CDS complement (join(1. .384;69442. .69522))
  /gene="1"
  /product="gp1"
  /function="Hypothetical Protein"
  /locus tag="RazzB_1"
    /note=Original Glimmer call @bp 384 has strength 10.65
    /note=SSC: 384-69442 CP: no SCS: glimmer ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_127 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 83.1169% 6.17381E-83 GAP: 769 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.078, -2.297359520375101, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_127 [Arthrobacter phage MellowYellow]],,XLG25041,49.4118,6.17381E-83 SIF-HHPRED:  SIF-Syn: 
    /note=There is no starterator report for this gene-start site was chosen to include the longest ORF. Hits to hypothetical protein in BLASTp.  HHpred does not provide addotional information.
    /note=No TMR

CDS 1154 - 1399
  /gene="2"
  /product="gp2"
  /function="Hypothetical Protein"
  /locus tag="RazzB_2"
    /note=Original Glimmer call @bp 1154 has strength 14.12; Genemark calls start at 1175
    /note=SSC: 1154-1399 CP: no SCS: both-gl ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_2 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 2.67134E-50 GAP: 769 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.944, -2.442961286954254, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_2 [Arthrobacter phage MellowYellow]],,XLG24922,97.561,2.67134E-50 SIF-HHPRED:  SIF-Syn: 
    /note=no hits with a probability greater than 90 or coverage above 70 
    /note=similar genes in Phamerator, but no functions called  
    /note=no TMR predicted
    /note=
    /note=The gap between 69442 and stop 1399 was investigated and saw slight coding potential. We added a gene (start 1069 and stop 314). Glimmer and Genemark did not call this gene. No BLASTp results to support this gene call. There were BLASTn results that hit beagle, mellow yellow, PureGobe and pointus phages. No gene was called in those similar phages - we deleted the gene.

CDS 1399 - 1494
  /gene="3"
  /product="gp3"
  /function="Membrane protein"
  /locus tag="RazzB_3"
    /note=Genemark calls start at 1399
    /note=SSC: 1399-1494 CP: no SCS: genemark ST: NI BLAST-Start: [membrane protein [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 5.34132E-11 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.794, -2.8454123590742793, yes F: Membrane protein SIF-BLAST: ,,[membrane protein [Arthrobacter phage MellowYellow]],,XLG24924,100.0,5.34132E-11 SIF-HHPRED:  SIF-Syn: 
    /note=Genemark agrees that it is likely a gene due to high coding potential throughout the reading frame.
    /note=Genemark concludes that it starts at 1399.
    /note=Blastp, HHPred, and DeepTMHMM agree that it is a membrane protein.

CDS 1494 - 1730
  /gene="4"
  /product="gp4"
  /function="DNA binding protein"
  /locus tag="RazzB_4"
    /note=Original Glimmer call @bp 1494 has strength 10.72; Genemark calls start at 1494
    /note=SSC: 1494-1730 CP: no SCS: both ST: NI BLAST-Start: [DNA binding protein [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 6.0523E-48 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.8, -4.900818932671566, yes F: DNA binding protein SIF-BLAST: ,,[DNA binding protein [Arthrobacter phage MellowYellow]],,XLG24925,97.4359,6.0523E-48 SIF-HHPRED:  SIF-Syn: 
    /note=High CP - Likely a gene 
    /note=-1 overlap, glimmer and genemark agree on start site, supported by 5 MAs
    /note=3 hits in BLASTp that have a 90% probability of DNA binding protein 
    /note=function called in Phamerator as a DNA binding protein

CDS 1727 - 2314
  /gene="5"
  /product="gp5"
  /function="membrane protein"
  /locus tag="RazzB_5"
    /note=Original Glimmer call @bp 1727 has strength 10.37; Genemark calls start at 1727
    /note=SSC: 1727-2314 CP: no SCS: both ST: NI BLAST-Start: [membrane protein [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 3.45358E-129 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.058, -4.408951082954879, no F: membrane protein SIF-BLAST: ,,[membrane protein [Arthrobacter phage MellowYellow]],,XLG24926,97.3822,3.45358E-129 SIF-HHPRED:  SIF-Syn: 
    /note=-coding potential 
    /note=-likely a gene
    /note=-1727 as start call -4 overlap, 1 MA in Starterator
    /note=-mellow yellow and razz b have similar genes 
    /note=-membrane proteins 
    /note=-2 TMRs

CDS 2311 - 2838
  /gene="6"
  /product="gp6"
  /function="Hypothetical Protein"
  /locus tag="RazzB_6"
    /note=Genemark calls start at 2311
    /note=SSC: 2311-2838 CP: no SCS: genemark ST: NI BLAST-Start: [hypothetical protein PBI_BEAGLE_9 [Arthrobacter phage Beagle]],,NCBI, q1:s1 100.0% 5.76161E-82 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.325, -3.8540125308361968, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein PBI_BEAGLE_9 [Arthrobacter phage Beagle]],,QGJ92769,84.5714,5.76161E-82 SIF-HHPRED:  SIF-Syn: 
    /note=Genemark concludes that it is likely a gene due to high coding potential within the reading frame. 
    /note=Both Glimmer and Starterator agree that the start point is 2311.
    /note=No reliable evidence regarding function from any source.

CDS 2835 - 3242
  /gene="7"
  /product="gp7"
  /function="Hypothetical Protein"
  /locus tag="RazzB_7"
    /note=Original Glimmer call @bp 2835 has strength 0.98; Genemark calls start at 2835
    /note=SSC: 2835-3242 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein PBI_BEAGLE_10 [Arthrobacter phage Beagle] ],,NCBI, q1:s1 100.0% 1.39088E-93 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.776, -4.109171212198345, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein PBI_BEAGLE_10 [Arthrobacter phage Beagle] ],,QGJ92770,100.0,1.39088E-93 SIF-HHPRED:  SIF-Syn: 
    /note=High CP - Likely a gene 
    /note=-4 overlap with 6 MAs agreeing with glimmer and GeneMark
    /note=Phamerator has nucleotide similarity in MellowYellow and Beagle with the matching Pham numbers. No function is called in either gene for those phages. Membrane protein is shown in the BLAST hits, however, 83% identity to that hit. HHPred does not give any information and the DeepTMHMM does not show membrane regions.

CDS 3372 - 3500
  /gene="8"
  /product="gp8"
  /function="membrane protein"
  /locus tag="RazzB_8"
    /note=Genemark calls start at 3372
    /note=SSC: 3372-3500 CP: no SCS: genemark ST: NI BLAST-Start: [hypothetical protein PBI_BEAGLE_11 [Arthrobacter phage Beagle] ],,NCBI, q1:s1 100.0% 4.41435E-19 GAP: 129 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.458, -4.5888612675729545, yes F: membrane protein SIF-BLAST: ,,[hypothetical protein PBI_BEAGLE_11 [Arthrobacter phage Beagle] ],,QGJ92771,100.0,4.41435E-19 SIF-HHPRED:  SIF-Syn: 
    /note=Host Trained GeneMark shows slight peak in coding potential.
    /note=start site is supported by 6 MAs in starterator 
    /note=Phamerator has nucleotide similarity in MellowYellow and Beagle with the matching Pham numbers. No function is called in either gene for those phages. Hypothetical protein for the BLAST hits. HHPred does not give any information. DeepTMHMM does shows 1 transmembrane region.

CDS 3500 - 3655
  /gene="9"
  /product="gp9"
  /function="Hypothetical Protein"
  /locus tag="RazzB_9"
    /note=Original Glimmer call @bp 3500 has strength 20.68; Genemark calls start at 3500
    /note=SSC: 3500-3655 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein PBI_BEAGLE_12 [Arthrobacter phage Beagle] ],,NCBI, q1:s1 100.0% 5.82428E-26 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.985, -4.643862285635445, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein PBI_BEAGLE_12 [Arthrobacter phage Beagle] ],,QGJ92772,100.0,5.82428E-26 SIF-HHPRED:  SIF-Syn: 
    /note=High coding potential - likely a gene
    /note=Glimmer and Genemark agree on start supported by 8MAs 
    /note=Phamerator has nucleotide similarity in MellowYellow and Beagle with the matching Pham numbers. No function is called in either gene for those phages Hypothetical protein for BLAST hits. HHPred does not give any information and the DeepTMHMM does not show membrane regions.

CDS 3652 - 3900
  /gene="10"
  /product="gp10"
  /function="Hypothetical Protein"
  /locus tag="RazzB_10"
    /note=Original Glimmer call @bp 3652 has strength 14.76; Genemark calls start at 3652
    /note=SSC: 3652-3900 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein PBI_BEAGLE_13 [Arthrobacter phage Beagle] ],,NCBI, q1:s1 100.0% 2.84684E-53 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.469, -5.070883472086901, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein PBI_BEAGLE_13 [Arthrobacter phage Beagle] ],,QGJ92773,100.0,2.84684E-53 SIF-HHPRED:  SIF-Syn: 
    /note=High coding potential - likely a gene 
    /note=glimmer and genemark agree supported by 5 MAs in starterator
    /note=Phamerator has nucleotide similarity in MellowYellow and Beagle with the matching Pham numbers. No function is called in either gene for those phages Hypothetical protein for BLAST hits. HHPred does not give any information and the DeepTMHMM does not show membrane regions.

CDS 3923 - 4504
  /gene="11"
  /product="gp11"
  /function="ParB-like nuclease domain"
  /locus tag="RazzB_11"
    /note=Original Glimmer call @bp 3923 has strength 19.59; Genemark calls start at 3923
    /note=SSC: 3923-4504 CP: no SCS: both ST: NI BLAST-Start: [ParB-like nuclease domain protein [Arthrobacter phage Pointis] ],,NCBI, q1:s1 100.0% 2.67371E-138 GAP: 22 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.537, -4.1472396848822415, yes F: ParB-like nuclease domain SIF-BLAST: ,,[ParB-like nuclease domain protein [Arthrobacter phage Pointis] ],,XIJ70961,100.0,2.67371E-138 SIF-HHPRED:  SIF-Syn: 
    /note=High CP - Likely a gene
    /note=Glimmer and genemark agree on start site supported by 12 MAs on Starterator
    /note=Phamerator shows nucleotide similarity is present for Genes 15 and Genes 12 in Beagle and MellowYellow, respectively. Both functions have been called for those phages as ParB-like nuclease domain. BLAST hits are also for ParB-like nuclease domain. HHPred has many hits that are irrelevant. No TMR from DeepTMHMM query.

CDS 4504 - 4743
  /gene="12"
  /product="gp12"
  /function="Hypothetical Protein"
  /locus tag="RazzB_12"
    /note=Original Glimmer call @bp 4504 has strength 8.7; Genemark calls start at 4504
    /note=SSC: 4504-4743 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein PBI_BEAGLE_16 [Arthrobacter phage Beagle]],,NCBI, q1:s2 100.0% 5.49169E-34 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.639, -4.199347842547433, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein PBI_BEAGLE_16 [Arthrobacter phage Beagle]],,QGJ92776,95.0,5.49169E-34 SIF-HHPRED:  SIF-Syn: 
    /note=High CP- likely a gene 
    /note=Glimmer and genemark agree supported by 5MAs in Starterator. -1 gap is best evidence of start site 
    /note=Phamerator has nucleotide similarity in MellowYellow and Beagle with the matching Pham numbers. No function is called in either gene for those phages. Hypothetical Protein for BLAST hits. HHPred does not give any information and the DeepTMHMM does not show transmembrane regions.

CDS 4728 - 4826
  /gene="13"
  /product="gp13"
  /function="Hypothetical Protein"
  /locus tag="RazzB_13"
    /note=Genemark calls start at 4728
    /note=SSC: 4728-4826 CP: no SCS: genemark ST: NI BLAST-Start: [hypothetical protein SEA_ODYSSEY395_18 [Arthrobacter phage Odyssey395] ],,NCBI, q1:s1 100.0% 2.08511E-13 GAP: -16 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.139, -4.236379132697792, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_ODYSSEY395_18 [Arthrobacter phage Odyssey395] ],,QOP66768,100.0,2.08511E-13 SIF-HHPRED:  SIF-Syn: 
    /note=Start called only 4728 in GeneMark, no start called Glimmer
    /note=Start 4728 has 3 MAs so it has more support from Starterator
    /note=Start 4740 has 3 MAs but wasn`t called by either GeneMark or Glimmer although the gap/overlap data gives that 4740 start the better gap/overlap
    /note=Keeping start
    /note=BLAST hits to hypothetical protein and Phamerator has nucleotide similarity with no function called
    /note=HHPred hits are not high enough to be informative
    /note=0 TMRs

CDS 4813 - 5331
  /gene="14"
  /product="gp14"
  /function="helix-turn-helix DNA binding domain"
  /locus tag="RazzB_14"
    /note=Original Glimmer call @bp 4813 has strength 20.76; Genemark calls start at 4813
    /note=SSC: 4813-5331 CP: no SCS: both ST: NI BLAST-Start: [helix-turn-helix DNA binding domain protein [Arthrobacter phage Pointis]],,NCBI, q1:s1 100.0% 1.44879E-119 GAP: -14 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.703, -3.4897410997597818, yes F: helix-turn-helix DNA binding domain SIF-BLAST: ,,[helix-turn-helix DNA binding domain protein [Arthrobacter phage Pointis]],,XIJ70964,100.0,1.44879E-119 SIF-HHPRED:  SIF-Syn: 
    /note=Start site 4813 called for both GeneMark and Glimmer
    /note=Start 4813 has 7 MAs and gap/overlap of -14 supports start call
    /note=Phamerator has nucleotide similarity and functions called for helix-turn-helix DNA binding protein
    /note=Top hits for helix-turn-helix DNA binding protein in BLAST
    /note=HHPred doesn`t give additional data
    /note=0 TMRs

CDS 5324 - 5743
  /gene="15"
  /product="gp15"
  /function="ribbon-helix-helix DNA binding domain"
  /locus tag="RazzB_15"
    /note=Original Glimmer call @bp 5324 has strength 7.49; Genemark calls start at 5324
    /note=SSC: 5324-5743 CP: no SCS: both ST: NI BLAST-Start: [ribbon-helix-helix DNA binding domain [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 2.0635E-95 GAP: -8 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.063, -4.8633681590770825, no F: ribbon-helix-helix DNA binding domain SIF-BLAST: ,,[ribbon-helix-helix DNA binding domain [Arthrobacter phage MellowYellow]],,XLG24936,100.0,2.0635E-95 SIF-HHPRED:  SIF-Syn: 
    /note=Start for GeneMark and Glimmer agree 5,324
    /note=Start 5324 has 11 MAs and the gap/overlap is -8
    /note=Phamerator suggests Pham members function with nucleotide similarity for ribbon-helix-helix DNA binding domain
    /note=BLAST hits are high and suggest same function
    /note=No info from HHPred
    /note=0 TMRs

CDS 5756 - 7387
  /gene="16"
  /product="gp16"
  /function="terminase"
  /locus tag="RazzB_16"
    /note=Original Glimmer call @bp 5756 has strength 13.54; Genemark calls start at 5756
    /note=SSC: 5756-7387 CP: no SCS: both ST: NI BLAST-Start: [terminase large subunit [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 0.0 GAP: 12 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.824, -4.989602575074527, no F: terminase SIF-BLAST: ,,[terminase large subunit [Arthrobacter phage MellowYellow]],,XLG24937,99.8158,0.0 SIF-HHPRED:  SIF-Syn: 
    /note=Glimmer and GeneMark agree on start call 5756
    /note=Start 5756 has 12 MAs and gap/overlap of 12 supports start
    /note=Phamerator nucleotide similarity for Beagle and MellowYellow- one calls terminase large subunit and other calls terminase
    /note=Terminase and terminase large subunit are hits for BLAST, more hits for terminase
    /note=Hits in HHPred for terminase 
    /note=No small subunit called so terminase is the call

