported by coding potential and RBS. Function is likely tail terminator. NCBI blast and PHAGESDB blast supports that, however HHPRED has no good results.

CDS 11244 - 12110
  /gene="15"
  /product="gp15"
  /function="major tail protein"
  /locus tag="Argan_15"
    /note=Original Glimmer call @bp 11244 has strength 9.73; Genemark calls start at 11244
    /note=SSC: 11244-12110 CP: no SCS: both ST: NI BLAST-Start: [major tail protein [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 0.0 GAP: 10 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.389, -3.8761054743559344, yes F: major tail protein SIF-BLAST: ,,[major tail protein [Arthrobacter phage Uzumaki]],,UVK62838,99.6528,0.0 SIF-HHPRED: Phage_TTP_1 ; Phage tail tube protein,,,PF04630.15,64.2361,99.9 SIF-Syn: Argan gene 15 aligns with GantcherGoblin gene 15 which is major tail protein. Supports prediction.
    /note=Function is likely major tail protein. Supported by Blast results and HHPRED match.

CDS 12133 - 12705
  /gene="16"
  /product="gp16"
  /function="hypothetical protein"
  /locus tag="Argan_16"
    /note=Original Glimmer call @bp 12133 has strength 5.71; Genemark calls start at 12133
    /note=SSC: 12133-12705 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_UZUMAKI_17 [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 4.39268E-139 GAP: 22 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.277, -2.0949393225970705, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_UZUMAKI_17 [Arthrobacter phage Uzumaki]],,UVK62839,100.0,4.39268E-139 SIF-HHPRED:  SIF-Syn: GantcherGoblin, Uzumaki, and Zeina all have NKF around the same location in the genome for the gene with the Pham number (715).This region is highly conserved at nucleotide level with the other phages indicated by purple shading.
-A.S, VV
    /note=No proteins with known functions from both NCBI Blast or HHpred have a high probability of being a match. No transmembrane proteins either. 
    /note=Checked by A.S, VV

CDS 12723 - 14513
  /gene="17"
  /product="gp17"
  /function="minor tail protein"
  /locus tag="Argan_17"
    /note=Original Glimmer call @bp 12723 has strength 10.62; Genemark calls start at 12723
    /note=SSC: 12723-14513 CP: no SCS: both ST: NI BLAST-Start: [minor tail protein [Arthrobacter phage GantcherGoblin]],,NCBI, q1:s1 100.0% 0.0 GAP: 17 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.18, -2.6835611257758942, yes F: minor tail protein SIF-BLAST: ,,[minor tail protein [Arthrobacter phage GantcherGoblin]],,UVK58679,100.0,0.0 SIF-HHPRED: Collar spike protein; Myoviridae, Phage, 6-fold neck region, VIRAL PROTEIN;{Vibrio phage XM1},,,7KJK_I3,22.1477,99.0 SIF-Syn: Zeina and GantcherGoblin also have minor tail protein around the same location in the genome, for gene with same pham number (1801) and same in color. Purple shading in relation to GantcherGoblin indicates that the region is highly conserved at the nucleotide level. However, nucelotide sequence is not highly conserved in comparison with Zeina and Uzumaki.
Checked by A.S, A.M.
    /note=Minor tail protein has 100% identity, e-value of zero, and has 100% query cover according to NCBI Blast, and HHPRED shows a 99.04% probability of it being a collar spike protein, which is a part of the phage tail, so it is likely another name for the function.
    /note=Checked by A.S, A.M

CDS 14524 - 15495
  /gene="18"
  /product="gp18"
  /function="minor tail protein"
  /locus tag="Argan_18"
    /note=Original Glimmer call @bp 14524 has strength 8.42; Genemark calls start at 14524
    /note=SSC: 14524-15495 CP: no SCS: both ST: SS BLAST-Start: [minor tail protein [Arthrobacter phage GantcherGoblin]],,NCBI, q1:s1 100.0% 0.0 GAP: 10 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.144, -4.387988835334809, no F: minor tail protein SIF-BLAST: ,,[minor tail protein [Arthrobacter phage GantcherGoblin]],,UVK58680,99.6904,0.0 SIF-HHPRED: putative baseplate protein; Phage, Lactococcus lactis, receptor binding protein, head domain, VIRAL PROTEIN; 2.3A {unidentified phage},,,2FSD_A,17.3375,97.3 SIF-Syn: GantcherGoblin and Zeina both also have a minor tail protein around the same location in their genomes with same pham number(1024). Purple shading with red lines with a bit of white indicates that at this region, Argan`s genome is only moderately conserved at the nucelotide level with Zeina while it is highly conserved with GantcherGoblin, There is a similar pattern of genes preceding these genes of interest as well. Important to note nucelotide sequence is not highly conserved with Uzumaki at this location.
Checked by A.S, A.M
    /note=Minor tail protein has 100% query cover, 100% percent identity and e-value of zero according to NCBI Blast. According to HHPRED, there is a 97.3% probability of this being a putative baseplate protein with low e-value of 0.0011 as well, and given that the baseplate is a structure located in phage tails, this is likely a different name for the function
    /note=Checked by A.S, A.M

CDS 15507 - 16340
  /gene="19"
  /product="gp19"
  /function="minor tail protein"
  /locus tag="Argan_19"
    /note=Original Glimmer call @bp 15507 has strength 6.41; Genemark calls start at 15507
    /note=SSC: 15507-16340 CP: no SCS: both ST: NI BLAST-Start: [minor tail protein [Arthrobacter phage Zeina]],,NCBI, q1:s1 100.0% 7.02156E-121 GAP: 11 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.288, -1.993391246735709, yes F: minor tail protein SIF-BLAST: ,,[minor tail protein [Arthrobacter phage Zeina]],,UQS94694,74.3945,7.02156E-121 SIF-HHPRED: Tail fiber protein; R-type pyocin, Pseudomonas aeruginosa, contractile injection system, receptor-binding protein, VIRAL PROTEIN; HET: EDO; 1.898A {Pseudomonas aeruginosa},,,6CL6_A,37.5451,97.1 SIF-Syn: Uzumaki and Zeina also have a minor tail protien at gene 19 around the same location in their genomes with same pham number as well (1024). A mix of red, green, and yellow shading at indicates that at this region, Argan`s genome is not highly conserved at the nucelotide level with these other phages. However, there is still a similar pattern of genes preceding these genes of interest.
Checked by A.S, A.M
    /note=The gene has coding potential based on Genemark. It`s the longest ORF 1and has a gap of 11. Minor tail protein has 100% query cover, 100% percent identity and e-value of 7*10^-121 according to NCBI Blast. According to HHPRED, there is a 97.3% probability of this being a putative baseplate protein with low e-value of 0.0011 as well, and given that the baseplate is a structure located in phage tails, this is likely a different name for the function.
    /note=Checked by A.S, A.M

CDS 16350 - 16481
  /gene="20"
  /product="gp20"
  /function="hypothetical protein"
  /locus tag="Argan_20"
    /note=Original Glimmer call @bp 16350 has strength 7.8; Genemark calls start at 16350
    /note=SSC: 16350-16481 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_ZEINA_21 [Arthrobacter phage Zeina] ],,NCBI, q1:s1 100.0% 2.98283E-23 GAP: 9 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.144, -4.325675514574479, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_ZEINA_21 [Arthrobacter phage Zeina] ],,UQS94695,100.0,2.98283E-23 SIF-HHPRED:  SIF-Syn: GantcherGoblin and Zeina also has function NKF at around the same location in the genome, for genes with same pham number(2715) and color.  Purple shading indicates that at this region in the genome, this nucelotide sequence is highly conserved. However, preceding this region is a region where the nucelotide sequence is a mix of colors of white, purple, and orange.
Checked by A.S, A.M
    /note=No proteins with known functions from both NCBI Blast or HHpred has a high probability of being a match.
    /note=Checked by A.S, A.M

CDS 16517 - 17314
  /gene="21"
  /product="gp21"
  /function="major tail protein"
  /locus tag="Argan_21"
    /note=Original Glimmer call @bp 16517 has strength 9.67; Genemark calls start at 16517
    /note=SSC: 16517-17314 CP: no SCS: both ST: NI BLAST-Start: [major tail protein [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 0.0 GAP: 35 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.277, -1.953940808934884, yes F: major tail protein SIF-BLAST: ,,[major tail protein [Arthrobacter phage Uzumaki]],,UVK62844,100.0,0.0 SIF-HHPRED: Phage_TTP_1 ; Phage tail tube protein,,,PF04630.15,63.0189,99.9 SIF-Syn: GantcherGoblin, Uzumaki, and Zeina also have a major tail protein around the same location in the genome with same pham number(179). Purple shading indicates that in this region of the genome, Argan`s nucleotide sequence is highly conserved with these other phages.
Checked by A.S, A.M
    /note=Major tail Protein, has 99.25% identity, high max score of 540, and 100% query cover according to NCBI BLAST. According to HHpred, there is a 99.1 % probability of it being a phage tail tube protein with low e-value of 9.9e-23. Since both of these functions refer to proteins part of the phage tail, they are likely the different names for the same function. Also it is important to note in functions spreadsheet for SEAphages, tail tube protein is listed next to major tail protein, but it stated to not use this term anymore in red text.
    /note=Checked by A.S, A.M

CDS 17327 - 18250
  /gene="22"
  /product="gp22"
  /function="hypothetical protein"
  /locus tag="Argan_22"
    /note=Original Glimmer call @bp 17327 has strength 9.04; Genemark calls start at 17327
    /note=SSC: 17327-18250 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_UZUMAKI_23 [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 0.0 GAP: 12 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.277, -2.033982896655645, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_UZUMAKI_23 [Arthrobacter phage Uzumaki]],,UVK62845,100.0,0.0 SIF-HHPRED:  SIF-Syn: Around same location of the genome, Uzumaki, GantcherGoblin, and Zeina also have NKF for gene with pham number(78577) and same color. Purple shading at this region of Argan`s genome suggest that that it`s nucleotide sequence is highly conserved there with the other phages mentioned. Around same location of the genome, Uzumaki, GantcherGoblin, and Zeina also have NKF for gene with pham number(78577) and same color. Purple shading at this region of Argan`s genome suggest that that it`s nucleotide sequence is highly conserved there with the other phages mentioned. The pattern upstream and downstream is similar as well.
Checked by A.S, A.M
    /note=No proteins with known functions from both NCBI Blast or HHpred has a high probability of being a match.
    /note=Checked by A.S, A.M. We are strongly confident about this call given the evidence.

