CDS 106 - 537
    /note=DeepTMHMM is predicting an inside protein with a 1 probability.

CDS 510 - 788
    /note=Glimmer suggests a start that has better Z and final scores. The pham #85608 is related to ParB-like nuclease domain. However, our sequence is longer and identity and coverage are lower for the function.

CDS 851 - 1669
    /note=Glimmer and GeneMark suggest the same start, that is supported by a strong Z-score and final scores.

CDS 2870 - 3172
    /note=Just Glimmer suggests a start and the scores are pretty low. However, the pham 229906 is correlated with HNH endonuclease on sevral sub-clusters.

CDS 4822 - 6558
    /note=Coverage and alignment are high on Phagesdb, HHPred and NCBI. It seems to be a well-conserved function among phages. However, some phages called this function terminase, large subumit.

CDS 6567 - 8132
    /note=Strong Z-score and Final score so we selected the start codon provided by Glimmer, and GeneMark. We selected portal protein because the gene matched on Phagesdb BLAST NCBI BLAST with a high % identity, alignment, and coverage.

CDS 8132 - 9028
    /note=The start suggested by Glimmer and GM has the best scores and maximizes coding capacity.

CDS 9113 - 9844
    /note=Best Z and Final scores. On NCBI Blast, the identity, alignment, and coverage are all 100%.

CDS 9869 - 10279
    /note=Best Z and final scores.

CDS 10315 - 11364
    /note=Function is well conserved among pham group.

CDS 11903 - 12289
    /note=Glimmer and GeneMark agree on the start, but the Z and Final scores are not great.

CDS 12289 - 12618
    /note=Glimmer Start and Genemark suggest same start. Z-score and final score are strong.

CDS 12649 - 13035
    /note=HHPred is showing a Minor_capsid_2 ; Minor capsid protein	with 99.1% probability. NCBI has it as a neck protein on Daredevil.

CDS 13032 - 13430
    /note=The Glimmer and GeneMark suggest the same start. Function is well-conserved within the cluster. HHPRED has high probability and coverage. NCBI BLAST has high identity, alignment, and coverage.

CDS 13548 - 14204
    /note=Glimmer and GeneMark suggest same start.

CDS 14618 - 15037
    /note=The Glimmer and GeneMark starts are the same. Function seems to be well conserved within Pham number.

CDS 15211 - 15543
    /note=There are very low identify and alignment of this genes with those in NCBI and Phagesdb. The pham 204118 does not correspond to the pham present in this location on several phages of the DL sub-cluster.

CDS 15559 - 24384
    /note=Same Glimmer and GeneMark starts agree with good Z and final scores. Function was chosen because it is well-conserved according to Phagesdb. High identity, alignment, and coverage percentages with another phage that also has this function.

CDS 24381 - 25262
    /note=Same Glimmer and GeneMark starts with best Z and final scores.

CDS 25303 - 27189
    /note=Same Glimmer and GeneMark starts with best Z and final scores.

CDS 27370 - 28005
    /note=The Glimmer and GeneMark starts are the same and have good Z and final scores.

CDS 28002 - 28922
    /note=The Glimmer and GeneMark starts are the same and have best Z and final scores.

CDS 28924 - 29334
    /note=The Glimmer and GeneMark starts are the same.

CDS 29350 - 29805
    /note=Phagesdb does not show Darevel is having the same gene function, but NCBI does. Considering it is the same pham and 100% alignement and coverage, we chose membrae protein.

CDS 31267 - 34443
    /note=Well conserved function.

CDS 34440 - 35507
    /note=Well-conserved protein according to Phagesdb.

CDS complement (36152 - 36511)
    /note=Glimmer and GeneMark start agree and have best Z score and final score. Function is well-conserved among  clusters.

CDS 37717 - 39036
    /note=Glimmer and GeneMark starts agree. However, it does not maxizime coding potential.

CDS 39033 - 39209
    /note=Glimmer and GeneMark starts agree and have best final score.

CDS 41131 - 41451
    /note=Just Glimmer is suggesting a start, and there are other starts with better Z and Final scores.

CDS 42777 - 44135
    /note=Glimmer and GeneMark suggests same start. Best Z and final score.

CDS complement (44932 - 45315)
    /note=GM suggested start has better vaues.

CDS complement (48171 - 48560)
    /note=Seems to be a well conserved function among phages. Strong Z score and alignment. High percentage probability and coverage on HHPRED.

CDS complement (50451 - 50984)
    /note=Glimmer suggested strat has better Z and final scores. High percentage probability, but low coverage on HHPRED, suggests suggest WhiB family transcription factor.

CDS complement (52270 - 52770)
    /note=Strong evidence on HHPRED.

CDS complement (52786 - 53043)
    /note=The suggested start has better Z and Final scores.

CDS complement (53120 - 54736)
    /note=Seems to be a well conserved function among phages.

CDS complement (56283 - 57110)
    /note=Pham suggests phage function based off evidence from phages on same cluster.

CDS complement (57769 - 57951)
    /note=High percentage probability and coverage on HHPRED.

CDS complement (57948 - 58781)
    /note=High percentage probability and coverage with phages within the same cluster.

CDS complement (58868 - 59893)
    /note=High percentage probability and coverage on HHPRED. Seems to be a well conserved gene, several similarities within the same cluster.

CDS 60260 - 60733
    /note=Although not the best Z and Final scores, Glimmer and GM suggested the start.

CDS 61086 - 61766
    /note=High percentage probability and coverage on HHPRED. Seems to be a well conserved gene, several similarities within the same cluster.

CDS 61784 - 63154
    /note=Glimmer and GeneMark suggest same start.

CDS 63151 - 63720
    /note=Glimmer and GeneMark suggest same start location, which also avoids 202 bp overlap. Best Z and final score.

CDS 66921 - 67271
    /note=Glimmer and GeneMark suggests best start. Selected gene has best Z- and Final score. Selection on NCBI BLAST is has best alignment, best identity, and 100% coverage. HHPRED selection has 90.5172% coverage suggesting this function.

CDS 67264 - 67620
    /note=Glimmer and GeneMark suggests best start. Selected gene has best Z- and Final score. Selection on NCBI BLAST has best alignment, best identity, and 100% coverage. Pham suggests hnh endonuclease function.

CDS 67885 - 68382
    /note=Glimmer and GeneMark suggests best start. Selected gene has best Z- and Final score. Selection on NCBI BLAST has best alignment, best identity, and 100% coverage. Pham suggests this phage`s function.

CDS 68794 - 69720
    /note=Glimmer and GeneMark suggests best start. Selected gene has best Z- and Final score. Selection on NCBI BLAST has best alignment, best identity, and 100% coverage. Pham suggests selected function.

CDS 70068 - 70304
    /note=Pham suggests gene fuction.

CDS 70304 - 70870
    /note=Strong Z and Final scores. High percentage probability and coverage on HHPRED.

CDS complement (75713 - 76018)
    /note=Glimmer and GeneMark starts agree. Pham number and has high identity, alignment, and coverage.

CDS complement (76029 - 76352)
    /note=GeneMark start was used because it has better Z and Final scores. HHPred has this as killer protein; bacterial toxins.

CDS complement (85402 - 85944)
    /note=Glimmer and GeneMark suggest a start that has the best Z and Final scores but decreased coding capacity. HHPred offers strong evidence due to probability, but percent coverage is slightly below threshold.