CDS 7445 - 7756
  /gene="17"
  /product="gp17"
  /function="membrane protein"
  /locus tag="RazzB_17"
    /note=Genemark calls start at 7445
    /note=SSC: 7445-7756 CP: no SCS: genemark ST: NI BLAST-Start: [membrane protein [Arthrobacter phage Odyssey395] ],,NCBI, q1:s1 100.0% 2.22118E-68 GAP: 57 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.817, -5.77113368854531, no F: membrane protein SIF-BLAST: ,,[membrane protein [Arthrobacter phage Odyssey395] ],,QOP66773,100.0,2.22118E-68 SIF-HHPRED:  SIF-Syn: 
    /note=Glimmer does not call a start, GeneMark calls 7445, 7445 has 41 MAs, lowest gap/overlap for that start
    /note=Hits to BLAST for membrane protein
    /note=3 TMRs

CDS 7759 - 9648
  /gene="18"
  /product="gp18"
  /function="portal protein"
  /locus tag="RazzB_18"
    /note=Original Glimmer call @bp 7930 has strength 17.33; Genemark calls start at 7768
    /note=SSC: 7759-9648 CP: no SCS: both-cs ST: NI BLAST-Start: [portal protein [Arthrobacter phage Odyssey395] ],,NCBI, q1:s1 100.0% 0.0 GAP: 2 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.475, -3.5316035464369326, no F: portal protein SIF-BLAST: ,,[portal protein [Arthrobacter phage Odyssey395] ],,QOP66774,99.5223,0.0 SIF-HHPRED:  SIF-Syn: 
    /note=GeneMark and Glimmer disagree on start, Start 7759 has 11 MAs, gap/overlap of 2 supports start 7759
    /note=Phamerator has nucleotide similarity and called for portal protein
    /note=BLAST and HHPred also support portal protein

CDS 9645 - 9788
  /gene="19"
  /product="gp19"
  /function="Hypothetical Protein"
  /locus tag="RazzB_19"
    /note=Original Glimmer call @bp 9645 has strength 7.54; Genemark calls start at 9645
    /note=SSC: 9645-9788 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein PBI_BEAGLE_24 [Arthrobacter phage Beagle] ],,NCBI, q1:s1 100.0% 8.17908E-26 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.703, -3.3136498407041004, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein PBI_BEAGLE_24 [Arthrobacter phage Beagle] ],,QGJ92784,100.0,8.17908E-26 SIF-HHPRED:  SIF-Syn: 
    /note=Glimmer and GeneMark agree on 9645 as start call
    /note=Start 9645 has 5 MAs and -4 gap/overlap
    /note=BLAST hits to hypothetical protein
    /note=Phamerator has nucleotide similarity but no function called
    /note=HHPred no additional data
    /note=0 TMRs

CDS 9785 - 12445
  /gene="20"
  /product="gp20"
  /function="capsid maturation protease"
  /locus tag="RazzB_20"
    /note=Original Glimmer call @bp 9785 has strength 12.38; Genemark calls start at 9785
    /note=SSC: 9785-12445 CP: no SCS: both ST: NI BLAST-Start: [capsid maturation protease [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 0.0 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.078, -2.5074698667202133, yes F: capsid maturation protease SIF-BLAST: ,,[capsid maturation protease [Arthrobacter phage MellowYellow]],,XLG24940,99.6614,0.0 SIF-HHPRED:  SIF-Syn: 
    /note=GeneMark and Glimmer agree on start 9785
    /note=Start site 9785 has 12 MAs and gap/overlap of -4
    /note=Phamerator has nucelotide similarity for functions for capsid maturation protease and MuF-like fusion protein and another function matches capsid maturation protease
    /note=BLAST hits for both, more hits for capsid maturation protease, and MuF-like fusion protein is not included in official function list 
    /note=HHPred no additional data
    /note=0 TMRs

CDS 12448 - 12591
  /gene="21"
  /product="gp21"
  /function="Hypothetical Protein"
  /locus tag="RazzB_21"
    /note=
    /note=SSC: 12448-12591 CP: no SCS: neither ST: NI BLAST-Start: [hypothetical protein PBI_BEAGLE_26 [Arthrobacter phage Beagle] ],,NCBI, q1:s1 100.0% 2.44507E-24 GAP: 2 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.448, -3.649482460397077, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein PBI_BEAGLE_26 [Arthrobacter phage Beagle] ],,QGJ92786,100.0,2.44507E-24 SIF-HHPRED:  SIF-Syn: 
    /note=BLAST hits to hypothetical function
    /note=Adding this gene because of coding potential between a gap of stop positions 12445 and stop 14469.  This gene was not originally called by GeneMark or glimmer. Gene is displayed on phamerator in gaps between Pham numbers 85783 (75 members) and 229880 (265 members) in Beagle and MellowYellow.

CDS 12742 - 14469
  /gene="22"
  /product="gp22"
  /function="major capsid hexamer protein"
  /locus tag="RazzB_22"
    /note=Original Glimmer call @bp 12742 has strength 15.36; Genemark calls start at 12742
    /note=SSC: 12742-14469 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_23 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 0.0 GAP: 150 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.306, -3.954790667257792, yes F: major capsid hexamer protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_23 [Arthrobacter phage MellowYellow]],,XLG24941,100.0,0.0 SIF-HHPRED:  SIF-Syn: 
    /note=High CP-likely a gene 
    /note=Glimmer and genemark agree on start site supported by 12 MAs in starterator.  
    /note=The large gap has been investigated, and we added a potential gene to fill the space. 
    /note=Phamerator shows a function call in beagle of major capsid hexer protein. No function called in pham of Mellow Yellow. High hits to major capsid hexer protein in BLASTp HHpred does not provide additional information.  Function is called

CDS 14537 - 15295
  /gene="23"
  /product="gp23"
  /function="Hypothetical Protein"
  /locus tag="RazzB_23"
    /note=Original Glimmer call @bp 14537 has strength 12.41; Genemark calls start at 14537
    /note=SSC: 14537-15295 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_24 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 6.04735E-178 GAP: 67 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.77, -2.8793565916978188, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_24 [Arthrobacter phage MellowYellow]],,XLG24942,99.6032,6.04735E-178 SIF-HHPRED:  SIF-Syn: 
    /note=High CP-Likely a gene
    /note=Glimmer and Genemark agree on start site.  Supported by 9 MAs on starterator.  this start site has the smallest gap of all possible start sites.
    /note=Phamerator does not have a function called in MY or Beagle (share pham number). BLASTp shows high hits with hypothetical protein.  HHpred does not provide additional information. 
    /note=No TMR

CDS 15307 - 15756
  /gene="24"
  /product="gp24"
  /function="Hypothetical Protein"
  /locus tag="RazzB_24"
    /note=Original Glimmer call @bp 15307 has strength 12.13; Genemark calls start at 15307
    /note=SSC: 15307-15756 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein PBI_BEAGLE_29 [Arthrobacter phage Beagle] ],,NCBI, q1:s1 100.0% 5.74924E-101 GAP: 11 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.183, -1.993391246735709, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein PBI_BEAGLE_29 [Arthrobacter phage Beagle] ],,QGJ92789,100.0,5.74924E-101 SIF-HHPRED:  SIF-Syn: 
    /note=High CP - Likely a gene 
    /note=Glimmer and GeneMark agree on start site supported by 11MAs.  Smallest gap of possible start choices.
    /note=
    /note=No functions called in phamerator with genes in the same pham in MY or Beagle. Hits with hypothetical protein in BLASTp no additional information in HHpred
    /note=No TMR

CDS 15760 - 16680
  /gene="25"
  /product="gp25"
  /function="major tail protein"
  /locus tag="RazzB_25"
    /note=Original Glimmer call @bp 15760 has strength 14.49; Genemark calls start at 15760
    /note=SSC: 15760-16680 CP: no SCS: both ST: NI BLAST-Start: [major tail protein [Arthrobacter phage Pureglobe5] ],,NCBI, q1:s1 100.0% 0.0 GAP: 3 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.908, -4.669046746593814, no F: major tail protein SIF-BLAST: ,,[major tail protein [Arthrobacter phage Pureglobe5] ],,UYL87394,100.0,0.0 SIF-HHPRED:  SIF-Syn: 
    /note=High CP- Lily a gene. Glimmer and GeneMark agree supported by 13MAs in starterator. This start also has the smallest gap.
    /note=Phamerator displays major tail protein in most similar phages with the same pham number. BLASTp shows many hits to major tail protein with high %identity and alignment.  HHpred does not provide additional information

CDS 16747 - 17685
  /gene="26"
  /product="gp26"
  /function="endolysin"
  /locus tag="RazzB_26"
    /note=Original Glimmer call @bp 16747 has strength 16.35; Genemark calls start at 16747
    /note=SSC: 16747-17685 CP: no SCS: both ST: NI BLAST-Start: [lysin A [Arthrobacter phage Beagle] ],,NCBI, q1:s1 100.0% 0.0 GAP: 66 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.109, -2.0895162839948163, yes F: endolysin SIF-BLAST: ,,[lysin A [Arthrobacter phage Beagle] ],,QGJ92791,100.0,0.0 SIF-HHPRED:  SIF-Syn: 
    /note=High consistent CP - Likely a gene.  Glimmer and GeneMark agree supported by 18MAs
    /note=Function calls in BLAST and Phamerator for both lysinA and endolysin, since we have not called a lysinB we will call endolysin

CDS 17696 - 18313
  /gene="27"
  /product="gp27"
  /function="head-to-tail adaptor"
  /locus tag="RazzB_27"
    /note=Original Glimmer call @bp 17696 has strength 17.52; Genemark calls start at 17696
    /note=SSC: 17696-18313 CP: no SCS: both ST: NI BLAST-Start: [head-to-tail adaptor [Arthrobacter phage Pointis]],,NCBI, q1:s1 100.0% 1.76332E-143 GAP: 10 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.713, -2.939678097737297, yes F: head-to-tail adaptor SIF-BLAST: ,,[head-to-tail adaptor [Arthrobacter phage Pointis]],,XIJ70977,99.5122,1.76332E-143 SIF-HHPRED:  SIF-Syn: 
    /note=High CP - likely a gene 
    /note=Glimmer and GeneMark Agree - supported by 12 MAs. has the smallest gap
    /note=Many hits with Head to tail adaptor protein in BLASTp, supported by phaerato and a few hits in HHpred.

CDS 18313 - 18840
  /gene="28"
  /product="gp28"
  /function="Hypothetical Protein"
  /locus tag="RazzB_28"
    /note=Original Glimmer call @bp 18313 has strength 18.9; Genemark calls start at 18313
    /note=SSC: 18313-18840 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_ODYSSEY395_34 [Arthrobacter phage Odyssey395]],,NCBI, q1:s1 100.0% 4.30688E-122 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.459, -3.83711508627892, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_ODYSSEY395_34 [Arthrobacter phage Odyssey395]],,QOP66784,100.0,4.30688E-122 SIF-HHPRED:  SIF-Syn: 
    /note=High CP-likey a gene
    /note=Glimmer and GeneMark agree on start choice supported by 6 MAs on starterator. has a -1 overlap
    /note=
    /note=No functions called in Phamerator in similar phages.  hits to hypothetical protein in BLASTp - no additional information in HHpred.
    /note=
    /note=no TMR

CDS 18840 - 19352
  /gene="29"
  /product="gp29"
  /function="Hypothetical Protein"
  /locus tag="RazzB_29"
    /note=Original Glimmer call @bp 18840 has strength 6.05; Genemark calls start at 18840
    /note=SSC: 18840-19352 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_POINTIS_33 [Arthrobacter phage Pointis]],,NCBI, q7:s13 96.4706% 1.71425E-104 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.787, -5.0695712999995655, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_POINTIS_33 [Arthrobacter phage Pointis]],,XIJ70979,90.3409,1.71425E-104 SIF-HHPRED:  SIF-Syn: 
    /note=High CP- Likely a gene 
    /note=Starterator and Genemark agree on start choice no MAs in Starterator, but start choice was chosen because of -1 overlap
    /note=Phamerator shows similarity between beagle and MY. BLASTp shows hits with hypothetical protein. HHpred does not provide additional information.
    /note=No TMR

CDS 19416 - 19850
  /gene="30"
  /product="gp30"
  /function="tail assembly chaperone"
  /locus tag="RazzB_30"
    /note=Original Glimmer call @bp 19416 has strength 8.37; Genemark calls start at 19416
    /note=SSC: 19416-19850 CP: no SCS: both ST: NI BLAST-Start: [tail assembly chaperone [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 1.75837E-99 GAP: 63 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.037, -4.534089041695007, no F: tail assembly chaperone SIF-BLAST: ,,[tail assembly chaperone [Arthrobacter phage MellowYellow]],,XLG24949,100.0,1.75837E-99 SIF-HHPRED:  SIF-Syn: 
    /note=high CP - Likely a gene 
    /note=Glimmer and genemark agree - supported by 9MAs in Starterator. This start has the smallest gap
    /note=
    /note=100% hit in BLASTp for tail assembly chaperone with MellowYellow.  There were also lower percent identity hits with tail assembly chaperone. no function called in beagle
    /note=HHpred does not provide much additional data

CDS 19868 - 19990
  /gene="31"
  /product="gp31"
  /function="Hypothetical Protein"
  /locus tag="RazzB_31"
    /note=Original Glimmer call @bp 19868 has strength 9.19; Genemark calls start at 19868
    /note=SSC: 19868-19990 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein PBI_BEAGLE_36 [Arthrobacter phage Beagle] ],,NCBI, q1:s3 100.0% 1.27492E-19 GAP: 17 bp gap LO: no RBS: Kibler 6, Karlin Medium, 0.528, -7.985273995078127, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein PBI_BEAGLE_36 [Arthrobacter phage Beagle] ],,QGJ92796,95.2381,1.27492E-19 SIF-HHPRED:  SIF-Syn: 
    /note=-Start choice is 19868 as Glimmer and GeneMark agree. This start has 2 MA`s in Starterator. Gap/Overlap data does not give additional information.
    /note=-No function called in Beagle or MellowYellow in Phamerator. Low hits for tail assembly chaperone in BLAST. No HHPred information and No TMRs.

CDS 20011 - 24888
  /gene="32"
  /product="gp32"
  /function="tape measure protein"
  /locus tag="RazzB_32"
    /note=Original Glimmer call @bp 20011 has strength 18.21; Genemark calls start at 20011
    /note=SSC: 20011-24888 CP: no SCS: both ST: NI BLAST-Start: [tape measure protein [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 0.0 GAP: 20 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.908, -4.749088834314575, no F: tape measure protein SIF-BLAST: ,,[tape measure protein [Arthrobacter phage MellowYellow]],,XLG24951,99.8154,0.0 SIF-HHPRED:  SIF-Syn: 
    /note=-Glimmer and GeneMark agree on start 20,011. Start 20,011 has 12 MA`s. Gap/Overlap of 20.
    /note=-Similarity with Beagle and MellowYellow in Phamerator. Those functions are called as tape measure protein. Hits in BLAST and HHPred for tape measure protein. 2 TMRs predicted but more specific function of tape measure protein.