CDS 18250 - 18561
  /gene="23"
  /product="gp23"
  /function="hypothetical protein"
  /locus tag="Argan_23"
    /note=Original Glimmer call @bp 18250 has strength 9.67; Genemark calls start at 18250
    /note=SSC: 18250-18561 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_UZUMAKI_24 [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 3.62868E-67 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.711, -4.045504852447161, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_UZUMAKI_24 [Arthrobacter phage Uzumaki]],,UVK62846,100.0,3.62868E-67 SIF-HHPRED: tail fiber chaperone; fiber, VIRUS, VIRAL PROTEIN;{uncultured cyanophage},,,7YPX_b,82.5243,98.2 SIF-Syn: Around same location of the genome, Uzumaki, GantcherGoblin, and Zeina also have gene with pham number(4350) and same color. Purple shading at this region of Argan`s genome suggests that that it`s nucleotide sequence is highly conserved there with the other phages mentioned. The pattern upstream and downstream is similar as well.
Checked by A.S, A.M
    /note=HHpred shows a low e-value of 0.000073 and shows a high probability of 98.2 for tail fiber protein. Although NCBI says its a hypothetical protein, because of high coverage (82.5243%), low e-value, and high probability we chose the result from HHpred which states function as tail fiber. We are moderately confident about this call, confidence given that HHPred evidence is strong, but NCBI does not support our call.
    /note=Checked by A.S, A.M

CDS 18583 - 18966
  /gene="24"
  /product="gp24"
  /function="hypothetical protein"
  /locus tag="Argan_24"
    /note=Original Glimmer call @bp 18583 has strength 3.38; Genemark calls start at 18583
    /note=SSC: 18583-18966 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_GANTCHERGOBLIN_24 [Arthrobacter phage GantcherGoblin] ],,NCBI, q1:s1 100.0% 6.2555E-88 GAP: 21 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.346, -3.90407005001345, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_GANTCHERGOBLIN_24 [Arthrobacter phage GantcherGoblin] ],,UVK58686,100.0,6.2555E-88 SIF-HHPRED:  SIF-Syn: GantcherGoblin and Zeina also has genes with same pham number(705) and color.  Purple shading indicates that at this region in the genome, the nucelotide sequence is highly conserved. 
Checked by A.S, A.M
    /note=HHPred shows a low e-value of 1.8e-12 and shows a high probability of 99.42 for minor capsid protein. Although NCBI says its a hypothetical protein, because of high coverage (75%), low e-value, and high probability we chose the result from HHPred which states function as minor capsid protein. We are moderately confident about this call, because although HHPred evidence is strong, NCBI does not support our call.
    /note=Checked by A.S, A.M

CDS 18963 - 23600
  /gene="25"
  /product="gp25"
  /function="tape measure protein"
  /locus tag="Argan_25"
    /note=Original Glimmer call @bp 18993 has strength 8.0; Genemark calls start at 18963
    /note=SSC: 18963-23600 CP: yes SCS: both-gm ST: NI BLAST-Start: [tape measure protein [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 0.0 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.611, -4.255672789525901, no F: tape measure protein SIF-BLAST: ,,[tape measure protein [Arthrobacter phage Uzumaki]],,UVK62848,98.7702,0.0 SIF-HHPRED:  SIF-Syn: Uzumaki, Zeina, and GantcherGoblin all have the same function called tape measure protein at around the same location in the genome with pham number 71978. Purple shading at this region indicates that the nucleotide sequence of Argan is highly conserved with the other mentioned phages.
Checked by A.S, A.M
    /note=According to both NCBI Blast and HHpred, there is a high probability of the function of this gene being tape measure protein. According to NCBI Blast, the top match has 96.94% identity matched, an E-value of 0.0, and a query cover of 100%. According to HHpred, the top match has 99.93% probability and an E-value of 2.4e-15. We are strongly confident about this call because both HHPred and NCBI Blast support our call.
    /note=Checked by A.S, A.M

CDS 23584 - 24420
  /gene="26"
  /product="gp26"
  /function="minor tail protein"
  /locus tag="Argan_26"
    /note=Original Glimmer call @bp 23584 has strength 9.7; Genemark calls start at 23584
    /note=SSC: 23584-24420 CP: no SCS: both ST: NI BLAST-Start: [minor tail protein [Arthrobacter phage GantcherGoblin]],,NCBI, q1:s1 100.0% 0.0 GAP: -17 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.534, -4.16062280240617, no F: minor tail protein SIF-BLAST: ,,[minor tail protein [Arthrobacter phage GantcherGoblin]],,UVK58688,100.0,0.0 SIF-HHPRED: Distal Tail Protein, gp58; phage tail, tail tip, tape measure protein, VIRAL PROTEIN; 3.7A {Staphylococcus virus 80alpha},,,6V8I_BD,98.2014,100.0 SIF-Syn: Uzumaki, Zeina, and GantcherGoblin all have the same function called minor tail protein at around the same location in the genome with pham number 78288. Purple shading at this region indicates that the nucleotide sequence of Argan is highly conserved with the other mentioned phages.
Checked by A.S
    /note=Using evidence form both NCBI Blast and HHpred, we can conclude that there is a high probability of the function of this gene being minor tail protein. According to NCBI Blast, the top match has 99.64% identity matched, an E-value of 0.0, and a query cover of 100%. According to HHpred, the top match has a function of distail tail protein gp58 99.93% probability and an E-value of 2.4e-15. Since both proteins are part of the phage tail and the high probability rates, we can conclude that these are likely different names for the same function. We are strongly confident about our call because both HHPred and NCBI Blast support our call.
    /note=Checked by A.S

CDS 24421 - 25584
  /gene="27"
  /product="gp27"
  /function="minor tail protein"
  /locus tag="Argan_27"
    /note=Original Glimmer call @bp 24421 has strength 8.07; Genemark calls start at 24421
    /note=SSC: 24421-25584 CP: no SCS: both ST: NI BLAST-Start: [minor tail protein [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 0.0 GAP: 0 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.621, -3.4685663819143713, yes F: minor tail protein SIF-BLAST: ,,[minor tail protein [Arthrobacter phage Uzumaki]],,UVK62850,98.9664,0.0 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,93.0233,99.8 SIF-Syn: Uzumaki, Zeina, and GantcherGoblin all have the same function called minor tail protein at around the same location in the genome with pham number 78343. Purple shading at this region indicates that the nucleotide sequence of Argan is highly conserved with the other mentioned phages.
Checked by A.S
    /note=Using evidence form both NCBI Blast and HHpred, we can conclude that there is a high probability of the function of this gene being minor tail protein. According to NCBI Blast, the top match has 98.45% identity matched, an E-value of 0, and a query cover of 100%. According to HHpred, the top match has is protein function named Sipho_Gp37 100% probability and an E-value of 1.2e-28. Since both proteins are part of the phage tail and the high probability rates, we can conclude that these are likely different names for the same function. We are strongly confident about this call because HHPred and NCBI Blast support this call.
    /note=Checked by A.S

CDS 25600 - 25836
  /gene="28"
  /product="gp28"
  /function="hypothetical protein"
  /locus tag="Argan_28"
    /note=Original Glimmer call @bp 25600 has strength 6.65; Genemark calls start at 25600
    /note=SSC: 25600-25836 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_GANTCHERGOBLIN_28 [Arthrobacter phage GantcherGoblin] ],,NCBI, q1:s1 100.0% 2.23828E-48 GAP: 15 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.277, -1.953940808934884, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_GANTCHERGOBLIN_28 [Arthrobacter phage GantcherGoblin] ],,UVK58690,100.0,2.23828E-48 SIF-HHPRED:  SIF-Syn: Around same location of the genome, Uzumaki, GantcherGoblin, and Zeina also have NKF for gene with pham number(1073) and same color. Purple shading at this region of Argan`s genome suggest that that it`s nucleotide sequence is highly conserved there with the other phages mentioned. The pattern upstream and downstream is similar as well.
Checked by A.S
    /note=No proteins with known functions from both NCBI Blast or HHPred has a high probability of being a match. We are strongly confident about this call because both NCBI Blast and HHPred do not show a strong known match.
    /note=Checked by A.S

CDS 25836 - 26243
  /gene="29"
  /product="gp29"
  /function="hypothetical protein"
  /locus tag="Argan_29"
    /note=Original Glimmer call @bp 26100 has strength 4.21; Genemark calls start at 25836
    /note=SSC: 25836-26243 CP: no SCS: both-gm ST: NI BLAST-Start: [hypothetical protein SEA_ZEINA_30 [Arthrobacter phage Zeina] ],,NCBI, q1:s1 100.0% 3.09761E-90 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.231, -6.317717280514785, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_ZEINA_30 [Arthrobacter phage Zeina] ],,UQS94704,100.0,3.09761E-90 SIF-HHPRED:  SIF-Syn: This gene does not display much synteny, as it is from a different pham(66915) than genes in a similar location for Zeina, GantcherGoblin, and Uzumaki. However, it`s interesting to note that genes in a similar location also have NKF and also the shaded region is completely solid purple, indicating that Argan`s nucleotide sequence is conserved with these other genomes.
Checked by A.S
    /note=No proteins with known functions from both NCBI Blast or HHpred has a high probability of being a match. Strong confidence because both HHPred and NCBI Blast support our call.
    /note=Checked by A.S