CDS 24898 - 26106
  /gene="33"
  /product="gp33"
  /function="minor tail protein"
  /locus tag="RazzB_33"
    /note=Original Glimmer call @bp 24898 has strength 16.58; Genemark calls start at 24898
    /note=SSC: 24898-26106 CP: no SCS: both ST: NI BLAST-Start: [minor tail protein [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 0.0 GAP: 9 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.296, -3.8366550365551095, no F: minor tail protein SIF-BLAST: ,,[minor tail protein [Arthrobacter phage MellowYellow]],,XLG24952,100.0,0.0 SIF-HHPRED:  SIF-Syn: 
    /note=-Glimmer and GeneMark agree on start position 24,898. Start 24,898 has 22 MA`s. Gap of 9 supports start choice data.
    /note=-Beagle and MellowYellow have similarity and call function in Phamerator as minor tail protein. BLAST also has hits to minor tail protein. HHPred has no additional data and no TMRs predicted.

CDS 26111 - 27244
  /gene="34"
  /product="gp34"
  /function="Minor tail protein"
  /locus tag="RazzB_34"
    /note=Original Glimmer call @bp 26111 has strength 14.56; Genemark calls start at 26111
    /note=SSC: 26111-27244 CP: no SCS: both ST: NI BLAST-Start: [minor tail protein [Arthrobacter phage Beagle] ],,NCBI, q1:s1 100.0% 0.0 GAP: 4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.448, -3.649482460397077, no F: Minor tail protein SIF-BLAST: ,,[minor tail protein [Arthrobacter phage Beagle] ],,QGJ92799,99.4695,0.0 SIF-HHPRED:  SIF-Syn: 
    /note=-Glimmer and GeneMark agree on 26,111 as start choice. Start 26,111 has 11 MA`s. Overlap of 4 supports 26,111 as start call.
    /note=-MellowYellow and Beagle have similarity and called function as minor tail protein. BLAST supports Phamerator as does HHPred. No TMRs.

CDS 27237 - 27446
  /gene="35"
  /product="gp35"
  /function="Hypothetical Protein"
  /locus tag="RazzB_35"
    /note=
    /note=SSC: 27237-27446 CP: no SCS: neither ST: NI BLAST-Start: [hypothetical protein PBI_BEAGLE_40 [Arthrobacter phage Beagle] ],,NCBI, q1:s1 100.0% 1.34031E-41 GAP: -8 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.543, -4.4072951357475585, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein PBI_BEAGLE_40 [Arthrobacter phage Beagle] ],,QGJ92800,100.0,1.34031E-41 SIF-HHPRED:  SIF-Syn: 
    /note=This gene was added due to coding potential in a gap between predicted genes Genemark.
    /note=start site was chosen due to -8 overlap.
    /note=Hypothetical protein due to hits on BLASTp of the same unknown function.  
    /note=HHpred does not provide additional data. 
    /note=No TMR

CDS 27477 - 28547
  /gene="36"
  /product="gp36"
  /function="minor tail protein"
  /locus tag="RazzB_36"
    /note=Original Glimmer call @bp 27477 has strength 12.77; Genemark calls start at 27477
    /note=SSC: 27477-28547 CP: no SCS: both ST: NI BLAST-Start: [minor tail protein [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 0.0 GAP: 30 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.85, -2.7863799983944713, yes F: minor tail protein SIF-BLAST: ,,[minor tail protein [Arthrobacter phage MellowYellow]],,XLG24954,100.0,0.0 SIF-HHPRED:  SIF-Syn: 
    /note=-Glimmer and GeneMark agree on 27,477 as start choice. Start 27,477 has 11 MA`s. This start has the smallest gap. 
    /note=-Beagle and MellowYellow have nucleotide similarity and their functions are called for minor tail protein. BLAST and HHPred have hits that support minor tail protein. No TMRs.

CDS 28547 - 30679
  /gene="37"
  /product="gp37"
  /function="minor tail protein"
  /locus tag="RazzB_37"
    /note=Original Glimmer call @bp 28547 has strength 12.32; Genemark calls start at 28547
    /note=SSC: 28547-30679 CP: no SCS: both ST: NI BLAST-Start: [minor tail protein [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 0.0 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.985, -5.155002627644538, no F: minor tail protein SIF-BLAST: ,,[minor tail protein [Arthrobacter phage MellowYellow]],,XLG24955,100.0,0.0 SIF-HHPRED:  SIF-Syn: 
    /note=-Glimmer and GeneMark agree on the start at 28,547. Start 28547 has 5 MA`s. Start 28547 has a -1 gap.
    /note=-Beagle and MellowYellow have nucleotide similarity and call the function as minor tail protein. BLAST hits are high and also match minor tail protein. HHPred does not add any information and 0 TMRs.

CDS 30707 - 32710
  /gene="38"
  /product="gp38"
  /function="minor tail protein"
  /locus tag="RazzB_38"
    /note=Original Glimmer call @bp 30707 has strength 18.39; Genemark calls start at 30707
    /note=SSC: 30707-32710 CP: no SCS: both ST: NI BLAST-Start: [minor tail protein [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 0.0 GAP: 27 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.77, -2.958041784599676, no F: minor tail protein SIF-BLAST: ,,[minor tail protein [Arthrobacter phage MellowYellow]],,XLG24956,100.0,0.0 SIF-HHPRED:  SIF-Syn: 
    /note=Phamerator claim it as a minor tail protein, because RazzB relative Beagle & MellowYellow both have the minor tail protein function call.
    /note=BLAST hits with high identity and alignment are for minor tail protein.
    /note=HHPred does not give additional information
    /note=0 TMRs

CDS 32710 - 33057
  /gene="39"
  /product="gp39"
  /function="Hypothetical Protein"
  /locus tag="RazzB_39"
    /note=
    /note=SSC: 32710-33057 CP: no SCS: neither ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_40 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 1.18737E-75 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.686, -3.1379842619144376, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_40 [Arthrobacter phage MellowYellow]],,XLG25046,100.0,1.18737E-75 SIF-HHPRED:  SIF-Syn: 
    /note=gene was added due to coding potential between autoannotated genes.  
    /note=-1 overlap is best predictor for start site.
    /note=Hits in BLASTp show hypothetical protein-matches with phages mellowyellow and beagle.
    /note=HHpred does not provide additional information
    /note=No TMR

CDS 33044 - 33223
  /gene="40"
  /product="gp40"
  /function="Hypothetical Protein"
  /locus tag="RazzB_40"
    /note=Original Glimmer call @bp 33044 has strength 8.06; Genemark calls start at 33044
    /note=SSC: 33044-33223 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_41 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 5.11378E-33 GAP: -14 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.874, -4.741278731374927, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_41 [Arthrobacter phage MellowYellow]],,XLG24957,100.0,5.11378E-33 SIF-HHPRED:  SIF-Syn: 
    /note=Most evidence supporting hypothetical protein from Phamerator and BLAST. However HHpred had hits that showed our phages protein sequence to be similar to others that were identified as receptor proteins. 0 TMRs.

CDS 33228 - 33572
  /gene="41"
  /product="gp41"
  /function="membrane protein"
  /locus tag="RazzB_41"
    /note=Original Glimmer call @bp 33228 has strength 7.65; Genemark calls start at 33228
    /note=SSC: 33228-33572 CP: no SCS: both ST: NI BLAST-Start: [membrane protein [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 1.0591E-73 GAP: 4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.325, -3.8362837638757656, no F: membrane protein SIF-BLAST: ,,[membrane protein [Arthrobacter phage MellowYellow]],,XLG24958,100.0,1.0591E-73 SIF-HHPRED:  SIF-Syn: 
    /note=-Phamerator has nucleotide similarity for Beagle and MellowYellow, however no function is called.
    /note=-BLAST hits for membrane protein
    /note=-HHPred hits for membrane protein but the coverage is low
    /note=-1 TMR

CDS 33569 - 33784
  /gene="42"
  /product="gp42"
  /function="Hypothetical Protein"
  /locus tag="RazzB_42"
    /note=Original Glimmer call @bp 33569 has strength 8.28; Genemark calls start at 33569
    /note=SSC: 33569-33784 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_43 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 1.24457E-42 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.333, -3.8183153089559627, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_43 [Arthrobacter phage MellowYellow]],,XLG24959,100.0,1.24457E-42 SIF-HHPRED:  SIF-Syn: 
    /note=Evidence from multiple sources calling a Hypothetical Protein including Phamerator, Blastp, and HHPRED. DeepTMHMM has 0 TMRs

CDS 33781 - 34164
  /gene="43"
  /product="gp43"
  /function="membrane protein"
  /locus tag="RazzB_43"
    /note=Original Glimmer call @bp 33781 has strength 17.94; Genemark calls start at 33781
    /note=SSC: 33781-34164 CP: no SCS: both ST: NI BLAST-Start: [membrane protein [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 1.87663E-85 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.325, -4.602200557842397, yes F: membrane protein SIF-BLAST: ,,[membrane protein [Arthrobacter phage MellowYellow]],,XLG24960,100.0,1.87663E-85 SIF-HHPRED:  SIF-Syn: 
    /note=-Nucleotide similarity with Beagle and MellowYellow, however, no function called
    /note=-Multiple sources points to a membrane protein including Blastp, and HHPRED. 
    /note=-DeepTMHMM predicts 3 TMRs

CDS 34157 - 34450
  /gene="44"
  /product="gp44"
  /function="membrane protein"
  /locus tag="RazzB_44"
    /note=Original Glimmer call @bp 34157 has strength 16.17; Genemark calls start at 34157
    /note=SSC: 34157-34450 CP: no SCS: both ST: NI BLAST-Start: [membrane protein [Arthrobacter phage Beagle] ],,NCBI, q1:s1 100.0% 8.29566E-61 GAP: -8 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.033, -2.3158002311349737, yes F: membrane protein SIF-BLAST: ,,[membrane protein [Arthrobacter phage Beagle] ],,QGJ92809,100.0,8.29566E-61 SIF-HHPRED:  SIF-Syn: 
    /note=-Phamerator has nucleotide similarity for Beagle and MellowYellow, but no function called for either phage`s gene
    /note=-Multiple sources points to a membrane protein including Blastp, and HHPRED
    /note=-DeepTMHMM predicts 2 TMRs

CDS 34460 - 36157
  /gene="45"
  /product="gp45"
  /function="Hypothetical Protein"
  /locus tag="RazzB_45"
    /note=Original Glimmer call @bp 34460 has strength 13.53; Genemark calls start at 34460
    /note=SSC: 34460-36157 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_46 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 0.0 GAP: 9 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.183, -2.0111200136961407, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_46 [Arthrobacter phage MellowYellow]],,XLG24962,100.0,0.0 SIF-HHPRED:  SIF-Syn: 
    /note=There is high coding potential throughout  and it is consistent within the predicted gene-likely a gene  
    /note=Final start call: 34460- Glimmer and GeneMark agree on start at 34460, 5 MA`s, No -4 or -1 gap but next best would be gap 9 with a start of 34460
    /note=Hypothetical protein called because Phamerator shows minor tail protein with nucleotide similarity to MellowYellow, however, mixed results for BLAST to hypothetical protein and minor tail protein. 0 TMRs (not membrane protein).

CDS complement (36295 - 36720)
  /gene="46"
  /product="gp46"
  /function="RusA-like resolvase"
  /locus tag="RazzB_46"
    /note=Original Glimmer call @bp 36720 has strength 12.71; Genemark calls start at 36732
    /note=SSC: 36720-36295 CP: no SCS: both-gl ST: NI BLAST-Start: [RusA-like resolvase [Arthrobacter phage MellowYellow]],,NCBI, q1:s5 100.0% 3.95516E-99 GAP: 8 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.517, -6.036486444699896, no F: RusA-like resolvase SIF-BLAST: ,,[RusA-like resolvase [Arthrobacter phage MellowYellow]],,XLG24963,97.2414,3.95516E-99 SIF-HHPRED:  SIF-Syn: 
    /note=-There is high coding potential throughout and it is consistent within the predicted gene-likely a gene
    /note=-Final Start position- 36720. Glimmer calls for start 36720 and disagrees with GeneMark, which calls for start 36732, has 6 Ma`s, has a -4 gap with a start of 36732. 
    /note=-RusA-like resolves is called as a function in Phamerator (Beagle and MellowYellow have nucleotide similarity), additionally high percent identity and alignment in BLAST with RusA-like resolvase. HHPred has hits that support this function. 0 TMRs.

CDS complement (36729 - 36920)
  /gene="47"
  /product="gp47"
  /function="Hypothetical protein"
  /locus tag="RazzB_47"
    /note=Original Glimmer call @bp 36920 has strength 13.44; Genemark calls start at 36920
    /note=SSC: 36920-36729 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_48 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 5.22798E-38 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.794, -2.8454123590742793, yes F: Hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_48 [Arthrobacter phage MellowYellow]],,XLG24964,100.0,5.22798E-38 SIF-HHPRED:  SIF-Syn: 
    /note=-There is high and consistent coding potential with the predcited gene, but there is no coding potential in other frames-likely a gene
    /note=-Final Start position- 36920 Glimmer, GeneMark, Starterator, and the overlap all support this start site, has 1 Ma`s.
    /note=-Hypothetical protein, Phamerator shows similairty to MellowYellow only, but no function called
    /note=-Evidence to support that the gene is a protein, but BLAST and HHPred could not provide a specific function 
    /note=-0 TMRs

CDS complement (36917 - 37156)
  /gene="48"
  /product="gp48"
  /function="Hypothetical Protein"
  /locus tag="RazzB_48"
    /note=Original Glimmer call @bp 37156 has strength 15.35; Genemark calls start at 37156
    /note=SSC: 37156-36917 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_49 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 8.77259E-50 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.831, -4.9157003279346805, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_49 [Arthrobacter phage MellowYellow]],,XLG24965,100.0,8.77259E-50 SIF-HHPRED:  SIF-Syn: 
    /note=-There is high and high coding potential with the predicted gene. There is no coding potential in other frames-likely a gene
    /note=-Final start position- 37156. Glimmer, GeneMark, Starterator, and the overlap all support this start site.  -4 gap and has 6 Ma`s
    /note=-hypothetical protein, The sites show evidence that the gene is a protein, but there`s nothing to support or show what specifically it could function as
    /note=-Nucleotide similarities to other phages in Phamerator, but no function called
    /note=-Hypothetical proteins with high hits in BLAST
    /note=-No additional information in HHPred and 0 TMRs

CDS complement (37153 - 37356)
  /gene="49"
  /product="gp49"
  /function="Hypothetical protein"
  /locus tag="RazzB_49"
    /note=Original Glimmer call @bp 37356 has strength 11.78; Genemark calls start at 37356
    /note=SSC: 37356-37153 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_50 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 8.58579E-41 GAP: -8 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.874, -4.803592052135256, no F: Hypothetical protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_50 [Arthrobacter phage MellowYellow]],,XLG24966,100.0,8.58579E-41 SIF-HHPRED:  SIF-Syn: 
    /note=-There`s hgih and consistent coding potential, but there`s not coding potential in other frames -likely a gene
    /note=-Final Start position- 37356, Glimmer, GeneMark and starterator all agree with that start, has 5 Ma`s no -1 or -4 gaps next best gap is -8 with start of 37356
    /note=-Hypothetical protein,There`re both 5 hits on hypothetical protein & helix-turn-helix DNA binding protein, but hypothetical protein on HHPred had proability greater than 90 and over 70% coverage.
    /note=-0 TMRs

CDS complement (37349 - 37723)
  /gene="50"
  /product="gp50"
  /function="Hypothetical Protein"
  /locus tag="RazzB_50"
    /note=Original Glimmer call @bp 37723 has strength 7.16; Genemark calls start at 37723
    /note=SSC: 37723-37349 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_51 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 3.73041E-85 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.208, -4.024058836634684, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_51 [Arthrobacter phage MellowYellow]],,XLG24967,100.0,3.73041E-85 SIF-HHPRED:  SIF-Syn: 
    /note=-There`s high, but inconsistent coding potential with the predicted gene-likely a gene
    /note=-final start position 37723, Glimmer, GeneMark and Starterator all agree, 1 Ma`s, -4 gap with start of 37723
    /note=-hypothetical protein, No reliable evidence of any specific function

CDS complement (37720 - 38007)
  /gene="51"
  /product="gp51"
  /function="Hypothetical Protein"
  /locus tag="RazzB_51"
    /note=Original Glimmer call @bp 38007 has strength 9.34; Genemark calls start at 38007
    /note=SSC: 38007-37720 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_52 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 7.09779E-64 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.919, -4.64618386363431, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_52 [Arthrobacter phage MellowYellow]],,XLG24968,100.0,7.09779E-64 SIF-HHPRED:  SIF-Syn: 
    /note=Gene has high coding potential throughout the ORF. 
    /note=
    /note=Start site is agreed on 38007 by multiple databases (Glimmer, GeneMark, and Starterator). 
    /note=
    /note=There is no reliable support for a function from any source. There is not a function from its most common relatives. Also, there is no helpful evidence from Blastp, HHPred. It is also not a membrane protein

CDS complement (38004 - 38411)
  /gene="52"
  /product="gp52"
  /function="Hypothetical Protein"
  /locus tag="RazzB_52"
    /note=Original Glimmer call @bp 38411 has strength 16.18; Genemark calls start at 38411
    /note=SSC: 38411-38004 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_53 [Arthrobacter phage MellowYellow]],,NCBI, q1:s6 100.0% 1.87062E-95 GAP: 11 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.281, -3.947883210214623, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_53 [Arthrobacter phage MellowYellow]],,XLG24969,96.4286,1.87062E-95 SIF-HHPRED:  SIF-Syn: 
    /note=Majority of the coding potential is very high throughout the ORF, thus proving it a gene. 
    /note=
    /note=Both Glimmer and GeneMark agree on start site 38411. Starterator also supports 38411. However, there is another start site that has a -4 gap (Start: 38426), but more evidence supports start 38411.
    /note=
    /note=No function seen between its closest relatives, but there is similarity. Blastp doesn`t call a function and only lists Hypothetical Proteins. This is the same for HHPred, as there is no helpful information. No TMR, thus it`s not a membrane protein.

CDS complement (38423 - 38641)
  /gene="53"
  /product="gp53"
  /function="Hypothetical Protein"
  /locus tag="RazzB_53"
    /note=Original Glimmer call @bp 38641 has strength 7.44; Genemark calls start at 38641
    /note=SSC: 38641-38423 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_54 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 1.33919E-44 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.729, -2.90473872338446, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_54 [Arthrobacter phage MellowYellow]],,XLG24970,100.0,1.33919E-44 SIF-HHPRED:  SIF-Syn: 
    /note=Coding potential is very high throughout the ORF and doesn`t stagger, which makes this a gene.
    /note=
    /note=Glimmer, GeneMark, and Starterator all support the start site at 38641. This start site also has a -4 gap. All data supports the start site at 38641, therefore this is where the gene starts.
    /note=
    /note=No function can be called from looking at its closest relatives. Between Blastp and HHPred, there are a few possible functions but none of them agree with each other. Plus, most data supports a Hypothetical Protein.

CDS complement (38638 - 38892)
  /gene="54"
  /product="gp54"
  /function="helix-turn-helix DNA binding domain"
  /locus tag="RazzB_54"
    /note=Original Glimmer call @bp 38892 has strength 13.75; Genemark calls start at 38892
    /note=SSC: 38892-38638 CP: no SCS: both ST: NI BLAST-Start: [DNA binding protein [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 1.11646E-51 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.944, -2.5052746077145835, yes F: helix-turn-helix DNA binding domain SIF-BLAST: ,,[DNA binding protein [Arthrobacter phage MellowYellow]],,XLG24971,100.0,1.11646E-51 SIF-HHPRED:  SIF-Syn: 
    /note=Coding potential is high throughout the whole ORF, thus making this a gene. 
    /note=
    /note=All 3 databases (Glimmer, GeneMark, and Starterator) support the start site at 38892. There are 6 MA`s through Starterator that support this start as well. As well as a -4 overlap for start 38892. All evidence supports it. 
    /note=
    /note=It has similarity between it`s closest relatives, but there is no function called. There is a lot of support for a helix-turn-helix DNA binding protein or just a DNA binding protein between Blastp and HHPred. There are more hits for a helix-turn-helix protein from Blastp and HHPred doesn`t have a lot of coverage percentage to support it.

CDS complement (38889 - 39140)
  /gene="55"
  /product="gp55"
  /function="helix-turn-helix DNA binding domain"
  /locus tag="RazzB_55"
    /note=Original Glimmer call @bp 39140 has strength 11.11; Genemark calls start at 39140
    /note=SSC: 39140-38889 CP: no SCS: both ST: NI BLAST-Start: [helix-turn-helix DNA binding domain [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 6.89538E-53 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.871, -3.6514785093170086, yes F: helix-turn-helix DNA binding domain SIF-BLAST: ,,[helix-turn-helix DNA binding domain [Arthrobacter phage MellowYellow]],,XLG24972,100.0,6.89538E-53 SIF-HHPRED:  SIF-Syn: 
    /note=There is very high coding potential that is consistent throughout the ORF, meaning that there is definitely a gene. 
    /note=
    /note=Glimmer and GeneMark agree on the start site at 39140. Starterator supports this with 4 MA`s for this start site as well. Start 39140 also has a -4 overlap to support this as the correct start site choice. 
    /note=
    /note=There is similarity between it`s closest relatives and there is a function called for both of them. That being a helix-turn-helix binding protein. Blastp and HHPred also highly support this as the function call for this gene. There is no TMR, thus it`s not a membrane protein and it is a helix-turn-helix binding protein.

CDS complement (39140 - 39541)
  /gene="56"
  /product="gp56"
  /function="Hypothetical Protein"
  /locus tag="RazzB_56"
    /note=Original Glimmer call @bp 39541 has strength 11.81; Genemark calls start at 39523
    /note=SSC: 39541-39140 CP: no SCS: both-gl ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_57 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 1.4537E-90 GAP: -8 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.794, -2.8454123590742793, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_57 [Arthrobacter phage MellowYellow]],,XLG24973,99.2481,1.4537E-90 SIF-HHPRED:  SIF-Syn: 
    /note=There is consistently high coding potential in the ORF for this potential gene, thus meaning it`s a gene. 
    /note=
    /note=There is a disagreement between Glimmer and GeneMark when deciding on a start choice. GeneMark calls for 39541 and Glimmer calls for 39523. Starterator only has 1 MA for these start sites, but supports start 39541. There isn`t any -1 or -4 overlap, but the start site with the best overlap is 39541 (It has a -8 overlap).
    /note=
    /note=There is similarity between its closest relatives, but there is no function called. In Blastp, all hits call for a hypothetical protein. The same goes for HHPredd and there is also not enough percentage in coverage or probability to support a function. There is no TMR, so it`s not a membrane protein. Since there is not data to support a specfic function, it is a hypothetical protein.

CDS complement (39534 - 39641)
  /gene="57"
  /product="gp57"
  /function="Hypothetical Protein"
  /locus tag="RazzB_57"
    /note=Original Glimmer call @bp 39668 has strength 4.35; Genemark calls start at 39641
    /note=SSC: 39641-39534 CP: no SCS: both-gm ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_58 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 2.00184E-13 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.526, -3.4219145408355454, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_58 [Arthrobacter phage MellowYellow]],,XLG24974,100.0,2.00184E-13 SIF-HHPRED:  SIF-Syn: 
    /note=It is likely a gene due to high coding potential.
    /note=
    /note=Start site was changed to start 39,641. Starterator PDF has this as the auto-annotated start and it has one manual annotation, it also is the only start called with a -1 gap/overlap.
    /note=
    /note=The function is called as hypothetical protein, because none of the pham members have a function called in Phamerator. Blastp only has 1 hit and that was hypothetical protein. No transmembrane regions predicted. HHpred does not have the query coverage to use data from it.

CDS complement (39641 - 40054)
  /gene="58"
  /product="gp58"
  /function="Hypothetical Protein"
  /locus tag="RazzB_58"
    /note=Original Glimmer call @bp 40054 has strength 15.62; Genemark calls start at 40054
    /note=SSC: 40054-39641 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_59 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 5.35156E-97 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.697, -3.0541649530135073, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_59 [Arthrobacter phage MellowYellow]],,XLG24975,100.0,5.35156E-97 SIF-HHPRED:  SIF-Syn: 
    /note=It is likely a gene due to both high and consistent coding potential.
    /note=
    /note=The start site stayed the same. Both Glimmer and GeneMark agree on start 40,054, it has a -4 gap/overlap, and 10 MA`s on Starterator.
    /note=
    /note=Hypothetical protein for the function. Neither pham member from Beagle or MellowYellow call a function. Blastp has a bunch of hits that are significant and they are for hypothetical protein. No transmembrane regions found. HHpred does not have the query coverage to use data from.

CDS complement (40051 - 40389)
  /gene="59"
  /product="gp59"
  /function="Hypothetical Protein"
  /locus tag="RazzB_59"
    /note=Original Glimmer call @bp 40389 has strength 5.72; Genemark calls start at 40389
    /note=SSC: 40389-40051 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_60 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 3.54315E-75 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.871, -2.6013996449736907, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_60 [Arthrobacter phage MellowYellow]],,XLG24976,100.0,3.54315E-75 SIF-HHPRED:  SIF-Syn: 
    /note=Likely a gene due to high and consistent coding potential.
    /note=
    /note=Start site of 40,389 stayed the final start site because both Glimmer and GeneMark agree, it has a -4 gap/overlap, and has 2 MA`s.
    /note=
    /note=Hypothetical protein called because only MellowYellow shares a pham member with this gene, and no function was called. NCBI has 1 hit that fits the requirements and it is for hypothetical protein. No transmembrane regions predicted. HHpred does not have the query coverage to use data from.

CDS complement (40386 - 40574)
  /gene="60"
  /product="gp60"
  /function="Hypothetical Protein"
  /locus tag="RazzB_60"
    /note=Original Glimmer call @bp 40574 has strength 6.91; Genemark calls start at 40574
    /note=SSC: 40574-40386 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_61 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 1.49596E-37 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.697, -3.0541649530135073, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_61 [Arthrobacter phage MellowYellow]],,XLG24977,100.0,1.49596E-37 SIF-HHPRED:  SIF-Syn: 
    /note=Gene 58 has high coding potential, although inconsistent.
    /note=
    /note=The start remained at 50,574. Both Glimmer and GeneMark agreed on this as the likely start, it has a -4 gap/overlap, and has 3 MA`s.
    /note=
    /note=In Phamerator both pham members, have no function called. BlastP has 2 hits, but meeting the requirements to be significant, for hypothetical protein. There are no transmembrane regions predicted. HHpred does not have the query coverage to use data from. Therefore, hypothetical protein is the final function call.

CDS complement (40571 - 40702)
  /gene="61"
  /product="gp61"
  /function="Hypothetical Protein"
  /locus tag="RazzB_61"
    /note=Original Glimmer call @bp 40702 has strength 8.81; Genemark calls start at 40702
    /note=SSC: 40702-40571 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_62 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 5.25582E-23 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.7, -3.0478325568523097, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_62 [Arthrobacter phage MellowYellow]],,XLG24978,100.0,5.25582E-23 SIF-HHPRED:  SIF-Syn: 
    /note=Gene 59 has high coding potential, a little inconsistent.
    /note=
    /note=The start site remained 40,702. Both Glimmer and GeneMark agree on this start site, it has a -1 gap/overlap, and has 2 MA`s. 
    /note=
    /note=In Phamerator, both Pham members have no function called. All of the hits from BlastP meet the requirements to be considered, and all call hypothetical protein. There are no transmembrane regions predicted. HHPred does not have the query coverage to use data from, therefore, hypothetical protein.

CDS complement (40702 - 41025)
  /gene="62"
  /product="gp62"
  /function="Hypothetical Protein"
  /locus tag="RazzB_62"
    /note=Original Glimmer call @bp 41025 has strength 10.13; Genemark calls start at 41025
    /note=SSC: 41025-40702 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_63 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 1.16723E-73 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.037, -4.473132615753581, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_63 [Arthrobacter phage MellowYellow]],,XLG24979,100.0,1.16723E-73 SIF-HHPRED:  SIF-Syn: 
    /note=Gene 60 has high and consistent coding potential. 
    /note=
    /note=The start site remained 41,025 because both Glimmer and GeneMark agree on this as the likely start, it has a -4 gap/overlap, and 6 MA`s.
    /note=
    /note=Neither of the Pham members in Phamerator have a function called. BlastP has one hit that is within the range of consideration and it calls for hypothetical protein. There are no transmembrane regions predicted. HHpred has 1 hit within the range of consideration, a Tsr0524 protein, however there is not enough data to call this function. Therefore, hypothetical protein.