CDS 26251 - 26697
  /gene="30"
  /product="gp30"
  /function="membrane protein"
  /locus tag="Argan_30"
    /note=Original Glimmer call @bp 26251 has strength 5.26; Genemark calls start at 26218
    /note=SSC: 26251-26697 CP: no SCS: both-gl ST: SS BLAST-Start: [membrane protein [Arthrobacter phage GantcherGoblin] ],,NCBI, q1:s1 100.0% 5.1364E-100 GAP: 7 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.668, -3.580897435031301, no F: membrane protein SIF-BLAST: ,,[membrane protein [Arthrobacter phage GantcherGoblin] ],,UVK58692,100.0,5.1364E-100 SIF-HHPRED:  SIF-Syn: GantcherGoblin, Uzumaki, and Zeina have NKF instead of membrane protein called. However, they do have genes in same location of genome with same pham number of 1442. Also the solid purple shading of the region suggests that nucleotide sequence is highly conserved
Checked by A.S
    /note=According to NCBI Blast, there is a high probability that this is a membrane protein with 99.32% identity, 100% query cover, and a low E-value of 3e-100. However, the best match according to HHpred is not that high at 61.2% probability and a high E-value of 72, however it also calls for a type of membrane protein as well. TMHMM gives 3 transmembrane helixs, likely membrane protein. (VV)
    /note=Checked by A.S

CDS 26704 - 26967
  /gene="31"
  /product="gp31"
  /function="membrane protein"
  /locus tag="Argan_31"
    /note=Genemark calls start at 26704
    /note=SSC: 26704-26967 CP: yes SCS: genemark ST: NI BLAST-Start: [membrane protein [Arthrobacter phage Zeina]],,NCBI, q1:s1 100.0% 2.47364E-53 GAP: 6 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.18, -2.5074698667202133, yes F: membrane protein SIF-BLAST: ,,[membrane protein [Arthrobacter phage Zeina]],,UQS94706,100.0,2.47364E-53 SIF-HHPRED:  SIF-Syn: Around same location of the genome, Uzumaki, GantcherGoblin, and Zeina also have NKF for gene with pham number(78302) and same color. Purple shading at this region of Argan`s genome suggest that that it`s nucleotide sequence is highly conserved there with the other phages mentioned. The pattern upstream and downstream is similar as well.
    /note=We detected a transmembrane domain with TMHMM and TOPCONS. Also, the top match of HHPred is a type of Lipopolysaccharide assembly protein, which is present in membranes, and the second best match on NCBI Blast is a membrane protein as well. We are very confident about this call.

CDS 26978 - 27364
  /gene="32"
  /product="gp32"
  /function="holin"
  /locus tag="Argan_32"
    /note=Original Glimmer call @bp 26978 has strength 4.03; Genemark calls start at 27002
    /note=SSC: 26978-27364 CP: yes SCS: both-gl ST: SS BLAST-Start: [holin [Arthrobacter phage GantcherGoblin]],,NCBI, q1:s1 100.0% 6.19124E-87 GAP: 10 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.277, -2.033982896655645, yes F: holin SIF-BLAST: ,,[holin [Arthrobacter phage GantcherGoblin]],,UVK58694,99.2188,6.19124E-87 SIF-HHPRED: Phage_holin_Dp1 ; Putative phage holin Dp-1,,,PF16938.8,47.6562,99.9 SIF-Syn: Around same location of the genome, Uzumaki, GantcherGoblin, and Zeina also have holin for gene with pham number(76978) and same color. Purple shading at this region of Argan`s genome suggest that that it`s nucleotide sequence is highly conserved there with the other phages mentioned. The pattern upstream and downstream is similar as well.
    /note=According to NCBI Blast, there is 99.2% identity and 6e-87 E value of protein function holin. HHpred also has highest match Putative phage holin Dp-1, with 99.9 probability of match and low e-value of 2.4e-26.

CDS 27423 - 27716
  /gene="33"
  /product="gp33"
  /function="hypothetical protein"
  /locus tag="Argan_33"
    /note=Original Glimmer call @bp 27423 has strength 8.83; Genemark calls start at 27423
    /note=SSC: 27423-27716 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_GANTCHERGOBLIN_33 [Arthrobacter phage GantcherGoblin] ],,NCBI, q1:s1 100.0% 5.61983E-64 GAP: 58 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.277, -2.0162541296952132, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_GANTCHERGOBLIN_33 [Arthrobacter phage GantcherGoblin] ],,UVK58695,97.9381,5.61983E-64 SIF-HHPRED:  SIF-Syn: Around same location of the genome, Uzumaki, GantcherGoblin, and Zeina also have NKF for gene with pham number(706) and same color. Purple shading at this region of Argan`s genome suggest that that it`s nucleotide sequence is highly conserved there with the other phages mentioned. The pattern upstream and downstream is similar as well.
    /note=High probability of transmembrane domain detected using TMHMM and TOPCONNS.

CDS 27919 - 28104
  /gene="34"
  /product="gp34"
  /function="hypothetical protein"
  /locus tag="Argan_34"
    /note=Original Glimmer call @bp 27919 has strength 7.45; Genemark calls start at 27919
    /note=SSC: 27919-28104 CP: no SCS: both ST: NI BLAST-Start: [membrane protein [Arthrobacter phage Zeina] ],,NCBI, q1:s1 100.0% 6.78174E-36 GAP: 202 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.18, -2.2364030944336752, yes F: hypothetical protein SIF-BLAST: ,,[membrane protein [Arthrobacter phage Zeina] ],,UQS94709,100.0,6.78174E-36 SIF-HHPRED:  SIF-Syn: Around same location of the genome, GantcherGoblin, and Zeina also have NKF for gene with pham number(13583) and same color. Purple shading at this region of Argan`s genome suggest that that it`s nucleotide sequence is highly conserved there with the other phages mentioned. The pattern upstream and downstream is similar as well.
    /note=No proteins with known functions from both NCBI Blast or HHpred has a high probability of being a match.

CDS 28342 - 28542
  /gene="35"
  /product="gp35"
  /function="hypothetical protein"
  /locus tag="Argan_35"
    /note=Original Glimmer call @bp 28342 has strength 6.43; Genemark calls start at 28342
    /note=SSC: 28342-28542 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_ZEINA_37 [Arthrobacter phage Zeina] ],,NCBI, q1:s1 100.0% 1.95424E-38 GAP: 237 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.18, -2.2364030944336752, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_ZEINA_37 [Arthrobacter phage Zeina] ],,UQS94711,100.0,1.95424E-38 SIF-HHPRED:  SIF-Syn: Around same location of the genome, Uzumaki, GantcherGoblin, and Zeina also have NKF for gene with pham number(3058) and same color. Purple shading at this region of Argan`s genome suggest that that it`s nucleotide sequence is highly conserved there with the other phages mentioned. The pattern upstream and downstream is mostly similar, but not completely the same, due to the presence of an orpham at gene 36 for Zeina and the not included reverse gene at gene 32 of Argan _Draft genome on Phamerator.
    /note=No proteins with known functions from both NCBI Blast or HHpred has a high probability of being a match. Although TMHMM shows low probability of transmembrane domain,  TOPCONS does not strongly support this, so still NKF.

CDS 28652 - 28891
  /gene="36"
  /product="gp36"
  /function="hypothetical protein"
  /locus tag="Argan_36"
    /note=Original Glimmer call @bp 28604 has strength 11.3; Genemark calls start at 28604
    /note=SSC: 28652-28891 CP: no SCS: both-cs ST: NI BLAST-Start: [hypothetical protein SEA_GANTCHERGOBLIN_36 [Arthrobacter phage GantcherGoblin]],,NCBI, q1:s1 100.0% 6.07498E-47 GAP: 109 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.043, -2.442961286954254, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_GANTCHERGOBLIN_36 [Arthrobacter phage GantcherGoblin]],,UVK58698,100.0,6.07498E-47 SIF-HHPRED:  SIF-Syn: Around same location of the genome, Uzumaki, GantcherGoblin, and Zeina also have gene with pham number(78377) and same color. Purple shading with traces of red at this region of Argan`s genome suggest that that it`s nucleotide sequence is highly conserved there with the other phages mentioned. The pattern upstream and downstream is similar as well.
    /note=Both TOPCONS and TMHMM show high probability of transmembrane domain, so we are choosing to call this a  membrane protein,

CDS 28950 - 29093
  /gene="37"
  /product="gp37"
  /function="membrane protein"
  /locus tag="Argan_37"
    /note=Original Glimmer call @bp 28950 has strength 6.66; Genemark calls start at 28950
    /note=SSC: 28950-29093 CP: yes SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_GANTCHERGOBLIN_37 [Arthrobacter phage GantcherGoblin]],,NCBI, q1:s1 100.0% 1.58032E-24 GAP: 58 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.795, -3.103539494358988, yes F: membrane protein SIF-BLAST: ,,[hypothetical protein SEA_GANTCHERGOBLIN_37 [Arthrobacter phage GantcherGoblin]],,UVK58699,100.0,1.58032E-24 SIF-HHPRED:  SIF-Syn: Around same location of the genome, Uzumaki, GantcherGoblin, and Zeina also have NKF for gene with pham number(11721) and same color. We cannot say that the nucelotide sequence is highly conserved at this region because there is a mix of white, purple, and red shading. However, patterns upstream and downstream is similar.
    /note=No proteins with known functions from both NCBI Blast or HHpred has a high probability of being a match.

CDS 29323 - 29481
  /gene="38"
  /product="gp38"
  /function="membrane protein"
  /locus tag="Argan_38"
    /note=Original Glimmer call @bp 29323 has strength 3.71; Genemark calls start at 29323
    /note=SSC: 29323-29481 CP: no SCS: both ST: NI BLAST-Start: [membrane protein [Arthrobacter phage Zeina]],,NCBI, q1:s1 100.0% 8.7186E-30 GAP: 229 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.845, -3.5113798064032244, yes F: membrane protein SIF-BLAST: ,,[membrane protein [Arthrobacter phage Zeina]],,UQS94715,100.0,8.7186E-30 SIF-HHPRED:  SIF-Syn: Around same location of the genome, Uzumaki, GantcherGoblin, and Zeina also have NKF for gene with pham number(4767) and same color. Purple shading at this region of Argan`s genome suggest that that it`s nucleotide sequence is highly conserved there with the other phages mentioned. The pattern upstream and downstream is similar as well.
    /note=No proteins with known functions from both NCBI Blast or HHpred has a high probability of being a match. Transmembrane domain detected with both TMHMM and TOPCONS. However, since probability is not very strong at around 40% according to TMHMM, we chose to keep this as NKF.