CDS complement (41022 - 41402)
  /gene="63"
  /product="gp63"
  /function="Hypothetical Protein"
  /locus tag="RazzB_63"
    /note=Original Glimmer call @bp 41402 has strength 9.99; Genemark calls start at 41402
    /note=SSC: 41402-41022 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_64 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 2.25417E-87 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.686, -3.077027835973012, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_64 [Arthrobacter phage MellowYellow]],,XLG24980,100.0,2.25417E-87 SIF-HHPRED:  SIF-Syn: 
    /note=High and consistent coding potential - likely a gene
    /note=Final start call: 41402 - Glimmer and GeneMark agree, 8 MA`s, -4 gap
    /note=Hypothetical protein - BlastP only displays hypothetical, no hits in DeepTMHMM or any significant hits in HHPred, nucleotide similarity in Phamerator but no function called

CDS complement (41399 - 41836)
  /gene="64"
  /product="gp64"
  /function="Hypothetical Protein"
  /locus tag="RazzB_64"
    /note=Original Glimmer call @bp 41836 has strength 17.88; Genemark calls start at 41836
    /note=SSC: 41836-41399 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_65 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 1.56579E-101 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.392, -3.708514821076885, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_65 [Arthrobacter phage MellowYellow]],,XLG24981,100.0,1.56579E-101 SIF-HHPRED:  SIF-Syn: 
    /note=High and consistent coding potential - likely a gene
    /note=Final start call: 41836 - Glimmer and GeneMark agree on start at 41836, 1MA, -4 gap
    /note=Hypothetical Protein - nucleotide similarity in Phamerator but no function called, BLASTp only displays hypothetical, no significant hits in HHPred and 0 TMR`s from DeepTMHMM

CDS complement (41833 - 42039)
  /gene="65"
  /product="gp65"
  /function="Hypothetical Protein"
  /locus tag="RazzB_65"
    /note=Original Glimmer call @bp 42039 has strength 13.13; Genemark calls start at 42039
    /note=SSC: 42039-41833 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_66 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 9.51709E-41 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.85, -4.25176284984289, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_66 [Arthrobacter phage MellowYellow]],,XLG24982,100.0,9.51709E-41 SIF-HHPRED:  SIF-Syn: 
    /note=High and consistent coding potential - likely a gene
    /note=Final start call: 42039 - Glimmer and GeneMark agree on start at 42039, 5 MA`s, -1 gap 
    /note=Hypothetical protein- nucleotide similarity in Phamerator but no function called, no function called for BLASTp, no significant hits in BLASTp and 0 TMR`s predicted in DeepTMHMM

CDS complement (42039 - 42311)
  /gene="66"
  /product="gp66"
  /function="Hypothetical Protein"
  /locus tag="RazzB_66"
    /note=Original Glimmer call @bp 42311 has strength 11.71; Genemark calls start at 42311
    /note=SSC: 42311-42039 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_67 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 2.90845E-58 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.766, -5.116025205907048, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_67 [Arthrobacter phage MellowYellow]],,XLG24983,100.0,2.90845E-58 SIF-HHPRED:  SIF-Syn: 
    /note=High and consistent coding potential - likely a gene
    /note=Final start call: 42311 - Glimmer and GeneMark agree on start at 42311, 6MA`s, -4 gap
    /note=Hypothetical Protein- green and purple nucleotide similarity in Phamerator but no function called, no function called in BLASTp, no significant hits in HHPred and 0 TMR`s predicted from DeepTMHMM

CDS complement (42308 - 42616)
  /gene="67"
  /product="gp67"
  /function="Hypothetical Protein"
  /locus tag="RazzB_67"
    /note=Original Glimmer call @bp 42616 has strength 5.55; Genemark calls start at 42616
    /note=SSC: 42616-42308 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_68 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 3.26221E-69 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.944, -2.794070146961553, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_68 [Arthrobacter phage MellowYellow]],,XLG24984,100.0,3.26221E-69 SIF-HHPRED:  SIF-Syn: 
    /note=Coding potential is high with a slight decrease in the middle of the ORF, no coding potential in other frames - likely a gene
    /note=Final start call: 42616 - Glimmer and GeneMark agree on start at 42616, 5MA`s, -1 gap
    /note=Hypothetical protein: nucleotide similarity in Phamerator, no functions called in BLASTp, no significant hits in HHPred, 0 TMR`s predicted from DeepTMHMM

CDS complement (42616 - 42879)
  /gene="68"
  /product="gp68"
  /function="Hypothetical Protein"
  /locus tag="RazzB_68"
    /note=Original Glimmer call @bp 42879 has strength 13.5; Genemark calls start at 42879
    /note=SSC: 42879-42616 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_69 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 3.97861E-57 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.109, -2.230514797657003, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_69 [Arthrobacter phage MellowYellow]],,XLG24985,100.0,3.97861E-57 SIF-HHPRED:  SIF-Syn: 
    /note=High and consistent coding potential for second half of ORF, lower coding potential in first half - likely a gene
    /note=Final start call: 42879 - Glimmer and GeneMark agree on start at 42879, 14 MA`s, -1 gap
    /note=Hypothetical protein - nucleotide similarity in Phamerator, no functions called in BLASTp, no significant hits from HHPred and 0 TMR`s predicted from DeepTMHMM

CDS complement (42879 - 43106)
  /gene="69"
  /product="gp69"
  /function="Hypothetical Protein"
  /locus tag="RazzB_69"
    /note=Original Glimmer call @bp 43106 has strength 12.67; Genemark calls start at 43106
    /note=SSC: 43106-42879 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_70 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 5.47758E-47 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.449, -3.6476983004329377, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_70 [Arthrobacter phage MellowYellow]],,XLG24986,100.0,5.47758E-47 SIF-HHPRED:  SIF-Syn: 
    /note=-likely a gene due to high and consistent coding potential 
    /note=-glimmer and genemark both agree on start 43106, has a gap of-1, and was manually annotated 2 times 
    /note=-no functions called in phamerator (hypothetical protein)
    /note=- no hits from HHpred with over 90% query and coverage and 70% alignment (hypothetical protein) 
    /note=-blast p has 3 hits with 100% query for hypothetical protein 
    /note=-no TMRs were predicted which also helps support hypothetical protein

CDS complement (43106 - 43630)
  /gene="70"
  /product="gp70"
  /function="Hypothetical Protein"
  /locus tag="RazzB_70"
    /note=Original Glimmer call @bp 43630 has strength 15.22; Genemark calls start at 43630
    /note=SSC: 43630-43106 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_71 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 3.89625E-123 GAP: 32 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.88, -2.644643059745525, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_71 [Arthrobacter phage MellowYellow]],,XLG24987,100.0,3.89625E-123 SIF-HHPRED:  SIF-Syn: 
    /note=-has high and consistent coding potential (likely a gene)
    /note=-start 1 at 43630 has been manually annotated 5 times and lowest gap of 32 correspond with start 
    /note=-glimmer and genemark agree on start 43630
    /note=-hhpred has no hits over 90% coverage and 70% allignment (hypothetical protein)
    /note=-blastp has 3 hits with a 100% query for a hypothetical protein
    /note=-no TMRs predicted 
    /note=-no function called by phamerator (hypothetical protein)

CDS complement (43663 - 43881)
  /gene="71"
  /product="gp71"
  /function="Hypothetical Protein"
  /locus tag="RazzB_71"
    /note=Original Glimmer call @bp 43881 has strength 15.97; Genemark calls start at 43881
    /note=SSC: 43881-43663 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_72 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 3.67896E-44 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.871, -3.2535385006449706, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_72 [Arthrobacter phage MellowYellow]],,XLG24988,100.0,3.67896E-44 SIF-HHPRED:  SIF-Syn: 
    /note=-has high and consistent coding potential (likely a gene) 
    /note=-glimmer and genemark agree on start 43881, has 5MAs , has an overlap of -4
    /note=-no function called in phamerator (hypothetical protein)
    /note=-hhpred has no hits over 90% coverage or 70%alignment (hypothetical protein) 
    /note=-blastp has two hits for hypothetical protein with 100% query and 2 other hits with 90% query and above for hypothetical protein as well
    /note=-No TMRs predicted

CDS complement (43878 - 44414)
  /gene="72"
  /product="gp72"
  /function="Hypothetical Protein"
  /locus tag="RazzB_72"
    /note=Original Glimmer call @bp 44414 has strength 6.54; Genemark calls start at 44414
    /note=SSC: 44414-43878 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_73 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 2.57996E-125 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.944, -2.583959800616441, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_73 [Arthrobacter phage MellowYellow]],,XLG24989,99.4382,2.57996E-125 SIF-HHPRED:  SIF-Syn: 
    /note=-has high and consistent coding potential (likely a gene) 
    /note=-glimmer and genemark agree on start 44414, has been manually annotated 6 times, -4 gap at start 44414
    /note=-blast p has 3 hits with 100% query for hypothetical protein
    /note=-hhpred has no hits with 90% coverage and 70% alignment (hypothetical protein)
    /note=-no function called in phamerator (hypothetical protein)
    /note=-no TMRs predicted

CDS complement (44411 - 44944)
  /gene="73"
  /product="gp73"
  /function="Hypothetical Protein"
  /locus tag="RazzB_73"
    /note=Original Glimmer call @bp 44944 has strength 19.22; Genemark calls start at 44944
    /note=SSC: 44944-44411 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein PBI_BEAGLE_74 [Arthrobacter phage Beagle] ],,NCBI, q1:s1 100.0% 5.51516E-124 GAP: 74 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.078, -2.297359520375101, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein PBI_BEAGLE_74 [Arthrobacter phage Beagle] ],,QGJ92833,98.3051,5.51516E-124 SIF-HHPRED:  SIF-Syn: 
    /note=-high and consistent coding potential (likely a gene) 
    /note=-glimmer and genemark agree on start 44944, has been manually annotated 8 times, lowest gap of 74 is corresponding to start of 44944
    /note=-no function called in phamerator (hypothetical) 
    /note=- blastp has multiple hits for hypothetical protein with over a 90% query, even some with 100%
    /note=-hhpred has one hit with a coverage over 90% for unknown function 
    /note=-No TMRs predicted

CDS complement (45019 - 45291)
  /gene="74"
  /product="gp74"
  /function="Hypothetical Protein"
  /locus tag="RazzB_74"
    /note=Original Glimmer call @bp 45291 has strength 15.77; Genemark calls start at 45291
    /note=SSC: 45291-45019 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_ODYSSEY395_75 [Arthrobacter phage Odyssey395]],,NCBI, q1:s1 100.0% 5.37943E-58 GAP: -8 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.928, -3.005970110175159, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_ODYSSEY395_75 [Arthrobacter phage Odyssey395]],,QOP66824,100.0,5.37943E-58 SIF-HHPRED:  SIF-Syn: 
    /note=-high and consistent coding potential (likely a gene) 
    /note=-glimmer and genemark agree on start 45291, manually annotated 6 times, lowest overlap of -8 correspond to start 45291
    /note=-blastp has 3 hits with a 100% query for hypothetical protein 
    /note=-hhpred had no hits over 90% coverage or 70%alignment (hypothetical protein) 
    /note=-no function called in phamerator (hypothetical protein) 
    /note=-no TMRs predicted

CDS complement (45284 - 45511)
  /gene="75"
  /product="gp75"
  /function="Hypothetical Protein"
  /locus tag="RazzB_75"
    /note=Original Glimmer call @bp 45511 has strength 9.98; Genemark calls start at 45511
    /note=SSC: 45511-45284 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_76 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 6.97133E-39 GAP: 1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.392, -3.708514821076885, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_76 [Arthrobacter phage MellowYellow]],,XLG24992,92.2078,6.97133E-39 SIF-HHPRED:  SIF-Syn: 
    /note=-has high and consistent coding potential
    /note=-Start is supported at 45,511, this start has been manually annotated 5 times, it also agrees with Glimmer and Genemark
    /note=-Blastp does not call any functions in any of the hits
    /note=-There was no TMRs
    /note=-No functions in phamerator

CDS complement (45513 - 45824)
  /gene="76"
  /product="gp76"
  /function="Hypothetical Protein"
  /locus tag="RazzB_76"
    /note=Original Glimmer call @bp 45824 has strength 9.45; Genemark calls start at 45824
    /note=SSC: 45824-45513 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein PBI_BEAGLE_77 [Arthrobacter phage Beagle] ],,NCBI, q1:s1 100.0% 1.19958E-61 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.093, -5.372423102389892, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein PBI_BEAGLE_77 [Arthrobacter phage Beagle] ],,QGJ92836,95.1456,1.19958E-61 SIF-HHPRED:  SIF-Syn: 
    /note=-high and consistent coding potential
    /note=-Glimmer and Genemark agree on start at 45,284
    /note=-There are 9 manual annotations for 45,284 start
    /note=-no function call in phamerator
    /note=-no hits in Blastp or HHPred

CDS complement (45821 - 45997)
  /gene="77"
  /product="gp77"
  /function="membrane protein"
  /locus tag="RazzB_77"
    /note=Original Glimmer call @bp 45997 has strength 16.16; Genemark calls start at 45997
    /note=SSC: 45997-45821 CP: no SCS: both ST: NI BLAST-Start: [membrane protein [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 1.34527E-29 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.831, -4.835658240213919, no F: membrane protein SIF-BLAST: ,,[membrane protein [Arthrobacter phage MellowYellow]],,XLG24994,93.1034,1.34527E-29 SIF-HHPRED:  SIF-Syn: 
    /note=-high coding potential
    /note=-Glimmer and Genemark agree on start at 45,997
    /note=-start at 45,997 has 1 manual annotation
    /note=-start 45,997 has an overlap of -4
    /note=-Phamerator has no function called
    /note=-Blastp and HHPred have hits for membrane protein
    /note=-Deep TMHMM has 1 TMR

CDS complement (45994 - 46323)
  /gene="78"
  /product="gp78"
  /function="Hypothetical Protein"
  /locus tag="RazzB_78"
    /note=Original Glimmer call @bp 46323 has strength 7.54; Genemark calls start at 46323
    /note=SSC: 46323-45994 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein PBI_BEAGLE_79 [Arthrobacter phage Beagle] ],,NCBI, q1:s1 100.0% 1.65891E-71 GAP: -8 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.958, -4.6236495748204955, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein PBI_BEAGLE_79 [Arthrobacter phage Beagle] ],,QGJ92838,99.0826,1.65891E-71 SIF-HHPRED:  SIF-Syn: 
    /note=-coding potential is high but not consistent
    /note=-Glimmer and Genemark agree on start at 46,323
    /note=-Phamerator does not call for anything
    /note=-blastp has multiple hits for hypothetical protein
    /note=-HHPred has no hits
    /note=-there are no TMRs predicted

CDS complement (46316 - 47488)
  /gene="79"
  /product="gp79"
  /function="Cas4 exonuclease"
  /locus tag="RazzB_79"
    /note=Original Glimmer call @bp 47488 has strength 16.49; Genemark calls start at 47488
    /note=SSC: 47488-46316 CP: no SCS: both ST: NI BLAST-Start: [Cas4 exonuclease [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 0.0 GAP: 207 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.109, -2.4406251440021154, yes F: Cas4 exonuclease SIF-BLAST: ,,[Cas4 exonuclease [Arthrobacter phage MellowYellow]],,XLG24996,99.4872,0.0 SIF-HHPRED:  SIF-Syn: 
    /note=-high and consistent coding potential
    /note=-glimmer and genemark agree on start at 47,488
    /note=-start at 47,488 has 5 manual annotations
    /note=-Phamerator and Blastp call for a Cas4 exonuclease
    /note=-hhpred does not call anything
    /note=-there are no tmrs predicted

CDS complement (47696 - 48583)
  /gene="80"
  /product="gp80"
  /function="DNA binding protein"
  /locus tag="RazzB_80"
    /note=Original Glimmer call @bp 48583 has strength 18.9; Genemark calls start at 48583
    /note=SSC: 48583-47696 CP: no SCS: both ST: NI BLAST-Start: [DNA binding protein [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 0.0 GAP: 152 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.109, -2.9969276447694027, yes F: DNA binding protein SIF-BLAST: ,,[DNA binding protein [Arthrobacter phage MellowYellow]],,XLG24997,99.661,0.0 SIF-HHPRED:  SIF-Syn: 
    /note=-high and consistant coding potential
    /note=-Glimmer and GeneMark agree with the start at 48583
    /note=-Start at 48583 has 8 manual annotations
    /note=-Blastp and Phamerator call for a DNA binding protein
    /note=-HHPred does not call anything
    /note=-no TMRs predicted