CDS 29468 - 30229
  /gene="39"
  /product="gp39"
  /function="hypothetical protein"
  /locus tag="Argan_39"
    /note=Original Glimmer call @bp 29468 has strength 11.48; Genemark calls start at 29468
    /note=SSC: 29468-30229 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_GANTCHERGOBLIN_39 [Arthrobacter phage GantcherGoblin]],,NCBI, q1:s1 100.0% 0.0 GAP: -14 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.991, -5.17338398269729, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_GANTCHERGOBLIN_39 [Arthrobacter phage GantcherGoblin]],,UVK58701,100.0,0.0 SIF-HHPRED:  SIF-Syn: Around same location of the genome, Uzumaki, GantcherGoblin, and Zeina also have NKF for gene with pham number(183) and same color. White shading at this region shows that the nucelotide sequence is not highly conserved. However,  the pattern upstream and downstream is similar.
    /note=No proteins with known functions from both NCBI Blast or HHpred has a high probability of being a match. Transmembrane domain detected with TMHMM. We would list the function as membrane protein, but according to TOPCONS, there is no reliability for this claim according to the consensus prediction, so we keep this as NKF.

CDS 30235 - 30660
  /gene="40"
  /product="gp40"
  /function="hypothetical protein"
  /locus tag="Argan_40"
    /note=Original Glimmer call @bp 30235 has strength 5.86; Genemark calls start at 30235
    /note=SSC: 30235-30660 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_GANTCHERGOBLIN_41 [Arthrobacter phage GantcherGoblin]],,NCBI, q1:s1 91.4894% 8.43714E-89 GAP: 5 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.281, -5.089154098676458, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_GANTCHERGOBLIN_41 [Arthrobacter phage GantcherGoblin]],,UVK58703,78.5276,8.43714E-89 SIF-HHPRED:  SIF-Syn: Around same location of the genome GantcherGoblin, and Zeina also have gene with pham number(78540) and same color. A mix of purple and white shading around this region of Argan`s genome suggest that that it`s nucleotide sequence is not highly conserved there with the other phages mentioned. However, the pattern upstream and downstream is similar.
    /note=According to HHPred, there is a high 99.7% probability, low e-value of 4.3e-31 and high coverage of 68.7943% and the match is dark red, although NCBI Blast does not support this call. We are decently confident about this call because although NCBI Blast does not support our call, the HHPred evidence is strong

CDS 30671 - 30886
  /gene="41"
  /product="gp41"
  /function="hypothetical protein"
  /locus tag="Argan_41"
    /note=Original Glimmer call @bp 30671 has strength 11.43; Genemark calls start at 30671
    /note=SSC: 30671-30886 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_ZEINA_44 [Arthrobacter phage Zeina] ],,NCBI, q1:s1 97.1831% 4.65278E-10 GAP: 10 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.793, -3.494990588194529, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_ZEINA_44 [Arthrobacter phage Zeina] ],,UQS94718,63.3803,4.65278E-10 SIF-HHPRED:  SIF-Syn: Around same location of the genome, Uzumaki, GantcherGoblin, and Zeina also have gene with pham number(12150) and same color. White shading at this region of Argan`s genome suggest that that it`s nucleotide sequence is not highly conserved there with the other phages mentioned. However, the pattern upstream and downstream is similar.
    /note=No proteins with known functions from both NCBI Blast or HHpred has a high probability of being a match. However, according to TMHMM, two putative domains have been detected with high probabilities. TOPCONNS also has detected high probability of transmembrane protein.

CDS 30951 - 31151
  /gene="42"
  /product="gp42"
  /function="hypothetical protein"
  /locus tag="Argan_42"
    /note=Original Glimmer call @bp 30951 has strength 8.57; Genemark calls start at 30951
    /note=SSC: 30951-31151 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_ZEINA_45 [Arthrobacter phage Zeina] ],,NCBI, q1:s1 100.0% 5.75915E-37 GAP: 64 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.18, -2.156361006712914, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_ZEINA_45 [Arthrobacter phage Zeina] ],,UQS94719,98.4848,5.75915E-37 SIF-HHPRED:  SIF-Syn: Around same location of the genome, Uzumaki, GantcherGoblin, and Zeina also have NKF for gene with pham number(77588) and same color. Purple shading at this region of Argan`s genome suggest that that it`s nucleotide sequence is highly conserved there with the other phages mentioned. The pattern upstream and downstream is similar as well.
    /note=No proteins with known functions from both NCBI Blast or HHpred has a high probability of being a match.

CDS 31213 - 31560
  /gene="43"
  /product="gp43"
  /function="hypothetical protein"
  /locus tag="Argan_43"
    /note=Original Glimmer call @bp 31213 has strength 10.85; Genemark calls start at 31213
    /note=SSC: 31213-31560 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_GANTCHERGOBLIN_44 [Arthrobacter phage GantcherGoblin]],,NCBI, q1:s1 100.0% 1.1646E-75 GAP: 61 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.38, -3.9109350188549152, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_GANTCHERGOBLIN_44 [Arthrobacter phage GantcherGoblin]],,UVK58706,98.2609,1.1646E-75 SIF-HHPRED: DUF6275 ; Family of unknown function (DUF6275),,,PF19791.2,75.6522,100.0 SIF-Syn: Around same location of the genome, Uzumaki, GantcherGoblin, and Zeina also have NKF for gene with pham number(77334) and same color. Purple shading at this region of Argan`s genome suggest that that it`s nucleotide sequence is highly conserved there with the other phages mentioned. The pattern upstream and downstream is similar.
    /note=No proteins with known functions from both NCBI Blast or HHpred has a high probability of being a match.

CDS 31581 - 31856
  /gene="44"
  /product="gp44"
  /function="hypothetical protein"
  /locus tag="Argan_44"
    /note=Original Glimmer call @bp 31581 has strength 6.71; Genemark calls start at 31581
    /note=SSC: 31581-31856 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_TOKKI_49 [Arthrobacter phage Tokki]],,NCBI, q1:s1 100.0% 4.92971E-51 GAP: 20 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.544, -4.1397687364535365, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_TOKKI_49 [Arthrobacter phage Tokki]],,UGL63274,89.011,4.92971E-51 SIF-HHPRED:  SIF-Syn: Around same location of the genome, we see that synteny is low, because we see that other around the same location, related bacteriophages Uzumaki and Zeina do not have the same pham number as Argan, (Argan`s pham number for this gene is 8174). Lack of purple shading at this region of Argan`s genome suggest that that it`s nucleotide sequence is not highly conserved there with the other phages mentioned. The pattern upstream and downstream is similar.
    /note=No proteins with known functions from both NCBI Blast or HHpred has a high probability of being a match.

CDS 31879 - 32001
  /gene="45"
  /product="gp45"
  /function="membrane protein"
  /locus tag="Argan_45"
    /note=Original Glimmer call @bp 31879 has strength 6.79; Genemark calls start at 31879
    /note=SSC: 31879-32001 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_GANTCHERGOBLIN_45 [Arthrobacter phage GantcherGoblin]],,NCBI, q1:s1 100.0% 2.11103E-17 GAP: 22 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.793, -3.0478325568523097, yes F: membrane protein SIF-BLAST: ,,[hypothetical protein SEA_GANTCHERGOBLIN_45 [Arthrobacter phage GantcherGoblin]],,UVK58707,97.5,2.11103E-17 SIF-HHPRED: Translocon-associated protein subunit beta; membrane protein complex, protein translocation, N-glycosylation, signal peptide insertion, MEMBRANE PROTEIN; 7.6A {Homo sapiens},,,8B6L_F,57.5,61.2 SIF-Syn: High synteny, right flanking genes conserved in Uzumaki, Zeina, and GantcherGoblin, but left flanking gene different.
    /note=Phagesdb Blast: GantcherGoblin45, function unknown	, score:79, e-value: 3e-15
    /note=                            Uzumaki	44, function unknown, score:78, e-value: 8e-15
    /note=                            Zeina47, function unknown, score: 78, e-value: 6e-15
    /note=HHPred: Translocon-associated protein subunit beta; membrane protein complex, protein translocation, N-glycosylation, signal peptide insertion, MEMBRANE PROTEIN; 7.6A {Homo sapiens}	Probability: 61.2	Coverage: 57.5. No good matches
    /note=NCBI Blast: GantcherGoblin45, identity: 92.5, aligned: 97.5, coverage: 100.    Zeina47, identity: 92.5, aligned: 95, coverage: 100.

CDS 32018 - 32551
  /gene="46"
  /product="gp46"
  /function="hypothetical protein"
  /locus tag="Argan_46"
    /note=Original Glimmer call @bp 32018 has strength 16.4; Genemark calls start at 32018
    /note=SSC: 32018-32551 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_ZEINA_48 [Arthrobacter phage Zeina] ],,NCBI, q1:s1 100.0% 7.63584E-128 GAP: 16 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.144, -4.6767843745817785, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_ZEINA_48 [Arthrobacter phage Zeina] ],,UQS94722,99.435,7.63584E-128 SIF-HHPRED:  SIF-Syn: High synteny, flanking genes conserved in GantcherGoblin46/Zeina48/Uzumaki45.
    /note=Phagesdb Blast: GantcherGoblin46/Zeina48/Uzumaki45, function unknown, score: 352, e-value: 3e-97	AU6	68718
    /note=HHPred: No good matches, closest is 77.4% probability at 	44.6328% coverage. Maltose/maltodextrin-binding periplasmic protein, Mosquito protein AZ1; mosquito, fatty acids, lipids, anti-viral, LIPID BINDING PROTEIN; HET: GLC; 1.95A {Escherichia coli}
    /note=NCBI Blast: GantcherGoblin46/Zeina48/Uzumaki45, Identity-99.435%, aligned:99.435%, coverage: 100%

CDS 32696 - 33043
  /gene="47"
  /product="gp47"
  /function="hypothetical protein"
  /locus tag="Argan_47"
    /note=Original Glimmer call @bp 32696 has strength 14.5; Genemark calls start at 32696
    /note=SSC: 32696-33043 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_UZUMAKI_46 [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 3.15369E-76 GAP: 144 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.544, -3.5676719685030167, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_UZUMAKI_46 [Arthrobacter phage Uzumaki]],,UVK62868,100.0,3.15369E-76 SIF-HHPRED:  SIF-Syn: High synteny, flanking genes conserved with Uzumaki.
    /note=Phagesdb Blast: Uzumaki46, function unknown, score: 230, e-value: 9e-61
    /note=GantcherGoblin47, function unknown, score: 207, e-value: 7e-54
    /note=Zeina49, function unknown, score: 197, e-value: 9e-51
    /note=HHPred: ATP synthase subunit b; ATP synthase, mitochondrial, respiratory chain, mammalian, MEMBRANE PROTEIN; HET: S12, CDL, LHG; 3.76A {Ovis aries}-Probability:68.3, Coverage: 82.6087%
    /note=NCBI Blast: Uzumaki46-Identity:99.1304, Aligned:100, Coverage:100. GantcherGoblin47-Identity:95.4545, 	aligned: 97.2727, coverage: 98.2609,

CDS 33040 - 33261
  /gene="48"
  /product="gp48"
  /function="hypothetical protein"
  /locus tag="Argan_48"
    /note=Original Glimmer call @bp 33040 has strength 4.91; Genemark calls start at 33040
    /note=SSC: 33040-33261 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_UZUMAKI_47 [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 5.51563E-44 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.562, -3.5925599723783583, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_UZUMAKI_47 [Arthrobacter phage Uzumaki]],,UVK62869,98.6301,5.51563E-44 SIF-HHPRED:  SIF-Syn: High synteny, flanking genes conserved by Uzumaki47/Zeina51
    /note=Phagesdb Blast: Uzumaki47/Zeina51, function unknown, score: 142,	e value: 3e-34	
    /note=
    /note=HHPred: Highest probability=73.7	highest coverage=60.274 MALATE DEHYDROGENASE; OXIDOREDUCTASE(NAD(A)-CHOH(D)); HET: CIT; 1.83A {Sus scrofa} SCOP: d.162.1.1, c.2.1.5
    /note=
    /note=NCBI Blast: hypothetical protein [Arthrobacter phage Uzumaki47]	Identity: 95.8904	Aligned: 98.6301	Coverage: 100
    /note=membrane protein [Arthrobacter phage Zeina51]	Identity: 87.6712 Aligned: 93.1507	Coverage: 100

CDS 33254 - 33352
  /gene="49"
  /product="gp49"
  /function="membrane protein"
  /locus tag="Argan_49"
    /note=Original Glimmer call @bp 33236 has strength 5.52; Genemark calls start at 33254
    /note=SSC: 33254-33352 CP: yes SCS: both-gm ST: NI BLAST-Start: [hypothetical protein SEA_GANTCHERGOBLIN_49 [Arthrobacter phage GantcherGoblin]],,NCBI, q1:s1 100.0% 1.47557E-11 GAP: -8 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.18, -2.2186743274732437, yes F: membrane protein SIF-BLAST: ,,[hypothetical protein SEA_GANTCHERGOBLIN_49 [Arthrobacter phage GantcherGoblin]],,UVK58711,100.0,1.47557E-11 SIF-HHPRED:  SIF-Syn: 

CDS 33355 - 34023
  /gene="50"
  /product="gp50"
  /function="hypothetical protein"
  /locus tag="Argan_50"
    /note=Original Glimmer call @bp 33355 has strength 13.22; Genemark calls start at 33355
    /note=SSC: 33355-34023 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_UZUMAKI_49 [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 9.93132E-163 GAP: 2 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.134, -4.487636275856737, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_UZUMAKI_49 [Arthrobacter phage Uzumaki]],,UVK62871,100.0,9.93132E-163 SIF-HHPRED:  SIF-Syn: 

CDS 34023 - 34361
  /gene="51"
  /product="gp51"
  /function="hypothetical protein"
  /locus tag="Argan_51"
    /note=Original Glimmer call @bp 34185 has strength 6.9; Genemark calls start at 34185
    /note=SSC: 34023-34361 CP: yes SCS: both-cs ST: NI BLAST-Start: [hypothetical protein SEA_GANTCHERGOBLIN_51 [Arthrobacter phage GantcherGoblin]],,NCBI, q1:s1 100.0% 1.12061E-43 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.535, -3.85780864677805, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_GANTCHERGOBLIN_51 [Arthrobacter phage GantcherGoblin]],,UVK58754,80.0,1.12061E-43 SIF-HHPRED:  SIF-Syn: 
    /note=Longer ORF has better RBS, and -1 overlap, but no coding potential to support the longer orf. Calling the longer gene fills a significant gap.

CDS 34364 - 34627
  /gene="52"
  /product="gp52"
  /function="membrane protein"
  /locus tag="Argan_52"
    /note=Original Glimmer call @bp 34364 has strength 4.73; Genemark calls start at 34364
    /note=SSC: 34364-34627 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_GANTCHERGOBLIN_52 [Arthrobacter phage GantcherGoblin]],,NCBI, q1:s1 100.0% 3.72844E-55 GAP: 2 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.288, -2.0720764396375664, yes F: membrane protein SIF-BLAST: ,,[hypothetical protein SEA_GANTCHERGOBLIN_52 [Arthrobacter phage GantcherGoblin]],,UVK58713,100.0,3.72844E-55 SIF-HHPRED:  SIF-Syn: High synteny, flanking genes conserved in Zeina/Uzumaki/Gantchergoblin.
    /note=BG: deepTmHMM and SOSUI call this a membrane protein.
    /note=
    /note=Phagesdb Blast: GantcherGoblin52, function unknown,score: 178, e-value :4e-45.
    /note=Uzumaki51, function unknown, score: 176, e-value: 2e-44. Zeina55, function unknown, score:76, e-value: 1e-44
    /note=HHpred: a.96.1.0 (A:1-186) automated matches {Staphylococcus aureus [TaxId: 1280]} | CLASS: All alpha proteins, FOLD: DNA-glycosylase, SUPFAM: DNA-glycosylase, FAM: automated matches	Probability: 81.4	Coverage: 49.4253
    /note=NCBI Blast: GantcherGoblin52, Identity: 100, Aligned: 100, Coverage: 100

CDS 34620 - 34817
  /gene="53"
  /product="gp53"
  /function="hypothetical protein"
  /locus tag="Argan_53"
    /note=Genemark calls start at 34620
    /note=SSC: 34620-34817 CP: no SCS: genemark ST: NI BLAST-Start: [hypothetical protein SEA_ZEINA_56 [Arthrobacter phage Zeina] ],,NCBI, q1:s1 100.0% 1.54586E-38 GAP: -8 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.115, -2.6430453417801454, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_ZEINA_56 [Arthrobacter phage Zeina] ],,UQS94730,98.4615,1.54586E-38 SIF-HHPRED:  SIF-Syn: High synteny, flanking genes conserved in Uzumaki52/Zeina56
    /note=Phagesdb Blast: Uzumaki52/Zeina56, Score: 132, E-value: 3e-31
    /note=HHPred: Iron uptake system component EfeO; Structural Genomics, Center for Structural Genomics of Infectious Diseases, CSGID, iron uptake system component EfeO, Lipid; HET: IOD, EDO; 1.5A {Yersinia pestis}	Probability: 62.8 Coverage: 73.8462
    /note=NCBI Blast: Uzumaki52/Zeina56, Identity: 98.4615, Aligned:98.4615, Coverage: 100

CDS 34814 - 35722
  /gene="54"
  /product="gp54"
  /function="hypothetical protein"
  /locus tag="Argan_54"
    /note=Original Glimmer call @bp 34814 has strength 16.32; Genemark calls start at 34814
    /note=SSC: 34814-35722 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_GANTCHERGOBLIN_54 [Arthrobacter phage GantcherGoblin] ],,NCBI, q1:s1 100.0% 0.0 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.947, -2.707694805492614, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_GANTCHERGOBLIN_54 [Arthrobacter phage GantcherGoblin] ],,UVK58715,100.0,0.0 SIF-HHPRED: DUF6353 ; Family of unknown function (DUF6353),,,PF19880.2,91.3907,100.0 SIF-Syn: High synteny, flanking genes conserved within GantcherGoblin54/Uzumaki53.
    /note=Phagesdb Blast: Matches GantcherGoblin54/Uzumaki53, function unknown
    /note=HHPred: DUF6353 ; Family of unknown function (DUF6353)	Probability: 100	Coverage: 91.3907
    /note=NCBI Blast: GantcherGoblin54/Uzumaki53	Identity: 100	Aligned: 100 Coverage: 100

CDS 35758 - 35934
  /gene="55"
  /product="gp55"
  /function="hypothetical protein"
  /locus tag="Argan_55"
    /note=Original Glimmer call @bp 35758 has strength 11.61; Genemark calls start at 35758
    /note=SSC: 35758-35934 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_ZEINA_58 [Arthrobacter phage Zeina] ],,NCBI, q1:s1 100.0% 6.17878E-33 GAP: 35 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.144, -4.97781437024576, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_ZEINA_58 [Arthrobacter phage Zeina] ],,UQS94732,100.0,6.17878E-33 SIF-HHPRED:  SIF-Syn: High synteny, flanking genes conserved and same with GantcherGoblin55/Uzumaki54/Zeina58
    /note=Phagesdb Blast: GantcherGoblin55/Uzumaki54/Zeina58, function unknown, score 116,   2e-26
    /note=HHPred:  Best match-Coiled-coil domain-containing protein 28, 62.2% probability, 29.3103% coverage
    /note=NCBI Blast: 100% identity, 100% alignment, 100% coverage with GantcherGoblin55/Uzumaki54/Zeina58, function unknown

CDS 35931 - 36647
  /gene="56"
  /product="gp56"
  /function="hypothetical protein"
  /locus tag="Argan_56"
    /note=Original Glimmer call @bp 35931 has strength 14.47; Genemark calls start at 35931
    /note=SSC: 35931-36647 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_GANTCHERGOBLIN_56 [Arthrobacter phage GantcherGoblin] ],,NCBI, q1:s1 100.0% 9.77776E-170 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.565, -4.352843561762387, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_GANTCHERGOBLIN_56 [Arthrobacter phage GantcherGoblin] ],,UVK58717,98.7395,9.77776E-170 SIF-HHPRED:  SIF-Syn: High synteny, flanking genes conserved between Uzumaki, GantcherGoblin, and Zeina.
    /note=Phagesdb Blast: 1e-133 with GantcherGoblin56 and Uzumaki55.
    /note=HHPred: 18%-19% coverage with 95% identity to a Lipopolysaccharide assembly protein A domain.
    /note=NCBI Blast: GantcherGoblin56 and Uzumaki55, 97.8992% identity and 98.7395% aligned, 100% coverage.