CDS complement (48736 - 48948)
  /gene="81"
  /product="gp81"
  /function="deoxyuridine triphosphatase"
  /locus tag="RazzB_81"
    /note=Original Glimmer call @bp 48951 has strength 10.12; Genemark calls start at 48948
    /note=SSC: 48948-48736 CP: no SCS: both-gm ST: NI BLAST-Start: [hypothetical protein SEA_POINTIS_78 [Arthrobacter phage Pointis]],,NCBI, q1:s2 100.0% 1.18196E-42 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.102, -4.314571574115886, yes F: deoxyuridine triphosphatase SIF-BLAST: ,,[hypothetical protein SEA_POINTIS_78 [Arthrobacter phage Pointis]],,XIJ71023,98.5916,1.18196E-42 SIF-HHPRED:  SIF-Syn: 
    /note=-high consistent coding potential: likely a gene 
    /note=-Glimmer and GeneMark do not agree
    /note=-according to Starterator 48948 has 6MAs whereas 48951 has only been manually annotated once 
    /note=- -1 gap is stronger evidence according to wet bench evidence than -4 overlap
    /note=change start to 48948
    /note=- no function called in MellowYellow or Beagle 
    /note=-No Evidence to call specific function from BPASTp or HHpred
    /note=- No TMR

CDS complement (48948 - 49424)
  /gene="82"
  /product="gp82"
  /function="dUTPase"
  /locus tag="RazzB_82"
    /note=Original Glimmer call @bp 49370 has strength 14.09; Genemark calls start at 49370
    /note=SSC: 49424-48948 CP: no SCS: both-cs ST: NI BLAST-Start: [deoxyuridine triphosphatase [Arthrobacter phage Beagle]],,NCBI, q1:s1 100.0% 4.27835E-90 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.552, -5.5137066289912715, no F: dUTPase SIF-BLAST: ,,[deoxyuridine triphosphatase [Arthrobacter phage Beagle]],,QGJ92842,92.3567,4.27835E-90 SIF-HHPRED:  SIF-Syn: 
    /note=high coding potential: Likely a gene
    /note=Glimmer and Genemark agree at 49370; however, Starterator shows 6 MAs at 49424 and that start also has a -4 overlap 
    /note=-change start choice to 49424
    /note=
    /note=- Phamerator shows deoxyuridine triphosphatase in Beagle and dUTPase in Mellow Yellow
    /note=- BLASTp shows similar hits with deoxyuridine triphosphatase and dUTPase 
    /note=- HHpred shows many hits with Deoxyuridine 5`-triphosphate nucleotidohydrolase 
    /note=-No TMR
    /note=- according to official function list, call dUTPase not deoxyuridine triphosphatase

CDS complement (49421 - 49627)
  /gene="83"
  /product="gp83"
  /function="Hypothetical Protein"
  /locus tag="RazzB_83"
    /note=Genemark calls start at 49627
    /note=SSC: 49627-49421 CP: no SCS: genemark ST: NI BLAST-Start: [hypothetical protein PBI_BEAGLE_84 [Arthrobacter phage Beagle] ],,NCBI, q1:s1 100.0% 3.32939E-40 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.475, -3.513874779476501, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein PBI_BEAGLE_84 [Arthrobacter phage Beagle] ],,QGJ92843,100.0,3.32939E-40 SIF-HHPRED:  SIF-Syn: 
    /note=Genemark evidence suggests that there may be a gene present. only genemark calls for a start here at 49627,with a -1 gap and 9 manual annotations. BlastP only calls for hypothetical protein and HHpred doesn`t have high enough probability matches.
    /note=no TMR

CDS complement (49627 - 49953)
  /gene="84"
  /product="gp84"
  /function="HNH endonuclease"
  /locus tag="RazzB_84"
    /note=Original Glimmer call @bp 49953 has strength 0.65; Genemark calls start at 49854
    /note=SSC: 49953-49627 CP: no SCS: both-gl ST: NI BLAST-Start: [HNH endonuclease [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 1.49816E-73 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.871, -2.7423981586358774, no F: HNH endonuclease SIF-BLAST: ,,[HNH endonuclease [Arthrobacter phage MellowYellow]],,XLG25048,98.1481,1.49816E-73 SIF-HHPRED:  SIF-Syn: 
    /note=There is low coding potential,but glimmer and genemark disagree,49953 has 7 manual annotations and a -4 gap.  Start site 49923 and 49920 both have one MA.  Several hits in HHpred and blastp corroborate that this is hnh Endonuclease.

CDS complement (49950 - 50150)
  /gene="85"
  /product="gp85"
  /function="Hypothetical Protein"
  /locus tag="RazzB_85"
    /note=Original Glimmer call @bp 50150 has strength 20.65; Genemark calls start at 50150
    /note=SSC: 50150-49950 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_86 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 7.07892E-39 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.602, -4.279133213525656, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_86 [Arthrobacter phage MellowYellow]],,XLG25000,100.0,7.07892E-39 SIF-HHPRED:  SIF-Syn: 
    /note=High consistent coding potential in GeneMark--likely a gene.  Glimmer and genemark agree on starting at 50150, as well as 2 manual annotations. Only Mellow yellow has gene in same Pham - no function called.  HHpred calls for a transcription protein (low probability but high %coverage), though no other websites do.

CDS complement (50147 - 50497)
  /gene="86"
  /product="gp86"
  /function="Hypothetical Protein"
  /locus tag="RazzB_86"
    /note=Original Glimmer call @bp 50497 has strength 14.59; Genemark calls start at 50497
    /note=SSC: 50497-50147 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_87 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 1.31894E-75 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.794, -2.827683592113848, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_87 [Arthrobacter phage MellowYellow]],,XLG25001,99.1379,1.31894E-75 SIF-HHPRED:  SIF-Syn: 
    /note=High coding potential in Genemark - Likely a gene.  Glimmer and genemark agree on start site 50497. This is supported by 5 MAs in Starterator.  No Function called in genes of same Pham on Phamerator.  BLAST shows unknown function, and HHpred results are not helpful in providing evidence of function. No TMR

CDS complement (50494 - 50829)
  /gene="87"
  /product="gp87"
  /function="Hypothetical Protein"
  /locus tag="RazzB_87"
    /note=Original Glimmer call @bp 50829 has strength 8.71; Genemark calls start at 50811
    /note=SSC: 50829-50494 CP: yes SCS: both-gl ST: NI BLAST-Start: [hypothetical protein PBI_BEAGLE_89 [Arthrobacter phage Beagle] ],,NCBI, q1:s1 100.0% 1.08882E-74 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.884, -4.862260131515226, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein PBI_BEAGLE_89 [Arthrobacter phage Beagle] ],,QGJ92848,99.0991,1.08882E-74 SIF-HHPRED:  SIF-Syn: 
    /note=High consistent CP - Likely a gene.
    /note=start site is at 50829; starterator had this start as the auto-annotated start site and was manually annotated 4 times. There is also a gap of -4 which is a good indicator of a start. 
    /note=hypothetical protein 
    /note=no hits in blastp, no hits with a probability greater than 90 or a query coverage greater than 70% 
    /note=no TMR predicted

CDS complement (50826 - 51290)
  /gene="88"
  /product="gp88"
  /function="DNA binding protein"
  /locus tag="RazzB_88"
    /note=Original Glimmer call @bp 51290 has strength 12.94; Genemark calls start at 51203
    /note=SSC: 51290-50826 CP: no SCS: both-gl ST: NI BLAST-Start: [DNA binding protein [Arthrobacter phage Beagle] ],,NCBI, q1:s1 100.0% 2.97588E-108 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.131, -5.496021699701414, no F: DNA binding protein SIF-BLAST: ,,[DNA binding protein [Arthrobacter phage Beagle] ],,QGJ92849,100.0,2.97588E-108 SIF-HHPRED:  SIF-Syn: 
    /note=High consistent CP - likely a gene 
    /note=start site at 51290; it is the auto-annotated start site and was manually annotated 4 times. It also has a gap of -4. All evidence is solid that 51290 is the start.
    /note=DNA binding protein 
    /note=Phamerator called this function for the related pham in Beagle and MellowYellow 
    /note=100% hits for DNA binding protein in BLASTp
    /note=100+ hits with 90% probability and 70% query coverage in HHpred

CDS complement (51287 - 51853)
  /gene="89"
  /product="gp89"
  /function="Hypothetical Protein"
  /locus tag="RazzB_89"
    /note=Original Glimmer call @bp 51853 has strength 13.87; Genemark calls start at 51853
    /note=SSC: 51853-51287 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_ODYSSEY395_89 [Arthrobacter phage Odyssey395]],,NCBI, q1:s1 100.0% 5.64744E-132 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.903, -4.679270584912496, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_ODYSSEY395_89 [Arthrobacter phage Odyssey395]],,QOP66838,99.4681,5.64744E-132 SIF-HHPRED:  SIF-Syn: 
    /note=High CP - likely a gene
    /note=start site 51853 is supported because both Glimmer and GeneMark agree, Starterator auto annotated it, and it was manually annotated 5 times. It also has a gap of -4. 
    /note=Hypothetical Protein 
    /note=There are no hits with a function in BLASTp, no hits above a 90% probability or 70% query coverage in HHpred. There is also no TMR predicted.

CDS complement (51850 - 52215)
  /gene="90"
  /product="gp90"
  /function="Hypothetical Protein"
  /locus tag="RazzB_90"
    /note=Original Glimmer call @bp 52215 has strength 17.54; Genemark calls start at 52215
    /note=SSC: 52215-51850 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_91 [Arthrobacter phage MellowYellow]],,NCBI, q1:s9 100.0% 7.49771E-82 GAP: 42 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.412, -5.796882727134779, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_91 [Arthrobacter phage MellowYellow]],,XLG25005,93.0233,7.49771E-82 SIF-HHPRED:  SIF-Syn: 
    /note=High consistent CP - Likely a gene
    /note=start 52215 can be supported as the start because both Glimmer and GeneMark agree, it was auto annotated in Starterator, and manually annotated 5 times. Although there wasn`t a gap/overlap of -1 or -4, this start has the lowest overlap of 42. 
    /note=Hypothetical Protein 
    /note=no hits for any functions in BLASTp, no hits with 90% probability and only 1 hit with a query coverage greater than 70% in HHpred. There is also no TMR predicted.

CDS complement (52258 - 52698)
  /gene="91"
  /product="gp91"
  /function="Hypothetical Protein"
  /locus tag="RazzB_91"
    /note=Original Glimmer call @bp 52698 has strength 17.89; Genemark calls start at 52698
    /note=SSC: 52698-52258 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_93 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 8.11303E-101 GAP: 15 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.831, -4.976656753876107, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_93 [Arthrobacter phage MellowYellow]],,XLG25007,99.3151,8.11303E-101 SIF-HHPRED:  SIF-Syn: 
    /note=High CP - Likely a gene
    /note=start 52698 can be supported because both Glimmer and GeneMark agree. It was also auto annotated in Starterator, and had 8 manual annotations. Although there wasn`t a gap/overlap of -1 or -4, the start 52698 had the smallest overlap of 15. 
    /note=Hypothetical Protein 
    /note=there were 100% hits for hypothetical proteins in BLASTp, no hits above 90% probability or 70% query coverage in HHpred. There was also no TMR predicted.

CDS complement (52714 - 54315)
  /gene="92"
  /product="gp92"
  /function="DNA primase/helicase"
  /locus tag="RazzB_92"
    /note=Original Glimmer call @bp 54315 has strength 19.21; Genemark calls start at 54315
    /note=SSC: 54315-52714 CP: no SCS: both ST: NI BLAST-Start: [DNA primase/helicase [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 0.0 GAP: 41 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.078, -3.257592393503613, yes F: DNA primase/helicase SIF-BLAST: ,,[DNA primase/helicase [Arthrobacter phage MellowYellow]],,XLG25008,100.0,0.0 SIF-HHPRED:  SIF-Syn: 
    /note=High consistent CP - Likely a gene
    /note=54315 can be supported because both Glimmer and GeneMark agree. It is also auto annotated in Starterator and has 12 manual annotations. There are no gaps/overlaps of -1 or -4 but start 54315 has the lowest overlap of 40. 
    /note=DNA primase/polymerase/helicase 
    /note=In Phamerator, the similar phams in Beagle  called DNA primase/polymerase/helicase  and Mellow Yellow called DNA Primase/helicase
    /note=There are several hits for primate and helicase functions with multiple hits above 90% probability and 70% query coverage. No polymerase hits found other than in Phage Beagle.

CDS complement (54357 - 55100)
  /gene="93"
  /product="gp93"
  /function="DNA binding protein"
  /locus tag="RazzB_93"
    /note=Original Glimmer call @bp 55100 has strength 6.37; Genemark calls start at 55100
    /note=SSC: 55100-54357 CP: no SCS: both ST: NI BLAST-Start: [helix-turn-helix DNA binding domain [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 5.95607E-179 GAP: 268 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.944, -2.442961286954254, yes F: DNA binding protein SIF-BLAST: ,,[helix-turn-helix DNA binding domain [Arthrobacter phage MellowYellow]],,XLG25009,99.5951,5.95607E-179 SIF-HHPRED:  SIF-Syn: 
    /note=Likely a gene with high coding potential.
    /note=Gene Mark and Glimmer agree with the start being 55100, starterator supports this with 10 MAs.  Gap data is not helpful with large gap
    /note=Likely a DNA Binding Domain.  Possibly a HTH binding domain. Mellow yellow calls the helix-turn-helix DNA binding domain, but beagle just calls DNA binding protein.
    /note=Predicted secondary structure is not strong for helix-turn-helix structure. Called DNA binding protein.

CDS complement (55369 - 55869)
  /gene="94"
  /product="gp94"
  /function="Hypothetical Protein"
  /locus tag="RazzB_94"
    /note=Original Glimmer call @bp 55869 has strength 15.73; Genemark calls start at 55806
    /note=SSC: 55869-55369 CP: no SCS: both-gl ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_96 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 2.95568E-116 GAP: 69 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.402, -6.283273644732755, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_96 [Arthrobacter phage MellowYellow]],,XLG25010,100.0,2.95568E-116 SIF-HHPRED:  SIF-Syn: 
    /note=Likely a gene with high coding potential 
    /note=Start position is most likely 55869 - called by glimmer and had 5 MAs in starterator.  Has the smallest gap out of gene start candidates
    /note=function is most likely a Hypothetical protein.  No evidence otherwise in BLASTp or HHpred.
    /note=No TMR

CDS complement (55939 - 56544)
  /gene="95"
  /product="gp95"
  /function="SSB protein"
  /locus tag="RazzB_95"
    /note=Original Glimmer call @bp 56544 has strength 17.03; Genemark calls start at 56544
    /note=SSC: 56544-55939 CP: no SCS: both ST: NI BLAST-Start: [ssDNA binding protein [Arthrobacter phage Beagle] ],,NCBI, q1:s1 100.0% 5.32037E-139 GAP: 3 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.831, -5.186767100221219, no F: SSB protein SIF-BLAST: ,,[ssDNA binding protein [Arthrobacter phage Beagle] ],,QGJ92857,99.5025,5.32037E-139 SIF-HHPRED:  SIF-Syn: 
    /note=Likely a gene with high coding potential 
    /note=Glimmer and Gene Mark agree with the start choice 56544 supported by starterator with 230MAs. Smallest gap 
    /note=function is most likely SSB Protein 
    /note=shares a pham number and color with its relatives,fncs called are ssDNA Binding Protein in Beagle and SSB protein in MellowYellow
    /note=hits for ssDNA binding protein in BLASTp and HHpred 
    /note=Official function list says to call SSB protein function instead of ssDNA binding protein

CDS complement (56548 - 56850)
  /gene="96"
  /product="gp96"
  /function="Hypothetical Protein"
  /locus tag="RazzB_96"
    /note=Original Glimmer call @bp 56850 has strength 8.83; Genemark calls start at 56850
    /note=SSC: 56850-56548 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_ODYSSEY395_97 [Arthrobacter phage Odyssey395] ],,NCBI, q1:s1 100.0% 2.54861E-66 GAP: 144 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.944, -2.794070146961553, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_ODYSSEY395_97 [Arthrobacter phage Odyssey395] ],,QOP66846,100.0,2.54861E-66 SIF-HHPRED:  SIF-Syn: 
    /note=The coding potential is high but does have some peaks, but is most likely a gene
    /note=The most likely start position is 56850 supported by starterator`s 5 MAs, glider and Genemark agree, and smallest gap
    /note=Function is Hypothetical protein
    /note=no functions called in mellow yellow or beagle. hits for hypothetical protein BLASTp in hhpred there are no hits over 90% probability with 70 % coverage. No TMR

CDS complement (56995 - 57489)
  /gene="97"
  /product="gp97"
  /function="Hypothetical Protein"
  /locus tag="RazzB_97"
    /note=Original Glimmer call @bp 57390 has strength 24.53; Genemark calls start at 57390
    /note=SSC: 57489-56995 CP: no SCS: both-cs ST: NI BLAST-Start: [hypothetical protein PBI_BEAGLE_100 [Arthrobacter phage Beagle]],,NCBI, q1:s1 100.0% 4.30439E-65 GAP: 3 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 0.673, -7.321269739597045, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein PBI_BEAGLE_100 [Arthrobacter phage Beagle]],,QGJ92859,76.6871,4.30439E-65 SIF-HHPRED:  SIF-Syn: 
    /note=Coding potential is high and consistent most likely a gene
    /note= Start site is 57489.  
    /note=Glimmer and genemark agree on start 57390, however starterator has 57489 manually annotated 5 times. smallest gap is for start site supports 57489
    /note=Function is hypothetical protein
    /note=No Evidence from phamerator, BLASTp or HHpred.  
    /note=No TMR

CDS complement (57493 - 58818)
  /gene="98"
  /product="gp98"
  /function="Hypothetical Protein"
  /locus tag="RazzB_98"
    /note=Original Glimmer call @bp 58818 has strength 17.69; Genemark calls start at 58818
    /note=SSC: 58818-57493 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_ODYSSEY395_99 [Arthrobacter phage Odyssey395]],,NCBI, q1:s1 100.0% 0.0 GAP: 11 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.092, -4.354778061539587, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_ODYSSEY395_99 [Arthrobacter phage Odyssey395]],,QOP66848,93.8775,0.0 SIF-HHPRED:  SIF-Syn: 
    /note=High consistent CP - Likely a gene 
    /note=All of the data supports that the start is at 58818, Glimmer and genemark agree, smallest gap, and 6 MAs in starterator.
    /note=No functions have been stated by any of the sources. no hits in BLASTp or hhpred worth considering. No TMR

CDS complement (58830 - 59741)
  /gene="99"
  /product="gp99"
  /function="Hypothetical Protein"
  /locus tag="RazzB_99"
    /note=Original Glimmer call @bp 59741 has strength 18.41; Genemark calls start at 59741
    /note=SSC: 59741-58830 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_101 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 0.0 GAP: 36 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.078, -2.2364030944336752, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_101 [Arthrobacter phage MellowYellow]],,XLG25015,99.0099,0.0 SIF-HHPRED:  SIF-Syn: 
    /note=High consistent CP - Likely a gene 
    /note=All of the data supports that the start is at 59741, this is because each of the sources support the start, starterator has 6 MAs, glimmer and genemark agree and small gap.
    /note=The color and pham number are the same in Beagle and Mellow Yellow. No function called in either phage. No evidence in BLASTp or HHpred. 
    /note=No TMR

CDS complement (59778 - 60026)
  /gene="100"
  /product="gp100"
  /function="Hypothetical Protein"
  /locus tag="RazzB_100"
    /note=Original Glimmer call @bp 60026 has strength 13.15; Genemark calls start at 60026
    /note=SSC: 60026-59778 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_102 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 1.36438E-50 GAP: -8 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.794, -2.827683592113848, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_102 [Arthrobacter phage MellowYellow]],,XLG25016,98.7805,1.36438E-50 SIF-HHPRED:  SIF-Syn: 
    /note=High consistent CP - Likely a gene 
    /note=Glimmer and GeneMark agree on start at 60026 as the likely start. All data supports start at 60026, it has 6 MA`s and was auto-annotated, and is best supported by the gap/overlap chart by having the gap closest to 0. No functions have been stated by BLASTp, HHPREd, Phamerator.
    /note=No TMR

CDS complement (60019 - 60213)
  /gene="101"
  /product="gp101"
  /function="Hypothetical Protein"
  /locus tag="RazzB_101"
    /note=Original Glimmer call @bp 60192 has strength 11.51; Genemark calls start at 60192
    /note=SSC: 60213-60019 CP: no SCS: both-cs ST: NI BLAST-Start: [hypothetical protein SEA_ODYSSEY395_102 [Arthrobacter phage Odyssey395]],,NCBI, q1:s1 100.0% 2.39853E-34 GAP: -17 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.923, -4.778071418780228, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_ODYSSEY395_102 [Arthrobacter phage Odyssey395]],,QOP66851,96.875,2.39853E-34 SIF-HHPRED:  SIF-Syn: 
    /note=High consistent CP - likely a gene 
    /note=The start 60213 has 3 MAs  start at 60192 has been MA 1 time.
    /note=change start to 60213.
    /note=No functions have been found through TMR predictions. There are no hits above 90 with a query coverage above 70% on HHPred. All blasts seem to say the same hypothetical protein. phamerator only shows a gene in the same pham in mellow yellow - no function called

CDS complement (60197 - 60847)
  /gene="102"
  /product="gp102"
  /function="Hypothetical Protein"
  /locus tag="RazzB_102"
    /note=Original Glimmer call @bp 60847 has strength 14.92; Genemark calls start at 60847
    /note=SSC: 60847-60197 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_104 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 1.80066E-157 GAP: 120 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.165, -4.197185411639505, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_104 [Arthrobacter phage MellowYellow]],,XLG25018,100.0,1.80066E-157 SIF-HHPRED:  SIF-Syn: 
    /note=high coding potential - likely a gene 
    /note=Start 60847 is auto-annotated. It agrees with Glimmer and geneMark. There are 8 possible start sites. Start 60847 has been manualy annotated 6 times. 
    /note=Multiple 100% matches with hypothetical proteins on BLASTp and no clear evidence on HHpred. No reliable evidence from any source to call function.
    /note=No TMR

CDS complement (60968 - 61225)
  /gene="103"
  /product="gp103"
  /function="Hypothetical Protein"
  /locus tag="RazzB_103"
    /note=Original Glimmer call @bp 61225 has strength 14.3; Genemark calls start at 61225
    /note=SSC: 61225-60968 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_PUREGLOBE5_104 [Arthrobacter phage Pureglobe5] ],,NCBI, q1:s1 100.0% 3.52002E-54 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.053, -4.436903688233993, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_PUREGLOBE5_104 [Arthrobacter phage Pureglobe5] ],,UYL87467,100.0,3.52002E-54 SIF-HHPRED:  SIF-Syn: 
    /note=High CP - Likely a gene
    /note=Glimmer and GeneMark agree on start  61225 as the likely start. Start 12 is auto-annotated at 61225. This agrees with both Glimmer and GeneMark. There are 8 possible starts for this gene. Start 12 has 8 MA`s supporting this start site. has -1 gap
    /note=Phamerator shows same pham in beagle and mellow yellow - no function called. 
    /note=BLASTp and HHpred do not have sufficient evidence to call a specific function.
    /note=no TMR

CDS complement (61225 - 61896)
  /gene="104"
  /product="gp104"
  /function="Hypothetical Protein"
  /locus tag="RazzB_104"
    /note=Original Glimmer call @bp 61896 has strength 15.37; Genemark calls start at 61896
    /note=SSC: 61896-61225 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein PBI_BEAGLE_107 [Arthrobacter phage Beagle] ],,NCBI, q1:s1 100.0% 1.2876E-155 GAP: 69 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.562, -5.4744737427355155, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein PBI_BEAGLE_107 [Arthrobacter phage Beagle] ],,QGJ92866,99.1031,1.2876E-155 SIF-HHPRED:  SIF-Syn: 
    /note=Genemark agrees that it is a gene due to high reading potential within it`s reading frame.
    /note=Both Glimmer and Genemark both agree that the starting point is at 61896. has 9MAs in starterator.  Has the smallest gap
    /note=No reliable evidence regarding function, so considered a hypothetical protein.  Phamerator shows same pham in mellow yellow and beagle - no function called. Hypothetical protein shown by BLASTp, and no hits in range of consideration for HHpred.
    /note=no TMR.

CDS complement (61966 - 62181)
  /gene="105"
  /product="gp105"
  /function="Hypothetical Protein"
  /locus tag="RazzB_105"
    /note=Original Glimmer call @bp 62175 has strength 13.9; Genemark calls start at 62175
    /note=SSC: 62181-61966 CP: no SCS: both-cs ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_107 [Arthrobacter phage MellowYellow]],,NCBI, q3:s1 97.1831% 7.38135E-42 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.663, -5.723716915074367, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_107 [Arthrobacter phage MellowYellow]],,XLG25021,100.0,7.38135E-42 SIF-HHPRED:  SIF-Syn: 
    /note=Genemark concludes that this is likely a gene.
    /note=Both Glimmer and Genemark agree that the starting point is 62175 one MA for 62175. however, a -4 overlap is a better predictor of start site.  Change start to 62181
    /note=No reliable evidence from any source regarding function, considered Hypothetical Protein.
    /note=Only mellow yellow shares family member - no function called. BLASTp only has one hit  - hypothetical protein HHpred is not useful. No TMR

CDS complement (62178 - 62588)
  /gene="106"
  /product="gp106"
  /function="Hypothetical Protein"
  /locus tag="RazzB_106"
    /note=Original Glimmer call @bp 62588 has strength 9.4; Genemark calls start at 62588
    /note=SSC: 62588-62178 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_108 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 2.46333E-92 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.469, -3.605500620638483, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_108 [Arthrobacter phage MellowYellow]],,XLG25022,99.2647,2.46333E-92 SIF-HHPRED:  SIF-Syn: 
    /note=Genemark confirms this is likely a gene due to high coding potential within the reading frame.
    /note=Both Glimmer and Genemark agree that the starting position is 62588 supported by 5 MAs on starterator and -4 overlap.
    /note=No reliable evidence from any source regarding function, considered hypothetical protein.
    /note=No support from phamerator, BLASTp or HHpred. No TMR

CDS complement (62585 - 63406)
  /gene="107"
  /product="gp107"
  /function="Hypothetical Protein"
  /locus tag="RazzB_107"
    /note=Original Glimmer call @bp 63406 has strength 11.83; Genemark calls start at 63406
    /note=SSC: 63406-62585 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_109 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 0.0 GAP: -25 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.552, -3.364992052816827, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_109 [Arthrobacter phage MellowYellow]],,XLG25023,97.4359,0.0 SIF-HHPRED:  SIF-Syn: 
    /note=Genemark confirms that it is likely a gene due to high coding potential within the reading frame.
    /note=Both Glimmer and Genemark agree that the starting position is 63406 supported by 6 MAs on starterator.  smallest overlap
    /note=No reliable evidence from any source regarding function, considered Hypothetical Protein.
    /note=No Functions called in Phamerator in same pham. No Evidence from BLASTp or HHpred. No TMR

CDS complement (63382 - 63591)
  /gene="108"
  /product="gp108"
  /function="Hypothetical Protein"
  /locus tag="RazzB_108"
    /note=Original Glimmer call @bp 63591 has strength 1.59
    /note=SSC: 63591-63382 CP: no SCS: glimmer ST: NI BLAST-Start: [hypothetical protein PBI_BEAGLE_110 [Arthrobacter phage Beagle]],,NCBI, q1:s1 100.0% 8.88284E-34 GAP: -10 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.585, -5.362493594322671, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein PBI_BEAGLE_110 [Arthrobacter phage Beagle]],,QGJ92888,73.0337,8.88284E-34 SIF-HHPRED:  SIF-Syn: 
    /note=Genemark shows inconsistent coding potential that do not properly match the reading frame
    /note=Start site presumed by Glimmer to be 63591 - supported by 1 MA in starterator.  Has smallest gap/overlap
    /note=No reliable evidence pointing to any specific function.  Shares pham with beagle - no function called. Hits with BLASTp that show hypothetical protein.  HHpred does not have any hits in range of consideration. No TMR
    /note=This gene was excluded from the annotation because of inconsistent reading frames and error code when put into DNA Mater - would not properly validate

CDS complement (63582 - 63710)
  /gene="109"
  /product="gp109"
  /function="Hypothetical Protein"
  /locus tag="RazzB_109"
    /note=Original Glimmer call @bp 63710 has strength 10.47; Genemark calls start at 63710
    /note=SSC: 63710-63582 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein PBI_BEAGLE_111 [Arthrobacter phage Beagle] ],,NCBI, q1:s1 100.0% 4.24822E-20 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.711, -5.154811153158988, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein PBI_BEAGLE_111 [Arthrobacter phage Beagle] ],,QGJ92869,100.0,4.24822E-20 SIF-HHPRED:  SIF-Syn: 
    /note=Likely a gene due to high and consistent coding potential in the reading frame.
    /note=Both Glimmer and Genemark agree that the starting position is 63710, supported by 6 MAs in starterator. has a -4 overlap.
    /note=No reliable evidence regarding function from any source. Shares pham with beagle and mellowyellow no function called in either gene.  No hits in HHpred in the range of consideration, and BLASTp shows a couple hits for hypothetical protein. No TMR

CDS complement (63707 - 63820)
  /gene="110"
  /product="gp110"
  /function="membrane protein"
  /locus tag="RazzB_110"
    /note=Original Glimmer call @bp 63820 has strength 13.58; Genemark calls start at 63820
    /note=SSC: 63820-63707 CP: no SCS: both ST: NI BLAST-Start: [membrane protein [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 1.95386E-14 GAP: -4 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.004, -2.314799364732351, yes F: membrane protein SIF-BLAST: ,,[membrane protein [Arthrobacter phage MellowYellow]],,XLG25025,100.0,1.95386E-14 SIF-HHPRED:  SIF-Syn: 
    /note=- There was some slight disagreement about whether or not this was actually a gene, however, I double checked and it has all the indicators of being a gene (high peak, coding potential, etc.) 
    /note=- Start choice is agreed upon by all sources and has 5 human annotations -4 overlap is best choice
    /note=- 100% hit in BLASTp for membrane protein function.  Deep TMHMM supports the call
    /note=- HHpred was not helpful

CDS complement (63817 - 64098)
  /gene="111"
  /product="gp111"
  /function="Hypothetical Protein"
  /locus tag="RazzB_111"
    /note=Original Glimmer call @bp 64098 has strength 14.79; Genemark calls start at 64098
    /note=SSC: 64098-63817 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_112 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 5.51476E-63 GAP: 35 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.078, -2.297359520375101, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_112 [Arthrobacter phage MellowYellow]],,XLG25026,100.0,5.51476E-63 SIF-HHPRED:  SIF-Syn: 
    /note=- Predicted as likely a gene and reviewer agrees. High coding potential with a high peak.
    /note=- All sites agree with the called start and there are 4 manual annotations to back it up
    /note=- Both Mellow Yellow and beagle do not have a function for this pham on Phamerator, and all of the other sites agree that is a hypothetical protein BLASTp shows hits for hypothetical protein, and HHpred does not provide additional information