CDS 36644 - 37207
  /gene="57"
  /product="gp57"
  /function="hypothetical protein"
  /locus tag="Argan_57"
    /note=Original Glimmer call @bp 36752 has strength 9.88; Genemark calls start at 36644
    /note=SSC: 36644-37207 CP: no SCS: both-gm ST: SS BLAST-Start: [hypothetical protein SEA_GANTCHERGOBLIN_57 [Arthrobacter phage GantcherGoblin] ],,NCBI, q1:s1 100.0% 7.58078E-136 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.625, -3.31900957015528, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_GANTCHERGOBLIN_57 [Arthrobacter phage GantcherGoblin] ],,UVK58718,100.0,7.58078E-136 SIF-HHPRED:  SIF-Syn: High synteny, order of genes conserved with GantcherGoblin57, Uzumaki56, and Zeina60
    /note=Phagesdb Blast: Same e-score as GantcherGoblin57 and Uzumaki56. 
    /note=HHpred: No good matches, highest probability match is 42.7 with a % coverage of 45.6954. 
    /note=NCBI Blast: 80.7487% identity/aligned with 100% coverage with GantcherGoblin57 and Uzumaki56.

CDS 37230 - 41063
  /gene="58"
  /product="gp58"
  /function="DNA primase/polymerase"
  /locus tag="Argan_58"
    /note=Original Glimmer call @bp 37230 has strength 8.88; Genemark calls start at 37230
    /note=SSC: 37230-41063 CP: no SCS: both ST: NI BLAST-Start: [DNA primase/polymerase [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 0.0 GAP: 22 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.38, -3.8308929311341546, no F: DNA primase/polymerase SIF-BLAST: ,,[DNA primase/polymerase [Arthrobacter phage Uzumaki]],,UVK62879,100.0,0.0 SIF-HHPRED: DNA polymerase delta catalytic subunit; Protein, REPLICATION; HET: TTP, DOC; 3.08A {Homo sapiens},,,6TNY_A,41.112,100.0 SIF-Syn: High synteny, flanking genes conserved among Uzumaki, GantcherGoblin, and Zeina.
    /note=Phagesdb Blast: 
    /note=HHPred: 100% probability of being DNA polymerase
    /note=NCBI Blast: 99+% probability of being same DNA polymerase seen in Arthrobactor phages Uzumaki, GantcherGoblin, and Zeina. 100% alignment with DNA polymerase seen in Uzumaki.

CDS 41063 - 41242
  /gene="59"
  /product="gp59"
  /function="hypothetical protein"
  /locus tag="Argan_59"
    /note=Original Glimmer call @bp 41063 has strength 6.2; Genemark calls start at 41063
    /note=SSC: 41063-41242 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_GANTCHERGOBLIN_59 [Arthrobacter phage GantcherGoblin] ],,NCBI, q1:s1 100.0% 2.13375E-33 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.241, -5.728774177464096, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_GANTCHERGOBLIN_59 [Arthrobacter phage GantcherGoblin] ],,UVK58720,100.0,2.13375E-33 SIF-HHPRED:  SIF-Syn: 100% alignment with GantcherGoblin 59 and Uzumaki 58
    /note=Phagesdb Blast: GantcherGoblin59/Uzumaki58,  Score:122, E-value: 3e-28
    /note=HHPred: NKF/Function: BT_4661; HEPARIN-BINDING PROTEIN, HEPARAN SULPHATE; 1.95A {BACTEROIDES THETAIOTAOMICRON} Probability: 77.42 Coverage: 59.322%
    /note=NCBI Blast: GantcherGoblin59/Uzumaki58, Identity:100, Aligned:100, Coverage:100

CDS 41242 - 41604
  /gene="60"
  /product="gp60"
  /function="hypothetical protein"
  /locus tag="Argan_60"
    /note=Original Glimmer call @bp 41242 has strength 2.91; Genemark calls start at 41242
    /note=SSC: 41242-41604 CP: yes SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_GANTCHERGOBLIN_61 [Arthrobacter phage GantcherGoblin]],,NCBI, q45:s3 63.3333% 2.69312E-31 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.615, -4.2479250502251915, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_GANTCHERGOBLIN_61 [Arthrobacter phage GantcherGoblin]],,UVK58722,81.25,2.69312E-31 SIF-HHPRED:  SIF-Syn: Since this gene is an orpham, synteny can not be determined.
    /note=coding potential supports start #1 even though others in the cluster call start 2, which is shorter by more than 120bp, but these other phages call a small gene in that gap. There isn`t strong evidence to support calling a small gene in this gap-- I believe the longer gene is the better call even though its different from others in the cluster. (BG)

CDS 41594 - 41908
  /gene="61"
  /product="gp61"
  /function="hypothetical protein"
  /locus tag="Argan_61"
    /note=Original Glimmer call @bp 41594 has strength 10.21; Genemark calls start at 41594
    /note=SSC: 41594-41908 CP: no SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_GANTCHERGOBLIN_62 [Arthrobacter phage GantcherGoblin] ],,NCBI, q1:s1 100.0% 1.48606E-67 GAP: -11 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.793, -3.0301037898918786, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_GANTCHERGOBLIN_62 [Arthrobacter phage GantcherGoblin] ],,UVK58723,100.0,1.48606E-67 SIF-HHPRED:  SIF-Syn: 
    /note=NCBI Blast:
    /note=
    /note=HHPred:

CDS 41908 - 42093
  /gene="62"
  /product="gp62"
  /function="hypothetical protein"
  /locus tag="Argan_62"
    /note=Original Glimmer call @bp 41953 has strength 9.54; Genemark calls start at 41953
    /note=SSC: 41908-42093 CP: yes SCS: both-cs ST: SS BLAST-Start: [hypothetical protein SEA_ZEINA_66 [Arthrobacter phage Zeina]],,NCBI, q9:s1 86.8852% 1.13481E-6 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 0.669, -7.4774537397358, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_ZEINA_66 [Arthrobacter phage Zeina]],,UQS94762,52.2388,1.13481E-6 SIF-HHPRED:  SIF-Syn: 
    /note=HHred: Does not have a listed function
    /note=
    /note=Blast: does not have a listed function

CDS 42106 - 42693
  /gene="63"
  /product="gp63"
  /function="SSB protein"
  /locus tag="Argan_63"
    /note=Original Glimmer call @bp 42106 has strength 14.58; Genemark calls start at 42106
    /note=SSC: 42106-42693 CP: yes SCS: both ST: SS BLAST-Start: [hypothetical protein SEA_ZEINA_68 [Arthrobacter phage Zeina] ],,NCBI, q1:s1 100.0% 1.44659E-140 GAP: 12 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.191, -2.274496637415597, yes F: SSB protein SIF-BLAST: ,,[hypothetical protein SEA_ZEINA_68 [Arthrobacter phage Zeina] ],,UQS94740,100.0,1.44659E-140 SIF-HHPRED: Phage-related protein; Structural Genomics, PSI-Biology, Midwest Center for Structural Genomics, MCSG, Structures of Mtb Proteins Conferring Susceptibility to; 1.3A {Bacillus cereus},,,4JG2_A,74.359,99.1 SIF-Syn: 
    /note=Blast: No named function
    /note=
    /note=HHPred: high probability of a binding protein

CDS 42700 - 42966
  /gene="64"
  /product="gp64"
  /function="hypothetical protein"
  /locus tag="Argan_64"
    /note=Original Glimmer call @bp 42721 has strength 2.0; Genemark calls start at 42700
    /note=SSC: 42700-42966 CP: yes SCS: both-gm ST: SS BLAST-Start: [hypothetical protein SEA_ZEINA_69 [Arthrobacter phage Zeina] ],,NCBI, q1:s1 100.0% 5.03112E-58 GAP: 6 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.684, -6.1971024208175916, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_ZEINA_69 [Arthrobacter phage Zeina] ],,UQS94741,100.0,5.03112E-58 SIF-HHPRED:  SIF-Syn: 

CDS 42966 - 43247
  /gene="65"
  /product="gp65"
  /function="hypothetical protein"
  /locus tag="Argan_65"
    /note=Original Glimmer call @bp 42966 has strength 4.2; Genemark calls start at 42966
    /note=SSC: 42966-43247 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_GANTCHERGOBLIN_66 [Arthrobacter phage GantcherGoblin]],,NCBI, q1:s1 100.0% 1.4764E-58 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.65, -5.501485936053402, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_GANTCHERGOBLIN_66 [Arthrobacter phage GantcherGoblin]],,UVK58727,96.7742,1.4764E-58 SIF-HHPRED:  SIF-Syn: 