CDS complement (64134 - 64649)
  /gene="112"
  /product="gp112"
  /function="membrane protein"
  /locus tag="RazzB_112"
    /note=Original Glimmer call @bp 64649 has strength 15.58; Genemark calls start at 64649
    /note=SSC: 64649-64134 CP: no SCS: both ST: NI BLAST-Start: [membrane protein [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 2.99734E-118 GAP: 22 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.48, -6.416006789787167, no F: membrane protein SIF-BLAST: ,,[membrane protein [Arthrobacter phage MellowYellow]],,XLG25027,99.4152,2.99734E-118 SIF-HHPRED:  SIF-Syn: 
    /note=- There is some inconsistency with the peaks, indicating that it might not be a gene, however there is high coding potential and overall has high peaks, which makes me agree that this is a gene 
    /note=- Start site seems to be agreed on. There are no -1 or -4 gaps, however the closest one (7) agrees with the start. supported by 2 MAs 
    /note=- Phamerators closest relatives do not call a function. All other sources call for membrane protein, and deep TMHMM calls for 3 TMRs, which is indicative of a membrane protein

CDS complement (64672 - 64797)
  /gene="113"
  /product="gp113"
  /function="membrane protein"
  /locus tag="RazzB_113"
    /note=Original Glimmer call @bp 64797 has strength 15.52; Genemark calls start at 64797
    /note=SSC: 64797-64672 CP: no SCS: both ST: NI BLAST-Start: [membrane protein [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 1.94014E-19 GAP: -1 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.523, -3.4892599424135016, yes F: membrane protein SIF-BLAST: ,,[membrane protein [Arthrobacter phage MellowYellow]],,XLG25028,100.0,1.94014E-19 SIF-HHPRED:  SIF-Syn: 
    /note=- evidence supports that it is a gene. High coding potential and high peaks 
    /note=- All sites agree on the same start. Glimmer, GeneMark, and starterator (one MA). There were no -1 or -4 gaps, however, there is enough evidence to indicate the start 
    /note=- While there is evidence to support that it is a hypothetical protein (phamerator doesn`t list a function for the same pham in MellowYellow, HHPred has no hits within consideration), Blastp says it has an 100% match with membrane protein and there is one TMR in Deep TMHMM

CDS complement (64797 - 65042)
  /gene="114"
  /product="gp114"
  /function="Hypothetical Protein"
  /locus tag="RazzB_114"
    /note=Original Glimmer call @bp 65042 has strength 18.71; Genemark calls start at 65042
    /note=SSC: 65042-64797 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_115 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 9.13573E-48 GAP: 16 bp gap LO: no RBS: Kibler 6, Karlin Medium, 1.831, -4.835658240213919, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_115 [Arthrobacter phage MellowYellow]],,XLG25029,98.7654,9.13573E-48 SIF-HHPRED:  SIF-Syn: 
    /note=-  High coding potentially with a high, flat peak - likely a gene. High coding potentially with a high, flat peak
    /note=- All sites agree on the same start. There are also 6 MA`s in starterator which support the start. Though there isn`t a -1 or -4 gap, the closest gap to the accepted ones supports the start
    /note=- Phamerator does not call for a specific function in either of the most similar phages. All other sites (BLASTp and HHpred) also agree that it is a hypothetical protein or lacks evidence of a specific function. No TMR

CDS complement (65059 - 65196)
  /gene="115"
  /product="gp115"
  /function="Hypothetical Protein"
  /locus tag="RazzB_115"
    /note=Original Glimmer call @bp 65196 has strength 6.45; Genemark calls start at 65196
    /note=SSC: 65196-65059 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_116 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 5.27308E-24 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.787, -5.008614874058139, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_116 [Arthrobacter phage MellowYellow]],,XLG25030,100.0,5.27308E-24 SIF-HHPRED:  SIF-Syn: 
    /note=- Has high coding potential and a flat, high peak - likely a gene
    /note=- glimmer and Genemark agree on the same start, has one MA on Starterator, and it has a gap of -4
    /note=- All sites agree on hypothetical protein. Phamerator does not call a function in any of the similar phages
    /note=- no TMR

CDS complement (65193 - 65501)
  /gene="116"
  /product="gp116"
  /function="Hypothetical Protein"
  /locus tag="RazzB_116"
    /note=Original Glimmer call @bp 65501 has strength 17.73; Genemark calls start at 65501
    /note=SSC: 65501-65193 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_117 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 2.14931E-69 GAP: 36 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.088, -2.274496637415597, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_117 [Arthrobacter phage MellowYellow]],,XLG25031,100.0,2.14931E-69 SIF-HHPRED:  SIF-Syn: 
    /note=Glimmer and GeneMark agree on start, Start has 6 MAs, Gap/Overlap is best choice
    /note=Phamerator has nucleotide similarity but no function called
    /note=BLAST hits are hypothetical protein
    /note=HHPred does not have additional data
    /note=no TMRs

CDS complement (65538 - 65960)
  /gene="117"
  /product="gp117"
  /function="Hypothetical Protein"
  /locus tag="RazzB_117"
    /note=Original Glimmer call @bp 65960 has strength 11.93; Genemark calls start at 65960
    /note=SSC: 65960-65538 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_118 [Arthrobacter phage MellowYellow]],,NCBI, q14:s14 90.7143% 2.09296E-81 GAP: 98 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.165, -4.258141837580931, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_118 [Arthrobacter phage MellowYellow]],,XLG25032,87.8571,2.09296E-81 SIF-HHPRED:  SIF-Syn: 
    /note=GeneMark and Glimmer agree on start, Start has 1 MA, Best gap/overlap for that start
    /note=Phamerator has nucleotide similarity, but no function called
    /note=BLAST hits are for hypothetical protein
    /note=No additional info from HHPred
    /note=0 TMRs

CDS complement (66059 - 66280)
  /gene="118"
  /product="gp118"
  /function="Hypothetical Protein"
  /locus tag="RazzB_118"
    /note=Original Glimmer call @bp 66280 has strength 10.7; Genemark calls start at 66280
    /note=SSC: 66280-66059 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_119 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 7.17379E-43 GAP: 150 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.298, -3.8932062518944837, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_119 [Arthrobacter phage MellowYellow]],,XLG25033,98.6301,7.17379E-43 SIF-HHPRED:  SIF-Syn: 
    /note=Glimmer and GeneMark agree on 66,280 as start, Start has 2 MAs, has the best gap/overlap
    /note=Phamerator has nucleotide similarity, but no function called
    /note=Hits for hypothetical protein on BLAST
    /note=HHPred not high enough for hits
    /note=0 TMRs

CDS complement (66431 - 66904)
  /gene="119"
  /product="gp119"
  /function="Hypothetical Protein"
  /locus tag="RazzB_119"
    /note=Original Glimmer call @bp 66904 has strength 13.54; Genemark calls start at 66850
    /note=SSC: 66904-66431 CP: no SCS: both-gl ST: NI BLAST-Start: [hypothetical protein SEA_ODYSSEY395_117 [Arthrobacter phage Odyssey395]],,NCBI, q2:s41 99.3631% 4.37589E-104 GAP: -4 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.629, -4.171058203059556, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_ODYSSEY395_117 [Arthrobacter phage Odyssey395]],,QOP66866,77.3869,4.37589E-104 SIF-HHPRED:  SIF-Syn: 
    /note=Glimmer and GeneMark disagree on start, 5 MAs for start 66,904, -4 gap for 66,094 start
    /note=Phamerator has nucleotide similarity, but no function called
    /note=Top hits on BLAST for hypothetical protein, some hits for membrane protein
    /note=Not high percent hits on HHPred
    /note=0 TMRS, signal protein

CDS complement (66901 - 67074)
  /gene="120"
  /product="gp120"
  /function="Hypothetical Protein"
  /locus tag="RazzB_120"
    /note=Original Glimmer call @bp 67074 has strength 5.08; Genemark calls start at 67074
    /note=SSC: 67074-66901 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_POINTIS_115 [Arthrobacter phage Pointis]],,NCBI, q1:s1 100.0% 1.37512E-7 GAP: -1 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.333, -3.7560019881956337, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_POINTIS_115 [Arthrobacter phage Pointis]],,XIJ71060,59.6774,1.37512E-7 SIF-HHPRED:  SIF-Syn: 
    /note=Coding potential low and might not be a gene
    /note=Glimmer and GeneMark do call same start site at 67074, 1 MA for start, gap/overlap is -1 at start
    /note=Phamerator has nucleotide similarity, but no function called
    /note=BLAST has low % for hits
    /note=0 TMRs

CDS complement (67074 - 67241)
  /gene="121"
  /product="gp121"
  /function="Hypothetical Protein"
  /locus tag="RazzB_121"
    /note=Original Glimmer call @bp 67241 has strength 8.18
    /note=SSC: 67241-67074 CP: no SCS: glimmer ST: NI BLAST-Start: [hypothetical protein SEA_ODYSSEY395_118 [Arthrobacter phage Odyssey395]],,NCBI, q2:s1 96.3636% 6.52645E-29 GAP: 7 bp gap LO: no RBS: Kibler 6, Karlin Medium, 2.325, -4.4261092987867166, no F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_ODYSSEY395_118 [Arthrobacter phage Odyssey395]],,QOP66867,94.6429,6.52645E-29 SIF-HHPRED:  SIF-Syn: 
    /note=Coding potential is very low- not likely a gene
    /note=Glimmer calls a start at 67,241 but GeneMark does not, 7 MAs, gap/overlap makes sense with start
    /note=Phamerator has nucleotide similarity, no function called
    /note=BLAST hits to hypothetical protein

CDS complement (67249 - 67491)
  /gene="122"
  /product="gp122"
  /function="Hypothetical Protein"
  /locus tag="RazzB_122"
    /note=Original Glimmer call @bp 67491 has strength 9.45; Genemark calls start at 67491
    /note=SSC: 67491-67249 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_123 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 77.5% 7.07538E-35 GAP: 36 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.092, -4.354778061539587, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_123 [Arthrobacter phage MellowYellow]],,XLG25037,96.7742,7.07538E-35 SIF-HHPRED:  SIF-Syn: 
    /note=-inconsistent CP, but likely gene
    /note=-glimmer, genemark, starterator (2 MAs), and gap of 36 supports start site of 67491
    /note=-no data supports specific function, phamerator shows same pham in mellow yellow nut has no function called
    /note=-BLAST results show hypothetical protein 
    /note=-No additional data from HHpred 
    /note=-No TMR 
    /note=-hypothetical protein

CDS complement (67528 - 67746)
  /gene="123"
  /product="gp123"
  /function="Hypothetical Protein"
  /locus tag="RazzB_123"
    /note=Original Glimmer call @bp 67746 has strength 6.94; Genemark calls start at 67746
    /note=SSC: 67746-67528 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_124 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 3.54493E-45 GAP: 62 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.85, -2.707694805492614, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_124 [Arthrobacter phage MellowYellow]],,XLG25038,100.0,3.54493E-45 SIF-HHPRED:  SIF-Syn: 
    /note=-partially consistent CP, likely a gene
    /note=-glimmer, genemark, starterator (one MA) support start of 67746.  Overlap data is not conclusive
    /note=-no specific function supported from phamerator, BLASTp shows hits with hypothetical protein, hhpred does not provide additional information, no TMR, so hypothetical protein

CDS complement (67809 - 68081)
  /gene="124"
  /product="gp124"
  /function="Hypothetical Protein"
  /locus tag="RazzB_124"
    /note=Original Glimmer call @bp 67922 has strength 12.77; Genemark calls start at 68081
    /note=SSC: 68081-67809 CP: no SCS: both-gm ST: NI BLAST-Start: [hypothetical protein PBI_BEAGLE_129 [Arthrobacter phage Beagle] ],,NCBI, q1:s1 100.0% 1.61936E-55 GAP: 31 bp gap LO: no RBS: Kibler 6, Karlin Medium, 3.088, -2.13349812375341, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein PBI_BEAGLE_129 [Arthrobacter phage Beagle] ],,QGJ92886,98.8889,1.61936E-55 SIF-HHPRED:  SIF-Syn: 
    /note=-high CP, likely a gene
    /note=-gap of -2 and Genemark agree with start of 68081
    /note=-no data to support specific function, no function calls in phamerator, BLASTp shows hypothetical protein, HHpred does not provide additional data, no TMR 
    /note=hypothetical protein

CDS complement (68113 - 68259)
  /gene="125"
  /product="gp125"
  /function="Hypothetical Protein"
  /locus tag="RazzB_125"
    /note=
    /note=SSC: 68259-68113 CP: no SCS: neither ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_126 [Arthrobacter phage MellowYellow]],,NCBI, q1:s82 100.0% 3.23911E-25 GAP: 11 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 2.89, -2.6217801767860207, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_126 [Arthrobacter phage MellowYellow]],,XLG25040,36.4341,3.23911E-25 SIF-HHPRED:  SIF-Syn: 
    /note=We added this gene because of CP in R3 from Host-Trained GeneMark
    /note=Unsure if they are genes because of the low identity and alignments BLAST hits to other phages so function is hypothetical protein

CDS complement (68271 - 68480)
  /gene="126"
  /product="gp126"
  /function="Hypothetical Protein"
  /locus tag="RazzB_126"
    /note=
    /note=SSC: 68480-68271 CP: no SCS: neither ST: NI BLAST-Start: [hypothetical protein PBI_BEAGLE_130 [Arthrobacter phage Beagle]],,NCBI, q1:s1 100.0% 1.9862E-27 GAP: 71 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 1.745, -6.120926684909692, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein PBI_BEAGLE_130 [Arthrobacter phage Beagle]],,QGJ92892,81.1594,1.9862E-27 SIF-HHPRED:  SIF-Syn: 
    /note=this gene was manually added because of coding potential in R2 - low hits to hypothetical protein in Beagle and MellowYellow. Unsure of actual occurrence

CDS complement (68552 - 69319)
  /gene="127"
  /product="gp127"
  /function="Hypothetical Protein"
  /locus tag="RazzB_127"
    /note=Original Glimmer call @bp 69319 has strength 13.06; Genemark calls start at 69319
    /note=SSC: 69319-68552 CP: no SCS: both ST: NI BLAST-Start: [hypothetical protein SEA_MELLOWYELLOW_127 [Arthrobacter phage MellowYellow]],,NCBI, q1:s1 100.0% 7.22616E-177 GAP: 0 bp gap LO: yes RBS: Kibler 6, Karlin Medium, 3.078, -2.297359520375101, yes F: Hypothetical Protein SIF-BLAST: ,,[hypothetical protein SEA_MELLOWYELLOW_127 [Arthrobacter phage MellowYellow]],,XLG25041,99.2157,7.22616E-177 SIF-HHPRED:  SIF-Syn: 
    /note=- high but inconsistent CP, but likely a gene
    /note=-start site 69319 is supported by glimmer, genemark and starterator with 1 MA
    /note=-hypothetical protein, no evidence of any function in phamerator, BLASTp shows hypothetical protein, and HHpred, no TMR