CDS 43247 - 43582
  /gene="66"
  /product="gp66"
  /function="hypothetical protein"
  /locus tag="Argan_66"
    /note=Original Glimmer call @bp 43247 has strength 2.46; Genemark calls start at 43247
    /note=SSC: 43247-43582 CP: yes SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_GANTCHERGOBLIN_67 [Arthrobacter phage GantcherGoblin]],,NCBI, q1:s1 100.0% 4.5445E-75 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.743, -4.37670158645119, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_GANTCHERGOBLIN_67 [Arthrobacter phage GantcherGoblin]],,UVK58728,100.0,4.5445E-75 SIF-HHPRED:  SIF-Syn: 

CDS 43582 - 43695
  /gene="67"
  /product="gp67"
  /function="hypothetical protein"
  /locus tag="Argan_67"
    /note=Original Glimmer call @bp 43582 has strength 11.57; Genemark calls start at 43582
    /note=SSC: 43582-43695 CP: yes SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_ZEINA_72 [Arthrobacter phage Zeina]],,NCBI, q1:s1 100.0% 2.15589E-13 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.947, -3.1725816037952645, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_ZEINA_72 [Arthrobacter phage Zeina]],,UQS94744,97.2973,2.15589E-13 SIF-HHPRED:  SIF-Syn: 

CDS 43685 - 44131
  /gene="68"
  /product="gp68"
  /function="hypothetical protein"
  /locus tag="Argan_68"
    /note=Original Glimmer call @bp 43685 has strength 12.06; Genemark calls start at 43685
    /note=SSC: 43685-44131 CP: yes SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_ZEINA_73 [Arthrobacter phage Zeina]],,NCBI, q1:s1 100.0% 9.39814E-86 GAP: -11 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.043, -2.5052746077145835, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_ZEINA_73 [Arthrobacter phage Zeina]],,UQS94745,92.517,9.39814E-86 SIF-HHPRED:  SIF-Syn: 

CDS 44132 - 44419
  /gene="69"
  /product="gp69"
  /function="PnuC-like Nicotinamide riboside transporter"
  /locus tag="Argan_69"
    /note=Original Glimmer call @bp 44132 has strength 4.57; Genemark calls start at 44132
    /note=SSC: 44132-44419 CP: yes SCS: both ST: NI BLAST-Start: [PnuC-like Nicotinamide riboside transporter [Arthrobacter phage Zeina]],,NCBI, q1:s1 100.0% 1.47705E-62 GAP: 0 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.08, -5.1128049478500825, no F: PnuC-like Nicotinamide riboside transporter SIF-BLAST: ,,[PnuC-like Nicotinamide riboside transporter [Arthrobacter phage Zeina]],,UQS94746,100.0,1.47705E-62 SIF-HHPRED: Nicotinamide riboside transporter PnuC; membrane transport, vitamin transport, Nicotinamide riboside uptake, TRANSPORT PROTEIN; HET: MSE, NNR, BOG; 2.8A {Neisseria mucosa ATCC 25996},,,4QTN_C,75.7895,99.2 SIF-Syn: 
    /note=HHPred had this protein align 99.22% with a transport protein 4QTN.

CDS 44513 - 45007
  /gene="70"
  /product="gp70"
  /function="HNH endonuclease"
  /locus tag="Argan_70"
    /note=Original Glimmer call @bp 44513 has strength 5.9; Genemark calls start at 44513
    /note=SSC: 44513-45007 CP: no SCS: both ST: NI BLAST-Start: [HNH endonuclease [Arthrobacter phage GantcherGoblin] ],,NCBI, q2:s1 99.3902% 4.9049E-117 GAP: 93 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.324, -4.998861595543246, no F: HNH endonuclease SIF-BLAST: ,,[HNH endonuclease [Arthrobacter phage GantcherGoblin] ],,UVK58732,100.0,4.9049E-117 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,97.561,100.0 SIF-Syn: 

CDS 45050 - 45259
  /gene="71"
  /product="gp71"
  /function="hypothetical protein"
  /locus tag="Argan_71"
    /note=Original Glimmer call @bp 45050 has strength 2.67; Genemark calls start at 45050
    /note=SSC: 45050-45259 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_UZUMAKI_71 [Arthrobacter phage Uzumaki]],,NCBI, q19:s1 73.913% 2.51564E-29 GAP: 42 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.116, -5.291802279020531, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_UZUMAKI_71 [Arthrobacter phage Uzumaki]],,UVK62893,100.0,2.51564E-29 SIF-HHPRED:  SIF-Syn: 

CDS 45281 - 45400
  /gene="72"
  /product="gp72"
  /function="hypothetical protein"
  /locus tag="Argan_72"
    /note=
    /note=SSC: 45281-45400 CP: no SCS: neither ST: NI BLAST-Start: [hypothetical protein SEA_UZUMAKI_72 [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 97.4359% 3.42868E-17 GAP: 21 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.392, -7.20653226944118, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_UZUMAKI_72 [Arthrobacter phage Uzumaki]],,UVK62894,97.4359,3.42868E-17 SIF-HHPRED:  SIF-Syn: 
    /note=Same as Uzumaki. Weak coding potential. Not called by Glimmer or GM. Added manually. Fills the gap.

CDS 45397 - 45540
  /gene="73"
  /product="gp73"
  /function="hypothetical protein"
  /locus tag="Argan_73"
    /note=
    /note=SSC: 45397-45540 CP: no SCS: neither ST: NI BLAST-Start: [hypothetical protein SEA_UZUMAKI_73 [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 2.42214E-24 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.539, -6.642181763633265, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_UZUMAKI_73 [Arthrobacter phage Uzumaki]],,UVK62895,97.8723,2.42214E-24 SIF-HHPRED:  SIF-Syn: 
    /note=Same as Uzumaki. Weak coding potential, not called automatically by either Glimmer or GM. Fills the gap.

CDS 45528 - 45686
  /gene="74"
  /product="gp74"
  /function="hypothetical protein"
  /locus tag="Argan_74"
    /note=
    /note=SSC: 45528-45686 CP: no SCS: neither ST: NI BLAST-Start: [hypothetical protein SEA_UZUMAKI_74 [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 1.66613E-31 GAP: -13 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.134, -4.408951082954879, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_UZUMAKI_74 [Arthrobacter phage Uzumaki]],,UVK62896,100.0,1.66613E-31 SIF-HHPRED:  SIF-Syn: 
    /note=Same as Uzumaki. Weak coding potential, but its there and fills the gap.

CDS 45686 - 46933
  /gene="75"
  /product="gp75"
  /function="DNA helicase"
  /locus tag="Argan_75"
    /note=Original Glimmer call @bp 45686 has strength 5.45; Genemark calls start at 45686
    /note=SSC: 45686-46933 CP: no SCS: both ST: NI BLAST-Start: [DNA helicase [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 0.0 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.105, -3.222210725506937, yes F: DNA helicase SIF-BLAST: ,,[DNA helicase [Arthrobacter phage Uzumaki]],,UVK62897,99.759,0.0 SIF-HHPRED: Nuclear protein STH1/NPS1; Chromatin remodeling, Nucleosome, Gene Regulation, MOTOR PROTEIN; HET: ATP, ADP, MG, BEF; 3.9A {Xenopus laevis},,,6VZ4_K,97.1084,100.0 SIF-Syn: 

CDS 46905 - 47252
  /gene="76"
  /product="gp76"
  /function="hypothetical protein"
  /locus tag="Argan_76"
    /note=Original Glimmer call @bp 46905 has strength 6.62; Genemark calls start at 46905
    /note=SSC: 46905-47252 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_UZUMAKI_76 [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 7.54664E-78 GAP: -29 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.795, -3.0248543014571307, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_UZUMAKI_76 [Arthrobacter phage Uzumaki]],,UVK62898,98.2609,7.54664E-78 SIF-HHPRED:  SIF-Syn: 

CDS 47252 - 47443
  /gene="77"
  /product="gp77"
  /function="hypothetical protein"
  /locus tag="Argan_77"
    /note=Original Glimmer call @bp 47252 has strength 3.79; Genemark calls start at 47252
    /note=SSC: 47252-47443 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_GANTCHERGOBLIN_76 [Arthrobacter phage GantcherGoblin]],,NCBI, q1:s1 100.0% 4.29262E-34 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.747, -5.238109312333945, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_GANTCHERGOBLIN_76 [Arthrobacter phage GantcherGoblin]],,UVK58737,92.0635,4.29262E-34 SIF-HHPRED:  SIF-Syn: 
    /note=No sources were able to point to the fact that this gene has a specific function.

CDS 47443 - 47799
  /gene="78"
  /product="gp78"
  /function="HNH endonuclease"
  /locus tag="Argan_78"
    /note=Original Glimmer call @bp 47482 has strength 7.7; Genemark calls start at 47443
    /note=SSC: 47443-47799 CP: no SCS: both-gm ST: NI BLAST-Start: [HNH endonuclease [Arthrobacter phage GantcherGoblin]],,NCBI, q1:s1 100.0% 2.82572E-82 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.486, -3.609999816735608, yes F: HNH endonuclease SIF-BLAST: ,,[HNH endonuclease [Arthrobacter phage GantcherGoblin]],,UVK58738,100.0,2.82572E-82 SIF-HHPRED: d.4.1.3 (M:1-105) Intron-encoded homing endonuclease I-HmuI {Bacteriophage SPO1 [TaxId: 10685]} | CLASS: Alpha and beta proteins (a+b), FOLD: His-Me finger endonucleases, SUPFAM: His-Me finger endonucleases, FAM: Intron-encoded homing endonucleases,,,SCOP_d1u3em1,53.3898,99.2 SIF-Syn: 

CDS 47796 - 48131
  /gene="79"
  /product="gp79"
  /function="hypothetical protein"
  /locus tag="Argan_79"
    /note=Original Glimmer call @bp 47799 has strength 2.86; Genemark calls start at 47799
    /note=SSC: 47796-48131 CP: no SCS: both-cs ST: NI BLAST-Start: [membrane protein [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 1.56358E-73 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.416, -3.8970005018578204, yes F: hypothetical protein SIF-BLAST: ,,[membrane protein [Arthrobacter phage Uzumaki]],,UVK62901,100.0,1.56358E-73 SIF-HHPRED:  SIF-Syn: 
    /note=This gene has no known function because none of the tools that were provided were able to find a function. Sources such as BLAST and HHPRED highlighted that this gene is most likely in a family of unknown genes.

CDS 48128 - 48466
  /gene="80"
  /product="gp80"
  /function="hypothetical protein"
  /locus tag="Argan_80"
    /note=Original Glimmer call @bp 48128 has strength 11.76; Genemark calls start at 48128
    /note=SSC: 48128-48466 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_GANTCHERGOBLIN_79 [Arthrobacter phage GantcherGoblin]],,NCBI, q1:s1 100.0% 3.67973E-71 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.901, -4.976656753876107, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_GANTCHERGOBLIN_79 [Arthrobacter phage GantcherGoblin]],,UVK58740,97.3214,3.67973E-71 SIF-HHPRED:  SIF-Syn: 

CDS 48463 - 48813
  /gene="81"
  /product="gp81"
  /function="hypothetical protein"
  /locus tag="Argan_81"
    /note=Original Glimmer call @bp 48463 has strength 4.02; Genemark calls start at 48463
    /note=SSC: 48463-48813 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_GANTCHERGOBLIN_81 [Arthrobacter phage GantcherGoblin]],,NCBI, q1:s1 100.0% 1.35555E-58 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.615, -4.2479250502251915, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_GANTCHERGOBLIN_81 [Arthrobacter phage GantcherGoblin]],,UVK58742,83.6207,1.35555E-58 SIF-HHPRED:  SIF-Syn: 
    /note=Tools such as HHPRED and BLAST indicate that there is a very high probability that this gene is an HNH endonuclease.

CDS 48814 - 49053
  /gene="82"
  /product="gp82"
  /function="hypothetical protein"
  /locus tag="Argan_82"
    /note=Original Glimmer call @bp 48814 has strength 5.54; Genemark calls start at 48814
    /note=SSC: 48814-49053 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_ZEINA_84 [Arthrobacter phage Zeina]],,NCBI, q1:s1 100.0% 2.7369E-39 GAP: 0 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.661, -4.345350014007458, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_ZEINA_84 [Arthrobacter phage Zeina]],,UQS94753,87.3418,2.7369E-39 SIF-HHPRED:  SIF-Syn: 
    /note=GenMark shows coding potential for entire gene. Start #2 has 3 bp overlap. Similar genes in pham have same start, such as GantcherGoblin_83. Longest orf, z-score of 3.277, final score of -2.481. Through HHpred when you plug in the protein sequence it states that the function is similar to about 99.96% HNH endonuclEase.

CDS 49050 - 49832
  /gene="83"
  /product="gp83"
  /function="HNH endonuclease"
  /locus tag="Argan_83"
    /note=Original Glimmer call @bp 49050 has strength 8.92; Genemark calls start at 49050
    /note=SSC: 49050-49832 CP: no SCS: both ST: NI BLAST-Start: [HNH endonuclease [Arthrobacter phage GantcherGoblin]],,NCBI, q1:s1 99.6154% 0.0 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.277, -2.4811409279978642, yes F: HNH endonuclease SIF-BLAST: ,,[HNH endonuclease [Arthrobacter phage GantcherGoblin]],,UVK58744,97.3282,0.0 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,37.3077,99.7 SIF-Syn: 

CDS 49829 - 49966
  /gene="84"
  /product="gp84"
  /function="hypothetical protein"
  /locus tag="Argan_84"
    /note=Original Glimmer call @bp 49829 has strength 2.37; Genemark calls start at 49829
    /note=SSC: 49829-49966 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_ZEINA_86 [Arthrobacter phage Zeina]],,NCBI, q1:s1 97.7778% 6.07447E-17 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.112, -4.534364510438067, no F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_ZEINA_86 [Arthrobacter phage Zeina]],,UQS94755,93.1818,6.07447E-17 SIF-HHPRED: heterotetrameric sarcosine oxidase delta-subunit; Sarcosine oxidase, Flavoenzyme, Electron transfer, Folate-methylating enzyme, OXIDOREDUCTASE; HET: FAD, FMN, NAD, FOA; 1.85A {Stenotrophomonas maltophilia},,,2GAG_D,37.7778,95.0 SIF-Syn: 

CDS 49956 - 50228
  /gene="85"
  /product="gp85"
  /function="hypothetical protein"
  /locus tag="Argan_85"
    /note=Original Glimmer call @bp 49956 has strength 4.83; Genemark calls start at 49956
    /note=SSC: 49956-50228 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_UZUMAKI_85 [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 1.49937E-54 GAP: -11 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.037, -2.5969056218148614, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_UZUMAKI_85 [Arthrobacter phage Uzumaki]],,UVK62907,97.7778,1.49937E-54 SIF-HHPRED:  SIF-Syn: 

CDS 50215 - 50451
  /gene="86"
  /product="gp86"
  /function="membrane protein"
  /locus tag="Argan_86"
    /note=Original Glimmer call @bp 50215 has strength 5.45; Genemark calls start at 50212
    /note=SSC: 50215-50451 CP: no SCS: both-gl ST: NI BLAST-Start: [membrane protein [Arthrobacter phage Uzumaki]],,NCBI, q1:s2 100.0% 3.42258E-48 GAP: -14 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.711, -3.7902323473438546, yes F: membrane protein SIF-BLAST: ,,[membrane protein [Arthrobacter phage Uzumaki]],,UVK62908,98.7342,3.42258E-48 SIF-HHPRED:  SIF-Syn: 
    /note=shows similarities to a membrane protein

CDS 50432 - 50668
  /gene="87"
  /product="gp87"
  /function="hypothetical protein"
  /locus tag="Argan_87"
    /note=Original Glimmer call @bp 50432 has strength 6.39; Genemark calls start at 50432
    /note=SSC: 50432-50668 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_UZUMAKI_87 [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 2.58992E-50 GAP: -20 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.043, -2.5052746077145835, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_UZUMAKI_87 [Arthrobacter phage Uzumaki]],,UVK62909,100.0,2.58992E-50 SIF-HHPRED:  SIF-Syn: 
    /note=has similarities to HNH endonuclease.

CDS 50665 - 50889
  /gene="88"
  /product="gp88"
  /function="hypothetical protein"
  /locus tag="Argan_88"
    /note=Original Glimmer call @bp 50665 has strength 5.48; Genemark calls start at 50665
    /note=SSC: 50665-50889 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_UZUMAKI_88 [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 7.47787E-46 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.889, -2.9063687850157054, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_UZUMAKI_88 [Arthrobacter phage Uzumaki]],,UVK62910,100.0,7.47787E-46 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,79.7297,99.5 SIF-Syn: 
    /note=When the protein sequence is plugged into HHPRED it stated that for a most of the gene it has a high possibility of being a DNA binding protein. It also has similarities with other phages genes within it`s function.

CDS 51286 - 51648
  /gene="89"
  /product="gp89"
  /function="VRR-Nuc domain protein"
  /locus tag="Argan_89"
    /note=Original Glimmer call @bp 51310 has strength 1.24; Genemark calls start at 51202
    /note=SSC: 51286-51648 CP: no SCS: both-cs ST: NI BLAST-Start: [VRR-Nuc domain protein [Arthrobacter phage GantcherGoblin]],,NCBI, q1:s29 100.0% 2.88262E-82 GAP: 396 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.048, -5.053395196076056, no F: VRR-Nuc domain protein SIF-BLAST: ,,[VRR-Nuc domain protein [Arthrobacter phage GantcherGoblin]],,UVK58749,81.0811,2.88262E-82 SIF-HHPRED:  SIF-Syn: 
    /note=When the protein sequence is plugged into HHPRED it stated that for a most of the gene it has a 99.7 % possibility of being a DNA binding protein. It also has similarities with other phages genes within it`s function.

CDS 51614 - 52183
  /gene="90"
  /product="gp90"
  /function="exonuclease"
  /locus tag="Argan_90"
    /note=Original Glimmer call @bp 51614 has strength 11.53; Genemark calls start at 51614
    /note=SSC: 51614-52183 CP: no SCS: both ST: NI BLAST-Start: [Cas4 family exonuclease [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 5.71665E-139 GAP: -35 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.014, -4.65945827897842, no F: exonuclease SIF-BLAST: ,,[Cas4 family exonuclease [Arthrobacter phage Uzumaki]],,UVK62912,100.0,5.71665E-139 SIF-HHPRED:  SIF-Syn: 
    /note=When put into HHPRED the gene has a 99%  probability of being a DNA binding protein but that is only for a small portion of the gene is a DNA binding protein therefore we cant predict the entire gene as this because it does not cover the entire gene

CDS 52180 - 54903
  /gene="91"
  /product="gp91"
  /function="helix-turn-helix DNA binding domain"
  /locus tag="Argan_91"
    /note=Original Glimmer call @bp 52180 has strength 8.7; Genemark calls start at 52180
    /note=SSC: 52180-54903 CP: no SCS: both ST: NI BLAST-Start: [helix-turn-helix DNA binding domain protein [Arthrobacter phage Uzumaki]],,NCBI, q1:s1 100.0% 0.0 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.123, -2.417348306996335, yes F: helix-turn-helix DNA binding domain SIF-BLAST: ,,[helix-turn-helix DNA binding domain protein [Arthrobacter phage Uzumaki]],,UVK62913,100.0,0.0 SIF-HHPRED:  SIF-Syn: 
    /note=This gene has has functions that are around 99 % similar unfortunately theses similarities aren`t for the majority of the gene therefore doesn`t have a specific function.

CDS 54903 - 55160
  /gene="92"
  /product="gp92"
  /function="hypothetical protein"
  /locus tag="Argan_92"
    /note=Original Glimmer call @bp 54903 has strength 3.13; Genemark calls start at 54903
    /note=SSC: 54903-55160 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_ZEINA_92 [Arthrobacter phage Zeina] ],,NCBI, q1:s1 100.0% 2.17329E-55 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.743, -3.9787615777791516, yes F: hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_ZEINA_92 [Arthrobacter phage Zeina] ],,UQS94761,100.0,2.17329E-55 SIF-HHPRED:  SIF-Syn: